Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 323 of 325
Found at i:104291381 original size:15 final size:15
Alignment explanation
Indices: 104291363--104291393 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104291353 ATTTACTTGC
*
104291363 TGATGCTGAGGTTAT
1 TGATGCTAAGGTTAT
104291378 TGATGCTAAGGTTAT
1 TGATGCTAAGGTTAT
104291393 T
1 T
104291394 TCTTGTCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (15 bp):
TGATGCTAAGGTTAT
Found at i:104294110 original size:11 final size:11
Alignment explanation
Indices: 104294096--104294120 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
104294086 AAAAATAGTA
104294096 AAAATTAGATT
1 AAAATTAGATT
104294107 AAAATTAGATT
1 AAAATTAGATT
104294118 AAA
1 AAA
104294121 GAGCGAACCG
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATTAGATT
Found at i:104296624 original size:78 final size:78
Alignment explanation
Indices: 104296495--104296651 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
104296485 GGAAAGTAAG
104296495 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
1 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
*
104296560 CCGCGGAAAATAT
66 CCGCAGAAAATAT
104296573 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
1 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
104296638 CCGCAGAAAATAT
66 CCGCAGAAAATAT
104296651 G
1 G
104296652 GAGCACAGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (78 bp):
GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
CCGCAGAAAATAT
Found at i:104299882 original size:13 final size:12
Alignment explanation
Indices: 104299864--104299893 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
104299854 TTCACCCTAC
104299864 TTTTGTTTTTGTT
1 TTTTGTTTTT-TT
104299877 TTTTGTTTTTTT
1 TTTTGTTTTTTT
104299889 TTTTG
1 TTTTG
104299894 GTGCAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:104303983 original size:16 final size:18
Alignment explanation
Indices: 104303964--104304000 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
104303954 ATTTTAACTA
*
104303964 TTATTAATT-TAAAAT-C
1 TTATAAATTATAAAATGC
104303980 TTATAAATTATAAAATGC
1 TTATAAATTATAAAATGC
104303998 TTA
1 TTA
104304001 AATAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATAAATTATAAAATGC
Found at i:104311096 original size:118 final size:118
Alignment explanation
Indices: 104310936--104311166 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
104310926 TATTTCCGGT
104310936 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
104311001 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
104311054 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
104311119 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
104311167 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:104312121 original size:13 final size:12
Alignment explanation
Indices: 104312105--104312149 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
104312095 AAAATAAAGG
104312105 AAAATAGTAAATA
1 AAAATA-TAAATA
104312118 AAAATAATAAATAA
1 AAAAT-ATAAAT-A
*
104312132 AAAATAAAAATA
1 AAAATATAAATA
104312144 AAAATA
1 AAAATA
104312150 AAGATTGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.24
13 15 0.52
14 7 0.24
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAATATAAATA
Found at i:104312124 original size:6 final size:6
Alignment explanation
Indices: 104312113--104312151 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
104312103 GGAAAATAGT
104312113 AAATAA AAATAA TAAATAAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA -AAAT-AA AAATAA AAATAA AAATAA A
104312152 GATTGGGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 21 0.68
7 8 0.26
8 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:104318504 original size:105 final size:105
Alignment explanation
Indices: 104318255--104318627 Score: 642
Period size: 105 Copynumber: 3.6 Consensus size: 105
104318245 TAACCGTTAT
* * ** *
104318255 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
104318320 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
104318359 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
104318423 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
104318464 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
104318529 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
104318569 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
104318628 TTATATACAA
Statistics
Matches: 258, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
104 81 0.31
105 176 0.68
106 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:104322244 original size:31 final size:31
Alignment explanation
Indices: 104322168--104322244 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
104322158 ACAAAAAACA
* * *
104322168 AAGTTTAA-GCTCCAATGTGAGAACAATTGTC
1 AAGTTTAAGGC-CTAATGTGAAAACAATTATC
* * * *
104322199 TAGTTCAAGCCCTAATGTGAAAATAATTATC
1 AAGTTTAAGGCCTAATGTGAAAACAATTATC
104322230 AAGTTTAAGGCCTAA
1 AAGTTTAAGGCCTAA
104322245 CTTGAATAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (31 bp):
AAGTTTAAGGCCTAATGTGAAAACAATTATC
Found at i:104326289 original size:23 final size:22
Alignment explanation
Indices: 104326245--104326287 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
104326235 TCCTTACTTA
* *
104326245 AAAATAGGTAACTTATTCTTTG
1 AAAATAGGTAAATTAGTCTTTG
*
104326267 AAAATGGGTAAATTAGTCTTT
1 AAAATAGGTAAATTAGTCTTT
104326288 TGTACATTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (22 bp):
AAAATAGGTAAATTAGTCTTTG
Found at i:104329989 original size:23 final size:24
Alignment explanation
Indices: 104329957--104330001 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
104329947 TATCTTTATA
*
104329957 AAAACTTTTATTTTTTTATTTTCT
1 AAAACTTTTATTTATTTATTTTCT
104329981 AAAA-TTTTATTTATTTATTTT
1 AAAACTTTTATTTATTTATTTT
104330002 TCAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
AAAACTTTTATTTATTTATTTTCT
Found at i:104330002 original size:24 final size:22
Alignment explanation
Indices: 104329957--104330008 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 22
104329947 TATCTTTATA
*
104329957 AAAACTTTTATTTTTTTATTTTC
1 AAAA-TTTTATTTATTTATTTTC
104329980 TAAAATTTTATTTATTTATTTTTC
1 -AAAATTTTATTTATTTA-TTTTC
104330004 AAAAT
1 AAAAT
104330009 ATAGTAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
AAAATTTTATTTATTTATTTTC
Found at i:104330770 original size:49 final size:49
Alignment explanation
Indices: 104330698--104330796 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
104330688 AAACATTTTT
104330698 AAGATATTACACTAGCACAAGTGATTTAACAAGTGACATGAGAATTGTC
1 AAGATATTACACTAGCACAAGTGATTTAACAAGTGACATGAGAATTGTC
104330747 AAGATATTACACTAGCACAAGTGATTTAACAAGTGACATGAGAATTGTC
1 AAGATATTACACTAGCACAAGTGATTTAACAAGTGACATGAGAATTGTC
104330796 A
1 A
104330797 TGTGTAGTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (49 bp):
AAGATATTACACTAGCACAAGTGATTTAACAAGTGACATGAGAATTGTC
Found at i:104333066 original size:22 final size:21
Alignment explanation
Indices: 104333017--104333065 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
104333007 GTAAAGAATG
*
104333017 GTATTTTCCGAAAATTTTATA
1 GTATTTTCCGAAAAATTTATA
104333038 GTATTTTCCGAAAAATTTATA
1 GTATTTTCCGAAAAATTTATA
*
104333059 GTTTTTT
1 GTATTTT
104333066 TGGGTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (21 bp):
GTATTTTCCGAAAAATTTATA
Found at i:104333978 original size:18 final size:18
Alignment explanation
Indices: 104333957--104333997 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
104333947 CGTCATTGCT
* *
104333957 ATCATCGCCATCATTGTC
1 ATCATCACCATCATTATC
*
104333975 ATCATCACCGTCATTATC
1 ATCATCACCATCATTATC
104333993 ATCAT
1 ATCAT
104333998 TGGACCAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (18 bp):
ATCATCACCATCATTATC
Found at i:104334423 original size:240 final size:237
Alignment explanation
Indices: 104334000--104334473 Score: 781
Period size: 237 Copynumber: 2.0 Consensus size: 237
104333990 ATCATCATTG
* *
104334000 GACCAGGTCAGGTTCAAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCCACTGGCGC
1 GACCAGGTCAGGGTCAAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCGC
* * * *
104334065 CTCATTGTCCTCATTGTCGTCATCACCATCATCATCAATAGCTTTACAAAGATGATCATCGTCGT
66 ATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCATCATCGTCGT
*
104334130 CATCATCATCATCTTCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGAC-AGGAAGCTCG
131 CATCATCATCATCATCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGACGA-GAAGCTCG
*
104334194 TTTTCGAACCTTTTGCAAAGAAGTAATAGCTGAGAGATCATCA
195 TTTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCATCA
*
