Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 212 of 228
Found at i:62011279 original size:12 final size:13
Alignment explanation
Indices: 62011247--62011285 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
62011237 CAGGGCCCTC
*
62011247 ACCATCACCATCA
1 ACCATCAACATCA
62011260 ACCATCAACATCA
1 ACCATCAACATCA
62011273 A-CATCAACATCA
1 ACCATCAACATCA
62011285 A
1 A
62011286 TAGGAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCATCAACATCA
Found at i:62011847 original size:16 final size:16
Alignment explanation
Indices: 62011828--62011870 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
62011818 TGTTTGAATA
62011828 AATTTTGAGTTTAAAT
1 AATTTTGAGTTTAAAT
* *
62011844 AATTTTAAATTTAAAT
1 AATTTTGAGTTTAAAT
*
62011860 CATTTTGAGTT
1 AATTTTGAGTT
62011871 CATATTGAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (16 bp):
AATTTTGAGTTTAAAT
Found at i:62012146 original size:22 final size:22
Alignment explanation
Indices: 62012121--62012173 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
62012111 CATGAAGCAA
62012121 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
62012143 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
62012165 TCCCATACC
1 CCCCATACC
62012174 GTCTGACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:62013155 original size:3 final size:3
Alignment explanation
Indices: 62013131--62013201 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
62013121 AATATCCTTG
* * * **
62013131 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
62013178 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
62013202 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:62013198 original size:23 final size:22
Alignment explanation
Indices: 62013144--62013204 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
62013134 TTTTTATATT
*
62013144 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
62013165 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
62013187 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
62013205 CGTGTATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:62013211 original size:23 final size:23
Alignment explanation
Indices: 62013167--62013212 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
62013157 GTATTACCAT
*
62013167 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
62013190 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
62013213 CATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:62013780 original size:11 final size:11
Alignment explanation
Indices: 62013764--62013790 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62013754 GTACGTATTG
62013764 TATATGTTCTA
1 TATATGTTCTA
62013775 TATATGTTCTA
1 TATATGTTCTA
62013786 TATAT
1 TATAT
62013791 TTTTAATATT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:62026006 original size:69 final size:71
Alignment explanation
Indices: 62025829--62026006 Score: 191
Period size: 73 Copynumber: 2.5 Consensus size: 71
62025819 CTTTCCAAGG
* * * *
62025829 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTATTTTAAGT-CTT
*
62025894 TTGTTTCA
65 ATGTTT-A
** * * *
62025902 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTT-AGT-TT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTA-TTTTAAGTCTT
62025965 ATGTTT-
65 ATGTTTA
* * *
62025971 TAAATTGACTCATTTTGCGAGAAGTGAGTTAAGCCT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
62026007 TTTAATTTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
69 29 0.33
71 7 0.08
73 47 0.54
74 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (71 bp):
AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTATTTTAAGTCTTA
TGTTTA
Found at i:62026220 original size:73 final size:72
Alignment explanation
Indices: 62026010--62026629 Score: 792
Period size: 73 Copynumber: 8.5 Consensus size: 72
62026000 TAAGCCTTTT
* * **
62026010 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
62026075 TAATTTC
66 TAATTTC
* *
62026082 AATTTTTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
1 AATTTTTGTTTTC--CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
62026147 GGTAATTTC
64 GGTAATTTC
* * *
62026156 AATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTCCAAA-ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
* *
62026221 GAAACTTC
65 GTAATTTC
* * **
62026229 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
62026294 TAATTTC
66 TAATTTC
* * *
62026301 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTC-CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
62026366 GTAATTTC
65 GTAATTTC
* * *
62026374 AATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTCCAAA-ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
62026439 GTAATTTC
65 GTAATTTC
* ** * *
62026447 AA-TTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGAACACGCTGAGG
1 AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
62026511 TAATTTC
66 TAATTTC
* * * ** * * *
62026518 AATTTCTGTTTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGGCACGCCGA
1 AATTT-T-TGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
*
62026583 GGTATTTTC
64 GGTAATTTC
* * ** *
62026592 AAATTCTACTTTCAAAAAAATCAACTCATATTGCGAGA
1 AATTTTTGTTTTC--CAAAATCAACTCATATTGCGAGA
62026630 GGTGGGTTGA
Statistics
Matches: 480, Mismatches: 58, Indels: 18
0.86 0.10 0.03
Matches are distributed among these distances:
71 50 0.10
72 94 0.20
73 187 0.39
74 149 0.31
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (72 bp):
AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:62026289 original size:145 final size:145
Alignment explanation
Indices: 62026010--62026629 Score: 805
Period size: 145 Copynumber: 4.2 Consensus size: 145
62026000 TAAGCCTTTT
* * **
62026010 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
62026075 TAATTTCAATTTTTG-TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
66 TAATTTCAATTTTTGTTTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
62026139 CACGCTGAGGTAATTTC
129 CACGCTGAGGTAATTTC
* * *
62026156 AATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTCCAAA-ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
* * * **
62026221 GAAACTTCAATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGAC
65 GTAATTTCAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
62026285 ACGCTGAGGTAATTTC
130 ACGCTGAGGTAATTTC
* * *
62026301 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTTC-CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
* ** * *
62026366 GTAATTTCAATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCCTCAGGAC
65 GTAATTTCAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
62026431 ACGCTGAGGTAATTTC
130 ACGCTGAGGTAATTTC
* ** * *
62026447 AA-TTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGAACACGCTGAGG
1 AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
* * ** * *
62026511 TAATTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGGC
66 TAATTTCAATTTTTG-TTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
* *
62026576 ACGCCGAGGTATTTTC
130 ACGCTGAGGTAATTTC
* * ** *
62026592 AAATTCTACTTTCAAAAAAATCAACTCATATTGCGAGA
1 AATTTTTGTTTTC--CAAAATCAACTCATATTGCGAGA
62026630 GGTGGGTTGA
Statistics
Matches: 411, Mismatches: 55, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
144 61 0.15
145 191 0.46
146 78 0.19
147 55 0.13
148 26 0.06
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (145 bp):
AATTTTTGTTTTCCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTC
Found at i:62026403 original size:218 final size:218
Alignment explanation
Indices: 62026010--62026593 Score: 1001
Period size: 218 Copynumber: 2.7 Consensus size: 218
62026000 TAAGCCTTTT
62026010 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
62026075 TAATTTCAATTTTTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
66 TAATTTCAATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
62026140 ACGCTGAGGTAATTTCAATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGC
130 ACGCTGAGGTAATTTCAATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGC
62026205 CTCAGGACACGCTGAGGAAACTTC
195 CTCAGGACACGCTGAGGAAACTTC
62026229 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
62026294 TAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
62026359 CGCTGAGGTAATTTCAATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCC
131 CGCTGAGGTAATTTCAATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCC
* *
62026424 TCAGGACACGCTGAGGTAATTTC
196 TCAGGACACGCTGAGGAAACTTC
* * *
62026447 AA-TTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGAACACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * ** * *
62026511 TAATTTCAATTTCTGTTTTTTC-AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGG
66 TAATTTCAATTTCTG--TTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
* *
62026575 CACGCCGAGGTATTTTCAA
129 CACGCTGAGGTAATTTCAA
62026594 ATTCTACTTT
Statistics
Matches: 349, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
217 74 0.21
218 187 0.54
219 88 0.25
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (218 bp):
AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTTTGTTTTCCAAATTTCAACTCATGTTGCGAGAAATGGGTTGAGCC
TCAGGACACGCTGAGGAAACTTC
Found at i:62026853 original size:217 final size:216
Alignment explanation
Indices: 62026607--62026999 Score: 599
Period size: 217 Copynumber: 1.8 Consensus size: 216
62026597 CTACTTTCAA
*
62026607 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCT
1 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
* * * ** * * **
62026672 AATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGT-TT
66 AATATTGCAAGAGGTGAGTTGAACCTCAGAACACGCTGAGGTAATTTCAA-TTTCTGT-TGTCAA
* ** * * *
62026736 TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAAA
