Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 35 of 198
Found at i:10359644 original size:91 final size:91
Alignment explanation
Indices: 10359545--10359712 Score: 246
Period size: 91 Copynumber: 1.8 Consensus size: 91
10359535 ACTGATTTGG
* * * * * *
10359545 ACAACATTAATATGTTAAAACATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
1 ACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTCGAACAACATTTAAACAAAAT
*
10359610 TCGGACAGCATTTAAAAAACATTCGA
66 TCAGACAGCATTTAAAAAACATTCGA
* * *
10359636 ACAACATTAGTATGCTAAAAAACGAATAGCATTTAACCAACATTCGGACAACATTTAAACAAAAT
1 ACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTCGAACAACATTTAAACAAAAT
10359701 TCAGACAGCATT
66 TCAGACAGCATT
10359713 AGTATGCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 67 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (91 bp):
ACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTCGAACAACATTTAAACAAAAT
TCAGACAGCATTTAAAAAACATTCGA
Found at i:10359832 original size:69 final size:69
Alignment explanation
Indices: 10359589--10359839 Score: 367
Period size: 69 Copynumber: 3.6 Consensus size: 69
10359579 AACCAACATT
* * * *
10359589 CGAACAGCATTTAACCAACATTCGGACAGCATTTAAAAAACATTCGAACAACATTAGTATGCTAA
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
10359654 AAAA
66 AAAA
* * * * *
10359658 CGAATAGCATTTAACCAACATTCGGACAACATTTAAACAAAATTCAGACAGCATTAGTATGCTAA
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
10359723 AAAA
66 AAAA
* * *
10359727 CGAACAGCATTTAACCAACATTCGAACAACATTTAACCAACATTCGGACAACATTAGTATGATAC
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
10359792 AAAA
66 AAAA
* * *
10359796 TGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACATT
1 CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATT
10359840 TGGATAGCAT
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 165 1.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.23
Consensus pattern (69 bp):
CGAACAGCATTTAACCAACATTCGAACAACATTTAAACAACATTCGGACAACATTAGTATGCTAA
AAAA
Found at i:10360552 original size:42 final size:43
Alignment explanation
Indices: 10360500--10360585 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
10360490 TACATGTATA
* *
10360500 ATATATCGATGCCACTATCTCAGACAG-GGTCTTACACGAAATC
1 ATATATCGATGCCAATATCCCAGAC-GTGGTCTTACACGAAATC
* * *
10360543 ATATA-CGATGCTAATGTCCCAGACGTGGTCTTACATGAAATC
1 ATATATCGATGCCAATATCCCAGACGTGGTCTTACACGAAATC
10360585 A
1 A
10360586 CACTTTGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.03
42 31 0.84
43 5 0.14
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATATATCGATGCCAATATCCCAGACGTGGTCTTACACGAAATC
Found at i:10366212 original size:30 final size:30
Alignment explanation
Indices: 10366139--10366213 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
10366129 AAGCTACCCT
* * *
10366139 TTTTCATAATATAATGGTCGTCACCATCCC
1 TTTTCATAATTTGATGGTCATCACCATCCC
**
10366169 TTTTCATTGTTTGATGGTCATCACCATCCC
1 TTTTCATAATTTGATGGTCATCACCATCCC
*
10366199 TTTTCCTAATTTGAT
1 TTTTCATAATTTGAT
10366214 AGCAAAAGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTTCATAATTTGATGGTCATCACCATCCC
Found at i:10366273 original size:30 final size:29
Alignment explanation
Indices: 10366224--10366304 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
10366214 AGCAAAAGTT
10366224 ATCCCTTTTCACAGATCGATAGCCGAAGCC
1 ATCCCTTTTCACA-ATCGATAGCCGAAGCC
* * * *
10366254 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
1 ATCCCTTTTCACAA-TCGATAGCCG-AAGCC
10366284 ATCCCTTTTCACAATCGATAG
1 ATCCCTTTTCACAATCGATAG
10366305 TTTATAGTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.16
30 35 0.81
31 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (29 bp):
ATCCCTTTTCACAATCGATAGCCGAAGCC
Found at i:10368634 original size:28 final size:28
Alignment explanation
Indices: 10368594--10368650 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
10368584 CAAGTTGATA
10368594 TTCTGACCTTTTGTTATGAGATTTGCAG
1 TTCTGACCTTTTGTTATGAGATTTGCAG
*
10368622 TTCTGGCCTTTTGTTATGAGATTTGCAG
1 TTCTGACCTTTTGTTATGAGATTTGCAG
10368650 T
1 T
10368651 GACTACCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (28 bp):
TTCTGACCTTTTGTTATGAGATTTGCAG
Found at i:10374784 original size:162 final size:162
Alignment explanation
Indices: 10374513--10374840 Score: 469
Period size: 162 Copynumber: 2.0 Consensus size: 162
10374503 ACAATGAATG
* * * * *
10374513 AGGCAGAGACCGAGGGAACGAACCTGACTATAGAAACATCGTTGTTGGGCAAGATGAAGGATATT
1 AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAACATCGTTGTTGCGCAAAATGAAGGATATC
* * *
10374578 GAGAAGTTGGCCAATTCCATCAACAATAAACAGATCAAGCTTGTCTCTAAAATAGAGGATATGGG
66 AAGAAGTTGGCCAATTCCATCAACAATAAACAGATCAAGCTTGTCGCTAAAATAGAGGATATGGA
**
10374643 CAGATCACAAAATTTGTTCTACGTTTATACCA
131 CAGATCACAAAATTTGTTCTACACTTATACCA
* *
10374675 AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAATATTGTTGTTGCGCAAAATGAAGGATATC
1 AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAACATCGTTGTTGCGCAAAATGAAGGATATC
* * * *
10374740 AAGAAGTTGGTCAATTCCATCAACAATAAGA-TGATCAGGCTTGTCGCTACAATAGAGGATATGG
66 AAGAAGTTGGCCAATTCCATCAACAATAA-ACAGATCAAGCTTGTCGCTAAAATAGAGGATATGG
* * *
10374804 ATAGATCACAAAATTTTTTGTACACTTATACCA
130 ACAGATCACAAAATTTGTTCTACACTTATACCA
10374837 AGGC
1 AGGC
10374841 CTATAACAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
162 145 0.99
163 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (162 bp):
AGGCAGAGACCAAGGGAACGAACCTGACTACAGAAACATCGTTGTTGCGCAAAATGAAGGATATC
AAGAAGTTGGCCAATTCCATCAACAATAAACAGATCAAGCTTGTCGCTAAAATAGAGGATATGGA
CAGATCACAAAATTTGTTCTACACTTATACCA
Found at i:10381881 original size:16 final size:17
Alignment explanation
Indices: 10381855--10381899 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
10381845 GTTTAATTGG
*
10381855 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
10381872 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
10381888 TTTAGTTATTTA
1 TTTAGTTGTTTA
10381900 GGTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:10383059 original size:112 final size:112
Alignment explanation
Indices: 10382862--10383085 Score: 421
Period size: 112 Copynumber: 2.0 Consensus size: 112
10382852 GACCTGCAAA
10382862 CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
1 CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
10382927 TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
66 TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
* *
10382974 CTTTTACTAAAGTGAATTTTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCTGATGGACCA
1 CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
*
10383039 TCATAACTTGTATCCGGCTCACTTTATTTGCAACATACAGGCACAAG
66 TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
10383086 GGCCTTTTCA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (112 bp):
CTTTTACTAAAGTGAATTCTATAACTACTGTAGATGCAAAACTGTAAGGATAAGCCGATGGACCA
TCATAACTTGTATCCGGCTCACTTTATTTGCAACACACAGGCACAAG
Found at i:10383308 original size:28 final size:28
Alignment explanation
Indices: 10383237--10383341 Score: 99
Period size: 28 Copynumber: 3.8 Consensus size: 28
10383227 CACAAAAATA
* *
10383237 GTCCTGGCGGACTTCCACATTTAAGATC
1 GTCCTGACGAACTTCCACATTTAAGATC
* * * *
10383265 GACCTAACGGAGTTCCACATTTAAGATC
1 GTCCTGACGAACTTCCACATTTAAGATC
*
10383293 GTGCTGACGAACTTCCACA--TAAGATC
1 GTCCTGACGAACTTCCACATTTAAGATC
* *
10383319 ATCCTGGC-AGACTTCCACATTTA
1 GTCCTGACGA-ACTTCCACATTTA
10383342 CAGTAATTCC
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 21 0.34
28 40 0.65
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (28 bp):
GTCCTGACGAACTTCCACATTTAAGATC
Found at i:10383667 original size:18 final size:19
Alignment explanation
Indices: 10383634--10383669 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10383624 ATTCACCTAA
10383634 ACCCAATCCAAACCCAATT
1 ACCCAATCCAAACCCAATT
*
10383653 ACCCAA-CCCAACCCAAT
1 ACCCAATCCAAACCCAAT
10383670 CATAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (19 bp):
ACCCAATCCAAACCCAATT
Found at i:10383829 original size:9 final size:9
Alignment explanation
Indices: 10383815--10383881 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
10383805 GTAGTGATTA
*
10383815 AATTCGGGT
1 AATTCGGTT
10383824 AATTCGGTT
1 AATTCGGTT
***
10383833 AATTTAATT
1 AATTCGGTT
* *
10383842 AATTAGGGT
1 AATTCGGTT
10383851 AATTCGGTT
1 AATTCGGTT
10383860 AATTCGGTT
1 AATTCGGTT
*
10383869 AATTCGATT
1 AATTCGGTT
10383878 AATT
1 AATT
10383882 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10394193 original size:40 final size:43
Alignment explanation
Indices: 10394143--10394241 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 43
10394133 AATTATTATA
10394143 AATA-TCTTATTGTTAACAATA-TT-TTTAATCTAAA-ATTTT
1 AATATTCTTATTGTTAACAATATTTATTTAATCTAAATATTTT
* ***
10394182 AATATTCTTATTTTTTGTAATATTTATTTAATCTAAATTATTTT
1 AATATTCTTATTGTTAACAATATTTATTTAATCTAAA-TATTTT
*
10394226 -ATATTTTTATTGTTAA
1 AATATTCTTATTGTTAA
10394242 TGACATTATC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.09
40 13 0.28
41 2 0.04
42 11 0.23
43 12 0.26
44 5 0.11
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (43 bp):
AATATTCTTATTGTTAACAATATTTATTTAATCTAAATATTTT
Found at i:10397376 original size:31 final size:30
Alignment explanation
Indices: 10397339--10397433 Score: 84