104334237 GACCAGGTCAGGGTCGAGTTGACG-TTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCG
1 GACCAGGTCAGGGTCAAGTTGA-GTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCG
104334301 CATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCATCGTCATCG
65 CATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCA---TCATCG
* * *
104334366 TCGTCGTCATCATCATCATCTTCTTCACCGTTTGACCAATCTAAGGAGAACAAACGACGAGAAGC
127 TCGTCATCATCATCATCATCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGACGAGAAGC
104334431 TCGTTTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCA
192 TCGTTTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCA
104334474 GCTCCTTTGC
Statistics
Matches: 220, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
237 111 0.50
238 1 0.00
240 107 0.49
241 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (237 bp):
GACCAGGTCAGGGTCAAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCGC
ATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCATCATCGTCGT
CATCATCATCATCATCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGACGAGAAGCTCGT
TTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCATCA
Found at i:104337888 original size:28 final size:28
Alignment explanation
Indices: 104337853--104337910 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
104337843 AACGAACTCT
104337853 TTATGGTCTTGGCAATTTCCACGCTTTC
1 TTATGGTCTTGGCAATTTCCACGCTTTC
*
104337881 TTATGGTCTTGGCAATTTTCACGCTTTC
1 TTATGGTCTTGGCAATTTCCACGCTTTC
104337909 TT
1 TT
104337911 CCATAGGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (28 bp):
TTATGGTCTTGGCAATTTCCACGCTTTC
Found at i:104342635 original size:17 final size:17
Alignment explanation
Indices: 104342613--104342649 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
104342603 CGATCCAATC
104342613 TATTTTCTATTTTGTAA
1 TATTTTCTATTTTGTAA
104342630 TATTTTCTATTTTGTAA
1 TATTTTCTATTTTGTAA
104342647 TAT
1 TAT
104342650 ATAGTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
TATTTTCTATTTTGTAA
Found at i:104344657 original size:21 final size:20
Alignment explanation
Indices: 104344623--104344663 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
104344613 TATGAAGCGG
* *
104344623 TTTATAATTTTTTAGTAATT
1 TTTATAATTATTTACTAATT
104344643 TTTATAAATTATTTACTAATT
1 TTTAT-AATTATTTACTAATT
104344664 ATTGAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATAATTATTTACTAATT
Found at i:104344878 original size:15 final size:16
Alignment explanation
Indices: 104344860--104344889 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
104344850 TGTTTTTTAT
104344860 GATCAAATT-AAATTA
1 GATCAAATTGAAATTA
104344875 GATCAAATTGAAATT
1 GATCAAATTGAAATT
104344890 TAAGTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (16 bp):
GATCAAATTGAAATTA
Found at i:104346323 original size:85 final size:85
Alignment explanation
Indices: 104346180--104346340 Score: 322
Period size: 85 Copynumber: 1.9 Consensus size: 85
104346170 GCGGTAAATG
104346180 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
1 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
104346245 TAAGAAAAGTATGCTAGATT
66 TAAGAAAAGTATGCTAGATT
104346265 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
1 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
104346330 TAAGAAAAGTA
66 TAAGAAAAGTA
104346341 ATTGGTACGC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (85 bp):
ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
TAAGAAAAGTATGCTAGATT
Found at i:104351202 original size:21 final size:21
Alignment explanation
Indices: 104351176--104351215 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104351166 GAAAATTTTT
* *
104351176 AATTTTAATATTTTTTTTATA
1 AATTTTAATAATTTATTTATA
104351197 AATTTTAATAATTTATTTA
1 AATTTTAATAATTTATTTA
104351216 ATTTAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTAATAATTTATTTATA
Found at i:104354287 original size:30 final size:29
Alignment explanation
Indices: 104354204--104354291 Score: 74
Period size: 30 Copynumber: 2.9 Consensus size: 29
104354194 TTTTTTATAT
**
104354204 AAATTTTAATTTAATGTGTAATAATATACATG
1 AAATTTTAATTT-AT-T-TAATTTTATACATG
*
104354236 -AATTTTAATTT-TGTACGATTTTATACATG
1 AAATTTTAATTTATTTA--ATTTTATACATG
104354265 AAATTTTAATTTGATTTAATTTT-TACA
1 AAATTTTAATTT-ATTTAATTTTATACA
104354292 AATAATTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
27 2 0.04
29 15 0.32
30 16 0.34
31 11 0.23
32 3 0.06
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (29 bp):
AAATTTTAATTTATTTAATTTTATACATG
Found at i:104354988 original size:22 final size:23
Alignment explanation
Indices: 104354963--104355010 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
104354953 TTTTCATAAA
* *
104354963 TTTA-AAATTTAGTCTTTGTATT
1 TTTATAAATTTAGTCTCTCTATT
*
104354985 TTTATGAATTTAGTCTCTCTATT
1 TTTATAAATTTAGTCTCTCTATT
104355008 TTT
1 TTT
104355011 TAGATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (23 bp):
TTTATAAATTTAGTCTCTCTATT
Found at i:104355280 original size:31 final size:31
Alignment explanation
Indices: 104355245--104355307 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
104355235 ATAGGAAGTA
104355245 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
1 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
104355276 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
1 AATTTTGAATTTGTGAAGAGTAGAAGGACTT
104355307 A
1 A
104355308 TATCAGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (31 bp):
AATTTTGAATTTGTGAAGAGTAGAAGGACTT
Found at i:104356064 original size:24 final size:24
Alignment explanation
Indices: 104356037--104356088 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
104356027 TTAGTAAGTC
*
104356037 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
104356061 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
104356085 AAAT
1 AAAT
104356089 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:104356823 original size:19 final size:19
Alignment explanation
Indices: 104356801--104356847 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
104356791 AATTATGTTT
104356801 TTATATTATTATTA-ATATA
1 TTATATTATTATTATAT-TA
104356820 TTATATTA-TATTATATTA
1 TTATATTATTATTATATTA
104356838 TATATATTAT
1 T-TATATTAT
104356848 ATATATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATTATTATTATATTA
Found at i:104356824 original size:5 final size:5
Alignment explanation
Indices: 104356801--104356855 Score: 71
Period size: 5 Copynumber: 11.2 Consensus size: 5
104356791 AATTATGTTT
104356801 TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA -TATA TTATA
1 TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
104356849 TATATA T
1 T-TATA T
104356856 GACAAAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.04
4 6 0.13
5 27 0.60
6 10 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:104356829 original size:24 final size:24
Alignment explanation
Indices: 104356801--104356855 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 24
104356791 AATTATGTTT
104356801 TTATATTATTATTA-ATATATTATA
1 TTATATTA-TATTATATATATTATA
104356825 TTATATTATATTATATATATTATA
1 TTATATTATATTATATATATTATA
104356849 TATATAT
1 T-TATAT
104356856 GACAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.17
24 19 0.66
25 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATATTATATTATATATATTATA
Found at i:104356921 original size:40 final size:40
Alignment explanation
Indices: 104356864--104356959 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
104356854 ATGACAAAGA
104356864 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
104356905 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
104356945 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
104356960 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:104357721 original size:29 final size:30
Alignment explanation
Indices: 104357671--104357727 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
104357661 GAGCCTTGGG
*
104357671 GCAAAAATGTAATTATGTAAAAATTTAGGA
1 GCAAAAATGTAATTATGTAAAAAGTTAGGA
* *
104357701 GCAAAATTGTAATTTTG-AAAAAGTTAG
1 GCAAAAATGTAATTATGTAAAAAGTTAG
104357728 AGTCGAGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.32
Consensus pattern (30 bp):
GCAAAAATGTAATTATGTAAAAAGTTAGGA
Found at i:104357955 original size:13 final size:13
Alignment explanation
Indices: 104357937--104357968 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
104357927 TTTCCAGAAA
104357937 TTATGAATTTATT
1 TTATGAATTTATT
104357950 TTATGAATTTATT
1 TTATGAATTTATT
*
104357963 TGATGA
1 TTATGA
104357969 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:104358176 original size:50 final size:50
Alignment explanation
Indices: 104358063--104358304 Score: 272
