Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 130 of 213
Found at i:38025361 original size:36 final size:36
Alignment explanation
Indices: 38025314--38025388 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
38025304 TCACGATACT
38025314 AAAGGTCTGGTATCGTCATACCACTGTGTGTAGGCC
1 AAAGGTCTGGTATCGTCATACCACTGTGTGTAGGCC
*
38025350 AAAGGTTTGGTATCGTCATACCACTGTGTGTAGGCC
1 AAAGGTCTGGTATCGTCATACCACTGTGTGTAGGCC
38025386 AAA
1 AAA
38025389 ATTTTAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (36 bp):
AAAGGTCTGGTATCGTCATACCACTGTGTGTAGGCC
Found at i:38027019 original size:18 final size:18
Alignment explanation
Indices: 38026977--38027020 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
38026967 AACATATACC
38026977 GGTTGGTTGATTCCATGT
1 GGTTGGTTGATTCCATGT
*
38026995 -GTATGGTTGATTTCATGT
1 GGT-TGGTTGATTCCATGT
38027013 GGTTGGTT
1 GGTTGGTT
38027021 AATCTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.11, C:0.07, G:0.34, T:0.48
Consensus pattern (18 bp):
GGTTGGTTGATTCCATGT
Found at i:38029913 original size:21 final size:22
Alignment explanation
Indices: 38029887--38029930 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
38029877 AAAGTCAAAA
38029887 TGGTCATGATTGATTTGC-TTT
1 TGGTCATGATTGATTTGCATTT
* *
38029908 TGGTCATGTTTGGTTTGCATTT
1 TGGTCATGATTGATTTGCATTT
38029930 T
1 T
38029931 TGTTTGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.11, C:0.09, G:0.25, T:0.55
Consensus pattern (22 bp):
TGGTCATGATTGATTTGCATTT
Found at i:38031630 original size:22 final size:22
Alignment explanation
Indices: 38031576--38031631 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
38031566 TCTGCTCTTT
* *
38031576 ATGTTGCAACATCGAACCCCCC
1 ATGTTGCGACATCAAACCCCCC
38031598 ATGTTGCGACATCAAACCCCCC
1 ATGTTGCGACATCAAACCCCCC
*
38031620 ATGTTGTGACAT
1 ATGTTGCGACAT
38031632 AACGTTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (22 bp):
ATGTTGCGACATCAAACCCCCC
Found at i:38036865 original size:80 final size:80
Alignment explanation
Indices: 38036732--38036893 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
38036722 TTATAGACTC
* *
38036732 CTTCATAAGTATCTTTTTTATAATCAAAGTGTTCATGGGAACACATATAGTCAAAGTTATCCATG
1 CTTCATAAATATCTTTGTTATAATCAAAGTGTTCATGGGAACACATATAGTCAAAGTTATCCATG
38036797 GCTTGTGCTGACTGA
66 GCTTGTGCTGACTGA
38036812 CTTCATAAATATCTTTGTTATAATCAAAGTGTTCATGGGAACACATATAGTCAAAGTTATCCATG
1 CTTCATAAATATCTTTGTTATAATCAAAGTGTTCATGGGAACACATATAGTCAAAGTTATCCATG
38036877 GCTTGTGCTGACTGA
66 GCTTGTGCTGACTGA
38036892 CT
1 CT
38036894 ATTTGTTTGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (80 bp):
CTTCATAAATATCTTTGTTATAATCAAAGTGTTCATGGGAACACATATAGTCAAAGTTATCCATG
GCTTGTGCTGACTGA
Found at i:38037544 original size:45 final size:45
Alignment explanation
Indices: 38037480--38037574 Score: 190
Period size: 45 Copynumber: 2.1 Consensus size: 45
38037470 CCCTAGTAGG
38037480 ATCTTCCGATCTTCTACTAACATAACGAGTCAGCAAGAACTCATT
1 ATCTTCCGATCTTCTACTAACATAACGAGTCAGCAAGAACTCATT
38037525 ATCTTCCGATCTTCTACTAACATAACGAGTCAGCAAGAACTCATT
1 ATCTTCCGATCTTCTACTAACATAACGAGTCAGCAAGAACTCATT
38037570 ATCTT
1 ATCTT
38037575 TCGACATCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (45 bp):
ATCTTCCGATCTTCTACTAACATAACGAGTCAGCAAGAACTCATT
Found at i:38040506 original size:14 final size:14
Alignment explanation
Indices: 38040489--38040515 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38040479 AAAACTGCTC
38040489 TTCCAAAATATTTT
1 TTCCAAAATATTTT
38040503 TTCCAAAATATTT
1 TTCCAAAATATTT
38040516 AGTTTTAACA
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:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (14 bp):
TTCCAAAATATTTT
Found at i:38045213 original size:25 final size:26
Alignment explanation
Indices: 38045177--38045226 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
38045167 GGTTAAGGTT
* *
38045177 TCTTTTCTTTTTTAGTTTAGGTTTTC
1 TCTTTTCTTTTTTAGATTAGATTTTC
38045203 TCTTTTC-TTTTTAGATTAGATTTT
1 TCTTTTCTTTTTTAGATTAGATTTT
38045227 AGTTTTGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.68
Consensus pattern (26 bp):
TCTTTTCTTTTTTAGATTAGATTTTC
Found at i:38053644 original size:40 final size:39
Alignment explanation
Indices: 38053599--38053791 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 39
38053589 TATAACCACA
38053599 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT
* *
38053639 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACT
* * * *
38053679 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT
* *
38053719 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACT
* *
38053759 AGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
38053792 CATTCAAATG
Statistics
Matches: 132, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
39 4 0.03
40 121 0.92
41 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCACT
Found at i:38053707 original size:80 final size:80
Alignment explanation
Indices: 38053599--38053791 Score: 341
Period size: 80 Copynumber: 2.4 Consensus size: 80
38053589 TATAACCACA
* *
38053599 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
38053664 CCGGATAAAATCACT
66 CCGGATAAAATCACT
* *
38053679 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
38053744 CCGGATAAAATCACT
66 CCGGATAAAATCACT
*
38053759 AGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
38053792 CATTCAAATG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 106 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:38056213 original size:20 final size:22
Alignment explanation
Indices: 38056190--38056231 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38056180 ATTATACTAC
*
38056190 AAAAATA-A-ATATGCATATAT
1 AAAAATATATATATACATATAT
38056210 AAAAATATATATATACATATAT
1 AAAAATATATATATACATATAT
38056232 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAATATATATATACATATAT
Found at i:38056228 original size:22 final size:20
Alignment explanation
Indices: 38056166--38056231 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 20
38056156 TAAAAATAAA
* *
38056166 ATAAAAATAATTATATTATACT
1 ATAAAAATAAATATA-CATA-T
* *
38056188 ACAAAAATAAATATGCATAT
1 ATAAAAATAAATATACATAT
38056208 ATAAAAATATATATATACATAT
1 ATAAAAATA-A-ATATACATAT
38056230 AT
1 AT
38056232 TTAAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 9 0.25
21 4 0.11
22 23 0.64