Period size: 30 Copynumber: 3.0 Consensus size: 30
10397329 AATAAACACA
*
10397339 AAAAAAATTTCAGAAAATTAAAAAATATATTTT
1 AAAAATATTTCA-AAAA-TAAAAAA-ATATTTT
* *
10397372 AAAAATATTTTAAAAATAAAAAAGTATTTT
1 AAAAATATTTCAAAAATAAAAAAATATTTT
* * *
10397402 -AAAATATTTTTAAAAATACAAATATATATTT
1 AAAAATA-TTTCAAAAATAAAAAAATAT-TTT
10397433 A
1 A
10397434 TTATACTTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.11
30 23 0.43
31 10 0.19
32 4 0.08
33 10 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAAATATTTCAAAAATAAAAAAATATTTT
Found at i:10397381 original size:11 final size:11
Alignment explanation
Indices: 10397360--10397419 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
10397350 AGAAAATTAA
10397360 AAAATATATTTT
1 AAAA-ATATTTT
10397372 AAAAATATTTT
1 AAAAATATTTT
10397383 AAAAATA----
1 AAAAATATTTT
10397390 AAAAAGTATTTT
1 AAAAA-TATTTT
10397402 -AAAATATTTTT
1 AAAAATA-TTTT
10397413 AAAAATA
1 AAAAATA
10397420 CAAATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
10 2 0.05
11 22 0.54
12 10 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:10397400 original size:30 final size:31
Alignment explanation
Indices: 10397352--10397432 Score: 103
Period size: 30 Copynumber: 2.6 Consensus size: 31
10397342 AAAATTTCAG
*
10397352 AAAATTAAAAAATATATTTTAAAA-ATATTTT
1 AAAAATAAAAAATATATTTTAAAATAT-TTTT
*
10397383 AAAAATAAAAAA-GTATTTTAAAATATTTTT
1 AAAAATAAAAAATATATTTTAAAATATTTTT
*
10397413 AAAAATACAAATATATATTT
1 AAAAATA-AAAAATATATTT
10397433 ATTATACTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 21 0.49
31 17 0.40
32 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAAATAAAAAATATATTTTAAAATATTTTT
Found at i:10398108 original size:69 final size:69
Alignment explanation
Indices: 10398034--10398164 Score: 201
Period size: 71 Copynumber: 1.9 Consensus size: 69
10398024 AACAACGACA
* *
10398034 ATTTTTTTAGTGAACTGGAAA-TTTTTTTCATAGTTATCATAATTCTAGTTACATGAATAATTTA
1 ATTTTTTGAGTGAACTGCAAAGTTTTTTTCATAGTTATCATAATTCTAGTTACATG-ATAATTTA
10398098 TCATT
65 TCATT
* *
10398103 ATTTTTTGAGTGATCTGCAAAGTTTTTTTTTATAGTTATCATAATTCTAGTTACATGATAAT
1 ATTTTTTGAGTGAACTGCAAAG-TTTTTTTCATAGTTATCATAATTCTAGTTACATGATAAT
10398165 GATACTAACT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 18 0.32
70 5 0.09
71 33 0.59
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (69 bp):
ATTTTTTGAGTGAACTGCAAAGTTTTTTTCATAGTTATCATAATTCTAGTTACATGATAATTTAT
CATT
Found at i:10398853 original size:22 final size:22
Alignment explanation
Indices: 10398825--10398977 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
10398815 TGTTGATAGT
*
10398825 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
10398847 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
10398869 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
10398891 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
10398913 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
10398935 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
10398957 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
10398978 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:10402654 original size:302 final size:293
Alignment explanation
Indices: 10401970--10402884 Score: 895
Period size: 299 Copynumber: 3.1 Consensus size: 293
10401960 CTAAAGCTTT
* * *
10401970 ATTTTAATTTTATTATGCACATTTTATTA-TTTCCATTAATTGTATATTTATCT--ATACTATTA
1 ATTTTAATTTTATTATGCACACTTTATTACTTT-CATAAATTGTATATTTATATACATACTATTA
* * *
10402032 TTTAAGCT-T-A---GTTGGTGTCACCCTCAACC-AGGTCTCAAAC-TCGATTAGGAAAATTATG
65 TTTAAGCTCTGACTGGTTGGTGTCACCCTCAACCGAGGTCACCAACTTAG-TTAGGAAAATTATG
* * *
10402090 GAAATGCCCTTTCGTAATTAAAATAAGTTATACTACTTGATGGTACTTTAGTC-TTTTA-TT--A
129 GAAATGTCCTTTCGTAATTAAAATAAGTTATATTACTT-AAGGTACTTTAGTCTTTTTATTTAAA
* * * *
10402151 AAAATAAAAAAAAATGCATATAGTGGGATTTGAACCCGAAA-CAATT-CTATTAATAAAATTTTA
193 AAAATAATAAAAAATGCAT-TTGT-GGATTTGAACCC-AAACCAATTGC-ATTAGTAAAACTTTA
* * * * *
10402214 ATTTACCACTTACCTAAAGCATTATTCCGATATTATTTTTTTAT
254 ATTTACCACTCAACTAAAGCTTTATT---ATAATA-TTTTTTAC
* * * * * * *
10402258 ATTTTAATTTTA-TA--CACTCTTTATTATTTTTATCAATTGTATA-TT-TGTACTTACTTTTAT
1 ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTGTATATTTATATACATACTATTAT
* * * * **
10402318 TTAAGCTCTTGACTGAATCGGTGTCACCCTCAACCGACGTCACCAACTTAGTTAGAAAAATTACA
66 TTAAGCTC-TGACTG-GTTGGTGTCACCCTCAACCGAGGTCACCAACTTAGTTAGGAAAATTATG
* * * *
10402383 AAAATATCCTTTCGTGATTAAAATAATTTATATTACTTAAGGTACTTTAGTCTTTTTTATTTTAA
129 GAAATGTCCTTTCGTAATTAAAATAAGTTATATTACTTAAGGTACTTTAGTC-TTTTTA-TTTAA
* * *
10402448 AAAAATAATAGAAAAATGTATTTGGTAAGATTTGAACCCAAACCAATTGCATTAGTAAAACTTAC
192 AAAAATAATA-AAAAATGCATTT-GT-GGATTTGAACCCAAACCAATTGCATTAGTAAAACTT-T
* *
10402513 AATTTACCAATCAACTAAAGGTTTATTATAATATTTTTTAC
253 AATTTACCACTCAACTAAAGCTTTATTATAATATTTTTTAC
*
10402554 ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTTTATATTATATATACATACTATTA
1 ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTGTATATT-TATATACATACTATTA
* *
10402619 TTTAAGCTTCTGACTGGGTTGGTGTCACCCTCAACCG-GGTCACCAACTTGGTTAGGGAAATTAT
65 TTTAAGC-TCTGACT-GGTTGGTGTCACCCTCAACCGAGGTCACCAACTTAGTTAGGAAAATTAT
* * * *
10402683 GGAAATGTCTTTTCATAATTAAAATAAGTTATATTACTTGAGAGTAGTTTAGTCTTTTTATTTAA
128 GGAAATGTCCTTTCGTAATTAAAATAAGTTATATTACTTAAG-GTACTTTAGTCTTTTTATTTAA
** * * *
10402748 AAAACCAATAAAAAATACATCTTGTGGAATTTGAACGCGAACCAATTGCATTAGTAAAACCTTTA
192 AAAAATAATAAAAAATGCAT-TTGTGG-ATTTGAACCCAAACCAATTGCATTAGTAAAA-CTTTA
* * *
10402813 ATTTACTACTCATCTAAAGCTTTATT-TAAATAATTTTATAC
254 ATTTACCACTCAACTAAAGCTTTATTAT-AAT-ATTTTTTAC
* * *
10402854 ATTTTAATTATATTATGTACACGTTATTACT
1 ATTTTAATTTTATTATGCACACTTTATTACT
10402885 CGAGATTGAT
Statistics
Matches: 512, Mismatches: 78, Indels: 62
0.79 0.12 0.10
Matches are distributed among these distances:
283 2 0.00
284 2 0.00
285 36 0.07
286 3 0.01
287 3 0.01
288 13 0.03
292 30 0.06
293 51 0.10
294 7 0.01
296 21 0.04
297 7 0.01
298 15 0.03
299 127 0.25
300 78 0.15
301 63 0.12
302 51 0.10
303 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (293 bp):
ATTTTAATTTTATTATGCACACTTTATTACTTTCATAAATTGTATATTTATATACATACTATTAT
TTAAGCTCTGACTGGTTGGTGTCACCCTCAACCGAGGTCACCAACTTAGTTAGGAAAATTATGGA
AATGTCCTTTCGTAATTAAAATAAGTTATATTACTTAAGGTACTTTAGTCTTTTTATTTAAAAAA
ATAATAAAAAATGCATTTGTGGATTTGAACCCAAACCAATTGCATTAGTAAAACTTTAATTTACC
ACTCAACTAAAGCTTTATTATAATATTTTTTAC
Found at i:10405315 original size:3 final size:3
Alignment explanation
Indices: 10405307--10405335 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10405297 CATCGCTACT
10405307 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10405336 TCACTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10416607 original size:13 final size:14
Alignment explanation
Indices: 10416578--10416633 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
10416568 TAAATATATT
*
10416578 TTTTTAATTTTTAA
1 TTTTTAATTTATAA
10416592 TTTTTAATTTAT-A
1 TTTTTAATTTATAA
* *
10416605 TTTGTAATTAATAA
1 TTTTTAATTTATAA
*
10416619 CTTTTTTATTTATAA
1 -TTTTTAATTTATAA
10416634 AATCATATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.32
14 12 0.35
15 11 0.32
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTAATTTATAA
Found at i:10430515 original size:44 final size:44
Alignment explanation
Indices: 10430455--10430982 Score: 444
Period size: 44 Copynumber: 11.9 Consensus size: 44
10430445 GATTCGTTGT
* * * * *
10430455 TTTAATCCGCTTCACTGTAACTTCAGGGAGATAGGATTAATAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATAGC
* * * *
10430499 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATAGC
* * * **
10430543 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGCGA-C
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTGATAGC
* **
10430587 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGCGA-C
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTGATAGC
*
10430631 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAATT--TA-C
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATAGC
** * * * * *
10430672 CATGATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTGATTTATAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TG----ATAGC
* * *
10430723 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGATATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGATAGC
* * * * * *
10430768 TTCAGTCTGCTCCATTGCAACTTCAGGGATATAAGACTCT-CTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TGATAGC
* * * *
10430813 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATT-ATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGA-TAGC
* *
10430857 TTTAATCTGCTCCACTGCAACTTCAGTGAGATAAGATCTG-TAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGATAGC
* * * *
10430901 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATT-ATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGA-TAGC
* *
10430945 TTTAATCTGTTCCACTGCAACTTTAGGGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
10430983 TGCCATTTTC
Statistics
Matches: 396, Mismatches: 71, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
41 30 0.08
43 7 0.02
44 248 0.63
45 77 0.19
46 1 0.00
49 2 0.01
50 3 0.01
51 28 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATAGC
Found at i:10430565 original size:88 final size:88
Alignment explanation
Indices: 10430323--10430982 Score: 468