Period size: 50 Copynumber: 4.7 Consensus size: 50
104358053 ATTTGGGTAA
* * * *
104358063 AGAGATCCCATGTAAGACCATGTCTGGGACA-GGTTATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-CATGGGCA-CC--GAGA-C--G
*
104358119 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
104358169 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
104358219 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
104358269 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
104358305 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 35 0.21
57 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:104358248 original size:100 final size:103
Alignment explanation
Indices: 104358063--104358312 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 103
104358053 ATTTGGGTAA
*
104358063 AGAGATCCCATGTAAGACCATGTCTGGGACA-GGTTATTGGCATCCTTAAGATCATGAGAGGTCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGG-CATTGGCATCC---AGATCATGAGAGGTCC
* *
104358127 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
62 CCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
104358169 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
104358231 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
104358269 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
104358313 GTTATTATCA
Statistics
Matches: 131, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 36 0.27
107 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:104361341 original size:24 final size:24
Alignment explanation
Indices: 104361314--104361365 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
104361304 TTAGTAAGTC
*
104361314 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
104361338 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
104361362 AAAT
1 AAAT
104361366 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:104386200 original size:20 final size:20
Alignment explanation
Indices: 104386175--104386216 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
104386165 AATAAAACTT
104386175 GATCCATTTAATAATAAAGA
1 GATCCATTTAATAATAAAGA
104386195 GATCCATTTAATAATAAAGA
1 GATCCATTTAATAATAAAGA
104386215 GA
1 GA
104386217 CTAATTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
GATCCATTTAATAATAAAGA
Found at i:104387733 original size:73 final size:73
Alignment explanation
Indices: 104387651--104387836 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
104387641 ACAACTTGAC
104387651 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
104387716 CACTAACA
66 CACTAACA
*
104387724 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCTACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
104387789 CACTAACA
66 CACTAACA
*
104387797 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
104387837 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:104387845 original size:3 final size:3
Alignment explanation
Indices: 104387837--104387883 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
104387827 ATTACATCCA
104387837 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104387884 AACATGTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104401490 original size:42 final size:42
Alignment explanation
Indices: 104401431--104401519 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
104401421 TCCTAATTGG
104401431 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
* *
104401473 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
104401515 TAAAA
1 GAAAA
104401520 ATATTTCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:104401566 original size:19 final size:18
Alignment explanation
Indices: 104401544--104401580 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
104401534 TGAATAAAAC
104401544 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAA-AAGAT
104401563 TTATCTACCTAAAAAGAT
1 TTATCTACCTAAAAAGAT
104401581 ATATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (18 bp):
TTATCTACCTAAAAAGAT
Found at i:104403363 original size:73 final size:73
Alignment explanation
Indices: 104403244--104403429 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
104403234 AATTATTATT
*
104403244 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
104403309 ATTTTAAG
66 ATTTTAAG
104403317 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
104403382 ATTTTAAG
66 ATTTTAAG
104403390 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
104403430 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:104407650 original size:3 final size:3
Alignment explanation
Indices: 104407642--104407667 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104407632 AATCACATGT
104407642 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
104407668 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:104407787 original size:73 final size:73
Alignment explanation
Indices: 104407668--104407853 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
104407658 TATTATTATT
*
104407668 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
104407733 ATTTTAAG
66 ATTTTAAG
104407741 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
104407806 ATTTTAAG
66 ATTTTAAG
104407814 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
104407854 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:104425483 original size:18 final size:18
Alignment explanation
Indices: 104425443--104425517 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
104425433 CCCAACTACT
* *
104425443 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
* * *
104425461 ATATACGTAAATAGTATC
1 GTATACGTGAATAGTACC
*
104425479 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
104425497 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
104425515 GTA
1 GTA
104425518 AATGGTCGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:104431671 original size:18 final size:18
Alignment explanation
Indices: 104431650--104431688 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
104431640 GATTGAGAGT
* *
104431650 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
104431668 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
104431686 GAA
1 GAA
104431689 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:104438602 original size:17 final size:16
Alignment explanation
Indices: 104438577--104438631 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
104438567 ATAGCTTAAG
104438577 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
104438595 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
104438610 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
104438626 AAAATA
1 AAAATA
104438632 GAATTTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 5 0.16
18 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:104440596 original size:17 final size:16
Alignment explanation
Indices: 104440571--104440625 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
104440561 ATAGCTTTAG
104440571 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
104440589 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
104440604 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
104440620 AAAATA
1 AAAATA
104440626 GAATTTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 5 0.16
18 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:104445407 original size:42 final size:42
Alignment explanation
Indices: 104445344--104445470 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
104445334 CTTCGTTTTC
** * *
104445344 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
104445387 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
104445428 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
104445469 TC
1 TC
104445471 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:104445497 original size:46 final size:47
Alignment explanation
Indices: 104445388--104445548 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 47
104445378 TTCACATAAT
* * *
104445388 GATGCCATAGCCCAGCTATGGTCTTACAC-AT---AT-TCAT-ATATC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATAT-ATCACATC
* * *
104445430 GATGCCATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCAC-T-
1 GATGCCATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCACATC
* *
104445476 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACATC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATC
*
104445523 GATGCCATATCCCATATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
104445549 TACGGAAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 15
0.81 0.06 0.12
Matches are distributed among these distances:
42 29 0.29
44 3 0.03
45 11 0.11
46 27 0.27
47 29 0.29