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAAAATAAATATACATAT
Found at i:38057946 original size:44 final size:44
Alignment explanation
Indices: 38057897--38058872 Score: 159
Period size: 44 Copynumber: 22.2 Consensus size: 44
38057887 TATCTTGGAA
* *
38057897 AGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGAG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * ** * * *
38057941 AGATAAGATCTACAATTTTCAAACCACTCCGCTGCTGCTCAGAG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* ** ** * * * *
38057985 AGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * *
38058029 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * * ** * *
38058073 AGATAAGATCTACAATTTTCAACCTACTCTGCTACTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* ** ** * * * *
38058117 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * *
38058161 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTACTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * ** * * *
38058205 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCA-AGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGA-G
* ** ** * * * * *
38058249 AGACAAGGCTTGGTGACTTAAATCTACTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * * *
38058293 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTACTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * * * * * * *
38058337 AGATAAGATCTACAATTTTTAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * * *
38058381 AGACAATG-CTTGGTGACTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAA-GATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * * *
38058425 AGATAAGATTTGTCGTCTTCGATCTGCTCAACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * ** * * * *
38058469 AGATAAGATCTACAATTTTCAACCCACTCCGCTACAGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * * * *
38058513 AGACAAGGCTTT-ATGGCTTAAATCTGCTTCCCCTA-T-CTTGGAA
1 AGATAA-GATTTGCCGTCTTCAATCTGC-TCCACTACTGCTTAGAG
* * *
38058556 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * ** * * * *
38058600 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* ** ** * * * *
38058644 AGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * *
38058688 AGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** * * ** * * * *
38058732 AGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
* * ** ** * * * *
38058776 AAACAAGGCTTGGTGACTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGAG
* * *
38058820 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
38058864 AGATAAGAT
1 AGATAAGAT
38058873 CTACAATTTT
Statistics
Matches: 598, Mismatches: 301, Indels: 66
0.62 0.31 0.07
Matches are distributed among these distances:
42 45 0.08
43 31 0.05
44 475 0.79
45 23 0.04
46 24 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGAG
Found at i:38057988 original size:132 final size:132
Alignment explanation
Indices: 38057847--38059450 Score: 2688
Period size: 132 Copynumber: 12.2 Consensus size: 132
38057837 CGCTGTAACT
*
38057847 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
38057912 TCTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTACAATTTTCAAACCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38057977 GC
131 GC
* *
38057979 TCAGAGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
38058044 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCTGCTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058109 GC
131 GC
*
38058111 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
38058176 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058241 GC
131 GC
* * *
38058243 TCAAGGAGACAAGGCTTGGTGACTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTGCCA
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
38058308 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTTAACCTACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058373 GC
131 GC
* *
38058375 TCAGGGAGACAATGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
38058440 TCTTCGATCTGCTCAACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTACA
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058505 GC
131 GC
** * *
38058507 TCAGGGAGACAAGGCTTTATGGCTTAAATCTGCTTCCC-CTATCTTGGAAAGATAAGATTTGCCA
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
38058571 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058636 GC
131 GC
*
38058638 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
38058703 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058768 GC
131 GC
* *
38058770 TCAGGGAAACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCA
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
38058835 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38058900 GC
131 GC
* ** *
38058902 TCAGGGAAACAATACTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * *
38058967 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCCACTCTGCTGTT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38059032 GC
131 GC
* * * * *
38059034 TCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCCCTATCTTGGAAAGGTAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
38059099 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
*
38059164 AC
131 GC
* * * *
38059166 TCAGGGAGATAAGGCTTGGTGAGTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
38059231 TCTTCGATCTGCTCTACTACTGCTTAGGCAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38059296 GC
131 GC
* * **
38059298 TCAGGGAGACAAGGCTTGGTGACTTCAATCTGCTTCCCACTATCTTGGAAAAATAAGATTTGTTG
1 TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
38059363 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGTT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
38059428 GC
131 GC
* *
38059430 TCAGGGGGACAAGGTTTGGTG
1 TCAGGGAGACAAGGCTTGGTG
38059451 TTTCACCGGT
Statistics
Matches: 1375, Mismatches: 96, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
131 123 0.09
132 1252 0.91
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCT
GC
Found at i:38071675 original size:24 final size:23
Alignment explanation
Indices: 38071648--38071712 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 23
38071638 ATACATACGT
38071648 ATATATAATAAAATAAAT-ATATAC
1 ATATA-AATAAAATAAATAAT-TAC
*
38071672 ATATAGATTATAAA-AAATAATTAC
1 ATATA-AATA-AAATAAATAATTAC
38071696 ATATAAATAAAAATAAA
1 ATATAAAT-AAAATAAA