Period size: 88 Copynumber: 7.4 Consensus size: 88
10430313 ATCTTTAGTT
* * * *
10430323 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGATATCTTCAATCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTTAACCTGCTCCACTGCAACTTCAGG
* *
10430388 GAGATAAGACCTTCTATGGTAGGTTTAAT-
65 GAGATAAGA---T-TA--ATAGCTTTAATC
* * ** * * * * *
10430417 TCGAC-CTATTGCAACTTCA-AAAGTATAGGATTCGT-TGTTTTAATCC-GCTTCACTGTAACTT
1 T-G-CTCCACTGCAACTTCAGGGAG-ATAAGATTGGTAT-CTTTAA-CCTGCTCCACTGCAACTT
* *
10430478 CAGGGAGATAGGATTAATAGCTTCAATC
61 CAGGGAGATAAGATTAATAGCTTTAATC
* *
10430506 TGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTTAACCTGCTCCACTGCAACTTCAGGG
* ***
10430571 AGATAAAGTTTGCGA-CTTTAATC
66 AGAT-AAGATTAATAGCTTTAATC
* *
10430594 TGCTCCACTGCAACTTCAGGGAGATAAAGTTTGCG-A-CTTTAATCTGCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGAT-AAGATTG-GTATCTTTAACCTGCTCCACTGCAACTTCAG
* ** *
10430657 GGAGATAAAATT--TA-CCATGATC
64 GGAGATAAGATTAATAGCTTTAATC
* * * * * *
10430679 TACTCTACTGCAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-G---TAT--CTTTAACCTGCTCCACTGCAAC
* * * * *
10430744 TTCAGGGAAATAAGATTTGATATCTTCAGTC
59 TTCAGGGAGATAAGA-TTAATAGCTTTAATC
* * * *
10430775 TGCTCCATTGCAACTTCAGGGATATAAGACTCT-CTATCTTTAATCC-GCTCCACTGCAACTTTA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-T-TGGTATCTTTAA-CCTGCTCCACTGCAACTTCA
* * *
10430838 GGGAGATAGGATTATTGGCTTTAATC
63 GGGAGATAAGATTAATAGCTTTAATC
* *
10430864 TGCTCCACTGCAACTTCAGTGAGATAAGATCT-GTAACTTTAATCC-GCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTATCTTTAA-CCTGCTCCACTGCAACTTCAG
* * * *
10430927 AGAGATAGGATTATTGGCTTTAATC
64 GGAGATAAGATTAATAGCTTTAATC
* *
10430952 TGTTCCACTGCAACTTTAGGGAGATAAGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT
10430983 TGCCATTTTC
Statistics
Matches: 453, Mismatches: 86, Indels: 61
0.75 0.14 0.10
Matches are distributed among these distances:
84 4 0.01
85 30 0.07
87 8 0.02
88 199 0.44
89 52 0.11
90 33 0.07
91 2 0.00
92 37 0.08
93 3 0.01
94 35 0.08
95 20 0.04
96 27 0.06
97 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTTAACCTGCTCCACTGCAACTTCAGGG
AGATAAGATTAATAGCTTTAATC
Found at i:10431656 original size:26 final size:26
Alignment explanation
Indices: 10431620--10431670 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10431610 CAAAGGGATA
* *
10431620 GTCTTAATTTAGCCTTTTCCTTCTCG
1 GTCTTAATTTAGACTCTTCCTTCTCG
10431646 GTCTTAATTTAGACTCTTCCTTCTC
1 GTCTTAATTTAGACTCTTCCTTCTC
10431671 AGATATTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.27, G:0.10, T:0.49
Consensus pattern (26 bp):
GTCTTAATTTAGACTCTTCCTTCTCG
Found at i:10439541 original size:19 final size:20
Alignment explanation
Indices: 10439503--10439543 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10439493 GGTGGACTTT
10439503 AATGCATATAATGTAATGCA
1 AATGCATATAATGTAATGCA
10439523 AATGCATGA-AATG-AATGCA
1 AATGCAT-ATAATGTAATGCA
10439542 AA
1 AA
10439544 AAGAAGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 11 0.55
21 1 0.05
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (20 bp):
AATGCATATAATGTAATGCA
Found at i:10444642 original size:18 final size:18
Alignment explanation
Indices: 10444608--10444645 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10444598 GTGGCGCCCC
*
10444608 TAAACAATTCAACTCCAT
1 TAAACAATCCAACTCCAT
10444626 TAAACAATCCAGA-TCCAT
1 TAAACAATCCA-ACTCCAT
10444644 TA
1 TA
10444646 TGGGTCCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAACAATCCAACTCCAT
Found at i:10445901 original size:25 final size:25
Alignment explanation
Indices: 10445873--10445923 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
10445863 CATAAAAAAG
* *
10445873 CGTAACTTATCATATCATATCATGT
1 CGTAACATACCATATCATATCATGT
10445898 CGTAACATACCATATCATATCATGT
1 CGTAACATACCATATCATATCATGT
10445923 C
1 C
10445924 CTACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (25 bp):
CGTAACATACCATATCATATCATGT
Found at i:10455474 original size:16 final size:16
Alignment explanation
Indices: 10455453--10455507 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
10455443 TGAATTACTG
10455453 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* **
10455469 ATTACAACTCTATTAA
1 ATTACAGCTCTATTCC
*
10455485 ATTATAG-TACTATTCC
1 ATTACAGCT-CTATTCC
10455501 ATTACAG
1 ATTACAG
10455508 TGAACTAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 1 0.03
16 29 0.97
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:10460174 original size:2 final size:2
Alignment explanation
Indices: 10460167--10460203 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10460157 AAATTATCAA
10460167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10460204 TAGTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10461301 original size:20 final size:20
Alignment explanation
Indices: 10461276--10461314 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10461266 TAAATTGCTT
10461276 TATTTAT-AAGATTATTATTC
1 TATTTATGAA-ATTATTATTC
10461296 TATTTATGAAATTATTATT
1 TATTTATGAAATTATTATT
10461315 TTAATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTATGAAATTATTATTC
Found at i:10461379 original size:12 final size:11
Alignment explanation
Indices: 10461357--10461402 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
10461347 AAATAGATAT
*
10461357 TAATTTTTTTA
1 TAATATTTTTA
10461368 TAAATATTTTTA
1 T-AATATTTTTA
*
10461380 TAAT-TTTGTA
1 TAATATTTTTA
10461390 T-ATATTTTTA
1 TAATATTTTTA
10461400 TAA
1 TAA
10461403 AAAAAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 2 0.07
10 12 0.41
11 5 0.17
12 10 0.34
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TAATATTTTTA
Found at i:10461629 original size:22 final size:21
Alignment explanation
Indices: 10461601--10461644 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10461591 TGTTTAGGAG
*
10461601 TTTTTTTT-AATAATTTTTTTA
1 TTTTTTTTAAAT-ATTATTTTA
10461622 TTTTTTTTAAATATTATTTTA
1 TTTTTTTTAAATATTATTTTA
10461643 TT
1 TT
10461645 AGTAGTGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTTTTAAATATTATTTTA
Found at i:10462049 original size:32 final size:32
Alignment explanation
Indices: 10462013--10462087 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
10462003 TAATTAATTT
10462013 TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
1 TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
*
10462045 TTTTTTAATTTAAAGGGATTTGTTATTTTTTA
1 TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
*
10462077 TGTTATTAATT
1 T-TTTTTAATT
10462088 ATTATAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 32 0.80
33 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (32 bp):
TTTTTTAATTTAAAGGGATTAGTTATTTTTTA
Found at i:10462256 original size:100 final size:101
Alignment explanation
Indices: 10462150--10462413 Score: 341
Period size: 100 Copynumber: 2.6 Consensus size: 101
10462140 AATTTTTTGT
* * * *
10462150 ATTTTTTAAATCATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTGT
1 ATTTTTT-AATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGT
* * *
10462215 TTAGTTCAGTGTTTATTATGATTTTTTATTAATAT-A
65 TTAGTTCAGTGTTTATTATGACTTGTTATAAATATAA
* * *
10462251 ATTTTTTAATTATTTCAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTATGTT
1 ATTTTTTAATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTT
* * *
10462316 TAGTTTAGTGTTTATTGTGACTTGTTATAAATGTAA
66 TAGTTCAGTGTTTATTATGACTTGTTATAAATATAA
** ** * *
10462352 ATTTTTTTGTGTTTTTTAATTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGT
1 ATTTTTTAATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGT
10462414 TTAGTTTAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 79 0.56
101 62 0.44
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (101 bp):
ATTTTTTAATCATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTT
TAGTTCAGTGTTTATTATGACTTGTTATAAATATAA
Found at i:10462257 original size:110 final size:110
Alignment explanation
Indices: 10462088--10462437 Score: 318
Period size: 100 Copynumber: 3.4 Consensus size: 110
10462078 GTTATTAATT
* *
10462088 ATTATAAATTTTTTTGTGCTTAGTTTAGTG-TT-TTGTGATTTTTTATAAATGTAATTTTTTGTA
1 ATTATAAA-TTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGTAATTTTTTGTA
* *
10462151 TTTTTTAAATCATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAG
65 TTTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
* * * * *
10462197 ATTATAAATTGTTTGTGTTTAGTTCAGTGTTTATTATGA-TTTTT-T--AT-TAA---TAT-AAT
1 ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGTAATTTTTTGTAT
* *
10462253 TTTTT-AATTATTTCAAAGTTATTTTGTTAGTAATTTATGATTAG
66 TTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
* * * *
10462297 GTTATAAATTATTTATGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATGTAAATTTTTTTGT
1 ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGT-AA-TTTTTTGT
*
10462362 GTTTTTT--A--A-TT-----T-ATTTTGTTAGTAATTTATGATTAG
64 ATTTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
* * * *
10462398 GTTATAAATTA-TT-TGTTTAGTTTAATGTGTACTGTGATTT
1 ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTT
10462438 ATGATTTGTT
Statistics
Matches: 205, Mismatches: 23, Indels: 36
0.78 0.09 0.14
Matches are distributed among these distances:
99 23 0.11
100 71 0.35
101 46 0.22
102 4 0.02
104 2 0.01
105 4 0.02
106 4 0.02
107 2 0.01
108 20 0.10
109 15 0.07
110 8 0.04
111 6 0.03