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATC
Found at i:104445532 original size:47 final size:48
Alignment explanation
Indices: 104445427--104445552 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 48
104445417 ATATTCATAT
* * * *
104445427 ATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAATCACATATATCAC
*
104445475 -T-GATGCCATATCCCAGATATGGTCTTATAC-AGT-AGCATATATCAC
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAATCA-CATATATCAC
*
104445520 ATCGATGCCATATCCCATATATGGTCTTATACG
1 ATCGATGCCATATCCCAGATATGGTCTTATACG
104445553 GAAATCACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 1 0.01
45 11 0.16
46 27 0.40
47 29 0.43
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (48 bp):
ATCGATGCCATATCCCAGATATGGTCTTATACGAATCACATATATCAC
Found at i:104445612 original size:31 final size:31
Alignment explanation
Indices: 104445577--104445849 Score: 388
Period size: 31 Copynumber: 8.8 Consensus size: 31
104445567 CTTGTCACTT
* *
104445577 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
104445608 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
104445639 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
104445670 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* * *
104445701 GTAGCAGAAGCTACCATTTTTCACTGAGCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
104445732 GTAGCTGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
104445763 GTAGCCGGAA-CTACCACTTTTCACTAATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
104445794 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
104445825 GTAGTTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
104445850 TGTCATTTGT
Statistics
Matches: 218, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
30 6 0.03
31 207 0.95
32 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:104445736 original size:93 final size:93
Alignment explanation
Indices: 104445577--104445849 Score: 431
Period size: 93 Copynumber: 2.9 Consensus size: 93
104445567 CTTGTCACTT
* * * *
104445577 GTAGCC-GAAGCTACCACTATTCACTGATTAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGT
1 GTAGCCGGAA-CTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGT
* *
104445641 AGCCGGAGCTACCACTTTTCACTGATCAG
65 AGCTGAAGCTACCACTTTTCACTGATCAG
*
104445670 GTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGAGCAGGTA
1 GTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTA
*
104445735 GCTGAAGCTATCACTTTTCACTGATCAG
66 GCTGAAGCTACCACTTTTCACTGATCAG
* *
104445763 GTAGCCGGAACTACCACTTTTCACTAATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTA
1 GTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTA
*
104445828 GTTGAAGCTACCACTTTTCACT
66 GCTGAAGCTACCACTTTTCACT
104445850 TGTCATTTGT
Statistics
Matches: 166, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
93 163 0.98
94 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (93 bp):
GTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTTCACTGATCAGGTA
GCTGAAGCTACCACTTTTCACTGATCAG
Found at i:104454923 original size:17 final size:16
Alignment explanation
Indices: 104454903--104454938 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
104454893 CCTTGTTTCG
104454903 TTCTATTCTCTGTTCTT
1 TTCTATTCT-TGTTCTT
*
104454920 TTCTATTCTTTTTCTT
1 TTCTATTCTTGTTCTT
104454936 TTC
1 TTC
104454939 CTTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.06, C:0.22, G:0.03, T:0.69
Consensus pattern (16 bp):
TTCTATTCTTGTTCTT
Found at i:104466807 original size:30 final size:30
Alignment explanation
Indices: 104466751--104466807 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
104466741 AATCCCGAGC
*
104466751 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
104466781 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
104466808 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:104467276 original size:46 final size:45
Alignment explanation
Indices: 104467226--104467400 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
104467216 TGGTTGAGCA
104467226 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
104467272 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
104467318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
104467364 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104467401 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 98 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:104467380 original size:92 final size:92
Alignment explanation
Indices: 104467223--104467393 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
104467213 GGATGGTTGA
* *
104467223 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104467288 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
104467315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104467380 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
104467394 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:104484820 original size:17 final size:17
Alignment explanation
Indices: 104484798--104484883 Score: 120
Period size: 17 Copynumber: 5.0 Consensus size: 17
104484788 CCCAACTACT
*
104484798 GTATACGTGAACAGTAC
1 GTATACGTGAATAGTAC
*
104484815 GTATACGTGAATA-TGCC
1 GTATACGTGAATAGT-AC
104484832 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTA-C
*
104484850 GTATACGTGAATAGTGC
1 GTATACGTGAATAGTAC
104484867 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
104484884 CGTAAACGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
16 1 0.02
17 43 0.70
18 17 0.28
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (17 bp):
GTATACGTGAATAGTAC
Found at i:104484860 original size:35 final size:35
Alignment explanation
Indices: 104484798--104484887 Score: 148
Period size: 35 Copynumber: 2.6 Consensus size: 35
104484788 CCCAACTACT
*
104484798 GTATACGTGAACAGTA-CGTATACGTGAATA-TGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTG-C
104484832 GTATACGTGAATAGTACCGTATACGTGAATAGTGC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGC
104484867 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
104484888 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
34 15 0.28
35 36 0.68
36 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (35 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGC
Found at i:104490410 original size:18 final size:18
Alignment explanation
Indices: 104490383--104490475 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
104490373 TACGACCGTT
*
104490383 TACGGTACTATTCATGTA
1 TACGGTACTATTCACGTA
*
104490401 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
104490419 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
104490437 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
104490455 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
104490473 TAC
1 TAC
104490476 AGTAGTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:104490430 original size:36 final size:36
Alignment explanation
Indices: 104490383--104490475 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
104490373 TACGACCGTT
*
104490383 TACGGTACTATTCATGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
104490419 TACGGTACTATTCACATATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
104490455 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
104490476 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:104494765 original size:49 final size:47
Alignment explanation
Indices: 104494706--104494957 Score: 380
Period size: 47 Copynumber: 5.3 Consensus size: 47
104494696 GATGTGAATA
104494706 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104494753 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104494802 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104494849 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
104494896 TATATATGTGA-CAGGACCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGG-CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
104494943 TATAAATGTGATAAG
1 TATATATGTGATAAG
104494958 TCCCAAAGGG
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
46 3 0.02
47 139 0.73
48 2 0.01
49 46 0.24
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:104502723 original size:48 final size:48
Alignment explanation
Indices: 104502661--104502753 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 48
104502651 ATAAAATAAA
* * *
104502661 ATTGAATAGTTGAGTGTCACCATTTTGTAACTTTTCATAA-AAGAAATTT
1 ATTGAATAATTGAGTG--ACAATTTTATAACTTTTCATAATAAGAAATTT
*
104502710 ATTG-ATAATTGAGTGACAATTTTATAATTTTTCATAATAAGAAA
1 ATTGAATAATTGAGTGACAATTTTATAACTTTTCATAATAAGAAA
104502754 AACAAAACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 19 0.49
47 6 0.15
48 10 0.26
49 4 0.10