38071713 ATAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 5 0.15
24 24 0.71
25 5 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (23 bp):
ATATAAATAAAATAAATAATTAC
Found at i:38074295 original size:20 final size:19
Alignment explanation
Indices: 38074250--38074295 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
38074240 ATCAAAATTT
*
38074250 TAAAATGTATTATATTTAT
1 TAAAATGTATTATATTTAA
*
38074269 TACAAATGTTTTATATTTAAA
1 TA-AAATGTATTATATTT-AA
38074290 TAAAAT
1 TAAAAT
38074296 TTAAAAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
TAAAATGTATTATATTTAA
Found at i:38074341 original size:18 final size:18
Alignment explanation
Indices: 38074320--38074356 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38074310 TAAATAATAT
38074320 AAAATA-TACTAATATTAA
1 AAAATATTA-TAATATTAA
38074338 AAAATATTATAATATTAA
1 AAAATATTATAATATTAA
38074356 A
1 A
38074357 TCCATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATTATAATATTAA
Found at i:38079108 original size:3 final size:3
Alignment explanation
Indices: 38079100--38079143 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
38079090 AGATCACTCA
38079100 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
38079144 TTTTACTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:38094686 original size:36 final size:36
Alignment explanation
Indices: 38094637--38094725 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
38094627 ACCAACTTCG
* *
38094637 TCCATCCCAACACACCATATGAGTATAAAGCACCCA
1 TCCATCCCTACACACCATATGAGTATAAAACACCCA
38094673 TCCATCCCTACACACCATATGAGTATAAAACACCCA
1 TCCATCCCTACACACCATATGAGTATAAAACACCCA
*
38094709 TCCATCTCTACACACCA
1 TCCATCCCTACACACCA
38094726 CTTAGTGTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.37, C:0.38, G:0.06, T:0.19
Consensus pattern (36 bp):
TCCATCCCTACACACCATATGAGTATAAAACACCCA
Found at i:38095207 original size:29 final size:29
Alignment explanation
Indices: 38095165--38095227 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
38095155 ACACGGTTCA
38095165 GCACACGGTCTGTCACATAGCCATGTGTC
1 GCACACGGTCTGTCACATAGCCATGTGTC
* * *
38095194 GCACACGGTCTGTCACATGGCCGTGTGTT
1 GCACACGGTCTGTCACATAGCCATGTGTC
38095223 GCACA
1 GCACA
38095228 TGACCTACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (29 bp):
GCACACGGTCTGTCACATAGCCATGTGTC
Found at i:38096013 original size:15 final size:15
Alignment explanation
Indices: 38095993--38096021 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38095983 TTATATATAT
38095993 TTTAAAATTAACTCA
1 TTTAAAATTAACTCA
38096008 TTTAAAATTAACTC
1 TTTAAAATTAACTC
38096022 TAAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAATTAACTCA
Found at i:38099112 original size:11 final size:11
Alignment explanation
Indices: 38099096--38099122 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38099086 ATTTGATAAA
38099096 CAATGCAAATT
1 CAATGCAAATT
38099107 CAATGCAAATT
1 CAATGCAAATT
38099118 CAATG
1 CAATG
38099123 GCTAAAAAGA
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:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (11 bp):
CAATGCAAATT
Found at i:38099833 original size:17 final size:18
Alignment explanation
Indices: 38099811--38099855 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
38099801 TTCTAATAAT
38099811 CACTTTTGGA-AAAAAAA
1 CACTTTTGGATAAAAAAA
38099828 CACTTTTGGGATTAAAAAAA
1 CACTTTT-GGA-TAAAAAAA
*
38099848 TACTTTTG
1 CACTTTTG
38099856 AGACAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 1 0.04
20 13 0.54
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (18 bp):
CACTTTTGGATAAAAAAA
Found at i:38100793 original size:38 final size:37
Alignment explanation
Indices: 38100732--38101519 Score: 587
Period size: 37 Copynumber: 21.5 Consensus size: 37
38100722 CTCATTGAAG
* * *
38100732 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTGAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGG-CAACCTTTAAAAAA
*
38100770 GGTTGTGATAGACTTGTCTAAGGCAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* ** ** *
38100805 GGTTGGGATAGCCCAGTCTAAGATAACTGTTTAAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAAC-CTTTAAAAAA
* *
38100843 -GTTGGGATAGACCTTATCTAAGGCAACATTTAAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* *
38100880 AGTTGGGATAGATCTTGTCTAAGACAACCTTTAAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* * * * *
38100918 GATTGGAATAGAATCGTCTAAGGCAACC-TT-AAATA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * * *
38100953 GGTTGGTATAGACCGTGTCTAAGGCAAACTTTAAGAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* ** * * *
38100991 GGTTGAGATAGACCAGTTTAAGGTAACCTTAAAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* **
38101028 AGTTGGGGCAGACCTTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* * * *
38101066 AGTTGGGATAGACCTGTCTAAGGCAATCTTTTAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* ** *
38101103 TGTTGGGATAGACCAGTCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* *
38101140 TGTTGGGATAGATCTTGTCTAAGGCAACCTTAAAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* * *
38101178 GGTTGGGATAAACTTGTCTAAGGCAATCTTCAAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* *
38101215 GGTTGGGATAGACTTGTCTAAAGCAA-CATT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * *
38101250 GGTTGGGATAGA-TTGATCTAAAGTAACC-TT-AAACA
1 GGTTGGGATAGACTTG-TCTAAGGCAACCTTTAAAAAA
* * *
38101285 GGTTGAGATAGACCTTGTCTAAGGCAACTTTTAGAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* * *
38101323 GGTTGGGATTGACCTGTCTAAGACAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* ** * ** * * *
38101358 TGTCAGAATAGACCCGTTTAAAGAAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* *
38101393 GGTTGGGATAGACCTTTTCCAAGGCAA-C-TTAAAGAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAA-AAA
* *** *
38101430 -GTTGGGATAAACCCATCGAAGGCAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * * *
38101464 GGTTAAGG-TAAACTCGTCTAAGGCAAAC-TT-AAAAA
1 GGTT-GGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
*
38101499 GGTTAGGATAGATCTTTGTCT
1 GGTTGGGATAGA-C-TTGTCT
38101520 CATGTCTAAT
Statistics
Matches: 603, Mismatches: 121, Indels: 53
0.78 0.16 0.07
Matches are distributed among these distances:
34 9 0.01
35 168 0.28
36 55 0.09
37 213 0.35
38 158 0.26
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