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (110 bp):
ATTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATAAATGTAATTTTTTGTAT
TTTTTAAATCATTTCAAAGTCATTTTGTTAGTAATTTATGATTAG
Found at i:10477866 original size:13 final size:13
Alignment explanation
Indices: 10477848--10477872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10477838 AAATTCAATG
10477848 TCAATTTCATATA
1 TCAATTTCATATA
10477861 TCAATTTCATAT
1 TCAATTTCATAT
10477873 CCAAACATAT
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:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:10478991 original size:23 final size:23
Alignment explanation
Indices: 10478965--10479065 Score: 89
Period size: 23 Copynumber: 4.4 Consensus size: 23
10478955 AGGCTCTATT
* *
10478965 GAGCTGAAACGGTAAGCTCTGAC
1 GAGCTGAAACAGTAAGCTCTAAC
*
10478988 GAGCT-AGACAGTAAGCT-TATAC
1 GAGCTGAAACAGTAAGCTCTA-AC
* *
10479010 GAGCTGAGACAGTAAGCTCTAAT
1 GAGCTGAAACAGTAAGCTCTAAC
* * *
10479033 GAGCTGAAAACAATAGGCTCTTAC
1 GAGCTG-AAACAGTAAGCTCTAAC
*
10479057 AAGCTGAAA
1 GAGCTGAAA
10479066 TATCGGTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.02
22 17 0.27
23 27 0.42
24 19 0.30
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTAAC
Found at i:10479331 original size:49 final size:49
Alignment explanation
Indices: 10479271--10479364 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
10479261 ATCTATTCAT
* *
10479271 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
1 TTAAATACATACATTTAAATACTCAATTCACATACCTTATCAAATTTAA
* *
10479320 TTAAATACATACATTTAAATACTTAATTCACATACTTTATCAAAT
1 TTAAATACATACATTTAAATACTCAATTCACATACCTTATCAAAT
10479365 CACATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.38
Consensus pattern (49 bp):
TTAAATACATACATTTAAATACTCAATTCACATACCTTATCAAATTTAA
Found at i:10497942 original size:21 final size:21
Alignment explanation
Indices: 10497916--10497957 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10497906 ATTTCAAAAA
*
10497916 TTAAATAG-AATAATTATTAAT
1 TTAAAT-GTAATAATTAATAAT
10497937 TTAAATGTAATAATTAATAAT
1 TTAAATGTAATAATTAATAAT
10497958 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TTAAATGTAATAATTAATAAT
Found at i:10498265 original size:19 final size:19
Alignment explanation
Indices: 10498228--10498290 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
10498218 AGTCAAGCTT
*
10498228 AATATTATTATATTATTAAT
1 AATATT-TTATATTATTAAA
* * *
10498248 AATTTTTTTTATTTTTAAA
1 AATATTTTATATTATTAAA
*
10498267 AATATTTTATATTAAT-AA
1 AATATTTTATATTATTAAA
10498285 AATATT
1 AATATT
10498291 AATATAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 8 0.23
19 22 0.63
20 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTTTATATTATTAAA
Found at i:10498440 original size:16 final size:15
Alignment explanation
Indices: 10498400--10498442 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
10498390 TTTTAATTTT
*
10498400 ATTTTAATAATA--A
1 ATTTTAAAAATATTA
10498413 ATTTTAAAAATATTA
1 ATTTTAAAAATATTA
10498428 ATTTTAAACAATATT
1 ATTTTAAA-AATATT
10498443 CTTCATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAAATATTA
Found at i:10498494 original size:15 final size:15
Alignment explanation
Indices: 10498474--10498530 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
10498464 ATTCAATATT
10498474 AATATTTTAATAATA
1 AATATTTTAATAATA
*
10498489 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
10498508 AATATATTAATAATA
1 AATATTTTAATAATA
10498523 AATATTTT
1 AATATTTT
10498531 TTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10519182 original size:24 final size:24
Alignment explanation
Indices: 10519154--10519201 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10519144 TTCATAGATC
*
10519154 AAATAAATTATGCTAATAAATATT
1 AAATAAATTATACTAATAAATATT
* *
10519178 AAATATATTATATTAATAAATATT
1 AAATAAATTATACTAATAAATATT
10519202 GAATCTTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATATT
Found at i:10537504 original size:92 final size:92
Alignment explanation
Indices: 10537372--10537557 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 92
10537362 AAACTAGACA
** * *
10537372 CAGGGGGAGGGGGTTCATTCTGGTAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGGTTCATTCCAGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAAA
10537437 ACATGATTGGAAATCACTGAATCATCT
66 ACATGATTGGAAATCACTGAATCATCT
10537464 CAGGGGGAGGGGGTTCATTCCAGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGGTTCATTCCAGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAAA
* * *
10537529 ACATGATTGGATATCGCTGAATTATCT
66 ACATGATTGGAAATCACTGAATCATCT
10537556 CA
1 CA
10537558 TATATGCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (92 bp):
CAGGGGGAGGGGGTTCATTCCAGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAAA
ACATGATTGGAAATCACTGAATCATCT
Found at i:10539525 original size:22 final size:22
Alignment explanation
Indices: 10539499--10539544 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10539489 CAAATAGAAA
* *
10539499 CAAACCCACAACAAATCAAATC
1 CAAACACAAAACAAATCAAATC
*
10539521 CAAACACAAAATAAATCAAATC
1 CAAACACAAAACAAATCAAATC
10539543 CA
1 CA
10539545 TTACAAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.30, G:0.00, T:0.11
Consensus pattern (22 bp):
CAAACACAAAACAAATCAAATC
Found at i:10544315 original size:13 final size:13
Alignment explanation
Indices: 10544297--10544321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10544287 GGTTACTAAT
10544297 TTTATTTTATTTA
1 TTTATTTTATTTA
10544310 TTTATTTTATTT
1 TTTATTTTATTT
10544322 GATATTCGTT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:10544988 original size:110 final size:107
Alignment explanation
Indices: 10544763--10544989 Score: 235
Period size: 110 Copynumber: 2.1 Consensus size: 107
10544753 AACAAATCTC
* * * * *
10544763 AAAAT-AAGGCAATATTTCGCGTTTGGAAATTTGAGAAAACGTGCCCTAACGTGCTGAGTTTCGA
1 AAAATAAAGGCAATATTCCGCATTTGGAAATTCGAGAAAACGTGCCATAACGTACTGAGTTTCGA
* * *
10544827 TTTTTCGTTTGACCCAATAGCCAAATATCCTTTTAAAATTTCAA
66 TTTTTCGGTTGACCAAATAACCAAATATCCTTTTAAAATTT--A
* ** * *
10544871 AATAATAAAGGCAATATTCCGTATTTGGAAATTCGAGAAGTCGTGCCATAACTTACTGGGTTTCG
1 AA-AATAAAGGCAATATTCCGCATTTGGAAATTCGAGAAAACGTGCCATAACGTACTGAGTTTCG
*
10544936 ATTTTTCTTGCGTTGAACCTAAATAACCGAATATCCTTTTAAAA-TT-
65 ATTTTTC--G-GTTG-ACC-AAATAACCAAATATCCTTTTAAAATTTA
10544982 AAAATAAA
1 AAAATAAA
10544990 TGAGGTTTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
108 2 0.02
109 3 0.03
110 61 0.62
111 2 0.02
112 1 0.01
113 3 0.03
114 5 0.05
115 21 0.21
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (107 bp):
AAAATAAAGGCAATATTCCGCATTTGGAAATTCGAGAAAACGTGCCATAACGTACTGAGTTTCGA
TTTTTCGGTTGACCAAATAACCAAATATCCTTTTAAAATTTA
Found at i:10550507 original size:5 final size:5
Alignment explanation
Indices: 10550497--10550521 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10550487 AACCTTATTC
10550497 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
10550522 GAAGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10550802 original size:21 final size:21
Alignment explanation
Indices: 10550754--10550794 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10550744 AATGATATAT
10550754 ATAA-TATATATTTTTATTTC
1 ATAATTATATATTTTTATTTC
10550774 ATAATTATATATTTATTATTT
1 ATAATTATATATTT-TTATTT
10550795 GATTTTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATAATTATATATTTTTATTTC
Found at i:10554233 original size:28 final size:29
Alignment explanation
Indices: 10554191--10554247 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
10554181 AAGTAAAGTG
*
10554191 GAAGGTGCTACCAAATATTCAAAGGAGGA
1 GAAGGTGCAACCAAATATTCAAAGGAGGA
10554220 GAAGG-GCAACCAAATATTCAAAGGAGGA
1 GAAGGTGCAACCAAATATTCAAAGGAGGA
10554248 AAAGAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (29 bp):
GAAGGTGCAACCAAATATTCAAAGGAGGA
Found at i:10570059 original size:33 final size:33
Alignment explanation
Indices: 10570016--10570083 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
10570006 AGGACGAAGA
*
10570016 TGTCTATCACATGATAGATTTTATCTTTCATTC
1 TGTCTATCACATGATAGATTTTATCTTTCACTC
* *
10570049 TGTCTGTCACATGATAGATTTTGTCTTTCACTC
1 TGTCTATCACATGATAGATTTTATCTTTCACTC
10570082 TG
1 TG
10570084 ACTTGATGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (33 bp):
TGTCTATCACATGATAGATTTTATCTTTCACTC
Found at i:10575580 original size:11 final size:10
Alignment explanation
Indices: 10575543--10575585 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
10575533 GTTGAAGAAA
10575543 TTGTTAGTAG
1 TTGTTAGTAG
*
10575553 TTGTTAGTAAC
1 TTGTTAGT-AG
10575564 TTGTTAGTAG
1 TTGTTAGTAG
*
10575574 TTAGTTAATAG
1 TT-GTTAGTAG
10575585 T
1 T
10575586 AGTTGGTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (10 bp):
TTGTTAGTAG
Found at i:10576554 original size:11 final size:12
Alignment explanation
Indices: 10576490--10576554 Score: 68
Period size: 11 Copynumber: 5.8 Consensus size: 12
10576480 AATTAATCCT
10576490 CTCTCAAATTTC
1 CTCTCAAATTTC
10576502 CTCTC-AATTTC
1 CTCTCAAATTTC
*
10576513 CTCTC-AATTTG
1 CTCTCAAATTTC
*
10576524 CTCTCAAA-TCC
1 CTCTCAAATTTC
10576535 CT-TCAAAATTT-
1 CTCTC-AAATTTC
10576546 CTCTCAAAT
1 CTCTCAAAT
10576555 CCATATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
10 2 0.04
11 33 0.73
12 10 0.22
ACGTcount: A:0.26, C:0.32, G:0.02, T:0.40