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (48 bp):
ATTGAATAATTGAGTGACAATTTTATAACTTTTCATAATAAGAAATTT
Found at i:104527588 original size:19 final size:21
Alignment explanation
Indices: 104527553--104527591 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
104527543 TTTTTAAGTG
104527553 ATGTCATGGTACAATCTAAGA
1 ATGTCATGGTACAATCTAAGA
104527574 ATGTCAT-GT-CAATCTAAG
1 ATGTCATGGTACAATCTAAG
104527592 CTCATGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTCATGGTACAATCTAAGA
Found at i:104529107 original size:15 final size:15
Alignment explanation
Indices: 104529087--104529117 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104529077 CTTTATTTTA
*
104529087 TGATTTATGTATATT
1 TGATTTAGGTATATT
104529102 TGATTTAGGTATATT
1 TGATTTAGGTATATT
104529117 T
1 T
104529118 AAATAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (15 bp):
TGATTTAGGTATATT
Found at i:104536344 original size:21 final size:20
Alignment explanation
Indices: 104536311--104536354 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
104536301 TTTTTAATAG
104536311 AGTCAAGTGGAATAAAATTCA
1 AGTCAAGTGGAATAAAA-TCA
* * *
104536332 AGTCGAGTTGAATAGAATCA
1 AGTCAAGTGGAATAAAATCA
104536352 AGT
1 AGT
104536355 GAAATTGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
AGTCAAGTGGAATAAAATCA
Found at i:104541719 original size:21 final size:20
Alignment explanation
Indices: 104541693--104541740 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
104541683 AACTTATAAT
* *
104541693 AAATAATACATAGAATACTAA
1 AAATAATAAATAGAATA-AAA
104541714 AAATAAATAAATAGAATAAAA
1 AAAT-AATAAATAGAATAAAA
104541735 AAATAA
1 AAATAA
104541741 AAAAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 12 0.50
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAATAAATAGAATAAAA
Found at i:104541741 original size:21 final size:22
Alignment explanation
Indices: 104541693--104541741 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
104541683 AACTTATAAT
* *
104541693 AAAT-AATACATAGAATACTAA
1 AAATAAATAAATAGAATACAAA
104541714 AAATAAATAAATAGAATA-AAA
1 AAATAAATAAATAGAATACAAA
104541735 AAATAAA
1 AAATAAA
104541742 AAAAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
AAATAAATAAATAGAATACAAA
Found at i:104549276 original size:125 final size:126
Alignment explanation
Indices: 104549087--104549854 Score: 1069
Period size: 125 Copynumber: 6.1 Consensus size: 126
104549077 ACTTTTTATT
* *
104549087 TTTTTCTACAATAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * * * *
104549152 ATGCTTCAAGTAGGATGTACCGTCAGCAAAATTACTGAAAAAAGCTCCTATGTGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
104549213 TTTTTCTACAATAGTATCT-AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* *
104549277 ACGCTTCAAGCAGGATGCGCTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
104549338 TTTTTCTACAGTAGTATCTGAAAAAAATAATTTTGAG--GACGTTTTTGAACAAATAGTGCCCAA
1 TTTTTCTACAGTAGTATCT-AAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * * * *
104549401 AAGGCTTCAAGCAGGATGTACTATCAGCAAAATTACTGGAAAAAGCTCCCATGTGGACGATC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
104549463 TTTTTCTAGAGTAGTATCT-TAAAAATAATTTTGAGAAGACGTTTCTGAACAATTAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * * * *
104549527 ACGCTTCAAGCTGGATGCAATGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * * * *
104549588 TTTTTCTATAGTAGTATCT-GAAAAATAATTTTGAAAAGACATTTATAAATAAATAATGTTCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * *
104549652 ATGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
104549713 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* * *
104549778 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCAATGTGGACGGTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTC-CCACGTGGACGCTC
104549840 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
104549855 TCCTATTTGG
Statistics
Matches: 568, Mismatches: 68, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
123 15 0.03
125 411 0.72
126 101 0.18
127 41 0.07
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:104552980 original size:136 final size:138
Alignment explanation
Indices: 104552801--104553084 Score: 473
Period size: 136 Copynumber: 2.1 Consensus size: 138
104552791 ATTTATATTT
*
104552801 TATTAAAAATATTAAAAATATTGCCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATG
1 TATTAAAAATATTAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATG
** *
104552866 TAAATTACAATTAAAATATTAAAAGTAACTTTTATTTTATTAAATGAAACAATATAAAAA-AATG
66 TAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAACAATA
104552930 TACAAATA
131 TACAAATA
*
104552938 TATTAAAAATA-TAAAAATATTACCTTATTCAGAAAAACTTTTATTTTATTAAAAATATAAAATG
1 TATTAAAAATATTAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATG
* **
104553002 TAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAATAATATAAAAACGTTT
66 TAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAC-AAT
104553067 ATACAAATA
130 ATACAAATA
104553076 TATTAAAAA
1 TATTAAAAA
104553085 AATCAATGTT
Statistics
Matches: 137, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
136 108 0.79
137 11 0.08
138 18 0.13
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (138 bp):
TATTAAAAATATTAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATG
TAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAACAATA
TACAAATA
Found at i:104553510 original size:18 final size:18
Alignment explanation
Indices: 104553468--104553510 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
104553458 GACTAGAAAA
* * *
104553468 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
*
104553486 AGAATACATATAAGAGCT
1 AGGATACATATAAGAGCT
104553504 AGGATAC
1 AGGATAC
104553511 GCACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:104555786 original size:49 final size:49
Alignment explanation
Indices: 104555730--104555827 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
104555720 GACACAAAAC
* *
104555730 ATGTGGGCGGCTATCCAATAATTATTTTAATGGTAAATTATTATTTGTT
1 ATGTGGGCCGCTATCCAATAATTATTTTAATGGTAAATTACTATTTGTT
**
104555779 ATGTGGGCCGCTATCCAATAATTATTTTTGTGGTAAATTACTATTTGTT
1 ATGTGGGCCGCTATCCAATAATTATTTTAATGGTAAATTACTATTTGTT
104555828 GGACACATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (49 bp):
ATGTGGGCCGCTATCCAATAATTATTTTAATGGTAAATTACTATTTGTT
Found at i:104555868 original size:63 final size:64
Alignment explanation
Indices: 104555796--104555945 Score: 216
Period size: 63 Copynumber: 2.4 Consensus size: 64
104555786 CCGCTATCCA
* * *
104555796 ATAATTATTTTTGTGGTAAATTACTATTTGTTGGACACATTTGACACAT-AGTGGCTATTCAAT
1 ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACAAATGAGTGGCTATTCAAT
*
104555859 ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACAAATGGGTGGCTATTC-A-
1 ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACAAATGAGTGGCTATTCAAT
* * *
104555921 ATAATTATTATAGAGGTAACTTACT
1 ATAATTATTTTAGTGGTAAATTACT
104555946 TTTTGCTCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
62 22 0.28
63 47 0.59
64 10 0.13
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.41
Consensus pattern (64 bp):
ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACAAATGAGTGGCTATTCAAT
Found at i:104561938 original size:2 final size:2
Alignment explanation
Indices: 104561931--104561955 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104561921 CACATTGTCC
104561931 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
104561956 GCATCAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104571235 original size:19 final size:20
Alignment explanation
Indices: 104571213--104571258 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
104571203 ATTTAAGAAT
104571213 AAAATTATTATTTTC-ATTA
1 AAAATTATTATTTTCTATTA
* *
104571232 AAAATATTTTTTTTTCTATTA
1 AAAAT-TATTATTTTCTATTA
104571253 AAAATT
1 AAAATT
104571259 GATGTGACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 9 0.39
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
AAAATTATTATTTTCTATTA
Found at i:104586895 original size:16 final size:18
Alignment explanation
Indices: 104586876--104586915 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
104586866 ATTTTTTTGA
*
104586876 ATTTA-AATTTTTTAA-T
1 ATTTATAATTTTTAAATT
104586892 ATTTATAATTTTTAAATT
1 ATTTATAATTTTTAAATT
104586910 ATTTAT
1 ATTTAT
104586916 TGATGTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATAATTTTTAAATT
Found at i:104590438 original size:31 final size:30
Alignment explanation
Indices: 104590402--104590472 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
104590392 GACCTCCAAA
* * *
104590402 AAGTTTAAGTAC-CAACTTAAGAAAATGTGTC
1 AAGTTTAAATACTAAACTTAA-AAAA-ATGTC
*
104590433 AAGTTTAAATACTAAATTTAAAAAAATGTC