Found at i:38100913 original size:75 final size:73
Alignment explanation
Indices: 38100756--38101438 Score: 525
Period size: 75 Copynumber: 9.3 Consensus size: 73
38100746 TAGTCAAGGC
* * * * *
38100756 CAACCTTTGAAAAAGGTTGTGATAGA-CTTGTCTAAGGCAACCTT-AAAAAGGTTGGGATAGCCC
1 CAACCTTT-AAAAAAGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACT
*
38100819 AGTCTAAGA
65 TGTCTAAGA
* * * *
38100828 TAACTGTTTAAAAAAGTTGGGATAGACCTTATCTAAGGCAACATTTAAAAAAAGTTGGGATAGAT
1 CAAC-CTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAAC-TTTAAAAAAGGTTGGGATAGA-
38100893 CTTGTCTAAGA
63 CTTGTCTAAGA
* * * * * *
38100904 CAACCTTTAAAAAAGATTGGAATAGA-ATCGTCTAAGGCAACCTT-AAATAGGTTGGTATAGACC
1 CAACCTTTAAAAAAG-TTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGA-C
* *
38100967 GTGTCTAAGG
64 TTGTCTAAGA
* * * * * * * * **
38100977 CAAACTTTAAGAAAGGTTGAGATAGACC-AGTTTAAGGTAACCTTAAAAAAAAGTTGGGGCAGAC
1 CAACCTTTAA-AAAAGTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGA-
*
38101041 CTTGTCTAAGG
63 CTTGTCTAAGA
* *
38101052 CAACCTTTAAAAAAAGTTGGGATAGACC-TGTCTAAGGCAATCTTTTAAAAATGTTGGGATAGAC
1 CAACCTTT-AAAAAAGTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGAC
** *
38101116 CAGTCTAAGG
64 TTGTCTAAGA
* * * *
38101126 CAACCTTTTAAAAATGTTGGGATAGATCTTGTCTAAGGCAACCTTAAAAAAAGGTTGGGATAAAC
1 CAACC-TTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGAC
*
38101191 TTGTCTAAGG
64 TTGTCTAAGA
* * * *
38101201 CAATCTTCAAAAAAGGTTGGGATAGA-CTTGTCTAAAGCAACATT-AAAAAGGTTGGGATAGA-T
1 CAACCTTTAAAAAA-GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACT
38101263 TGATCTAA-A
65 TG-TCTAAGA
* * * * * *
38101272 GTAACC-TTAAACAGGTTGAGATAGACCTTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGAC
1 -CAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAAC-TTTAAAAAAGGTTGGGATAGAC
*
38101336 CTGTCTAAGA
64 TTGTCTAAGA
* ** * * * * * *
38101346 CAACC-TTAAAAATGTCAGAATAGACC-CGTTTAAAGAAACCTT-AAAAAGGTTGGGATAGACCT
1 CAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGA-CT
* * *
38101408 TTTCCAAGG
65 TGTCTAAGA
38101417 CAA-C-TTAAAGAAAGTTGGGATA
1 CAACCTTTAAA-AAAGTTGGGATA
38101439 AACCCATCGA
Statistics
Matches: 485, Mismatches: 103, Indels: 47
0.76 0.16 0.07
Matches are distributed among these distances:
70 31 0.06
71 42 0.09
72 53 0.11
73 107 0.22
74 64 0.13
75 165 0.34
76 23 0.05
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (73 bp):
CAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATAGACTT
GTCTAAGA
Found at i:38101113 original size:112 final size:108
Alignment explanation
Indices: 38100733--38101519 Score: 608
Period size: 112 Copynumber: 7.2 Consensus size: 108
38100723 TCATTGAAGG
* * * * *
38100733 GTTGGGAAAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGTGATAGACTTGTCTAAGGCAAC
1 GTTGGGATAGACCTTGTCTAAGG-CAA-CTTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAAC
* * ** ** *
38100797 CTT-AAAAAGGTTGGGATAGCCCAGTCTAAGATAACTGTTTAAAAAA
64 CTTAAAAAAAGTTGGGATAGACTTGTCTAAGGCAAC--CTTAAAAAA
* * * * *
38100843 GTTGGGATAGACCTTATCTAAGGCAACATTTAAAAAAAGTTGGGATAGATCTTGTCTAAGACAAC
1 GTTGGGATAGACCTTGTCTAAGGCAAC-TTTTAAAAAGGTTGGGATAGA-CCTGTCTAAGGCAAC
* * * * * *
38100908 CTTTAAAAAAGATTGGAATAGAATCGTCTAAGGCAACCTTAAATAG
64 CTTAAAAAAAG-TTGGGATAGACTTGTCTAAGGCAACCTTAAAAAA
* * * * * *
38100954 GTTGGTATAGACCGTGTCTAAGGCAAAC-TTTAAGAAAGGTTGAGATAGACCAGTTTAAGGTAAC
1 GTTGGGATAGACCTTGTCTAAGGC-AACTTTTAA-AAAGGTTGGGATAGACCTGTCTAAGGCAAC
**
38101018 CTTAAAAAAAAGTTGGGGCAGACCTTGTCTAAGGCAACCTTTAAAAAAA
64 CTT-AAAAAAAGTTGGGATAGA-CTTGTCTAAGGCAACC-TT-AAAAAA
* *
38101067 GTTGGGATAGACC-TGTCTAAGGCAATCTTTTAAAAATGTTGGGATAGACCAGTCTAAGGCAACC
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACC
* *
38101131 TTTTAAAAATGTTGGGATAGATCTTGTCTAAGGCAACCTTAAAAAAA
65 -TTAAAAAAAGTTGGGATAGA-CTTGTCTAAGGCAACCTT-AAAAAA
* ** * *
38101178 GGTTGGGATA-AACTTGTCTAAGGCAATCTTCAAAAAAGGTTGGGATAGACTTGTCTAAAGCAAC
1 -GTTGGGATAGACCTTGTCTAAGGCAA-CTTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAAC
* * * * * *
38101242 ATT-AAAAAGGTTGGGATAGA-TTGATCTAAAGTAACCTTAAACAG
64 CTTAAAAAAAGTTGGGATAGACTTG-TCTAAGGCAACCTTAAAAAA
* * *
38101286 GTTGAGATAGACCTTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACC
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTA-AAAAGGTTGGGATAGACCTGTCTAAGGCAACC
* ** * ** * * * *
38101351 TT-AAAAATGTCAGAATAGACCCGTTTAAAGAAACCTTAAAAAG
65 TTAAAAAAAGTTGGGATAGACTTGTCTAAGGCAACCTTAAAAAA
* * * * ** *
38101394 GTTGGGATAGACCTTTTCCAAGGCAAC--TTAAAGAAAGTTGGGATAAACCCATCGAAGGCAACC
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAA-AAGGTTGGGATAGACCTGTCTAAGGCAACC
* * * * * *
38101457 TT-AAAAAGGTTAAGG-TAAACTCGTCTAAGGCAAACTTAAAAAG
65 TTAAAAAAAGTT-GGGATAGACTTGTCTAAGGCAACCTTAAAAAA
* *
38101500 GTTAGGATAGATCTTTGTCT
1 GTTGGGATAGA-CCTTGTCT
38101520 CATGTCTAAT
Statistics
Matches: 553, Mismatches: 101, Indels: 49
0.79 0.14 0.07
Matches are distributed among these distances:
105 2 0.00
106 67 0.12
107 19 0.03
108 105 0.19
109 14 0.03
110 76 0.14
111 97 0.18
112 132 0.24
113 41 0.07
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (108 bp):
GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCT
TAAAAAAAGTTGGGATAGACTTGTCTAAGGCAACCTTAAAAAA
Found at i:38101824 original size:75 final size:75
Alignment explanation
Indices: 38101701--38101853 Score: 243
Period size: 75 Copynumber: 2.0 Consensus size: 75
38101691 TAGTAATTTA
* *
38101701 TATACAAAATCCTAATAGAAGGAGTCAACAAGTTGCGAACATATTGTCAACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
38101766 ATCAAAAAAT
66 ATCAAAAAAT
* * * * *
38101776 TATACAAAATCCTAATAGAAGCAGTCAACACGTTGCAAACATGTTGTCAACTTGTTTCCCATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
38101841 ATCAAAAAAT
66 ATCAAAAAAT
38101851 TAT
1 TAT
38101854 GGGACAACAG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
ATCAAAAAAT
Found at i:38106013 original size:8 final size:8
Alignment explanation
Indices: 38105989--38106051 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
38105979 ATTATTTTGA
38105989 AAATATAT
1 AAATATAT
38105997 AAA-ATAT
1 AAATATAT
38106004 AAATATAT
1 AAATATAT
*
38106012 AAAATCCTAT
1 -AAAT-ATAT
*
38106022 AACATATGCAA
1 AA-ATAT--AT
38106033 AAATATAT
1 AAATATAT
38106041 AAATATAT
1 AAATATAT
38106049 AAA
1 AAA
38106052 AGTGTCTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 7 0.16
8 19 0.42
9 7 0.16