129 AAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTCAAAA
62026801 TCTGTTTGGCAAATTCTGTTTTC
194 TCTGTTTGGCAAATTCTGTTTTC
62026824 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
1 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
*
62026889 CATATTGCAAGAGGTGAGTTGAACCTCAGAACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
66 AATATTGCAAGAGGTGAGTTGAACCTCAGAACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
*
62026954 AAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGTTCACATG
131 AAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACATG
62027000 TTGAGATATC
Statistics
Matches: 157, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
215 3 0.02
216 47 0.30
217 107 0.68
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (216 bp):
AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
AATATTGCAAGAGGTGAGTTGAACCTCAGAACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
AAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTCAAAATC
TGTTTGGCAAATTCTGTTTTC
Found at i:62027760 original size:22 final size:22
Alignment explanation
Indices: 62027735--62027787 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
62027725 CATGAAGCAA
62027735 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
62027757 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
62027779 TCCCATACC
1 CCCCATACC
62027788 GTCTGACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:62028272 original size:18 final size:18
Alignment explanation
Indices: 62028251--62028295 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
62028241 CCCTTCCCCC
62028251 CTCCCTTCTCTC-TCCCTT
1 CTCCCTTCTCTCTTCCC-T
62028269 CTCCCTTCTCTCTTCCCT
1 CTCCCTTCTCTCTTCCCT
*
62028287 CTCTCTTCT
1 CTCCCTTCT
62028296 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (18 bp):
CTCCCTTCTCTCTTCCCT
Found at i:62028937 original size:3 final size:3
Alignment explanation
Indices: 62028924--62028959 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
62028914 TATTCCAATG
* *
62028924 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62028960 GTTTATGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:62029409 original size:11 final size:11
Alignment explanation
Indices: 62029393--62029419 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62029383 GTACGTATTG
62029393 TATATGTTCTA
1 TATATGTTCTA
62029404 TATATGTTCTA
1 TATATGTTCTA
62029415 TATAT
1 TATAT
62029420 TTTTAATATT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:62033668 original size:8 final size:8
Alignment explanation
Indices: 62033642--62033692 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
62033632 TTTATTTTTT
62033642 ATATAAAA
1 ATATAAAA
*
62033650 ATTTAAAA
1 ATATAAAA
*
62033658 ATATAATA
1 ATATAAAA
*
62033666 ATA-AAAT
1 ATATAAAA
62033673 ATACTAAAA
1 ATA-TAAAA
*
62033682 ATATTAAA
1 ATATAAAA
62033690 ATA
1 ATA
62033693 AATGTTTCCC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 5 0.15
8 23 0.68
9 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
ATATAAAA
Found at i:62034072 original size:19 final size:18
Alignment explanation
Indices: 62034048--62034086 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
62034038 TTGATTCAGT
62034048 TAACACAA-AAGTAATAATA
1 TAACACAATAAG-AA-AATA
62034067 TAACACAATAAGAAAATA
1 TAACACAATAAGAAAATA
62034085 TA
1 TA
62034087 TAAAGCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 10 0.53
20 3 0.16
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (18 bp):
TAACACAATAAGAAAATA
Found at i:62040494 original size:51 final size:51
Alignment explanation
Indices: 62040396--62040957 Score: 532
Period size: 51 Copynumber: 10.9 Consensus size: 51
62040386 GAGCCAGCAG
* * * * *
62040396 CAGCATC-GACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATCTTCAACAA
1 CAGCATCAG-CCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
* * * *
62040447 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
** * * *
62040498 CAGCATCCA-CCTCCTCAAGATATTTATCAAAGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
* * * * * *
62040549 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
*
62040600 CAGCATCAGCCTCCTCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATC-T--TCAACAA
*
62040654 CAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATC-T--TCAACAA
* *
62040708 CAG-AGTCAGCCTCCTCCGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
1 CAGCA-TCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
* * * *
62040759 CAGCAAT-ATCAC-CCTCGAGAAAGTTATCAG-GATTCGGAACATCTTCAACAA
1 CAGC-ATCAGC-CTCCTCGGGAAAGTTATCAGAG-TTCCGATCATCTTCAACAA
* * * * * *
62040810 CGGCATCGGCCACCTCGAGAAAGTTATCAGTGTTCCAATCATCTTCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
* * *
62040861 CAGC-TACAGCCT--TC-GGAAAGTTATCATCAGAGTTTCAATCATCTTCAACAG
1 CAGCAT-CAGCCTCCTCGGGAAAG-T-T-ATCAGAGTTCCGATCATCTTCAACAA
* * ** *
62040912 CAGCAGCATCAGCCTCGGGAAAGTTATCAGAGCTCCGATCATCTTC
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTC
62040958 CTCCTCGAGA
Statistics
Matches: 425, Mismatches: 64, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
48 5 0.01
49 3 0.01
50 7 0.02
51 294 0.69
52 7 0.02
53 5 0.01
54 104 0.24
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCAACAA
Found at i:62040971 original size:36 final size:36
Alignment explanation
Indices: 62040924--62040993 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
62040914 GCAGCATCAG
* * *
62040924 CCTCGGGAAAGTTATCAGAGCTCCGATCATCTTCCT
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
*
62040960 CCTCGAGAAAGTTATCAAAATTCCGATCATCTTC
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTC
62040994 AGCAACAGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (36 bp):
CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
Found at i:62042261 original size:18 final size:18
Alignment explanation
Indices: 62042238--62042330 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
62042228 TACGACCATT
62042238 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
62042256 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
62042274 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
62042292 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
** * *
62042310 TATAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
62042328 TAC
1 TAC
62042331 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:62042291 original size:36 final size:36
Alignment explanation
Indices: 62042244--62042330 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
62042234 CATTTACGGC
62042244 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
62042280 ACTATTCACGTATACGGCACTATTCACGTATATAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
62042316 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
62042331 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:62046400 original size:11 final size:11
Alignment explanation
Indices: 62046384--62046414 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
62046374 ATACCCATAC
62046384 CCCATACCTTG
1 CCCATACCTTG
*
62046395 CCCATACCTTT
1 CCCATACCTTG
62046406 CCCATACCT
1 CCCATACCT
62046415 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:62056846 original size:14 final size:14
Alignment explanation
Indices: 62056812--62056846 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
62056802 GATTCAATAT
62056812 AAAAAAA-AAGAAA
1 AAAAAAAGAAGAAA
62056825 AAAAAAAGAAGAAA
1 AAAAAAAGAAGAAA
*
62056839 AAGAAAAG
1 AAAAAAAG
62056847 GAGAGGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAGAAA
Found at i:62058219 original size:50 final size:49
Alignment explanation
Indices: 62058155--62059127 Score: 332
Period size: 50 Copynumber: 19.5 Consensus size: 49
62058145 GCAATTTAGA
* * *
62058155 AGATTAAAGCCACAACAGCGAATCTTATTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGC-ATGCAGCGGAAC
** * ** **** *
62058205 AGATTGAAGTCACAACGGCGAATCTTGCTTCCCCGATATTGCAATTTAAA
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* *
62058255 AGATTGAAGCCACAATGGCGAATCTTATTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGC-ATGCAGCGGAAC
** * * **** *
62058305 AGATTGAAGTCACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* * * *
62058355 AGATTGAAGCCATAACGGCGAATTTTATTTCCTAGGCGATGCAGCGGAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGC-ATGCAGCGGAAC
* * * **** *
62058405 AGATTGAAGTCACAACGGCGAATCTTGTTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* * * *
62058455 ATATTGAAGCCACAACGGCGAATCTTATTTCCCAGGTAATGCAGCAGAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGG-CATGCAGCGGAAC
* * ** * **** *
62058505 AGATTGAAATCACAACGGCAAATCTTGCTTCCTC-GACATTGCAATTTAAA
1 AGATTGAAGTCACAACGGCGAATCTTATTTCC-CAGGCA-TGCAGCGGAAC
* * ** *
62058555 AGATTGAAGTCACAACGACGAATCTTACTT-CCAACCAATGCAGCGAAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGC-ATGCAGCGGAAC
* * *** * * *** *
62058604 AGATTGAAGTCACATCGGTGAATCTCGCTTCCCCGACATTGCA-ATTAAA
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* * *
62058653 AGATTGAAG-CTACAACGGCGAATCTTACTTTCAGCC-GG--TGAAGTGCAAC
1 AGATTGAAGTC-ACAACGGCGAATCTTA-TTTC--CCAGGCATGCAGCGGAAC
* *** * * * **** *
62058702 AGATTGAAG-CTACAACGGCGAAACTCGCTTCCCCGACATTACAATTAAAA
1 AGATTGAAGTC-ACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* * * ** ** * *
62058752 AGATTGAAGCCACAACGACGAATCTTACTT-CCAGGTGGTATAGTGGAAT
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGG-CATGCAGCGGAAC
* * ** * * * **** *
62058801 AGATTGAAGTTACAACAGCGAATCTTGCTTCCCCGACACTGAAATTTAAA
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* * ** * * *
62058851 ATATTGAAGCCACAACTACGAATCTTATTTCCTAGGCGATGTAGCAGAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGC-ATGCAGCGGAAC
* ** * * * **** *