1 AAGTTTAAATACTAAACTTAAAAAAATGTC
104590463 AAGTTTAAAT
1 AAGTTTAAAT
104590473 GTAAAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.40
31 15 0.43
32 6 0.17
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (30 bp):
AAGTTTAAATACTAAACTTAAAAAAATGTC
Found at i:104593212 original size:13 final size:14
Alignment explanation
Indices: 104593196--104593231 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
104593186 CAATCTCATA
104593196 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
104593209 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
104593222 TCTC-ATTTCA
1 TCTCAATTTCA
104593232 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:104593221 original size:18 final size:19
Alignment explanation
Indices: 104593183--104593223 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
104593173 TGGTTCATGT
104593183 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
104593202 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
104593220 TTTC
1 TTTC
104593224 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:104593413 original size:39 final size:38
Alignment explanation
Indices: 104593346--104593480 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
104593336 ACCAATATGG
* * *
104593346 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
104593385 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
104593423 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
104593464 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
104593481 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:104593746 original size:18 final size:19
Alignment explanation
Indices: 104593720--104593758 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
104593710 TTTCAATTCA
104593720 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
104593739 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
104593757 AT
1 AT
104593759 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:104595084 original size:5 final size:5
Alignment explanation
Indices: 104595074--104595130 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
104595064 TTACTTATTT
* *
104595074 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
104595122 ATAT- ATATA
1 ATATA ATATA
104595131 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:104595090 original size:12 final size:12
Alignment explanation
Indices: 104595073--104595128 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
104595063 TTTACTTATT
104595073 TATATAATATAA
1 TATATAATATAA
104595085 TATATAATATAATA
1 TATATAATAT-A-A
104595099 TACTATAATATAA
1 TA-TATAATATAA
*
104595112 TA-ATAATTTAA
1 TATATAATATAA
104595123 TATATA
1 TATATA
104595129 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:104595143 original size:26 final size:26
Alignment explanation
Indices: 104595075--104595130 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
104595065 TACTTATTTA
*
104595075 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
104595102 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
104595127 TATA
1 TATA
104595131 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:104599197 original size:188 final size:190
Alignment explanation
Indices: 104598868--104599220 Score: 525
Period size: 188 Copynumber: 1.9 Consensus size: 190
104598858 TCCCGAACCG
* * ** *
104598868 TGGAACTGGAATGTGTATTTGTTTCCTCTTTGGTGGTGTGGTGTGGTAATCCGATACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
*
104598933 ATTCCCTGTGAGGTTAGCTATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
*
104598998 TAATGTTTGAATGAAAGTTTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
131 TAATCTTTGAATGAAAG-TTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
**
104599059 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGT-GT-T-GTGTGGTAACCCTTTACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
* * * *
104599121 ATTCCCTGTGAGGTTAGCCATTGAACTTTTC-ATAAGTAACATTGCATTTTTTGATGCATGTTGG
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGA-AAGTAACATTGAATTGTTTGATGCATGATGG
* *
104599185 TTCATCTTTGAATGAAAGTTTACTTTATGTTTGTTT
130 TTAATCTTTGAATGAAAGTTTACTTTATGTTAGTTT
104599221 CAAGGTTAAT
Statistics
Matches: 146, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
187 18 0.12
188 95 0.65
189 1 0.01
190 2 0.01
191 30 0.21
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (190 bp):
TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
TAATCTTTGAATGAAAGTTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
Found at i:104599329 original size:157 final size:158
Alignment explanation
Indices: 104599096--104599409 Score: 452
Period size: 158 Copynumber: 2.0 Consensus size: 158
104599086 CTCCGGTGTT
** * * *
104599096 GTGTGGTAACCCTTTACTTGATTTTATTCCCTGTGAGGTTAGCCATTGAACTTTTCATAAGTAAC
1 GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGAGGTCAGCCATTGAACTTCTCAAAAGTAAC
* * **
104599161 ATTGCATTTTTTGATGCATGTTGGTTCATCTTTGAATGAAAGTTTACTTTATGTTTGTTTCA-AG
66 ATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATG-AAGTTTACTTTATGTTCATTTCAGAG
*
104599225 GTTAATTAGGTAGTGTCTCATA-GTTGTG
130 GTTAATTAGGTAGTGTATCATATGTTGTG
* *
104599253 GTGTGGTAATCCGGTACTTGATTTTATTCTCTGTGAGGGTCAGCCATTGAACTTCTCAAAAGTAA
1 GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGA-GGTCAGCCATTGAACTTCTCAAAAGTAA
* * *
104599318 CATTGCATTTTTTAATGCATGATGTTTCATGTTTGAATGAAGTTTACTTTATGTTCATTTTAGAG
65 CATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAGTTTACTTTATGTTCATTTCAGAG
*
104599383 GTTAGTTAGGTAGTGTATCATATGTTG
130 GTTAATTAGGTAGTGTATCATATGTTG
104599410 AAATACTCAT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
157 52 0.38
158 82 0.59
159 4 0.03
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (158 bp):
GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGAGGTCAGCCATTGAACTTCTCAAAAGTAAC
ATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAGTTTACTTTATGTTCATTTCAGAGG
TTAATTAGGTAGTGTATCATATGTTGTG
Found at i:104606145 original size:31 final size:31
Alignment explanation
Indices: 104606087--104606170 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
104606077 AAGTTGTGGA
*
104606087 TTTAGTCTTTGTAC-TTT-AATTTGGTCAAT
1 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
*
104606116 TTTAATCTTTGTACTTTTCAAATTGGTCAAT
1 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
*
104606147 TTTAGTCATTGTACTTTTCAAATT
1 TTTAGTCTTTGTACTTTTCAAATT
104606171 CGTTTAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.27
30 3 0.06
31 33 0.67
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.54
Consensus pattern (31 bp):
TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
Found at i:104611491 original size:16 final size:17
Alignment explanation
Indices: 104611470--104611501 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
104611460 TTCTTTGTTC
104611470 TTTTTTT-CTTC-ATCT
1 TTTTTTTGCTTCTATCT
104611485 TTTTTTTGCTTCTATCT
1 TTTTTTTGCTTCTATCT
104611502 GGTTTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTTTGCTTCTATCT
Found at i:104614848 original size:9 final size:9
Alignment explanation
Indices: 104614834--104614922 Score: 124
Period size: 9 Copynumber: 9.6 Consensus size: 9
104614824 ATAAGTATAA
104614834 AATTAACCG
1 AATTAACCG
*
104614843 AATTAATCG
1 AATTAACCG
104614852 AATTAACCG
1 AATTAACCG
104614861 AATTAACCG
1 AATTAACCG
*
104614870 AATTAATCG
1 AATTAACCG
104614879 AATTAACCG
1 AATTAACCG
104614888 AATTAACCGCCG
1 AATTAA---CCG
*
104614900 AATTACCCG
1 AATTAACCG
104614909 AATTAACCG
1 AATTAACCG
104614918 AATTA
1 AATTA
104614923 TTTGTATAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
9 63 0.89
12 8 0.11
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:104614965 original size:20 final size:20
Alignment explanation
Indices: 104614934--104614996 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
104614924 TTGTATAAAA
*
104614934 TTATATTTTTTATATTTT-TAT
1 TTATA-TTTTTAT-TTTTACAT
104614955 TTATATTTTTATTTTTACAT
1 TTATATTTTTATTTTTACAT
*
104614975 TTTTATTTTTATTTATTACAT
1 TTATATTTTTATTT-TTACAT
104614996 T
1 T
104614997 ATTTGTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.11
20 22 0.58
21 12 0.32
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATATTTTTATTTTTACAT
Found at i:104614969 original size:6 final size:6
Alignment explanation
Indices: 104614941--104614988 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
104614931 AAATTATATT
*
104614941 TTTTATA TTTTTA TTTATA TTTTTA TTTTTACA TTTTTA TTTTTA TTT
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
104614989 ATTACATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 27 0.73
7 4 0.11
8 6 0.16