10 9 0.20
11 3 0.07
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (8 bp):
AAATATAT
Found at i:38106123 original size:21 final size:22
Alignment explanation
Indices: 38106093--38106136 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
38106083 ATTTATAATA
* *
38106093 TATAAGTTTATAAAA-ATATAT
1 TATAAATTTAGAAAATATATAT
38106114 TATAAATTTAGAAAATATATAT
1 TATAAATTTAGAAAATATATAT
38106136 T
1 T
38106137 TCAAATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TATAAATTTAGAAAATATATAT
Found at i:38110044 original size:44 final size:44
Alignment explanation
Indices: 38109975--38110087 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
38109965 TAGTTGCTCT
* * *
38109975 CTCCTTAGTCCCTTGGGCCTTATTAACATCATACTCCATCAAAA
1 CTCCGTAGTCCTTTGGGCCTCATTAACATCATACTCCATCAAAA
*
38110019 CTCCGTAGTCCTTTGGGCCTCATTAACATCATACTCCATTAAAA
1 CTCCGTAGTCCTTTGGGCCTCATTAACATCATACTCCATCAAAA
38110063 CTCCGTAGTCCTTTGGGCCTCATTA
1 CTCCGTAGTCCTTTGGGCCTCATTA
38110088 TTCTAAAACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (44 bp):
CTCCGTAGTCCTTTGGGCCTCATTAACATCATACTCCATCAAAA
Found at i:38111792 original size:43 final size:43
Alignment explanation
Indices: 38111715--38112083 Score: 312
Period size: 43 Copynumber: 8.6 Consensus size: 43
38111705 AGCTCGTACA
* * *
38111715 ATGCC-ATATCCCAGACAGGGTCTTATACGA-AATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTATAC-ATAATCACATAATG
* *
38111757 ATGCCAATGTCCCAGACATGGAT-GTAAACATAATCACAGTACA--
1 ATGCCAATGTCCCAGACATGG-TCTTATACATAATCACA-TA-ATG
* ** *
38111800 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACATAATCACATAAT-G
* * *
38111843 ATGCCACTGTCCCAGACAGGGTCTTATACGA-AATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTATAC-ATAATCACATAATG
* * *
38111886 ATGCCAATGTCCTAGACATGGTCTTATACGTAATTACAATACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACATAATCAC-ATA-ATG
* ** *
38111929 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACATAATCACATAAT-G
* * * * *
38111972 ATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTATACATAATCACATAATG
* *
38112015 ATGCCAATGTCCCAGACATGGTCTTATACGTAATTACAATACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACATAATCAC-ATA-ATG
*
38112058 ATGCCAATGTCCTAGACATGGTCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
38112084 CATGTTATCA
Statistics
Matches: 263, Mismatches: 44, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
40 2 0.01
42 10 0.04
43 236 0.90
44 12 0.05
45 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTATACATAATCACATAATG
Found at i:38111813 original size:86 final size:85
Alignment explanation
Indices: 38111711--38112083 Score: 357
Period size: 86 Copynumber: 4.4 Consensus size: 85
38111701 TAATAGCTCG
* *
38111711 TACAATGCC-ATATCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACA
1 TACAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACA
* *
38111775 TGGAT-GTAAACATAATCACA
66 TGG-TCTTATACATAATCACA
* * ** * *
38111795 GTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-ATCGATGCCACTGTCCCAGA
1 -TACAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAAT-GATGCCAATGTCCCAGA
* *
38111859 CAGGGTCTTATACGA-AATCATA
64 CATGGTCTTATAC-ATAATCACA
* *
38111881 TA-ATGATGCCAATGTCCTAGACATGGTCTTATACGTAATTACA-ATACA--ATGCCAATGTCCC
1 TACA--ATGCCAATGTCCCAGACATGGTCTTATACG-AAAT-CATATA-ATGATGCCAATGTCCC
* ** *
38111942 AGACATGGTCTTACATGTTATCACA
61 AGACATGGTCTTATACATAATCACA
* * * * *
38111967 TATCGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACGATGCCAATGTCCCAGAC
1 TA-CAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGAC
* *
38112032 ATGGTCTTATACGTAATTACAA
65 ATGGTCTTATACATAATCAC-A
*
38112054 TACAATGCCAATGTCCTAGACATGGTCTTA
1 TACAATGCCAATGTCCCAGACATGGTCTTA
38112084 CATGTTATCA
Statistics
Matches: 232, Mismatches: 39, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
84 4 0.02
85 20 0.09
86 198 0.85
87 7 0.03
88 2 0.01
89 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (85 bp):
TACAATGCCAATGTCCCAGACATGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACA
TGGTCTTATACATAATCACA
Found at i:38111953 original size:129 final size:129
Alignment explanation
Indices: 38111715--38112099 Score: 657
Period size: 129 Copynumber: 3.0 Consensus size: 129
38111705 AGCTCGTACA
*
38111715 ATGCCA-TATCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGA
1 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGG-
* * * * *
38111779 T-GTAAACATAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
65 TCTTATACGTAATTACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
*
38111843 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCTAGACATGGT
1 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGT
38111908 CTTATACGTAATTACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
66 CTTATACGTAATTACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
* *
38111972 ATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACGATGCCAATGTCCCAGACATGGT
1 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGT
*
38112037 CTTATACGTAATTACAATACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATC
66 CTTATACGTAATTACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATC
38112100 AGTAACCCTA
Statistics
Matches: 244, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 7 0.03
129 237 0.97
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (129 bp):
ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGT
CTTATACGTAATTACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
Found at i:38115729 original size:43 final size:42
Alignment explanation
Indices: 38115680--38116020 Score: 328
Period size: 43 Copynumber: 8.0 Consensus size: 42
38115670 TCATATAATG
*
38115680 ATGCCAATGTCCCAGACATGGACTTA-AGCGTAATCACAGTACA
1 ATGCCAATGTCCCAGACATGGTCTTATA-CGTAATCACA-TACA
* * * * *
38115723 ATGCCAATGCCCCAGACATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA-CA
* * * *
38115766 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATA-A
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATACA
* *
38115807 TGATGTCAATGTCCTAGACATGGTCTTATACGTAATCACAATACA
1 --ATGCCAATGTCCCAGACATGGTCTTATACGTAATCAC-ATACA
* * *
38115852 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA-CA
* ** * *
38115895 ATGCCACTGTCCCAGACA-GGTTCTTATACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATGG-TCTTATACGTAATCACAT-ACA