62058901 AGATTGAAG-CTACGACGGTAAATCTTACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGTC-ACAACGGCGAATCTTATTTCCCAGGCA-TGCAGCGGAAC
* * * *
62058951 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGACGATGCAGCGGAAC
1 AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGC-ATGCAGCGGAAC
* * * * * * **** *
62059001 TGATTGAAGCCACAACGGTGAAT-TTCACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGTCACAACGGCGAATCTT-ATTTCCCAGGCA-TGCAGCGGAAC
* * * * * *
62059051 ATATTGAGGCCACAACGGCGAATCTTACTTTTCCAGGCAATGCAGCTGAAT
1 AGATTGAAGTCACAACGGCGAATCTTA-TTTCCCAGGC-ATGCAGCGGAAC
*
62059102 AGATTGAAG-CTACAACGGCGAGTCTT
1 AGATTGAAGTC-ACAACGGCGAATCTT
62059128 CCTTCCCCGA
Statistics
Matches: 667, Mismatches: 220, Indels: 71
0.70 0.23 0.07
Matches are distributed among these distances:
46 2 0.00
47 1 0.00
48 8 0.01
49 126 0.19
50 482 0.72
51 45 0.07
52 3 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (49 bp):
AGATTGAAGTCACAACGGCGAATCTTATTTCCCAGGCATGCAGCGGAAC
Found at i:62058316 original size:100 final size:100
Alignment explanation
Indices: 62058143--62059146 Score: 1234
Period size: 100 Copynumber: 10.1 Consensus size: 100
62058133 ATACTATAGT
* * *
62058143 TTGCAATTTAGAAGATTAAAGCCACAACAGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
*
62058208 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGATA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
*
62058243 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
62058308 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * *
62058343 TTGCAATTTAAAAGATTGAAGCCATAACGGCGAATTTTATTTCCTAGGCGATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
*
62058408 TTGAAGTCACAACGGCGAATCTTGTTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* ** *
62058443 TTGCAATTTAAAATATTGAAGCCACAACGGCGAATCTTATTTCCCAGGTAATGCAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* * *
62058508 TTGAAATCACAACGGCAAATCTTGCTTCCTCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * * ** * *
62058543 TTGCAATTTAAAAGATTGAAGTCACAACGACGAATCTTACTT-CCAACCAATGCAGCGAAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* * *
62058607 TTGAAGTCACATCGGTGAATCTCGCTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * * * * *
62058642 TTGCAA-TTAAAAGATTGAAGCTACAACGGCGAATCTTACTTT--CAGCCGGTGAAGTGCAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-TTTCCCAGGCGATGCAGCGGAACAG
* *
62058704 ATTGAAG-CTACAACGGCGAAACTCGCTTCCCCGACA
65 ATTGAAGTC-ACAACGGCGAATCTTGCTTCCCCGACA
* * * * * * ** * *
62058740 TTACAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTT-CCAGGTGGTATAGTGGAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* *
62058804 TTGAAGTTACAACAGCGAATCTTGCTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * * ** * * *
62058839 CTGAAATTTAAAATATTGAAGCCACAACTACGAATCTTATTTCCTAGGCGATGTAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* ** *
62058904 TTGAAG-CTACGACGGTAAATCTTACTTCCCCGACA
66 TTGAAGTC-ACAACGGCGAATCTTGCTTCCCCGACA
* * * *
62058939 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGACGATGCAGCGGAACTGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* * *
62059004 TTGAAGCCACAACGGTGAAT-TTCACTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTT-GCTTCCCCGACA
* * * * * *
62059039 TTGCAATTTAAAATATTGAGGCCACAACGGCGAATCTTACTTTTCCAGGCAATGCAGCTGAATAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-TTTCCCAGGCGATGCAGCGGAACAG
* *
62059104 ATTGAAG-CTACAACGGCGAGTCTTCCTTCCCCGACA
65 ATTGAAGTC-ACAACGGCGAATCTTGCTTCCCCGACA
62059140 TTGCAAT
1 TTGCAAT
62059147 CTCATTTCTC
Statistics
Matches: 781, Mismatches: 111, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
97 1 0.00
98 81 0.10
99 165 0.21
100 478 0.61
101 54 0.07
102 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
Found at i:62059311 original size:18 final size:18
Alignment explanation
Indices: 62059285--62059319 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62059275 GAAGATTACA
*
62059285 AGTCTTATCTCCCTAAGC
1 AGTCCTATCTCCCTAAGC
*
62059303 AGTCCTATCTCTCTAAG
1 AGTCCTATCTCCCTAAG
62059320 TAGAAGTGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (18 bp):
AGTCCTATCTCCCTAAGC
Found at i:62060866 original size:3 final size:3
Alignment explanation
Indices: 62060858--62060920 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
62060848 AATCTAGTAC
62060858 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62060906 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
62060921 CATCATATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62061200 original size:20 final size:20
Alignment explanation
Indices: 62061175--62061235 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
62061165 CATAAATATG
62061175 TATTTTATATATGTTCTTTA
1 TATTTTATATATGTTCTTTA
62061195 TATTTTA-ACTATG-------
1 TATTTTATA-TATGTTCTTTA
62061208 TATTTTATATATGTTCTTTA
1 TATTTTATATATGTTCTTTA
62061228 TATTTTAT
1 TATTTTAT
62061236 GAATCATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 18
0.64 0.00 0.36
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
19 1 0.03
20 19 0.59
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTTATATATGTTCTTTA
Found at i:62061213 original size:33 final size:33
Alignment explanation
Indices: 62061171--62061234 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
62061161 TTTTCATAAA
62061171 TATGTATTTTATATATGTTCTTTATATTTTAAC
1 TATGTATTTTATATATGTTCTTTATATTTTAAC
62061204 TATGTATTTTATATATGTTCTTTATATTTTA
1 TATGTATTTTATATATGTTCTTTATATTTTA
62061235 TGAATCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (33 bp):
TATGTATTTTATATATGTTCTTTATATTTTAAC
Found at i:62061351 original size:16 final size:17
Alignment explanation
Indices: 62061318--62061356 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
62061308 TTACTCATAT
*
62061318 ATATATATATATTTTTA
1 ATATATATATAATTTTA
62061335 ATATATA-ATAATTTTA
1 ATATATATATAATTTTA
*
62061351 AAATAT
1 ATATAT
62061357 GTACATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATATATAATTTTA
Found at i:62061970 original size:109 final size:110
Alignment explanation
Indices: 62061662--62062094 Score: 597
Period size: 110 Copynumber: 4.0 Consensus size: 110
62061652 TCAAAAAAGG
* * *
62061662 AAAATTTTTCAAAATAAGGCAATGTTTTGCCGTTTAGAAATTTGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTT-AAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
* * **
62061727 TGGGTGTCGATTCTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 TGGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
* *
62061773 AAAAAGTTTAAAATAAGGCAAGGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
**
62061838 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
* * * *
62061883 AAAAATTTTAAAATAAGACAATGTTTTG-CATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
62061947 GGGTGTCGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTC
66 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
* * * * * *
62061992 AAAAATTTCAAAATAAGGCAATGTTGTG-CGTTTGGAAATTCGAG-GAACGTACCCTAATGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
62062055 GGGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
62062095 CTTGAATTTC
Statistics
Matches: 296, Mismatches: 26, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
106 29 0.10
108 25 0.08
109 114 0.39
110 121 0.41
111 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (110 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
Found at i:62062445 original size:13 final size:14
Alignment explanation
Indices: 62062429--62062461 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
62062419 TTTCAATAAA
62062429 AATTTTAT-TTTTT
1 AATTTTATATTTTT
62062442 AATTTT-TATTTTT
1 AATTTTATATTTTT
62062455 AATTTTA
1 AATTTTA
62062462 AAATACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.06
13 17 0.94
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
AATTTTATATTTTT
Found at i:62062623 original size:17 final size:18
Alignment explanation
Indices: 62062594--62062629 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62062584 CTTTATTTTT
62062594 ATTAAAGTTTTCCATTCA
1 ATTAAAGTTTTCCATTCA
*
62062612 ATTAAA-TTTTCCTTTCA
1 ATTAAAGTTTTCCATTCA
62062629 A
1 A
62062630 GATTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAAAGTTTTCCATTCA
Found at i:62081612 original size:6 final size:6
Alignment explanation
Indices: 62081567--62081593 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
62081557 CCGTTTTAAG
62081567 TTAAAA TTAAAA TTAAAA TTAAAA TTA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTA
62081594 TTTTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TTAAAA
Found at i:62081645 original size:16 final size:16
Alignment explanation
Indices: 62081608--62081647 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
62081598 TTAATAAAAT
* *
62081608 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
62081624 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
62081640 TAAAATTA
1 TAAAATTA
62081648 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:62081647 original size:22 final size:22
Alignment explanation
Indices: 62081580--62081632 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
62081570 AAATTAAAAT
* * *
62081580 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
62081602 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
62081624 TAAAATTAA
1 TAAAATTAA
62081633 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:62081726 original size:59 final size:59
Alignment explanation
Indices: 62081658--62081797 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
62081648 TCAAATTATT
*
62081658 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
62081717 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATTA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