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:10582087 original size:124 final size:125
Alignment explanation
Indices: 10581781--10582201 Score: 576
Period size: 125 Copynumber: 3.4 Consensus size: 125
10581771 CAAACATGCT
* * * *
10581781 ACTGTAGCAAAAGCGCATCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCTTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCTTGGTA
* * *
10581846 GAAGTGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTGTTTCTTCCAAGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * *
10581906 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCTTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAA-AGCATCTTGGT
* * * ** *
10581970 TGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTTAGGACCT
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * *
10582030 ACTGTAACAAAAACACGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCTTGGTA
*
10582095 GAAGCGATTTTATACTATTTGTTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * *
10582155 ACTATAGCAAAAGCGCGTCCAGGAGGCCGCAATTAAACAAATTCTTC
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTC
10582202 GCGTCCATGT
Statistics
Matches: 255, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
124 107 0.42
125 148 0.58
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCTTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:10594529 original size:2 final size:2
Alignment explanation
Indices: 10594524--10594566 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10594514 ACATAAATCG
10594524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10594566 T
1 T
10594567 TAATAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10597468 original size:21 final size:21
Alignment explanation
Indices: 10597442--10597495 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
10597432 TAGCGGTGAT
* *
10597442 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTATAGC
*
10597463 GGTGAGATTGGATACTATAGC
1 GGTGAGATTAGATACTATAGC
* *
10597484 AGTGAAATTAGA
1 GGTGAGATTAGA
10597496 AACAATGGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTATAGC
Found at i:10619705 original size:19 final size:20
Alignment explanation
Indices: 10619681--10619722 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
10619671 CGCTTTAGCA
*
10619681 GCCACCAACTC-CTGCTACC
1 GCCACCAACTCTCTGCCACC
*
10619700 GCCACCTACTCTCTGCCACC
1 GCCACCAACTCTCTGCCACC
10619720 GCC
1 GCC
10619723 GTCGTCCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.55, G:0.12, T:0.17
Consensus pattern (20 bp):
GCCACCAACTCTCTGCCACC
Found at i:10620703 original size:6 final size:6
Alignment explanation
Indices: 10620674--10620715 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
10620664 ATTTTAATAT
*
10620674 TATTAC TATT-A TATTACA TCATTAA TATTAA TATTAA TATTA
1 TATTAA TATTAA TATTA-A T-ATTAA TATTAA TATTAA TATTA
10620716 TTTACTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 4 0.12
6 20 0.62
7 4 0.12
8 4 0.12
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAA
Found at i:10621538 original size:85 final size:85
Alignment explanation
Indices: 10621395--10621564 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
10621385 GAAATTCAAG
*
10621395 AAAACGTTCCTTAATGTGCTGGGTTTCGATTTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
1 AAAACGGTCCTTAATGTGCTGGGTTTCGATTTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
10621460 TTAAAAAAAATTCAAAATAA
66 TTAAAAAAAATTCAAAATAA
10621480 AAAACGGTCCTTAATGTGCTGGGTTTCGATTTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
1 AAAACGGTCCTTAATGTGCTGGGTTTCGATTTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
10621545 TTAAAAAAAATTCAAAATAA
66 TTAAAAAAAATTCAAAATAA
10621565 GGCAATATTT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (85 bp):
AAAACGGTCCTTAATGTGCTGGGTTTCGATTTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
TTAAAAAAAATTCAAAATAA
Found at i:10623733 original size:17 final size:17
Alignment explanation
Indices: 10623713--10623746 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10623703 ATAATAATAC
*
10623713 AATATCAAATTCTATTT
1 AATATCAAATTCAATTT
*
10623730 AATATCACATTCAATTT
1 AATATCAAATTCAATTT
10623747 CAAATTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATCAAATTCAATTT
Found at i:10629394 original size:12 final size:12
Alignment explanation
Indices: 10629377--10629409 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
10629367 ATTAAATTCT
10629377 TTAAAATATATA
1 TTAAAATATATA
10629389 TTAAAATATATA
1 TTAAAATATATA
*
10629401 TGAAAATAT
1 TTAAAATAT
10629410 GGTTACAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
TTAAAATATATA
Found at i:10633212 original size:14 final size:15
Alignment explanation
Indices: 10633193--10633221 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10633183 ATTTAACCTT
10633193 ATTTTAAT-ATAAAA
1 ATTTTAATCATAAAA
10633207 ATTTTAATCATAAAA
1 ATTTTAATCATAAAA
10633222 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATCATAAAA
Found at i:10634305 original size:14 final size:14
Alignment explanation
Indices: 10634282--10634328 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
10634272 TTAATTAGGC
*
10634282 TTAAGATTAACTAA
1 TTAAGATTAATTAA
*
10634296 TTAAGGTTAATTAA
1 TTAAGATTAATTAA
*
10634310 GTTAAGTTTAATTAA
1 -TTAAGATTAATTAA
10634325 TTAA
1 TTAA
10634329 ATATTAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (14 bp):
TTAAGATTAATTAA
Found at i:10634314 original size:29 final size:30
Alignment explanation
Indices: 10634271--10634328 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
10634261 CACTAAATGT
*
10634271 GTTAATTAGGCTTAAGATTAACTAATTAAG
1 GTTAATTAAGCTTAAGATTAACTAATTAAG
* *
10634301 GTTAATTAAG-TTAAGTTTAATTAATTAA
1 GTTAATTAAGCTTAAGATTAACTAATTAA
10634329 ATATTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (30 bp):
GTTAATTAAGCTTAAGATTAACTAATTAAG
Found at i:10638666 original size:24 final size:26
Alignment explanation
Indices: 10638642--10638691 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
10638632 ACAACGCATT
10638642 AATTAAAAATATT-TTTAAATAATTAA
1 AATTAAAAATATTATTTAAATAATT-A
*
10638668 AATTAAAAATATTATTTTAATAAT
1 AATTAAAAATATTATTTAAATAAT
10638692 ATTACATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAAAAATATTATTTAAATAATTA
Found at i:10638825 original size:16 final size:16
Alignment explanation
Indices: 10638804--10638850 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10638794 TTATTAAATT
10638804 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
10638820 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
10638835 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
10638851 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:10638942 original size:119 final size:121
Alignment explanation
Indices: 10638722--10638966 Score: 449
Period size: 119 Copynumber: 2.0 Consensus size: 121
10638712 TGAACCATTA
* *
10638722 TAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATT
1 TAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATT
10638787 AAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-T
66 AAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
*
10638842 TAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATAT-AGAATATTGATTATT
1 TAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATT
10638906 AAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 AAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
10638962 TAAAT
1 TAAAT
10638967 ATGATTAAAT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 67 0.55
120 54 0.45
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (121 bp):
TAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATT
AAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
Found at i:10638944 original size:16 final size:16
Alignment explanation
Indices: 10638923--10638964 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10638913 TTATTAAATT
*
10638923 ATATATTTTAATTATA
1 ATATATTTTAATAATA
10638939 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
10638954 AT-TATGTTTAA
1 ATATAT-TTTAA
10638965 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:10638949 original size:15 final size:15
Alignment explanation
Indices: 10638914--10638955 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10638904 TTAAGAATTT
*
10638914 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10638928 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10638942 TATTTAATAATAAT
1 TATTTAATTATAAT
10638956 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10644290 original size:26 final size:26
Alignment explanation
Indices: 10644254--10644316 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
10644244 GAATCACTGT
10644254 TTGCCTTGAGAGCGTTAAATGCTCAG
1 TTGCCTTGAGAGCGTTAAATGCTCAG
10644280 TTGCCTTGAGAGCGTTAAATGCTCAG
1 TTGCCTTGAGAGCGTTAAATGCTCAG
10644306 TTGCCTTGAGA
1 TTGCCTTGAGA
10644317 CTGTTGTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (26 bp):
TTGCCTTGAGAGCGTTAAATGCTCAG
Found at i:10648017 original size:141 final size:141
Alignment explanation
Indices: 10647763--10648185 Score: 767
Period size: 141 Copynumber: 3.0 Consensus size: 141
10647753 TCTATAAAGG
*
10647763 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATGAAGTGGTTGAAATTGCTATGATAG