* * *
38115938 GTGCCAATGTCCCAGACATGGTTTTATACATAATCACAGTACA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TACA
* * * *
38115981 ATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA
38116021 TCGATAACCC
Statistics
Matches: 241, Mismatches: 46, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
42 9 0.04
43 223 0.93
44 8 0.03
45 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATACA
Found at i:38115884 original size:129 final size:129
Alignment explanation
Indices: 38115654--38116025 Score: 593
Period size: 129 Copynumber: 2.9 Consensus size: 129
38115644 AGGGTCTTAT
* * *
38115654 AGGGTGTTACACGAAATCATATAATGATGCCAATGTCCCAGACATGGACTTA-AGCGTAATCACA
1 AGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGTCTTATA-CGTAATCACA
*
38115718 GTACAATGCCAATGCCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
65 GTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
* * *
38115783 AGGGTCTTATACGAAATCATATAATGATGTCAATGTCCTAGACATGGTCTTATACGTAATCACAA
1 AGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAG
*
38115848 TACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCAATGCCACTGTCCCAGAC
66 TACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
* * * * * *
38115912 AGGTTCTTATACAAAATCATATAACGGTGCCAATGTCCCAGACATGGTTTTATACATAATCACAG
1 AGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAG
*
38115977 TACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCGAT
66 TACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCGAT
38116026 AACCCTAATG
Statistics
Matches: 223, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 222 1.00
130 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (129 bp):
AGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAG
TACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
Found at i:38119427 original size:22 final size:21
Alignment explanation
Indices: 38119387--38119427 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38119377 AAAATTAAAA
*
38119387 TTCAAAAAATTATACAAATAG
1 TTCAAAAAATTATAAAAATAG
*
38119408 TTCATAAAAATTTTAAAAAT
1 TTCA-AAAAATTATAAAAAT
38119428 TAATAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
TTCAAAAAATTATAAAAATAG
Found at i:38119518 original size:39 final size:39
Alignment explanation
Indices: 38119464--38119543 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
38119454 TGTTTAAATT
38119464 TTTCACATTTTCATTAGTTTTTCATTAAAATAATAATGA
1 TTTCACATTTTCATTAGTTTTTCATTAAAATAATAATGA
38119503 TTTCACATTTTCATTAGTTTTTCATTAAAATAATAATGA
1 TTTCACATTTTCATTAGTTTTTCATTAAAATAATAATGA
38119542 TT
1 TT
38119544 AAGAATTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (39 bp):
TTTCACATTTTCATTAGTTTTTCATTAAAATAATAATGA
Found at i:38119629 original size:10 final size:10
Alignment explanation
Indices: 38119614--38119638 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38119604 ATCTTCAAGT
38119614 AAATACACAG
1 AAATACACAG
38119624 AAATACACAG
1 AAATACACAG
38119634 AAATA
1 AAATA
38119639 ATTGGATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (10 bp):
AAATACACAG
Found at i:38120633 original size:126 final size:127
Alignment explanation
Indices: 38120408--38121336 Score: 674
Period size: 141 Copynumber: 6.9 Consensus size: 127
38120398 AGACATACTA
* *
38120408 TTGGACAAAGCC-AACTCTTATTTAAGTATTGCCTTAGGCATGCATATACCAACCCTTATACAAA
1 TTGGACAAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* *
38120472 GAGTTGGCCAAAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
66 GAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
* *
38120534 TTGGACAAAGCCGAA-TCTTATTGAAGCATTGCCTTAGGCATGCATATCCCAACCCTTACACAAA
1 TTGGACAAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * *
38120598 GAGTTGACCAAAGTGTATGTTGGCAAGTATATCCCAACACTTAGGAAAGTGTCAGCCCAAAAGTG
66 GAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAA--GT----------GT-
*
38120663 TAGGCACAGTG
118 T-GGCATAGTG
* * *
38120674 TTGGACAAAGTCGAA-TCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAA
1 TTGGACAAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * * ** *** *
38120738 AAGTTGACCAAAACGTATG-TCAGCAAGTCTA-CCCAACACTTAGGAAAAAGTCATCTTAG-G
66 GAGTTGACCAAAGCGTATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
* * *
38120798 ACTGGACAAAG-CGAACTCTTATTTAAGCGTTGCCTTAGGCATGCATACCCCAACCCTTATACAA
1 -TTGGACAAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAA
* * * * * * * *
38120862 AGAGTTGGCCAGAGCGTATATTGACAAGTCTATCTCAACACTTAGGAAGGTGTCGCCCCAAAAAT
65 AGAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG--GC--ATA-
38120927 GTCG
125 GT-G
* *
38120931 TCTTAGGACTACATAAAAGCC-AACTCTTATTTAAGCGTTGTCTTAGGCATGCATA-CCTCAACC
1 --TT-GG---AC---AAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCC-CAACC
* * * * ** * * * *
38120994 TTTATGCAAAAATTTGGTCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGAAAAGTGTCGC
56 CTTATACAAAGAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG-
* *
38121059 CCCAAAAGTG
120 -GC-ATAGTG
** *
38121069 TCATCTTAGGACTACACAAAAGCC-AACTCTTATTTAAGTGTTGCCTTAGGCATACATATCCCAA
1 -----TT-GG-----AC-AAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAA
**
38121133 CCCTTATACAAAGAGTTGACCAAAGCGTATGTTGGTAAGTCTATCCCAACACTTAGGAAAGTGTC
54 CCCTTATACAAAGAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT-
*** *
38121198 ACCCCAAAAGTGTCG
118 -TGGC-ATA--GT-G
* * * *
38121213 TCTTAGGACTAGACAGAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTA
1 --TT-GGAC-A-A-AG-CCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTT
**
38121278 ATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TCTATCCCAACACTTAGGAAAGTGT
59 ATACAAAGAGTTGACCAAAGCGTATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGT
38121337 AGCCCCAAAA
Statistics
Matches: 665, Mismatches: 85, Indels: 92
0.79 0.10 0.11
Matches are distributed among these distances:
124 5 0.01
125 81 0.12
126 119 0.18
127 4 0.01
128 3 0.00
130 1 0.00
131 1 0.00
133 1 0.00
134 1 0.00
135 2 0.00
136 3 0.00
137 1 0.00
138 7 0.01
139 21 0.03
140 190 0.29
141 216 0.32
142 3 0.00
143 5 0.01
144 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (127 bp):
TTGGACAAAGCCGAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
GAGTTGACCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
Found at i:38121021 original size:141 final size:140
Alignment explanation