62081776 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
62081798 ATTAACTCTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:62081931 original size:23 final size:24
Alignment explanation
Indices: 62081903--62081947 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
62081893 AAATAAACTT
*
62081903 AAAATAAAAACTAT-TATATTTTA
1 AAAATAAAAAATATATATATTTTA
62081926 AAAATAAAAAATATATATATTT
1 AAAATAAAAAATATATATATTT
62081948 AATATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATAAAAAATATATATATTTTA
Found at i:62088782 original size:21 final size:22
Alignment explanation
Indices: 62088747--62088791 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
62088737 AAGAGAATGG
*
62088747 AAAATAAAGAAAAAAAAGTTAA
1 AAAATAAAGAAAAAAAAATTAA
*
62088769 AAAATAAA-ACAAAAAAATTAA
1 AAAATAAAGAAAAAAAAATTAA
62088790 AA
1 AA
62088792 TACTCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAAGAAAAAAAAATTAA
Found at i:62088800 original size:23 final size:22
Alignment explanation
Indices: 62088747--62088809 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
62088737 AAGAGAATGG
62088747 AAAATAAAGA-AAAAAAAGTTAA
1 AAAATAAA-ACAAAAAAAGTTAA
62088769 AAAATAAAACAAAAAAA-TTAA
1 AAAATAAAACAAAAAAAGTTAA
*
62088790 AATACTCAAAACAAATAAAA
1 AA-AAT-AAAACAAA-AAAA
62088810 ATATGGGGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.19
22 17 0.47
23 8 0.22
24 4 0.11
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.14
Consensus pattern (22 bp):
AAAATAAAACAAAAAAAGTTAA
Found at i:62089505 original size:21 final size:21
Alignment explanation
Indices: 62089471--62089520 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
62089461 CCCGTTTTTT
*
62089471 AAATAAACACAAAAAAAATTTAGA
1 AAATAAA-A-AAAAATAATTTA-A
*
62089495 AAATAAAAAAAAATATTTTAA
1 AAATAAAAAAAAATAATTTAA
62089516 AAATA
1 AAATA
62089521 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 10 0.42
23 1 0.04
24 7 0.29
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATAAAAAAAAATAATTTAA
Found at i:62089519 original size:11 final size:11
Alignment explanation
Indices: 62089503--62089531 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62089493 GAAAATAAAA
62089503 AAAAATATTTT
1 AAAAATATTTT
62089514 AAAAATATTTT
1 AAAAATATTTT
62089525 AAAAATA
1 AAAAATA
62089532 AAATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62089999 original size:37 final size:37
Alignment explanation
Indices: 62089949--62090023 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
62089939 AGCTACTTAA
62089949 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
1 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
62089986 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
1 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
62090023 A
1 A
62090024 ACAAACCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (37 bp):
AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
Found at i:62103866 original size:22 final size:21
Alignment explanation
Indices: 62103815--62103868 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
62103805 TTAAATTAAA
* *
62103815 ATTAAAATTAAAATTATTTTT
1 ATTAAAATTAAAATAATTGTT
*
62103836 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAA-TAATTGTT
62103858 ATTAAAATTAA
1 ATTAAAATTAA
62103869 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAAATTAAAATAATTGTT
Found at i:62103881 original size:16 final size:16
Alignment explanation
Indices: 62103844--62103883 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
62103834 TTAATAAAAT
* *
62103844 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
62103860 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
62103876 TAAAATTA
1 TAAAATTA
62103884 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:62103913 original size:59 final size:64
Alignment explanation
Indices: 62103850--62104071 Score: 243
Period size: 59 Copynumber: 3.5 Consensus size: 64
62103840 AAATTAAAAC
* *
62103850 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTAATTGTTAATTGTAT
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
*
62103909 TAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG-T-ATT-AA
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTA
62103971 T
64 T
* *
62103972 T-GTTG-TAATAAAATCTAACATTTGATTAGTAAATTTATTAAATTATTAATTGTATTAATTGTA
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG--TTAATTGTA
62104035 T
64 T
*
62104036 TAACTCT-TGTAA-CAAATCTAACATTTGATTAGTAAA
1 TAA-T-TGT-TAATAAAATCTAACATTTGATTAGTAAA
62104072 ACAAACTTGA
Statistics
Matches: 138, Mismatches: 8, Indels: 26
0.80 0.05 0.15
Matches are distributed among these distances:
59 52 0.38
60 1 0.01
61 8 0.06
62 5 0.04
63 7 0.05
64 7 0.05
65 4 0.03
66 27 0.20
67 24 0.17
68 3 0.02
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.46
Consensus pattern (64 bp):
TAATTGTTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
Found at i:62104181 original size:22 final size:23
Alignment explanation
Indices: 62104136--62104179 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
62104126 AAATAAACTT
62104136 AAAATAAAAACTATTATATTTTA
1 AAAATAAAAACTATTATATTTTA
62104159 AAAATAAAAA-TATATATATTT
1 AAAATAAAAACTAT-TATATTT
62104180 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATAAAAACTATTATATTTTA
Found at i:62111013 original size:21 final size:22
Alignment explanation
Indices: 62110978--62111022 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
62110968 AAGAGAATGG
*
62110978 AAAATAAAGAAAAAAAAGTTAA
1 AAAATAAAGAAAAAAAAATTAA
*
62111000 AAAATAAA-ACAAAAAAATTAA
1 AAAATAAAGAAAAAAAAATTAA
62111021 AA
1 AA
62111023 TACTCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAAGAAAAAAAAATTAA
Found at i:62111031 original size:23 final size:22
Alignment explanation
Indices: 62110978--62111040 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
62110968 AAGAGAATGG
62110978 AAAATAAAGA-AAAAAAAGTTAA
1 AAAATAAA-ACAAAAAAAGTTAA
62111000 AAAATAAAACAAAAAAA-TTAA
1 AAAATAAAACAAAAAAAGTTAA
*
62111021 AATACTCAAAACAAATAAAA
1 AA-AAT-AAAACAAA-AAAA
62111041 ATATGGGGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.19
22 17 0.47
23 8 0.22
24 4 0.11
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.14
Consensus pattern (22 bp):
AAAATAAAACAAAAAAAGTTAA
Found at i:62111737 original size:21 final size:21
Alignment explanation
Indices: 62111703--62111752 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
62111693 CCCGTTTTTT
*
62111703 AAATAAACACAAAAAAAATTTAGA
1 AAATAAA-A-AAAAATAATTTA-A
*
62111727 AAATAAAAAAAAATATTTTAA
1 AAATAAAAAAAAATAATTTAA
62111748 AAATA
1 AAATA
62111753 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 10 0.42
23 1 0.04
24 7 0.29
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATAAAAAAAAATAATTTAA
Found at i:62111751 original size:11 final size:11
Alignment explanation
Indices: 62111735--62111763 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62111725 GAAAATAAAA
62111735 AAAAATATTTT
1 AAAAATATTTT
62111746 AAAAATATTTT
1 AAAAATATTTT
62111757 AAAAATA
1 AAAAATA
62111764 AAATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62112231 original size:37 final size:37
Alignment explanation
Indices: 62112181--62112255 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
62112171 AGCTACTTAA
62112181 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
1 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
62112218 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
1 AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
62112255 A
1 A
62112256 ACAAACCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (37 bp):
AGCATGCTACTGAAGAACAATCCCTGTGATTGTTGGG
Found at i:62116683 original size:21 final size:21
Alignment explanation
Indices: 62116631--62116683 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
62116621 TCCTAAGCCT
* *
62116631 CAAATCCTAACCCTTAAACCC
1 CAAATCCTAAACCTCAAACCC
*
62116652 CAAA-CTTTAAACCTCAAACCC
1 CAAATC-CTAAACCTCAAACCC
*
62116673 TAAATCCTAAA
1 CAAATCCTAAA
62116684 AAAGTTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (21 bp):
CAAATCCTAAACCTCAAACCC
Found at i:62124700 original size:61 final size:60
Alignment explanation
Indices: 62124597--62124714 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 60
62124587 ACCAACAGTA
* * *
62124597 GTCACCCAACTATGGATTTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTG
1 GTCACCCAACTATGGAGTATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTATAAATTG
*
62124657 GTCACCCAACTAT-TAGTATTTTCTTTCTCTTGGTCACCCAACTATGAAAAGTTATAAA
1 GTCACCCAACTATGGAGTATTTTCTTT-T-TTGGTCACCCAACTATGAAAAGTTATAAA
62124715 ATGATCACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 10 0.19
60 14 0.27
61 28 0.54
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (60 bp):
GTCACCCAACTATGGAGTATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTATAAATTG
Found at i:62127665 original size:16 final size:15
Alignment explanation
Indices: 62127641--62127702 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
62127631 AAAAGTCCAA
62127641 AAAAATATATTTAAT
1 AAAAATATATTTAAT
*
62127656 AAAAAGTATATTTGATT
1 AAAAA-TATATTT-AAT
* *
62127673 AAAAATA-AATAAAT
1 AAAAATATATTTAAT
*
62127687 AAACATATATTTAAT
1 AAAAATATATTTAAT
62127702 A
1 A
62127703 TATAATTCGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
14 8 0.22
15 13 0.35
16 9 0.24
17 7 0.19
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAAATATATTTAAT
Found at i:62128721 original size:16 final size:15
Alignment explanation
Indices: 62128694--62128733 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
62128684 GTTTTATTTT
62128694 TATTTTTAATTAAATA
1 TATTTTT-ATTAAATA
*
62128710 TACTTTTTATTATATA
1 TA-TTTTTATTAAATA
62128726 TATTTTTA
1 TATTTTTA