1 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
* *
10647828 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAAATTATCAAGTAGTTGAACTTGTGATTA
66 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
10647893 TTGAATATGAA
131 TTGAATATGAA
* *
10647904 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATAAAGTGGTTCAAATTGCTATGATAG
1 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
10647969 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
66 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
*
10648034 TTGAATATAAA
131 TTGAATATGAA
*
10648045 TGTTTGAGATATCAATGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
1 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
*
10648110 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATAAGATTATCAAGTAGTT-AACTTGTGATTG
66 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
10648174 TTGAATATGAA
131 TTGAATATGAA
10648185 T
1 T
10648186 TTAGTTTGAT
Statistics
Matches: 271, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
140 23 0.08
141 248 0.92
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (141 bp):
TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
TTGAATATGAA
Found at i:10659704 original size:51 final size:50
Alignment explanation
Indices: 10659649--10659862 Score: 245
Period size: 51 Copynumber: 4.3 Consensus size: 50
10659639 AAACCTTGAC
* *
10659649 TCGGCTCGGAACAAAATAAAATGATATAAAACCTTGATCGAAAACGAGTTT
1 TCGGCTCGGAACAAAATAAAA-GAGATAAAACCTCGATCGAAAACGAGTTT
* * * * * * *
10659700 TCGGCTCGGAACAAAGTAAAAAAGATAAAACCTCCATTGAAAATGGGTTC
1 TCGGCTCGGAACAAAATAAAAGAGATAAAACCTCGATCGAAAACGAGTTT
*
10659750 TCGGCTCGGAACAAAATAAAATGATATAAAACCTCGATCGAAAACGAGTTCT
1 TCGGCTCGGAACAAAATAAAA-GAGATAAAACCTCGATCGAAAACGAGTT-T
* * **
10659802 T-GACTCGGAACAAAGTAAAAG-GATAAAACCTTAATCGAAAACG-GTTT
1 TCGGCTCGGAACAAAATAAAAGAGATAAAACCTCGATCGAAAACGAGTTT
10659849 CTCGGCTCGGAACA
1 -TCGGCTCGGAACA
10659863 TGATTGATAA
Statistics
Matches: 136, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 29 0.21
50 42 0.31
51 59 0.43
52 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (50 bp):
TCGGCTCGGAACAAAATAAAAGAGATAAAACCTCGATCGAAAACGAGTTT
Found at i:10659799 original size:101 final size:100
Alignment explanation
Indices: 10659648--10659862 Score: 333
Period size: 101 Copynumber: 2.1 Consensus size: 100
10659638 AAAACCTTGA
* *
10659648 CTCGGCTCGGAACAAAATAAAATGATATAAAACCTTGATCGAAAACGAGTT-TTCGGCTCGGAAC
1 CTCGGCTCGGAACAAAATAAAATGATATAAAACCTCGATCGAAAACGAGTTCTT-GACTCGGAAC
* * *
10659712 AAAGTAAAAAAGATAAAACCTCCATTGAAAATGGGTT
65 AAAGT-AAAAAGATAAAACCTCAATCGAAAACGGGTT
10659749 CTCGGCTCGGAACAAAATAAAATGATATAAAACCTCGATCGAAAACGAGTTCTTGACTCGGAACA
1 CTCGGCTCGGAACAAAATAAAATGATATAAAACCTCGATCGAAAACGAGTTCTTGACTCGGAACA
* * *
10659814 AAGTAAAAGGATAAAACCTTAATCGAAAACGGTTT
66 AAGTAAAAAGATAAAACCTCAATCGAAAACGGGTT
10659849 CTCGGCTCGGAACA
1 CTCGGCTCGGAACA
10659863 TGATTGATAA
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
100 39 0.37
101 64 0.61
102 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (100 bp):
CTCGGCTCGGAACAAAATAAAATGATATAAAACCTCGATCGAAAACGAGTTCTTGACTCGGAACA
AAGTAAAAAGATAAAACCTCAATCGAAAACGGGTT
Found at i:10659901 original size:5 final size:6
Alignment explanation
Indices: 10659883--10659908 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10659873 AGGGACAAAT
10659883 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
10659909 CCCAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:10661145 original size:3 final size:3
Alignment explanation
Indices: 10661137--10661173 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10661127 AAGGTAAGGA
10661137 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10661174 TATGTTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10664685 original size:13 final size:14
Alignment explanation
Indices: 10664662--10664690 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10664652 CCGTCCACTC
10664662 TTCTCTTCTTTCTT
1 TTCTCTTCTTTCTT
10664676 TTCT-TTCTTTCTT
1 TTCTCTTCTTTCTT
10664689 TT
1 TT
10664691 ATTTTGCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTCTCTTCTTTCTT
Found at i:10665377 original size:19 final size:17
Alignment explanation
Indices: 10665345--10665379 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
10665335 ATCCACATCC
10665345 CATCATTCTTAATTCAA
1 CATCATTCTTAATTCAA
10665362 CATCAATTCATTAATTCA
1 CATC-ATTC-TTAATTCA
10665380 TCATATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (17 bp):
CATCATTCTTAATTCAA
Found at i:10666301 original size:20 final size:19
Alignment explanation
Indices: 10666264--10666312 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
10666254 TTGTTTTATT
10666264 ATTAATTAAT-TTAGTTTA
1 ATTAATTAATCTTAGTTTA
* *
10666282 TTTAATTAATCTTACTTTTA
1 ATTAATTAATCTTA-GTTTA
*
10666302 ACTAATTAATC
1 ATTAATTAATC
10666313 CACCTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 9 0.36
19 3 0.12
20 13 0.52
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTAATTAATCTTAGTTTA
Found at i:10667279 original size:5 final size:5
Alignment explanation
Indices: 10667263--10667292 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
10667253 AATATCATAA
10667263 GCCCG AGCCCG GCCCG GCCCG GCCCG GCCC
1 GCCCG -GCCCG GCCCG GCCCG GCCCG GCCC
10667293 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.03, C:0.60, G:0.37, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:10668382 original size:23 final size:22
Alignment explanation
Indices: 10668330--10668416 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 22
10668320 AATATTTATC
* * * *
10668330 TTAATATTTAAATTTGTTATCA
1 TTAATTTTTAAAATTATTATAA
*
10668352 TTAGATTTTTAAAATTGTTATAA
1 TTA-ATTTTTAAAATTATTATAA
10668375 TTTAA--TTTAAAATTATT-TAA
1 -TTAATTTTTAAAATTATTATAA
* *
10668395 TTAAATTTAAAAATTATTATAA
1 TTAATTTTTAAAATTATTATAA
10668417 AATATGTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.07
20 3 0.05
21 22 0.40
22 6 0.11
23 17 0.31
24 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (22 bp):
TTAATTTTTAAAATTATTATAA
Found at i:10668401 original size:20 final size:21
Alignment explanation
Indices: 10668359--10668416 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
10668349 TCATTAGATT
* *
10668359 TTTAAAATTGTTATAATTTAA
1 TTTAAAATTATTATAATTAAA
10668380 TTTAAAATTATT-TAATTAAA
1 TTTAAAATTATTATAATTAAA
10668400 TTTAAAAATTATTATAA
1 TTT-AAAATTATTATAA
10668417 AATATGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 10 0.30
21 20 0.61
22 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTAAAATTATTATAATTAAA
Found at i:10672528 original size:24 final size:22
Alignment explanation
Indices: 10672496--10672539 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
10672486 ACGAACCAAA
10672496 ACTACTAAACTATCATATATTTGT
1 ACTACTAAA-TA-CATATATTTGT
*
10672520 ACTATTAAATACATATATTT
1 ACTACTAAATACATATATTT
10672540 ATATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (22 bp):
ACTACTAAATACATATATTTGT
Found at i:10681054 original size:7 final size:7
Alignment explanation
Indices: 10681042--10681066 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10681032 AAGCTTGATT
10681042 CAAAATC
1 CAAAATC
10681049 CAAAATC
1 CAAAATC
10681056 CAAAATC
1 CAAAATC
10681063 CAAA
1 CAAA
10681067 CTGACGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
CAAAATC
Found at i:10682599 original size:25 final size:26
Alignment explanation
Indices: 10682554--10682605 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10682544 GTCTTCATTC
**
10682554 TAAAAAAATATTTAAATAATTTAAAT
1 TAAAAAAATACATAAATAATTTAAAT
*
10682580 TAAAAAAATACATAAA-AATTTTAAT
1 TAAAAAAATACATAAATAATTTAAAT
10682605 T
1 T
10682606 CCCAACTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TAAAAAAATACATAAATAATTTAAAT
Found at i:10684407 original size:14 final size:15
Alignment explanation
Indices: 10684377--10684410 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10684367 CCACCACTTG
*
10684377 TTTCTTTATTTATTT
1 TTTCTTTATTAATTT
10684392 TTTCTTTA-TAATTT
1 TTTCTTTATTAATTT
10684406 TTTCT
1 TTTCT
10684411 CTCTCTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTATTAATTT
Found at i:10688292 original size:16 final size:16
Alignment explanation
Indices: 10688255--10688296 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10688245 TTAATCATAT
*
10688255 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10688271 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10688286 TTAAAATATAT
1 TTAAAATATAT
10688297 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10688303 original size:14 final size:15
Alignment explanation
Indices: 10688264--10688305 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10688254 TTTAAACATA
*
10688264 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10688279 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10688293 A-TATAATTTAATA
1 ATTATAATTAAATA
10688306 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10688596 original size:26 final size:28
Alignment explanation
Indices: 10688566--10688626 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
10688556 TATGAATTTG
*
10688566 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
10688592 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
10688620 TAAAATT
1 TATAATT