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:104614976 original size:14 final size:14
Alignment explanation
Indices: 104614940--104614986 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
104614930 AAAATTATAT
104614940 TTTTTATATTTTTA
1 TTTTTATATTTTTA
104614954 --TTTATATTTTTA
1 TTTTTATATTTTTA
*
104614966 TTTTTACATTTTTA
1 TTTTTATATTTTTA
104614980 TTTTTAT
1 TTTTTAT
104614987 TTATTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 12 0.41
14 17 0.59
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATATTTTTA
Found at i:104614999 original size:32 final size:31
Alignment explanation
Indices: 104614941--104615011 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
104614931 AAATTATATT
** *
104614941 TTTTATATTTTTATTTATATTTTTATTTTTACA
1 TTTT-TATTTTTATTTATATCATTATTTGTA-A
104614974 TTTTTATTTTTATTTAT-TACATTATTTGTAA
1 TTTTTATTTTTATTTATAT-CATTATTTGTAA
104615005 TTTTTAT
1 TTTTTAT
104615012 GATTAGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.26
32 21 0.62
33 4 0.12
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTTTATTTTTATTTATATCATTATTTGTAA
Found at i:104619021 original size:438 final size:438
Alignment explanation
Indices: 104618198--104619073 Score: 1725
Period size: 438 Copynumber: 2.0 Consensus size: 438
104618188 CAAGGAGGAG
104618198 TATTGGAAATTGGCCAACCATGCTGCTGTTACATTTTGTGGTTGAAGTGCATGCAGCTTGATGAC
1 TATTGGAAATTGGCCAACCATGCTGCTGTTACATTTTGTGGTTGAAGTGCATGCAGCTTGATGAC
104618263 ATGCTGCAGCACATATGCTTGCTGTAACAGCAAGGTTTCTCTTTAGTTTCATTCTAATTAATCTA
66 ATGCTGCAGCACATATGCTTGCTGTAACAGCAAGGTTTCTCTTTAGTTTCATTCTAATTAATCTA
104618328 GTTTAAAATGGACAAGTTGATGACAACTTGATGCATTAGGTGTTGAATGACTAGTTTAGGTGGCT
131 GTTTAAAATGGACAAGTTGATGACAACTTGATGCATTAGGTGTTGAATGACTAGTTTAGGTGGCT
104618393 TGTTTATGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGGTTAGTTGACTATTT
196 TGTTTATGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGGTTAGTTGACTATTT
104618458 GGTGATGTATTTGACTATAAATGTATGTTTTTTCTAGTTGAATGAATGAGCTGAATGAGCTATCA
261 GGTGATGTATTTGACTATAAATGTATGTTTTTTCTAGTTGAATGAATGAGCTGAATGAGCTATCA
*
104618523 GCCATTAGCTCCCTTGCTGCACATTTTTGAGCAAGTAAAAATGCTTCTTGCACATTGCTTCATGT
326 GCCATTAGCTCCCTTGCTGCACATTTGTGAGCAAGTAAAAATGCTTCTTGCACATTGCTTCATGT
104618588 TCTGTGCTCTTGTTCTCTCTTTTGTTGCTGCCTCTTGCACCAACAATT
391 TCTGTGCTCTTGTTCTCTCTTTTGTTGCTGCCTCTTGCACCAACAATT
104618636 TATTGGAAATTGGCCAACCATGCTGCTGTTACATTTTGTGGTTGAAGTGCATGCAGCTTGATGAC
1 TATTGGAAATTGGCCAACCATGCTGCTGTTACATTTTGTGGTTGAAGTGCATGCAGCTTGATGAC
104618701 ATGCTGCAGCACATATGCTTGCTGTAACAGCAAGGTTTCTCTTTAGTTTCATTCTAATTAATCTA
66 ATGCTGCAGCACATATGCTTGCTGTAACAGCAAGGTTTCTCTTTAGTTTCATTCTAATTAATCTA
104618766 GTTTAAAATGGACAAGTTGATGACAACTTGATGCATTAGGTGTTGAATGACTAGTTTAGGTGGCT
131 GTTTAAAATGGACAAGTTGATGACAACTTGATGCATTAGGTGTTGAATGACTAGTTTAGGTGGCT
104618831 TGTTTATGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGGTTAGTTGACTATTT
196 TGTTTATGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGGTTAGTTGACTATTT
104618896 GGTGATGTATTTGACTATAAATGTATGTTTTTTCTAGTTGAATGAATGAGCTGAATGAGCTATCA
261 GGTGATGTATTTGACTATAAATGTATGTTTTTTCTAGTTGAATGAATGAGCTGAATGAGCTATCA
* *
104618961 GCCATTAGCTCCCTTGCTGCACATTTGTGAGCAAGTAAAAATGCTTTTTGCACCTTGCTTCATGT
326 GCCATTAGCTCCCTTGCTGCACATTTGTGAGCAAGTAAAAATGCTTCTTGCACATTGCTTCATGT
104619026 TCTGTGCTCTTGTTCTCTCTTTTGTTGCTGCCTCTTGCACCAACAATT
391 TCTGTGCTCTTGTTCTCTCTTTTGTTGCTGCCTCTTGCACCAACAATT
104619074 GGTATCATGA
Statistics
Matches: 435, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
438 435 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (438 bp):
TATTGGAAATTGGCCAACCATGCTGCTGTTACATTTTGTGGTTGAAGTGCATGCAGCTTGATGAC
ATGCTGCAGCACATATGCTTGCTGTAACAGCAAGGTTTCTCTTTAGTTTCATTCTAATTAATCTA
GTTTAAAATGGACAAGTTGATGACAACTTGATGCATTAGGTGTTGAATGACTAGTTTAGGTGGCT
TGTTTATGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGGTTAGTTGACTATTT
GGTGATGTATTTGACTATAAATGTATGTTTTTTCTAGTTGAATGAATGAGCTGAATGAGCTATCA
GCCATTAGCTCCCTTGCTGCACATTTGTGAGCAAGTAAAAATGCTTCTTGCACATTGCTTCATGT
TCTGTGCTCTTGTTCTCTCTTTTGTTGCTGCCTCTTGCACCAACAATT
Found at i:104621551 original size:53 final size:54
Alignment explanation
Indices: 104621490--104621602 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
104621480 TAGAAAAAAA
*
104621490 AAAT-TTCTTTATGATTTTTTT-GGGTTTATTTTTTAATCTTTGGTATTTAGAG
1 AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
104621542 AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
1 AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
104621596 AAATATT
1 AAATATT
104621603 GAAAACGGTG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 4 0.07
53 16 0.28
54 38 0.66
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.57
Consensus pattern (54 bp):
AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
Found at i:104624810 original size:7 final size:7
Alignment explanation
Indices: 104624798--104624827 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
104624788 CATGTTATTT
104624798 TTTTGAA
1 TTTTGAA
104624805 TTTTGAA
1 TTTTGAA
104624812 TTTTGAA
1 TTTTGAA
104624819 TTTTTGAA
1 -TTTTGAA
104624827 T
1 T
104624828 ATTTATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (7 bp):
TTTTGAA
Found at i:104624817 original size:14 final size:15
Alignment explanation
Indices: 104624798--104624827 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104624788 CATGTTATTT
104624798 TTTTGAA-TTTTGAA
1 TTTTGAATTTTTGAA
104624812 TTTTGAATTTTTGAA
1 TTTTGAATTTTTGAA
104624827 T
1 T
104624828 ATTTATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTGAATTTTTGAA
Found at i:104627579 original size:16 final size:16
Alignment explanation
Indices: 104627560--104627594 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
104627550 TTTATCTTTG
*
104627560 ATTGATATAATCTTCA
1 ATTGAAATAATCTTCA
104627576 ATTGAAATAATCTTCA
1 ATTGAAATAATCTTCA
104627592 ATT
1 ATT
104627595 CTGAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTGAAATAATCTTCA
Found at i:104635067 original size:2 final size:2
Alignment explanation
Indices: 104635060--104635088 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104635050 TGACTTTAAA
104635060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104635089 ACATTAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104641832 original size:106 final size:106
Alignment explanation
Indices: 104641647--104642021 Score: 412
Period size: 106 Copynumber: 3.5 Consensus size: 106
104641637 CGTTTACCAT
*
104641647 ATGAGACATTGTAACATTGTAGTATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * *
104641712 AAAAGTTCTCGAACCCAACCGAAGCAATCGGAATGAACATC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
* * * *
104641753 ATGAGACATTGTAACATTGTAGTATGCACTTTGCATATTGAATTTTAGGGCATGTTTTTATTGAT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * ** *
104641818 AGAAGTCCTGGAACCGAAAGGAAACAATCGGAATAAAC-TGC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACAT-C
** * * * * * * * * *
104641859 ATGATTCATCGTAACATCGAAGCATGCACTCTGCATATTG-ATTTTGGGATATCTTTTCATCCAC
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * * * *
104641923 AAAAGTCCTCGAACGGAACCGAAACAATAGTAAAGCACATC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
* * ** * *
104641964 ATGAGTCATAGTAACATTACAGCCTGCAATCTGCATATTGAATTTTAGGACATGTTTT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTT
104642022 GGATTCTGTA
Statistics
Matches: 220, Mismatches: 46, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
105 79 0.36
106 141 0.64
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
Found at i:104652064 original size:31 final size:31
Alignment explanation
Indices: 104652024--104652106 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
104652014 ATAAATATCA
* *
104652024 AATTT-ATACATAAACTTTGATCTATTTTAT
1 AATTTGATACATGAACTTTGATCTAATTTAT
*
104652054 AATTTGATACATGAACTTTGATCTAATTTGT
1 AATTTGATACATGAACTTTGATCTAATTTAT
104652085 AATTTGATACATGAACTTTGAT
1 AATTTGATACATGAACTTTGAT
104652107 TTGGTACAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
AATTTGATACATGAACTTTGATCTAATTTAT
Found at i:104654857 original size:29 final size:31
Alignment explanation
Indices: 104654799--104654857 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
104654789 TACGTCTCTA
* *
104654799 AATTATTAACATTATATTAATTAAGTCATTC
1 AATTATTAACAATATATTAATTAAGCCATTC
104654830 AATTATTAA-AAT-TATTAATTTAA-CCATT
1 AATTATTAACAATATATTAA-TTAAGCCATT
104654858 AAATGAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
30 6 0.24
31 9 0.36
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (31 bp):
AATTATTAACAATATATTAATTAAGCCATTC
Found at i:104665703 original size:13 final size:13
Alignment explanation