62128734 GACTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTTTATTAAATA
Found at i:62133152 original size:234 final size:234
Alignment explanation
Indices: 62132740--62133213 Score: 894
Period size: 234 Copynumber: 2.0 Consensus size: 234
62132730 GATATCTTGG
62132740 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATATAGAATCTTGAATGTATCA
1 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATATAGAATCTTGAATGTATCA
62132805 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
66 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
**
62132870 TAGGCATTAGATGAAGTTTTGGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
131 TAGGCATTAGATGAAGTTTCAGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
* *
62132935 TCCCTGAAAAAGAAAACTAAAATAAACAATCCGGATAGT
196 TCCCTGAAAAAAAAAACTAAAATAAACAATCCGGATAGC
*
62132974 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATGTAGAATCTTGAATGTATCA
1 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATATAGAATCTTGAATGTATCA
62133039 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
66 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
*
62133104 TAGGCATTAGATGAAGTTTCAGAAAAGTCAACATTTCAGGTGTGGTCATTCTGGATCTAAATCTT
131 TAGGCATTAGATGAAGTTTCAGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
62133169 TCCCTGAAAAAAAAAACTAAAATAAACAATCCGGATAGC
196 TCCCTGAAAAAAAAAACTAAAATAAACAATCCGGATAGC
62133208 TCATTT
1 TCATTT
62133214 AAATAAAGAA
Statistics
Matches: 234, Mismatches: 6, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
234 234 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (234 bp):
TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATATAGAATCTTGAATGTATCA
TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
TAGGCATTAGATGAAGTTTCAGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
TCCCTGAAAAAAAAAACTAAAATAAACAATCCGGATAGC
Found at i:62135833 original size:4 final size:4
Alignment explanation
Indices: 62135826--62135852 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
62135816 CTCTCTCTCT
62135826 CTCC CTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTC
62135853 TCTAGCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:62136120 original size:38 final size:38
Alignment explanation
Indices: 62136077--62136156 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
62136067 ATTATGGATA
*
62136077 GCTAAGATTATAAGATA-CTGTTAGGGTTTAGATCTAGG
1 GCTAAGATTATAAGATATCT-TTAGGGTTTAAATCTAGG
* *
62136115 GCTAAGATTATTAGTTATCTTTAGGGTTTAAATCTAGG
1 GCTAAGATTATAAGATATCTTTAGGGTTTAAATCTAGG
62136153 GCTA
1 GCTA
62136157 TTAGAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 36 0.95
39 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.38
Consensus pattern (38 bp):
GCTAAGATTATAAGATATCTTTAGGGTTTAAATCTAGG
Found at i:62138753 original size:204 final size:204
Alignment explanation
Indices: 62138403--62138810 Score: 807
Period size: 204 Copynumber: 2.0 Consensus size: 204
62138393 ATGTCAAAAT
62138403 CATGATCTAGTTTAGGTAGATCTGCTGCGGAGGATTTTGTACACTTCCTAATCAAAGGCTGATGA
1 CATGATCTAGTTTAGGTAGATCTGCTGCGGAGGATTTTGTACACTTCCTAATCAAAGGCTGATGA
*
62138468 CATGGGAGGTTTAATATGGAACATGTCAAATTATTTACTGGATGATATTATCTAAAATTGGCATT
66 CATGGGAGGTTTAATATGGAACATGTCAAATTATTTACTGGATGATATTATCTAAAATTGCCATT
62138533 CAAAGGATTATTTCCATATTTTCATGATTTCATGCATCATGGTACTGCATAGCAGTGATAATGCT
131 CAAAGGATTATTTCCATATTTTCATGATTTCATGCATCATGGTACTGCATAGCAGTGATAATGCT
62138598 GTTATTAGA
196 GTTATTAGA
62138607 CATGATCTAGTTTAGGTAGATCTGCTGCGGAGGATTTTGTACACTTCCTAATCAAAGGCTGATGA
1 CATGATCTAGTTTAGGTAGATCTGCTGCGGAGGATTTTGTACACTTCCTAATCAAAGGCTGATGA
62138672 CATGGGAGGTTTAATATGGAACATGTCAAATTATTTACTGGATGATATTATCTAAAATTGCCATT
66 CATGGGAGGTTTAATATGGAACATGTCAAATTATTTACTGGATGATATTATCTAAAATTGCCATT
62138737 CAAAGGATTATTTCCATATTTTCATGATTTCATGCATCATGGTACTGCATAGCAGTGATAATGCT
131 CAAAGGATTATTTCCATATTTTCATGATTTCATGCATCATGGTACTGCATAGCAGTGATAATGCT
62138802 GTTATTAGA
196 GTTATTAGA
62138811 TGCCATTATA
Statistics
Matches: 203, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 203 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (204 bp):
CATGATCTAGTTTAGGTAGATCTGCTGCGGAGGATTTTGTACACTTCCTAATCAAAGGCTGATGA
CATGGGAGGTTTAATATGGAACATGTCAAATTATTTACTGGATGATATTATCTAAAATTGCCATT
CAAAGGATTATTTCCATATTTTCATGATTTCATGCATCATGGTACTGCATAGCAGTGATAATGCT
GTTATTAGA
Found at i:62148189 original size:20 final size:20
Alignment explanation
Indices: 62148160--62148202 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
62148150 AGTTCAAGGT
* *
62148160 TTCGAGTTTTGGGTTTAGGG
1 TTCGAATTTTGAGTTTAGGG
*
62148180 TTCGAATTTTGAGTTTGGGG
1 TTCGAATTTTGAGTTTAGGG
62148200 TTC
1 TTC
62148203 TGGGTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.07, G:0.35, T:0.47
Consensus pattern (20 bp):
TTCGAATTTTGAGTTTAGGG
Found at i:62149667 original size:26 final size:26
Alignment explanation
Indices: 62149636--62149691 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
62149626 CCAATTTTTT
* * *
62149636 AATAAACACCAAAAAATTATTTTAAA
1 AATAAAAAACAAAAAAGTATTTTAAA
*
62149662 AATAAAAAATAAAAAAGTATTTTAAA
1 AATAAAAAACAAAAAAGTATTTTAAA
62149688 AATA
1 AATA
62149692 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (26 bp):
AATAAAAAACAAAAAAGTATTTTAAA
Found at i:62149707 original size:38 final size:38
Alignment explanation
Indices: 62149647--62149722 Score: 120
Period size: 37 Copynumber: 2.0 Consensus size: 38
62149637 ATAAACACCA
62149647 AAAAATTATTTTAAAAATAAAAAATAAAAAAGTAT-TTT
1 AAAAATTATTTTAAAAATAAAAAATAAAAAA-TATATTT
*
62149685 AAAAA-TATTTTAAAATTAAAAAATAAAAAATATATTT
1 AAAAATTATTTTAAAAATAAAAAATAAAAAATATATTT
62149722 A
1 A
62149723 TTATATTCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 3 0.08
37 28 0.78
38 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (38 bp):
AAAAATTATTTTAAAAATAAAAAATAAAAAATATATTT
Found at i:62154009 original size:3 final size:3
Alignment explanation
Indices: 62154001--62154025 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62153991 AATAAGCATA
62154001 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
62154026 GAAAATAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62154267 original size:87 final size:88
Alignment explanation
Indices: 62154121--62154287 Score: 273
Period size: 87 Copynumber: 1.9 Consensus size: 88
62154111 TTCGACCAGA
* ** *
62154121 TTTTTAGCTATTTAATTGGTTTTTTACTAGTTTAATTCTTCTTCGATTTTATATACTAGTTAGAC
1 TTTTTAGCGATTTAATTAATTTTTTACTAGTTTAATTCTTCTTCGATTTTATATACTAGTCAGAC
62154186 TATCAATTTCTAGTTTGATCAGT
66 TATCAATTTCTAGTTTGATCAGT
* *
62154209 TTTTTATCGATTTAATTAATTTTTTACT-GTTTAATTCTTCTTCGATTTTATATACTAGTCGGAC
1 TTTTTAGCGATTTAATTAATTTTTTACTAGTTTAATTCTTCTTCGATTTTATATACTAGTCAGAC
62154273 TATCAATTTCTAGTT
66 TATCAATTTCTAGTT
62154288 AGATGTAATT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 49 0.67
88 24 0.33
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (88 bp):
TTTTTAGCGATTTAATTAATTTTTTACTAGTTTAATTCTTCTTCGATTTTATATACTAGTCAGAC
TATCAATTTCTAGTTTGATCAGT
Found at i:62158956 original size:87 final size:87
Alignment explanation
Indices: 62158843--62159010 Score: 257
Period size: 87 Copynumber: 1.9 Consensus size: 87
62158833 TTCCTCTTTT
* *
62158843 TTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTCTT
1 TTTTTTTT-CACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTCTT
*
62158908 CAAAAAAATCAATTAAGCCCCTGC
65 C-AAAAAAGCAATTAAGCCCCTGC
* * *
62158932 TTTTTTTT-ACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTTTTC
1 TTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTCTTC
62158996 AAAAAAGCAATTAAG
66 AAAAAAGCAATTAAG
62159011 TCCATGTTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 14 0.19
87 51 0.70
89 8 0.11
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (87 bp):
TTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGACACTCAAAATTCTTC
AAAAAAGCAATTAAGCCCCTGC
Found at i:62159089 original size:18 final size:19
Alignment explanation
Indices: 62159045--62159093 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
62159035 AAAAAATATA
*
62159045 AATAATAAATAATAAATTTT
1 AATAA-AAATATTAAATTTT
62159065 AGA-AAAAATATTAAA-TTT
1 A-ATAAAAATATTAAATTTT
62159083 AATAAAAATAT
1 AATAAAAATAT
62159094 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 12 0.46
19 9 0.35
20 3 0.12
21 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AATAAAAATATTAAATTTT
Found at i:62159089 original size:19 final size:19
Alignment explanation
Indices: 62159045--62159104 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
62159035 AAAAAATATA
*
62159045 AATAATAAATAATAAATTT
1 AATAAAAAATAATAAATTT
* * *
62159064 TAGAAAAAATATTAAATTT
1 AATAAAAAATAATAAATTT
*
62159083 AATAAAAATATAAAAAATTT
1 AATAAAAA-ATAATAAATTT
62159103 AA
1 AA
62159105 AATTTATTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AATAAAAAATAATAAATTT
Found at i:62159413 original size:20 final size:20
Alignment explanation
Indices: 62159390--62159444 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
62159380 CTTTATAAAA
*
62159390 TTTTACAATTTTTTATATACT
1 TTTTACTATTTTTTATATA-T
*
62159411 TTTTACTA-TTTATATATAT
1 TTTTACTATTTTTTATATAT
62159430 ATTTTA-TATTTTTTA
1 -TTTTACTATTTTTTA
62159445 ATAAATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 19 0.66
21 7 0.24
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTACTATTTTTTATATAT
Found at i:62159416 original size:21 final size:21
Alignment explanation
Indices: 62159390--62159434 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
62159380 CTTTATAAAA
*
62159390 TTTTACAATTT-TTTATATACT
1 TTTTACAATTTATATATATA-T
*
62159411 TTTTACTATTTATATATATAT
1 TTTTACAATTTATATATATAT
62159432 TTT
1 TTT
62159435 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTACAATTTATATATATAT
Found at i:62159689 original size:91 final size:91