10688627 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:10688624 original size:47 final size:46
Alignment explanation
Indices: 10688573--10688716 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
10688563 TTGTATAATT
10688573 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
10688620 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATCTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
10688664 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
10688711 TAAAAT
1 TAAAAT
10688717 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:10688680 original size:91 final size:91
Alignment explanation
Indices: 10688541--10688745 Score: 329
Period size: 91 Copynumber: 2.2 Consensus size: 91
10688531 TAATTATAAC
* * * * *
10688541 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATCTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10688606 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
10688632 TAATAAATTTTCTTATATGAATCTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATCTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10688697 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
10688723 TAATAAAATGTTCTTATATGAAT
1 TAAT-AAATTTTCTTATATGAAT
10688746 TTACTAAAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 88 0.84
92 17 0.16
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATCTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:10688708 original size:44 final size:43
Alignment explanation
Indices: 10688566--10688708 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
10688556 TATGAATTTG
* *
10688566 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
10688610 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATCTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
10688657 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
10688701 TATAATTT
1 TATAATTT
10688709 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:10688723 original size:47 final size:47
Alignment explanation
Indices: 10688591--10688729 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
10688581 TTATTATTAC
* *
10688591 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
10688638 AT-T--TTCTTAT-ATGAATCTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
10688682 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
10688729 A
1 A
10688730 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:10690157 original size:11 final size:11
Alignment explanation
Indices: 10690143--10690169 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10690133 AAAAATCAAT
10690143 ACAAAAGTTTC
1 ACAAAAGTTTC
10690154 ACAAAAGTTTC
1 ACAAAAGTTTC
10690165 ACAAA
1 ACAAA
10690170 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:10691768 original size:33 final size:33
Alignment explanation
Indices: 10691726--10691788 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
10691716 ATTATAAAGC
10691726 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
10691759 ATGTATAATTGACCTAAAATTAATTGTTGG
1 ATGTATAATTGACCTAAAATTAATTGTTGG
10691789 CATTTGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:10692024 original size:37 final size:37
Alignment explanation
Indices: 10691983--10692071 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
10691973 GTATAAATAT
*
10691983 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
*
10692020 ATTGATTAGTTTACTAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
10692057 ATTGATTAGTTTATT
1 ATTGATTAGTTTATT
10692072 TATTTATGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (37 bp):
ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
Found at i:10694092 original size:19 final size:19
Alignment explanation
Indices: 10694068--10694106 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10694058 AACAGAAGAC
10694068 GCAAATCGGCAGAAACTGA
1 GCAAATCGGCAGAAACTGA
10694087 GCAAATCGGCAGAAACTGA
1 GCAAATCGGCAGAAACTGA
10694106 G
1 G
10694107 AAACAGAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (19 bp):
GCAAATCGGCAGAAACTGA
Found at i:10694121 original size:31 final size:31
Alignment explanation
Indices: 10694085--10694170 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 31
10694075 GGCAGAAACT
10694085 GAGCAAATCGGCAGAAACTGAGAAACAGAGG
1 GAGCAAATCGGCAGAAACTGAGAAACAGAGG
* *
10694116 GAGCAAATCGGTAGAAA-AGAAAAGAAACAGAGG
1 GAGCAAATCGGCAGAAACTG---AGAAACAGAGG
* *
10694149 GAGCAAATCAGCAAAAACTGAG
1 GAGCAAATCGGCAGAAACTGAG
10694171 CAAATCGGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
30 1 0.02
31 18 0.40
33 25 0.56
34 1 0.02
ACGTcount: A:0.50, C:0.14, G:0.29, T:0.07
Consensus pattern (31 bp):
GAGCAAATCGGCAGAAACTGAGAAACAGAGG
Found at i:10706808 original size:6 final size:6
Alignment explanation
Indices: 10706797--10706824 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10706787 ATCATTTCTT
10706797 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
10706825 TGAGGAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:10711867 original size:24 final size:24
Alignment explanation
Indices: 10711819--10711865 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10711809 ACTGGTCATA
*
10711819 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
10711843 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
10711866 GGGATTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:10712586 original size:27 final size:27
Alignment explanation
Indices: 10712556--10712840 Score: 333
Period size: 27 Copynumber: 10.6 Consensus size: 27
10712546 AGACCCCAAA
* *
10712556 ATAGGATAAAATGATCGAAATACCCTT
1 ATAGGGTAAAATGACCGAAATACCCTT
*
10712583 ATAGGGTAAAATGACTGAAATACCCTT
1 ATAGGGTAAAATGACCGAAATACCCTT
* *
10712610 ATAGGGTAAAATGATCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCTT
**
10712637 ATAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTT
* * **
10712664 ATATGGTAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTT
* * *
10712691 ATAAGGTAAAATGACTGAAATACACC-C
1 ATAGGGTAAAATGACCGAAATAC-CCTT
*
10712718 ATAGAGTAAAATGACCGAAATACCCTT
1 ATAGGGTAAAATGACCGAAATACCCTT
*
10712745 ATAGGGTAAAATGACCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCTT
* *
10712772 ATAGGGTAGAATGACTGAAATA-CCTCT
1 ATAGGGTAAAATGACCGAAATACCCT-T
* *
10712799 ATAGGATAAAATGACCGAAATATCCC-C
1 ATAGGGTAAAATGACCGAAATA-CCCTT
*
10712826 ATAAGGTAAAATGAC
1 ATAGGGTAAAATGAC
10712841 TGTTATACCC
Statistics
Matches: 225, Mismatches: 28, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 217 0.96
28 2 0.01
29 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCTT
Found at i:10712677 original size:81 final size:81
Alignment explanation
Indices: 10712556--10712840 Score: 371
Period size: 81 Copynumber: 3.5 Consensus size: 81
10712546 AGACCCCAAA
* ** * *
10712556 ATAGGATAAAATGATCGAAATACCCTTATAGGGTAAAATGACTGAAATACCCTTATAGGGTAAAA
1 ATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAA
10712621 TGA-TCGAAATACCCTC
66 TGACT-GAAATACCCTC
* * * * *
10712637 ATAGGGTAAAATGACCGAAATACCCCCATATGGTAAAATGACCAAAATACCCCCATAAGGTAAAA
1 ATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAA
10712702 TGACTGAAATACACC-C
66 TGACTGAAATAC-CCTC
** *
10712718 ATA-GAGTAAAATGACCGAAATACCCTTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAGA
1 ATAGGA-TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAA
10712782 ATGACTGAAATA-CCTC
65 ATGACTGAAATACCCTC
* *
10712798 TATAGGATAAAATGACCGAAATATCCCCATAAGGTAAAATGAC
1 -ATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
10712841 TGTTATACCC
Statistics
Matches: 176, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.01
80 2 0.01
81 167 0.95
82 5 0.03
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (81 bp):
ATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAA
TGACTGAAATACCCTC
Found at i:10717468 original size:16 final size:16
Alignment explanation
Indices: 10717445--10717492 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
10717435 GAACTAAACC
*
10717445 AATACAACACGCACAT
1 AATACAACATGCACAT
* *
10717461 ATTACAACTTGCACAT
1 AATACAACATGCACAT
*
10717477 AATATAACATGCACAT
1 AATACAACATGCACAT
10717493 GCTATAGCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (16 bp):
AATACAACATGCACAT
Found at i:10717523 original size:16 final size:16
Alignment explanation
Indices: 10717504--10717572 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
10717494 CTATAGCTCG
*
10717504 CACATAGTACAACTCA
1 CACATACTACAACTCA
10717520 CACATACTACAACTCA
1 CACATACTACAACTCA
* *
10717536 TATATA-TA-ATAGCTCA
1 CACATACTACA-A-CTCA
* *
10717552 CATATACTACAACTCG
1 CACATACTACAACTCA
10717568 CACAT
1 CACAT
10717573 TTTACATCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 1 0.02
15 3 0.07
16 35 0.81
17 3 0.07
18 1 0.02
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.25
Consensus pattern (16 bp):
CACATACTACAACTCA
Found at i:10717815 original size:52 final size:53
Alignment explanation
Indices: 10717726--10717833 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 53
10717716 ACAATACGTT
**
10717726 GATAATTCACACATTCTGTACAATGACAGTACTCATATCCAATAC-TTGCAAA
1 GATAATTCACACATTCAATACAATGACAGTACTCATATCCAATACTTTGCAAA
* * * **
10717778 GATAGTTCACACATTCAATACAATGATAGT-TTGCATATGTAATACTTTGCAAA
1 GATAATTCACACATTCAATACAATGACAGTACT-CATATCCAATACTTTGCAAA
10717831 GAT
1 GAT