Indices: 38120787--38121363 Score: 798
Period size: 141 Copynumber: 4.1 Consensus size: 140
38120777 TTAGGAAAAA
** * * *
38120787 GTCATCTTAGGACTGGACAAAGCGAACTCTTATTTAAGCGTTGCCTTAGGCATGCATACCCCAAC
1 GTCATCTTAGGACTACAAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * * *
38120852 CCTTATACAAAGAGTTGGCCAGAGCGTATATTGACAAGTCTATCTCAACACTTAGGAAGGTGTCG
66 CCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCG
*
38120917 CCCCAAAAAT
131 CCCCAAAAGT
* *
38120927 GTCGTCTTAGGACTACATAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATA-CCTCA
1 GTCATCTTAGGACTACA-AAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCC-CA
* * * * * * * *
38120991 ACCTTTATGCAAAAATTTGGTCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGAAAAGTGT
64 ACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT
38121056 CGCCCCAAAAGT
129 CGCCCCAAAAGT
* *
38121068 GTCATCTTAGGACTACACAAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATACATATCCCAA
1 GTCATCTTAGGACTACA-AAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAA
* **
38121133 CCCTTATACAAAGAGTTGACCAAAGCGTATGTTGGTAAGTCTATCCCAACACTTAGGAAAGTGTC
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTC
*
38121198 ACCCCAAAAGT
130 GCCCCAAAAGT
* * * * *
38121209 GTCGTCTTAGGACTAGACAGAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
1 GTCATCTTAGGACTACAAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
* * *
38121274 CCTAATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TCTATCCCAACACTTAGGAAAGTGTA
66 CCTTATACAAAGAGTTGGCCAAAGCGTATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGTC
38121338 GCCCCAAAAGT
130 GCCCCAAAAGT
38121349 GTCATCTTAGGACTA
1 GTCATCTTAGGACTA
38121364 TTTTGTTGTA
Statistics
Matches: 384, Mismatches: 49, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
140 138 0.36
141 244 0.64
142 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (140 bp):
GTCATCTTAGGACTACAAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCG
CCCCAAAAGT
Found at i:38124121 original size:49 final size:49
Alignment explanation
Indices: 38124043--38124139 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
38124033 TTATGCTATG
* *
38124043 CATTTCTAAACTTGGTCTTCCATTATCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTATA
*
38124092 CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTAT
38124140 CCCTTCTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.26, C:0.25, G:0.05, T:0.44
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTATA
Found at i:38125455 original size:43 final size:43
Alignment explanation
Indices: 38125403--38125488 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
38125393 TCATATCTCA
38125403 TTTCTCATCTCATAATCATTTCTCAT-ATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATCA-TTGCCATTTCAATAT
* *
38125446 TTTCTCATCTCATATTCATTTCTCATCATTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATCATTGCCATTTCAATAT
38125489 CAATCACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATCATTGCCATTTCAATAT
Found at i:38128069 original size:11 final size:11
Alignment explanation
Indices: 38128050--38128079 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38128040 TATCATCTTT
*
38128050 AATTTTCTCAA
1 AATTCTCTCAA
38128061 AATTCTCTCAA
1 AATTCTCTCAA
38128072 AATTCTCT
1 AATTCTCT
38128080 AGAAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (11 bp):
AATTCTCTCAA
Found at i:38128885 original size:20 final size:20
Alignment explanation
Indices: 38128847--38128888 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
38128837 AATTGAGGTT
* * *
38128847 TTGAATTGTGTTTCTAATGA
1 TTGAATTGTATCTCAAATGA
38128867 TTGAATTGTATCTCAAATGA
1 TTGAATTGTATCTCAAATGA
38128887 TT
1 TT
38128889 TAGATTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (20 bp):
TTGAATTGTATCTCAAATGA
Found at i:38138969 original size:3 final size:3
Alignment explanation
Indices: 38138961--38138998 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
38138951 CTTTCTTTCT
38138961 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38138999 TAATTTCAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:38149145 original size:68 final size:69
Alignment explanation
Indices: 38149031--38149158 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 69
38149021 GCAAAAGTAA
38149031 TAGTTTTTGATCTATCAATCTATAGAAAGATAAGTCAAATGCTAGTGTG-AAACAACTCTGGTGT
1 TAGTTTTTGATCTATCAATCTATAGAAAGATAAGTCAAATGCTAGTGTGTAAACAACTCTGGTGT
38149095 TGTT
66 TGTT
* * * * *
38149099 TAGTTTTTGATGC-ATCAGTCTATCGATAGATAAGTCAAATGGTAGTGTGTGAACAACTCT
1 TAGTTTTTGAT-CTATCAATCTATAGAAAGATAAGTCAAATGCTAGTGTGTAAACAACTCT
38149159 ATTGTTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
68 43 0.81
69 10 0.19
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (69 bp):
TAGTTTTTGATCTATCAATCTATAGAAAGATAAGTCAAATGCTAGTGTGTAAACAACTCTGGTGT
TGTT
Found at i:38152726 original size:50 final size:50
Alignment explanation
Indices: 38152619--38152865 Score: 250
Period size: 50 Copynumber: 4.8 Consensus size: 50
38152609 ATTTGGGTAA
*
38152619 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* *
38152675 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
38152725 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
38152775 AGA-ACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACA-G
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
38152823 AAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38152866 TGTTATTATC
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
48 2 0.01
49 37 0.22
50 83 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 40 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:38159995 original size:21 final size:21
Alignment explanation
Indices: 38159969--38160022 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
38159959 AGAGGATCAA
38159969 GAAGAAGAGGCAGAAGACCCC
1 GAAGAAGAGGCAGAAGACCCC
* **
38159990 GAAGAAGTA-GAAGAAGACCTG
1 GAAGAAG-AGGCAGAAGACCCC
*
38160011 GAAGAAAAGGCA
1 GAAGAAGAGGCA
38160023 TATACGACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.48, C:0.15, G:0.33, T:0.04
Consensus pattern (21 bp):
GAAGAAGAGGCAGAAGACCCC
Found at i:38167229 original size:18 final size:18
Alignment explanation
Indices: 38167206--38167240 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38167196 AGGAGAATGT
*
38167206 AAGTGAGGACGAGGAAGG