Alignment explanation
Indices: 62159530--62159751 Score: 288
Period size: 91 Copynumber: 2.4 Consensus size: 91
62159520 AATTTTTAAT
* * *
62159530 AAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAGTTTG-GGGTCTTTTTGATGCATTTTGAAAGTT
1 AAAACCAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAAAGTT
* *
62159594 CAAATA-CTCAATTGAGTG-AAAAAAA
66 CAAATACCT-AAATAAGTGCAAAAAAA
* * ** *
62159619 GAGAGTAGGGGATTAATTGCTTTTTTTGAAAATGTTTGAGAGCCTTTTTGATGCATTTTGAAAGT
1 AAAACCAGGGGCTTAATTGCTTTTTTTGAAAA-GTTTGAGAGCCTTTTTGATGCATTTTGAAAGT
62159684 TCAAATACCTAAATAAGTGCCAAAAAAA
65 TCAAATACCTAAATAAGTG-CAAAAAAA
*
62159712 AAAACCAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAG
1 AAAACCAGGGGCTTAATTGCTTTTTTTG-AAAAGTTTGAG
62159752 GAATTATTGC
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
89 28 0.25
90 5 0.04
91 38 0.34
92 2 0.02
93 36 0.32
94 4 0.04
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (91 bp):
AAAACCAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAAAGTT
CAAATACCTAAATAAGTGCAAAAAAA
Found at i:62165333 original size:29 final size:29
Alignment explanation
Indices: 62165295--62165350 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
62165285 TTTTTTAAAT
* **
62165295 AAAATATTAAAAATTTATTTTAAAAATTA
1 AAAAAATTAAAAAAGTATTTTAAAAATTA
62165324 AAAAAATTAAAAAAGTATTTTAAAAAT
1 AAAAAATTAAAAAAGTATTTTAAAAAT
62165351 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAAATTAAAAAAGTATTTTAAAAATTA
Found at i:62165348 original size:11 final size:11
Alignment explanation
Indices: 62165333--62165370 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
62165323 AAAAAAATTA
62165333 AAAAAGTATTTT
1 AAAAA-TATTTT
62165345 AAAAATATTTTT
1 AAAAATA-TTTT
62165357 AAAAATATTTT
1 AAAAATATTTT
62165368 AAA
1 AAA
62165371 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62165376 original size:42 final size:43
Alignment explanation
Indices: 62165326--62165432 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
62165316 AAAAATTAAA
*
62165326 AAAATTAAAAAAGTATTTTAAAAATA-T-TTTTAAAAATATTTT
1 AAAATTAAAAAA-TATTTTAAAAAAAGTATTTTAAAAATATTTT
* ** *
62165368 -AAATTTAAATTTTTTTTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAATATTTTAAAAAAAGTATTTTAAAAATATTTT
62165410 AAAATTAAAAAA-ATTTTAAAAAA
1 AAAATTAAAAAATATTTTAAAAAA
62165433 TAAATATATT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
40 11 0.21
41 9 0.17
42 25 0.47
43 8 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (43 bp):
AAAATTAAAAAATATTTTAAAAAAAGTATTTTAAAAATATTTT
Found at i:62165431 original size:18 final size:17
Alignment explanation
Indices: 62165397--62165430 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62165387 AAAAAGTATT
*
62165397 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
62165414 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
62165431 AATAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:62165436 original size:18 final size:17
Alignment explanation
Indices: 62165398--62165436 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
62165388 AAAAGTATTT
* *
62165398 TAAAAATATTTTAAAAT
1 TAAAAAAATTTTAAAAA
62165415 TAAAAAAATTTTAAAAAA
1 TAAAAAAATTTT-AAAAA
62165433 TAAA
1 TAAA
62165437 TATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAA
Found at i:62165443 original size:18 final size:17
Alignment explanation
Indices: 62165398--62165443 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
62165388 AAAAGTATTT
*
62165398 TAAAAATATTTTAAAAT
1 TAAAAATATTTTAAAAA
*
62165415 TAAAAAAATTTTAAAAAA
1 TAAAAATATTTT-AAAAA
*
62165433 TAAATATATTT
1 TAAAAATATTT
62165444 ATTATATTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATATTTTAAAAA
Found at i:62180136 original size:19 final size:20
Alignment explanation
Indices: 62180113--62180171 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
62180103 AAAAATTACA
*
62180113 AAAAAAATCAAAATGATTT-T
1 AAAAAATTCAAAAT-ATTTAT
62180133 AAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
*
62180153 -AAAAATTCTAAA-ATTTAT
1 AAAAAATTCAAAATATTTAT
62180171 A
1 A
62180172 TTTTTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 6 0.17
19 15 0.43
20 14 0.40
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:62180138 original size:20 final size:20
Alignment explanation
Indices: 62180113--62180157 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
62180103 AAAAATTACA
62180113 AAAAAAATCAAAATGATTT-T
1 AAAAAAATCAAAAT-ATTTAT
*
62180133 AAAAAATTCAAAATATTTAT
1 AAAAAAATCAAAATATTTAT
62180153 AAAAA
1 AAAAA
62180158 TTCTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAAAATCAAAATATTTAT
Found at i:62184611 original size:32 final size:32
Alignment explanation
Indices: 62184569--62184635 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
62184559 CATGGATCCA
* *
62184569 TGCACCCAGAGTCAGTGGGTTATTGTTGGTAG
1 TGCACACAGAGTCAGTGGGATATTGTTGGTAG
62184601 TGCACACAGAGTCAGTGGGATATTGTTGGTAG
1 TGCACACAGAGTCAGTGGGATATTGTTGGTAG
62184633 TGC
1 TGC
62184636 TGTCTATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.30
Consensus pattern (32 bp):
TGCACACAGAGTCAGTGGGATATTGTTGGTAG
Found at i:62187058 original size:19 final size:18
Alignment explanation
Indices: 62187034--62187110 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 18
62187024 TTTTTGTATA
62187034 TTTAAAATTTATTTTTAAT
1 TTTAAAATTTA-TTTTAAT
* *
62187053 TTTAAAAATTTA-ATTGAT
1 TTT-AAAATTTATTTTAAT
*
62187071 TTCAAAATTTATATTTAAT
1 TTTAAAATTTAT-TTTAAT
* *
62187090 TATTAACA-TTATTATAAT
1 T-TTAAAATTTATTTTAAT
62187108 TTT
1 TTT
62187111 TATGTTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 10 0.22
18 12 0.26
19 12 0.26
20 12 0.26
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (18 bp):
TTTAAAATTTATTTTAAT
Found at i:62190342 original size:24 final size:24
Alignment explanation
Indices: 62190310--62190356 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
62190300 GGTGCTTCCC
*
62190310 GTTAATTGCTCTTCGGAGCTACCT
1 GTTAATTGCTCTTCGAAGCTACCT
*
62190334 GTTAATTGCTCTTTGAAGCTACC
1 GTTAATTGCTCTTCGAAGCTACC
62190357 CATTATAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (24 bp):
GTTAATTGCTCTTCGAAGCTACCT
Found at i:62192111 original size:43 final size:42
Alignment explanation
Indices: 62192014--62192119 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
62192004 GATTTGAGAT
* * * *
62192014 TTACGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGA
1 TTACGTGTAAGACCATGTCTGCGACAGTGCCATCGTATATGA
* *
62192056 TTACGTGTAAGACCCTGTCTGCGACAGTGCCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGCGACAGTGCCATCG-TATATGA
* *
62192099 TTACATGTAAGACCACGTCTG
1 TTACGTGTAAGACCATGTCTG
62192120 GGGCGTTGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 30 0.56
43 24 0.44
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGCGACAGTGCCATCGTATATGA
Found at i:62194695 original size:19 final size:19
Alignment explanation
Indices: 62194671--62194783 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
62194661 AATCATATAT
62194671 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
62194690 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
62194709 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62194728 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
62194749 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62194768 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
62194784 CTCAAAAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62194758 original size:40 final size:40
Alignment explanation
Indices: 62194671--62194782 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
62194661 AATCATATAT
*
62194671 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
62194709 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
62194749 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
62194783 CCTCAAAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:62195099 original size:44 final size:43
Alignment explanation
Indices: 62194997--62195844 Score: 396
Period size: 44 Copynumber: 19.6 Consensus size: 43
62194987 CTTCAATCTA
62194997 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
*
62195042 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* * * *
62195086 CTCCACTGCAACTTTAGGGAAATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
** * * * *
62195127 CT-TTCTGCAACTTCAGAGAGATAAGATCTGTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATCTTAGTCTG
* * ** * *
62195170 CTCTACTGCAACTTCAGGGAGATAGGTTTATCGGC-T-TTAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCATCTTAGTCTG
* *
62195214 CTCCACTGCTACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* * *
62195259 C-CTCACTGTAACTTCA-GAAGGATAAGACTTGCTTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTC-TG
* * * *
62195304 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * * *
62195344 CT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAGTCTG
* * ** *
62195387 CTCCACTGCAACTTTAGGGAGATAGGA-TTGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TTAGTCTG
* * * *
62195431 CTCCACTACAACTTCAGGAAGATAAGATTTGTCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* * * *
62195476 C-CTCACTGTAACTTCA-AGAGGATAATACTTGCTTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTC-TG
* * * *
62195521 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * * *
62195561 CT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAGTCTG
* * ** *
62195604 CTCCACTGTAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TTAGTCTG
* * *
62195648 CTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* * * *
62195693 C-CTCACTGTAACTTTA-GAAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* * * *
62195737 CTCCATTGCAACTTCAGGGAGATAAGACTAG-ATGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAGTCTG
* * * *
62195778 CT-CTCTGCAACTTCAGAGG-GATAAGATCTGTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAG-GGAGATAAGA-CT-TGCATCTTAGTCTG
62195821 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
62195845 GGATTGTCGA
Statistics
Matches: 611, Mismatches: 132, Indels: 121
0.71 0.15 0.14
Matches are distributed among these distances:
39 2 0.00
40 82 0.13
41 25 0.04
42 21 0.03
43 37 0.06
44 301 0.49
45 143 0.23
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAGTCTG
Found at i:62195330 original size:217 final size:217
Alignment explanation
Indices: 62194986--62195866 Score: 1390
Period size: 217 Copynumber: 4.1 Consensus size: 217
62194976 AGGAATTAGT
* * * * * *
62194986 GCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * * * *
62195051 AACTTCAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTGCAACTTTAGGGAAATAAGACTA
66 AACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTA
* * * *
62195116 GATGCGATCTGCTTTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAA
131 GATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
* *
62195181 CTTCAGGGAGATAGGTTTATCG
196 CTTCAGGGAGATAGGATTGTCG
* * * *
62195203 GCTTTAATATGCTCCACTGCTACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
62195268 AACTTCAGAAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
66 AACTTCAGAAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGACT
*
62195332 AGATGCGATCTACTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
130 AGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
*
62195397 ACTTTAGGGAGATAGGATTGTCG
195 ACTTCAGGGAGATAGGATTGTCG
* *
62195420 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGTCATCTTCAGTCTACCTCACTGT
1 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
*
62195485 AACTTCA-AGAGGATAATACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGAC
66 AACTTCAGA-AGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGAC
* *
62195548 TAGATGCGATCTACTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGT
129 TAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGC
62195613 AACTTCAGGGAGATAGGATTGTCG
194 AACTTCAGGGAGATAGGATTGTCG
62195637 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* **
62195702 AACTTTAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTA
* * * *
62195767 GATGTGATCTGCTCTCTGCAACTTCAGAGGGATAAGATCTGTGATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
62195832 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
*
62195854 ACTTTAATCTGCT
1 GCTTTAATCTGCT
62195867 TCCCACTATT
Statistics
Matches: 619, Mismatches: 41, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
216 3 0.00
217 613 0.99
218 3 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTGTCG
Found at i:62196015 original size:132 final size:131
Alignment explanation
Indices: 62195859--62196343 Score: 749
Period size: 132 Copynumber: 3.7 Consensus size: 131
62195849 TGTCGACTTT
* * * * *
62195859 AATCTGCTTCCCACTATTTTGGAAAGATATGATTTGTCGTCTTCGATCTACTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
62195924 GGGAGATAAGATCTACAATCTTCAACCTATTCCGCTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCT-TTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
62195989 TA
130 TA
* * *
62195991 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
62196056 GGGAGATAAGATCTACAATTTTCAACATCCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCT-TTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
62196121 TA
130 TA
* * *
62196123 AATCTACTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
62196188 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTG-TTCAGGGAGACAAGGCTTGGTGGC
66 GGGAGATAAGATCTACAATTTTCAACCTT-TCCGCTGCTGCTT-AGGGAGACAAGGCTTGGTGGC
62196252 TTA
129 TTA
* *
62196255 AATCTGCTTCCCACTATCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTG-TCT
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT-T
*
62196319 AGGGAGATAAGATCTATAATTTTCA
65 AGGGAGATAAGATCTACAATTTTCA
62196344 CTGATCTGTT
Statistics
Matches: 327, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 3 0.01
132 324 0.99
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (131 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTTTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCTT
A
Found at i:62196063 original size:44 final size:44
Alignment explanation
Indices: 62195883--62196067 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
62195873 TATTTTGGAA
* * *
62195883 AGATATGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * *
62195927 AGATAAGATCT-ACAATCTTCAACCTATTCCGCTGCTGCTTAGGG
1 AGATAAGATTTGTC-ATCTTCAATCTACTCCACTACTGCTTAGGG
* * * * ** * * *
62195971 AAACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCATCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* *
62196015 AGATAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTACTCCACTACTGCTTAGGG
62196059 AGATAAGAT
1 AGATAAGAT
62196068 CTACAATTTT
Statistics
Matches: 98, Mismatches: 33, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
42 6 0.06
43 10 0.10
44 72 0.73
45 6 0.06
46 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCATCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:62202519 original size:98 final size:98
Alignment explanation
Indices: 62202340--62202536 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
62202330 GTACAATAAA
* *
62202340 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* * *
62202405 CCTCTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
*
62202438 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
62202503 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
62202536 A
1 A
62202537 TTATTTTTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:62203860 original size:19 final size:19
Alignment explanation
Indices: 62203836--62203948 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
62203826 AATCATATAT
62203836 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
62203855 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
62203874 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62203893 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
* ** *
62203914 TTTTGGATTGCATACCATA
1 TCTAAGATTGCATATCATA
62203933 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
62203949 CTCAAAAATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 62 0.79
21 16 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62203923 original size:40 final size:40
Alignment explanation
Indices: 62203836--62203947 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
62203826 AATCATATAT
*
62203836 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
62203874 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
* ** *
62203914 TTTTGGATTGCATACCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
62203948 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 28 0.42
40 39 0.58
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:62205710 original size:16 final size:16
Alignment explanation
Indices: 62205673--62205712 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
62205663 AAAATAAAAT
* *
62205673 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
62205689 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
62205705 TAAAATTA
1 TAAAATTA
62205713 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:62205791 original size:59 final size:59
Alignment explanation
Indices: 62205723--62205862 Score: 244
Period size: 59 Copynumber: 2.4 Consensus size: 59
62205713 TCAAATTATT
* *
62205723 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
*
62205782 AATTATTAATTGTATTAATTGTTGTAATAAAATTTAACACTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
*
62205841 AATTATTCATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
62205863 ATTAATTGTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 77 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
Found at i:62205997 original size:24 final size:22
Alignment explanation
Indices: 62205968--62206011 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
62205958 AAATAAACTT
62205968 AAAATAAAAAAATATTATATTTTA
1 AAAATAAAAAAA-A-TATATTTTA
62205992 AAAATAAAAAAAATATATTT
1 AAAATAAAAAAAATATATTT
62206012 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAAAAAAAATATATTTTA
Found at i:62207216 original size:15 final size:15
Alignment explanation
Indices: 62207196--62207234 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
62207186 AGTGACATTG
*
62207196 AAAAGAATTTTTAAC
1 AAAAGAACTTTTAAC
62207211 AAAAGAACTTTTAAC
1 AAAAGAACTTTTAAC
62207226 AAAAGAACT
1 AAAAGAACT
62207235 AGTTTACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (15 bp):
AAAAGAACTTTTAAC
Found at i:62210445 original size:3 final size:3
Alignment explanation
Indices: 62210391--62210433 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
62210381 TTTGTTCTAA
62210391 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
62210434 AATCCTCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:62218103 original size:14 final size:15
Alignment explanation
Indices: 62218084--62218119 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
62218074 GATACATATT
*
62218084 AATTAATTAA-ATTA
1 AATTAATTAATAATA
62218098 AATTAATTAATAATA
1 AATTAATTAATAATA
62218113 AATTAAT
1 AATTAAT
62218120 CAGATTGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAATTAATAATA
Found at i:62230253 original size:5 final size:5
Alignment explanation
Indices: 62230243--62230313 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
62230233 TAAAAAATAT
* * *
62230243 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATCA TATTA TTATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA -TATTA
62230289 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