Indices: 104665672--104665696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104665662 TTTCCGACCA
104665672 AGTTTTTAATTTT
1 AGTTTTTAATTTT
104665685 AGTTTTTAATTT
1 AGTTTTTAATTT
104665697 ATTTTTTGAA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
AGTTTTTAATTTT
Found at i:104678964 original size:50 final size:50
Alignment explanation
Indices: 104678840--104679088 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
104678830 GATAATAACA
* * ** * *
104678840 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
104678891 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
104678941 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
104678991 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
104679046 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
104679089 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:104679018 original size:100 final size:104
Alignment explanation
Indices: 104678839--104679088 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
104678829 TGATAATAAC
**
104678839 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
104678904 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
104678941 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
104679004 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
104679046 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
104679089 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:104679204 original size:13 final size:13
Alignment explanation
Indices: 104679183--104679214 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
104679173 GCTTGGATCA
*
104679183 TCATCAAATAAAT
1 TCATAAAATAAAT
104679196 TCATAAAATAAAT
1 TCATAAAATAAAT
104679209 TCATAA
1 TCATAA
104679215 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:104679462 original size:30 final size:30
Alignment explanation
Indices: 104679426--104679483 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
104679416 CCTCGACTCT
*
104679426 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
104679456 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
104679484 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:104680052 original size:2 final size:2
Alignment explanation
Indices: 104680045--104680123 Score: 52
Period size: 2 Copynumber: 43.5 Consensus size: 2
104680035 TTTCTTTTGT
*
104680045 TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA -A TA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
104680083 TA T- TA -A TA -A TA -A TCA T- TA CT- TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA
104680121 TA T
1 TA T
104680124 TAACTAGAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
1 10 0.16
2 49 0.79
3 3 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:104682013 original size:13 final size:13
Alignment explanation
Indices: 104681995--104682022 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
104681985 GATAAAAGAG
104681995 CATATAGAATACC
1 CATATAGAATACC
104682008 CATATAGAATACC
1 CATATAGAATACC
104682021 CA
1 CA
104682023 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:104682465 original size:12 final size:12
Alignment explanation
Indices: 104682448--104682472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104682438 AAATTTGACT
104682448 CTTATATATATA
1 CTTATATATATA
104682460 CTTATATATATA
1 CTTATATATATA
104682472 C
1 C
104682473 ACATAACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTATATATATA
Found at i:104684580 original size:50 final size:50
Alignment explanation
Indices: 104684456--104684704 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
104684446 GATAATAACA
* * ** * *
104684456 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
104684507 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
104684557 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
104684607 TGCCCATGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
104684662 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
104684705 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:104684635 original size:100 final size:104
Alignment explanation
Indices: 104684455--104684704 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
104684445 TGATAATAAC
**
104684455 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* * *
104684520 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAAACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
104684557 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
104684620 TCCCAAACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAAACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
104684662 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
104684705 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAAACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:104684820 original size:13 final size:13
Alignment explanation
Indices: 104684799--104684830 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
104684789 GCTTGGATCA
*
104684799 TCATCAAATAAAT
1 TCATAAAATAAAT
104684812 TCATAAAATAAAT
1 TCATAAAATAAAT
104684825 TCATAA
1 TCATAA
104684831 TTACTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:104685078 original size:30 final size:30
Alignment explanation
Indices: 104685042--104685099 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
104685032 CCTCGACTCT
*
104685042 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
104685072 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
104685100 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:104685668 original size:2 final size:2
Alignment explanation
Indices: 104685661--104685744 Score: 55
Period size: 2 Copynumber: 46.5 Consensus size: 2
104685651 TTTCTTTTGT
*
104685661 TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA -A TA TA -A AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
104685699 T- TA -A TA -A TA -A TCA T- TA CT- TA CA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA TA
104685736 TA TA TA TA T
1 TA TA TA TA T
104685745 TAACTAGAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 26
0.69 0.03 0.27
Matches are distributed among these distances:
1 11 0.17
2 52 0.79
3 3 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:104685676 original size:10 final size:10
Alignment explanation
Indices: 104685661--104685744 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 10
104685651 TTTCTTTTGT
104685661 TATATATATA
1 TATATATATA
104685671 TATATATA-A
1 TATATATATA
104685680 TATA-ATATA
1 TATATATATA
*
104685689 -ATATA-AAA
1 TATATATATA
104685697 TAT-TA-ATA
1 TATATATATA
104685705 -ATA-ATCAT-
1 TATATAT-ATA
*
104685713 TACT-TACATA
1 TA-TATATATA
104685723 TATATA-ATA
1 TATATATATA
104685732 TATATATATA
1 TATATATATA
104685742 TAT
1 TAT
104685745 TAACTAGAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 24
0.69 0.03 0.28
Matches are distributed among these distances:
7 3 0.05
8 12 0.20
9 24 0.41
10 20 0.34
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATATATA
Found at i:104686955 original size:23 final size:23
Alignment explanation
Indices: 104686920--104686965 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
104686910 TTTTAAATTA
*
104686920 TTTTAAATTAAATTAAATAAAAT
1 TTTTAAATAAAATTAAATAAAAT
* * *
104686943 TTTTAAGTAAAATTCAATCAAAT
1 TTTTAAATAAAATTAAATAAAAT
104686966 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTTAAATAAAATTAAATAAAAT
Found at i:104687011 original size:19 final size:18
Alignment explanation
Indices: 104686980--104687016 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
104686970 TAAAATCACG
*
104686980 AAATTTAATATAAATTTA
1 AAATATAATATAAATTTA
104686998 AAATATAATGATAAATTTA
1 AAATATAAT-ATAAATTTA
104687017 TCTCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATATAATATAAATTTA
Found at i:104714844 original size:25 final size:25
Alignment explanation
Indices: 104714807--104714854 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
104714797 ATACACGCCA
*
104714807 GTTTTTAACTATACAAATAGATGGC
1 GTTTTTAAATATACAAATAGATGGC
*
104714832 GTTTTTAAATATACAAATGGATG
1 GTTTTTAAATATACAAATAGATG
104714855 AAAGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (25 bp):
GTTTTTAAATATACAAATAGATGGC
Found at i:104714861 original size:26 final size:25
Alignment explanation
Indices: 104714806--104714862 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
104714796 CATACACGCC
* *
104714806 AGTTTTTAACTATACAAATAGATGG
1 AGTTTTTAAATATACAAATAGATGA
* *
104714831 CGTTTTTAAATATACAAATGGATGAA
1 AGTTTTTAAATATACAAATAGATG-A
104714857 AGTTTT
1 AGTTTT
104714863 AATAGAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (25 bp):
AGTTTTTAAATATACAAATAGATGA
Done.