10717834 TTCATGGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
51 1 0.02
52 36 0.77
53 10 0.21
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (53 bp):
GATAATTCACACATTCAATACAATGACAGTACTCATATCCAATACTTTGCAAA
Found at i:10721215 original size:22 final size:22
Alignment explanation
Indices: 10721183--10721238 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
10721173 GCAAACTAAC
* *
10721183 GAGCTCACAAAGCAGAAGTGACA
1 GAGCTCGCAAAACAGAAGTGA-A
10721206 -AGCTCGCAAAACAGAAGTGAA
1 GAGCTCGCAAAACAGAAGTGAA
10721227 GAGCTCGCAAAA
1 GAGCTCGCAAAA
10721239 AGGCCAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.09
Consensus pattern (22 bp):
GAGCTCGCAAAACAGAAGTGAA
Found at i:10747953 original size:37 final size:36
Alignment explanation
Indices: 10747912--10748073 Score: 160
Period size: 37 Copynumber: 4.6 Consensus size: 36
10747902 TTTAGCTTCA
*
10747912 GCCGATTTGCTCCCTTGTTTCTTTTCTTTTCTTTTCT
1 GCCGATTTGCTCCC-AGTTTCTTTTCTTTTCTTTTCT
*
10747949 GCCGATTTGCTCCCAG-----TTTATTTT-TTTTCT
1 GCCGATTTGCTCCCAGTTTCTTTTCTTTTCTTTTCT
* *
10747979 GCCGATTTTGCTCTCAGTTTATTTTCTTTTCTTTTCT
1 GCCGA-TTTGCTCCCAGTTTCTTTTCTTTTCTTTTCT
* * *
10748016 GCAGATTTGCTCCCTCTGTTTCTTTTCTTTTCTTTTTCG
1 GCCGATTTGCT-CC-CAGTTTCTTTTCTTTTC-TTTTCT
10748055 GCCGATTTGCT--CAGTTTCT
1 GCCGATTTGCTCCCAGTTTCT
10748074 GCCGATTTGC
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
30 11 0.11
31 17 0.16
35 7 0.07
36 14 0.13
37 25 0.24
38 15 0.14
39 15 0.14
ACGTcount: A:0.07, C:0.25, G:0.13, T:0.56
Consensus pattern (36 bp):
GCCGATTTGCTCCCAGTTTCTTTTCTTTTCTTTTCT
Found at i:10747977 original size:30 final size:32
Alignment explanation
Indices: 10747938--10748010 Score: 123
Period size: 31 Copynumber: 2.3 Consensus size: 32
10747928 GTTTCTTTTC
10747938 TTTTCTTTTCTGCCGA-TTTGCTCCCAGTTTA
1 TTTTCTTTTCTGCCGATTTTGCTCCCAGTTTA
*
10747969 TTTT-TTTTCTGCCGATTTTGCTCTCAGTTTA
1 TTTTCTTTTCTGCCGATTTTGCTCCCAGTTTA
10748000 TTTTCTTTTCT
1 TTTTCTTTTCT
10748011 TTTCTGCAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 11 0.28
31 22 0.56
32 6 0.15
ACGTcount: A:0.08, C:0.22, G:0.11, T:0.59
Consensus pattern (32 bp):
TTTTCTTTTCTGCCGATTTTGCTCCCAGTTTA
Found at i:10748064 original size:39 final size:38
Alignment explanation
Indices: 10747972--10748066 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
10747962 CAGTTTATTT
10747972 TTTTTCTGCCGATTTTGCT-CTCAGTTTATTTTCTTTTC
1 TTTTTCTGCCGA-TTTGCTCCTCAGTTTATTTTCTTTTC
* * *
10748010 -TTTTCTGCAGATTTGCTCCCTCTGTTTCTTTTCTTTTC
1 TTTTTCTGCCGATTTGCT-CCTCAGTTTATTTTCTTTTC
*
10748048 TTTTTCGGCCGATTTGCTC
1 TTTTTCTGCCGATTTGCTC
10748067 AGTTTCTGCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
36 6 0.12
37 10 0.20
38 18 0.37
39 15 0.31
ACGTcount: A:0.06, C:0.24, G:0.13, T:0.57
Consensus pattern (38 bp):
TTTTTCTGCCGATTTGCTCCTCAGTTTATTTTCTTTTC
Found at i:10750112 original size:26 final size:26
Alignment explanation
Indices: 10750075--10750138 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
10750065 ATTAATATAA
10750075 AAAAAATG-TGAGTACTACATGGATC
1 AAAAAATGATGAGTACTACATGGATC
*
10750100 AAAATATGATGAGTACTACATGGATC
1 AAAAAATGATGAGTACTACATGGATC
10750126 AAAAAATGATGAG
1 AAAAAATGATGAG
10750139 ATCGTTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 7 0.19
26 29 0.81
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.23
Consensus pattern (26 bp):
AAAAAATGATGAGTACTACATGGATC
Found at i:10750394 original size:23 final size:23
Alignment explanation
Indices: 10750325--10750398 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
10750315 GTATATTAAA
*
10750325 ATATAATTAAAATCATTTTGATT
1 ATATAATAAAAATCATTTTGATT
*** * * *
10750348 ATATAAT-ATTTTTA-ATTGA-A
1 ATATAATAAAAATCATTTTGATT
10750368 ATATAATAAAAATCATTTTGATT
1 ATATAATAAAAATCATTTTGATT
10750391 ATATAATA
1 ATATAATA
10750399 TTAATATAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
20 7 0.19
21 7 0.19
22 7 0.19
23 15 0.42
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (23 bp):
ATATAATAAAAATCATTTTGATT
Found at i:10750424 original size:43 final size:41
Alignment explanation
Indices: 10750319--10750424 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 41
10750309 TTTAAGGTAT
10750319 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTTTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATA--TTTA
* *
10750362 ATTGAAATATAATAAAAATCATTTTGATTATATAATA-TTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
*
10750402 ATATAAAACTATACATTTAAATC
1 AT-TAAAA-TATA-ATTAAAATC
10750425 CAAAATATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 5 0.09
41 4 0.07
42 4 0.07
43 42 0.76
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (41 bp):
ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
Found at i:10754386 original size:28 final size:26
Alignment explanation
Indices: 10754350--10754410 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
10754340 TATTATCAAG
* *
10754350 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATA-ATTATT-TTA
*
10754378 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTATTTTA
*
10754404 TATTATA
1 AATTATA
10754411 AAAATTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.31
27 6 0.21
28 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
AATTATATGAAATAATAATTATTTTA
Found at i:10754454 original size:91 final size:91
Alignment explanation
Indices: 10754229--10754437 Score: 319
Period size: 91 Copynumber: 2.3 Consensus size: 91
10754219 TGATTTTAGT
* * *
10754229 AAATTCATATAAGAACATTTTATTATTGAGAATTTTATGAAATTATATATCATTATTAATTTATA
1 AAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* * * *
10754294 TTTAATATTAATTATTTTAAATTGTAT
65 TGTAATAATAATTATTTTAAATTATAA
* *
10754321 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
*
10754386 GTAATAATAATTATTTTATATTATAA
66 GTAATAATAATTATTTTAAATTATAA
10754412 AAATTCATATAAGAAAATTTATTATT
1 AAATTCATATAAGAAAATTTATTATT
10754438 TATAATTATT
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 91 0.86
92 15 0.14
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
GTAATAATAATTATTTTAAATTATAA
Found at i:10754738 original size:16 final size:16
Alignment explanation
Indices: 10754717--10754758 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10754707 TTATTAAATT
*
10754717 ATATATTTTAATTATA
1 ATATATTTTAATAATA
10754733 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
10754748 AT-TATGTTTAA
1 ATATAT-TTTAA
10754759 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:10754743 original size:15 final size:15
Alignment explanation
Indices: 10754708--10754749 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10754698 TTAAGAATTT
*
10754708 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10754722 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10754736 TATTTAATAATAAT
1 TATTTAATTATAAT
10754750 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10754993 original size:16 final size:16
Alignment explanation
Indices: 10754972--10755025 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
10754962 TTGATTTGCT
10754972 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
10754988 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
10755004 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
10755020 AATACA
1 ATTACA
10755026 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10757223 original size:30 final size:30
Alignment explanation
Indices: 10757189--10757260 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
10757179 CGGGCGTGTG
*
10757189 ACACGACCGTGTGGCCCAACAC-GAGCCTAA
1 ACACGACCGTGTAGCCCAACACAG-GCCTAA
*
10757219 ACACGACCATGTAGCCCAACACAGGCCTAA
1 ACACGACCGTGTAGCCCAACACAGGCCTAA
* *
10757249 AAATGACCGTGT
1 ACACGACCGTGT
10757261 TCCCTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.12
Consensus pattern (30 bp):
ACACGACCGTGTAGCCCAACACAGGCCTAA
Found at i:10758965 original size:25 final size:25
Alignment explanation
Indices: 10758934--10759007 Score: 130
Period size: 25 Copynumber: 3.0 Consensus size: 25
10758924 GTTGAAAATT
10758934 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCTCACGAGCTATAAATCG
* *
10758959 GTATGCTCTCACAAGCTATAAATTG
1 GTATGCTCTCACGAGCTATAAATCG
10758984 GTATGCTCTCACGAGCTATAAATC
1 GTATGCTCTCACGAGCTATAAATC
10759008 AATAACCCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATCG
Found at i:10760948 original size:3 final size:3
Alignment explanation
Indices: 10760942--10761013 Score: 67
Period size: 3 Copynumber: 24.3 Consensus size: 3
10760932 ATTTTTTTAG
* *
10760942 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TC TTA -AA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
10760988 CTTA GTC TTA TTA TTG TTA TGA TTA T
1 -TTA TTA TTA TTA TTA TTA TTA TTA T
10761014 GAGTCGTATT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10760998 original size:16 final size:15
Alignment explanation
Indices: 10760946--10761002 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
10760936 TTTTAGTTAT
10760946 TATTATTATTA-TTA
1 TATTATTATTACTTA
10760960 TTATTATTATTATCTTA
1 -TATTATTATTA-CTTA
*
10760977 AATTATTATTACTTA
1 TATTATTATTACTTA
*
10760992 GTCTTATTATT
1 -TATTATTATT
10761003 GTTATGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 15 0.42
16 18 0.50
17 3 0.08
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTATTACTTA
Done.