62230314 ACATAAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
3 4 0.08
4 8 0.15
5 29 0.55
6 11 0.21
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:62230299 original size:19 final size:19
Alignment explanation
Indices: 62230271--62230318 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
62230261 ATTATGTTTT
62230271 TATATCATATTATTATTA-A
1 TATATCATATTA-TATTATA
*
62230290 TATATTATATTATATTATA
1 TATATCATATTATATTATA
62230309 TATATACATA
1 TATAT-CATA
62230319 AAACAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 17 0.68
20 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TATATCATATTATATTATA
Found at i:62230343 original size:15 final size:15
Alignment explanation
Indices: 62230323--62230364 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
62230313 TACATAAAAC
*
62230323 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
62230338 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
62230353 AACAGAATAGAA
1 AAAAGAA-AGAA
62230365 GAGACGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:62230421 original size:4 final size:4
Alignment explanation
Indices: 62230414--62230441 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
62230404 GAGAAGGAAG
62230414 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
62230442 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:62230985 original size:29 final size:30
Alignment explanation
Indices: 62230926--62230983 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
62230916 TCCGAGCCTT
*
62230926 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
62230956 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
62230984 AGAGTCGAGG
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:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:62231213 original size:13 final size:13
Alignment explanation
Indices: 62231195--62231226 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62231185 TTTCCAGCAA
62231195 TTATGAATTTATT
1 TTATGAATTTATT
62231208 TTATGAATTTATT
1 TTATGAATTTATT
*
62231221 TGATGA
1 TTATGA
62231227 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:62231434 original size:50 final size:50
Alignment explanation
Indices: 62231321--62231562 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
62231311 ATTTGGGTAA
* * *
62231321 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
62231377 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
62231427 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * * *
62231477 AGAGGTCCCCTATAAGACCATTTCTGGGACATGGCATGGGCAAC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
62231527 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
62231563 TTTGGCATGT
Statistics
Matches: 163, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:62231511 original size:100 final size:103
Alignment explanation
Indices: 62231321--62231570 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
62231311 ATTTGGGTAA
62231321 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
62231386 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCAAC-ATCACG
* * *
62231427 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
62231489 TAAGACCATTTCTGGGACATGGCATGGGCAACATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCAACATCACG
* *
62231527 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
62231571 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCAACATCACG
Found at i:62235904 original size:10 final size:10
Alignment explanation
Indices: 62235889--62235918 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
62235879 TTAACTTTCT
62235889 TAAAAATTTA
1 TAAAAATTTA
62235899 TAAAAATTTA
1 TAAAAATTTA
62235909 TAAAAATTTA
1 TAAAAATTTA
62235919 AATTAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:62236939 original size:19 final size:19
Alignment explanation
Indices: 62236900--62236938 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
62236890 AAAAAGTTAA
62236900 TTAATTATTTTAATGACTT
1 TTAATTATTTTAATGACTT
62236919 TTAATTA-TTTAATGACTT
1 TTAATTATTTTAATGACTT
62236937 TT
1 TT
62236939 TTGCTTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TTAATTATTTTAATGACTT
Found at i:62243524 original size:20 final size:22
Alignment explanation
Indices: 62243486--62243531 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
62243476 AAAATAGTAG
*
62243486 AAAGAAGAACCCAAGAAAGAGA
1 AAAGAAGAACCCAAGAAAGAAA
62243508 AAAGAA-AACCC-AGAAAGAAA
1 AAAGAAGAACCCAAGAAAGAAA
62243528 AAAG
1 AAAG
62243532 GGGAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 5 0.22
22 6 0.26
ACGTcount: A:0.67, C:0.13, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAGAAGAACCCAAGAAAGAAA
Found at i:62246826 original size:67 final size:67
Alignment explanation
Indices: 62246746--62246880 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
62246736 TTTGGCATAT
*
62246746 TCCCTGAAGCGAATATTGCATATAATTGTTTAGAAATTATATTTATTTTGTTGACTTAGTGACAT
1 TCCCTAAAGCGAATATTGCATATAATTGTTTAGAAATTATATTTATTTTGTTGACTTAGTGACAT
62246811 TA
66 TA
* *
62246813 TCCCTAAAGCGAATATTGCATATAATTGTTTGGAAATTATATTTATTTTTTTGACTTAGTGACAT
1 TCCCTAAAGCGAATATTGCATATAATTGTTTAGAAATTATATTTATTTTGTTGACTTAGTGACAT
62246878 TA
66 TA
62246880 T
1 T
62246881 AATATTCACA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (67 bp):
TCCCTAAAGCGAATATTGCATATAATTGTTTAGAAATTATATTTATTTTGTTGACTTAGTGACAT
TA
Found at i:62251956 original size:31 final size:29
Alignment explanation
Indices: 62251921--62251997 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
62251911 TTAATAGCTC
**
62251921 AGTGACTAAAATGTTGCAATACGACAACATA
1 AGTGACTAAAATGTAACAATAC-A-AACATA
* * * *
62251952 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAATACAAACATA
62251981 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
62251998 TTAAAGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAATACAAACATA
Found at i:62252418 original size:28 final size:28
Alignment explanation
Indices: 62252378--62252434 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
62252368 TTAACATTAA
62252378 TATAATAATTTAAGATAAGATTGGATCG
1 TATAATAATTTAAGATAAGATTGGATCG
62252406 TATAATAATTTAAGATAAGATTGGATCG
1 TATAATAATTTAAGATAAGATTGGATCG
62252434 T
1 T
62252435 CGTCTTAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.37
Consensus pattern (28 bp):
TATAATAATTTAAGATAAGATTGGATCG
Found at i:62253732 original size:16 final size:17
Alignment explanation
Indices: 62253707--62253748 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
62253697 GTAATTTTCT
62253707 TTCT-ATTTTTCAT-CC
1 TTCTAATTTTTCATCCC
*
62253722 TTCTAATTTTTTATCCC
1 TTCTAATTTTTCATCCC
*
62253739 TTCAAATTTT
1 TTCTAATTTT
62253749 CGTCCTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 11 0.48
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (17 bp):
TTCTAATTTTTCATCCC
Found at i:62254794 original size:14 final size:14
Alignment explanation
Indices: 62254769--62254804 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
62254759 TGCTGTTTGT
62254769 TGTTGTTTATTGTTA
1 TGTTG-TTATTGTTA
*
62254784 TTTTGTTATTGTTA
1 TGTTGTTATTGTTA
62254798 TGTTGTT
1 TGTTGTT
62254805 GTTTTTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.11, C:0.00, G:0.19, T:0.69
Consensus pattern (14 bp):
TGTTGTTATTGTTA
Found at i:62257069 original size:19 final size:19
Alignment explanation
Indices: 62257032--62257070 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
62257022 ATTGATTTTT
62257032 TAAATTTTGAATTAAAATGA
1 TAAATTTTGAA-TAAAATGA
62257052 TAAATTTTGTAA-AAAATGA
1 TAAATTTTG-AATAAAATGA
62257071 GGGCTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 9 0.50
21 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TAAATTTTGAATAAAATGA
Found at i:62257974 original size:42 final size:37
Alignment explanation
Indices: 62257881--62257991 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 37
62257871 ATTACTAATA
*
62257881 AAATAAA-AAGAAAAATTATATAAAATTTATAATATGT
1 AAATAAAGAA-AAAAATAATATAAAATTTATAATATGT
* *
62257918 AAATTAAGTAAAAAATAATATAAAATTTATAATATGT
1 AAATAAAGAAAAAAATAATATAAAATTTATAATATGT
*
62257955 AACCTTTATAAAGAAAAAAAAAATAT-AAA-TTATAATA
1 AA-----ATAAAGAAAAAAATAATATAAAATTTATAATA
62257992 AACTTTCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
37 34 0.55
38 1 0.02
40 8 0.13
41 3 0.05
42 16 0.26
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (37 bp):
AAATAAAGAAAAAAATAATATAAAATTTATAATATGT
Found at i:62261998 original size:18 final size:17
Alignment explanation
Indices: 62261954--62262005 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
62261944 ATCATTATTA
*
62261954 AAAATCATT-AAAAATAT
1 AAAAT-ATTCAAAAAAAT
*
62261971 ATAATATTCAAAAAAAT
1 AAAATATTCAAAAAAAT
62261988 AAAATATTTCAAAGAAAA
1 AAAATA-TTCAAA-AAAA
62262006 ATATAAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.10
17 16 0.55
18 6 0.21
19 4 0.14
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATATTCAAAAAAAT
Found at i:62263409 original size:28 final size:29
Alignment explanation
Indices: 62263344--62263409 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
62263334 AATGTTTAGG
62263344 TTAT-ATTATATCAAATAATAATTATTTA
1 TTATAATTATATCAAATAATAATTATTTA
* *
62263372 TTA-ATTTTATATCAAATAA-AATTATTTT
1 TTATA-ATTATATCAAATAATAATTATTTA
62263400 TTATAATTAT
1 TTATAATTAT
62263410 TGAACTCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATAATTATATCAAATAATAATTATTTA
Found at i:62263921 original size:14 final size:14
Alignment explanation
Indices: 62263902--62263928 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62263892 TTATTTAGTT
62263902 GTAGAATCAAAATA
1 GTAGAATCAAAATA
62263916 GTAGAATCAAAAT
1 GTAGAATCAAAAT
62263929 TTAAGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
GTAGAATCAAAATA
Done.