1 AAGTGAAGACGAGGAAGG
*
38167224 AAGTGAAGAGGAGGAAG
1 AAGTGAAGACGAGGAAG
38167241 AAGCTACAGA
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:0.43, C:0.03, G:0.49, T:0.06
Consensus pattern (18 bp):
AAGTGAAGACGAGGAAGG
Found at i:38168666 original size:21 final size:21
Alignment explanation
Indices: 38168631--38168683 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
38168621 AACAAATTGG
*
38168631 TACCAAATACCATACCATTTCA
1 TACC-AATTCCATACCATTTCA
*
38168653 TACCAATTCCATACCATTTCG
1 TACCAATTCCATACCATTTCA
38168674 TACCAATTCC
1 TACCAATTCC
38168684 CAAATACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCAATTCCATACCATTTCA
Found at i:38177144 original size:796 final size:796
Alignment explanation
Indices: 38175612--38177208 Score: 3167
Period size: 796 Copynumber: 2.0 Consensus size: 796
38175602 CACGATGGAG
38175612 CATACACCGAATTGCTGAGTGTGACACCCCTAACCTGTATCTGGCACCGAAACAGGGTTACAGAG
1 CATACACCGAATTGCTGAGTGTGACACCCCTAACCTGTATCTGGCACCGAAACAGGGTTACAGAG
38175677 CATTACCGAATAAATAGAACAGTAAACCAAACAATTCATACCTCAATATAATACTTATTCTAATT
66 CATTACCGAATAAATAGAACAGTAAACCAAACAATTCATACCTCAATATAATACTTATTCTAATT
38175742 TCATTCAAACACATTCATAATGTCCCTTAATCGAGCCCTCGAGGCCCTAAAAATACTATAGAAAC
131 TCATTCAAACACATTCATAATGTCCCTTAATCGAGCCCTCGAGGCCCTAAAAATACTATAGAAAC
38175807 AGTTCGAGACTAAATTACAAATATTTGGAAAATTTAGGAAAAACTTGAAAATTTTGAACTACAAG
196 AGTTCGAGACTAAATTACAAATATTTGGAAAATTTAGGAAAAACTTGAAAATTTTGAACTACAAG
38175872 GGTCATACGGCCGAGACGCACGCCCATGTCTCAAGCCGTGCGGACATTCGAAATAGGGACACATG
261 GGTCATACGGCCGAGACGCACGCCCATGTCTCAAGCCGTGCGGACATTCGAAATAGGGACACATG
38175937 ATCGTGTCCCAGCCCATGTAACTCACTGACATGGGTCACACGGCCAAGCCCCACTCCCGTGTGCC
326 ATCGTGTCCCAGCCCATGTAACTCACTGACATGGGTCACACGGCCAAGCCCCACTCCCGTGTGCC
38176002 AGGTCGTGTAACTGCCTGACTTGCATGCCTTTAACCTACAAGGGACAAACGGCTGTGTCGCATGG
391 AGGTCGTGTAACTGCCTGACTTGCATGCCTTTAACCTACAAGGGACAAACGGCTGTGTCGCATGG
38176067 TCATGTGTCACACATGGCTGGGACACGCGCCCATGTCTCAGGCCGTGTGGACCCAAAATAAACTT
456 TCATGTGTCACACATGGCTGGGACACGCGCCCATGTCTCAGGCCGTGTGGACCCAAAATAAACTT
38176132 TAGAAAACAAGTTTACCATTTCAAGTTTGCTTGGACCTTAAGAAACTCAAATACCAACCAAAATG
521 TAGAAAACAAGTTTACCATTTCAAGTTTGCTTGGACCTTAAGAAACTCAAATACCAACCAAAATG
38176197 CCAATTCAAAATGACATTAATCGAGCCAAAAACACACCAAAACCAACCTAATAAGTGTCTAACCA
586 CCAATTCAAAATGACATTAATCGAGCCAAAAACACACCAAAACCAACCTAATAAGTGTCTAACCA
*
38176262 ATGTACCGTCATTGGTACCATAAGTATATATAATTATACATCAAAATAAACATCAATTCAATTTA
651 ATGTACCGTCATTGGTACCATAAGTATATATAATTATACATCAAAATAAACATCAATTCAATTCA
*
38176327 TCAATTCATTCAAGCAATACCTAACCAAAATATCTATCAAATGTACCACAATCACAACATTTCCT
716 TCAATTCATTCAAGCAATACCTAACCAAAATACCTATCAAATGTACCACAATCACAACATTTCCT
38176392 TAATATATATACCTTT
781 TAATATATATACCTTT
38176408 CATACACCGAATTGCTGAGTGTGACACCCCTAACCTGTATCTGGCACCGAAACAGGGTTACAGAG
1 CATACACCGAATTGCTGAGTGTGACACCCCTAACCTGTATCTGGCACCGAAACAGGGTTACAGAG
38176473 CATTACCGAATAAATAGAACAGTAAACCAAACAATTCATACCTCAATATAATACTTATTCTAATT
66 CATTACCGAATAAATAGAACAGTAAACCAAACAATTCATACCTCAATATAATACTTATTCTAATT
38176538 TCATTCAAACACATTCATAATGTCCCTTAATCGAGCCCTCGAGGCCCTAAAAATACTATAGAAAC
131 TCATTCAAACACATTCATAATGTCCCTTAATCGAGCCCTCGAGGCCCTAAAAATACTATAGAAAC
38176603 AGTTCGAGACTAAATTACAAATATTTGGAAAATTTAGGAAAAACTTGAAAATTTTGAACTACAAG
196 AGTTCGAGACTAAATTACAAATATTTGGAAAATTTAGGAAAAACTTGAAAATTTTGAACTACAAG
*
38176668 GGTCATACGGCCTAGACGCACGCCCATGTCTCAAGCCGTGCGGACATTCGAAATAGGGACACATG
261 GGTCATACGGCCGAGACGCACGCCCATGTCTCAAGCCGTGCGGACATTCGAAATAGGGACACATG
38176733 ATCGTGTCCCAGCCCATGTAACTCACTGACATGGGTCACACGGCCAAGCCCCACTCCCGTGTGCC
326 ATCGTGTCCCAGCCCATGTAACTCACTGACATGGGTCACACGGCCAAGCCCCACTCCCGTGTGCC
38176798 AGGTCGTGTAACTGCCTGACTTGCATGCCTTTAACCTACAAGGGACAAACGGCTGTGTCGCATGG
391 AGGTCGTGTAACTGCCTGACTTGCATGCCTTTAACCTACAAGGGACAAACGGCTGTGTCGCATGG
38176863 TCATGTGTCACACATGGCTGGGACACGCGCCCATGTCTCAGGCCGTGTGGACCCAAAATAAACTT
456 TCATGTGTCACACATGGCTGGGACACGCGCCCATGTCTCAGGCCGTGTGGACCCAAAATAAACTT
38176928 TAGAAAACAAGTTTACCATTTCAAGTTTGCTTGGACCTTAAGAAACTCAAATACCAACCAAAATG
521 TAGAAAACAAGTTTACCATTTCAAGTTTGCTTGGACCTTAAGAAACTCAAATACCAACCAAAATG
38176993 CCAATTCAAAATGACATTAATCGAGCCAAAAACACACCAAAACCAACCTAATAAGTGTCTAACCA
586 CCAATTCAAAATGACATTAATCGAGCCAAAAACACACCAAAACCAACCTAATAAGTGTCTAACCA
38177058 ATGTACCGTCATTGGTACCATAAGTATATATAATTATACATCAAAATAAACATCAATTCAATTCA
651 ATGTACCGTCATTGGTACCATAAGTATATATAATTATACATCAAAATAAACATCAATTCAATTCA
38177123 TCAATTCATTCAAGCAATACCTAACCAAAATACCTATCAAATGTACCACAATCACAACATTTCCT
716 TCAATTCATTCAAGCAATACCTAACCAAAATACCTATCAAATGTACCACAATCACAACATTTCCT
38177188 TAATATATATACCTTT
781 TAATATATATACCTTT
38177204 CATAC
1 CATAC
38177209 TAGCATAAAA
Statistics
Matches: 798, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
796 798 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (796 bp):
CATACACCGAATTGCTGAGTGTGACACCCCTAACCTGTATCTGGCACCGAAACAGGGTTACAGAG
CATTACCGAATAAATAGAACAGTAAACCAAACAATTCATACCTCAATATAATACTTATTCTAATT
TCATTCAAACACATTCATAATGTCCCTTAATCGAGCCCTCGAGGCCCTAAAAATACTATAGAAAC
AGTTCGAGACTAAATTACAAATATTTGGAAAATTTAGGAAAAACTTGAAAATTTTGAACTACAAG
GGTCATACGGCCGAGACGCACGCCCATGTCTCAAGCCGTGCGGACATTCGAAATAGGGACACATG
ATCGTGTCCCAGCCCATGTAACTCACTGACATGGGTCACACGGCCAAGCCCCACTCCCGTGTGCC
AGGTCGTGTAACTGCCTGACTTGCATGCCTTTAACCTACAAGGGACAAACGGCTGTGTCGCATGG
TCATGTGTCACACATGGCTGGGACACGCGCCCATGTCTCAGGCCGTGTGGACCCAAAATAAACTT
TAGAAAACAAGTTTACCATTTCAAGTTTGCTTGGACCTTAAGAAACTCAAATACCAACCAAAATG
CCAATTCAAAATGACATTAATCGAGCCAAAAACACACCAAAACCAACCTAATAAGTGTCTAACCA
ATGTACCGTCATTGGTACCATAAGTATATATAATTATACATCAAAATAAACATCAATTCAATTCA
TCAATTCATTCAAGCAATACCTAACCAAAATACCTATCAAATGTACCACAATCACAACATTTCCT
TAATATATATACCTTT
Found at i:38180123 original size:18 final size:18
Alignment explanation
Indices: 38180092--38180154 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
38180082 GAAATAGAAC
* *
38180092 TCCAGATCACAACAAAAA
1 TCCATATCAGAACAAAAA
* * *
38180110 TCCATATTAGAACAGAAT
1 TCCATATCAGAACAAAAA
*
38180128 TCCATATCAGAACAAAAC
1 TCCATATCAGAACAAAAA
*
38180146 TCCACATCA
1 TCCATATCA
38180155 CAATTAAAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.19
Consensus pattern (18 bp):
TCCATATCAGAACAAAAA
Found at i:38182551 original size:20 final size:20
Alignment explanation
Indices: 38182520--38182566 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
38182510 TTTATTACAA
*
38182520 TTTTATTAAT-TTTTATG-T
1 TTTTATAAATATTTTATGAT
38182538 TTTTATAAATATTTTATGATT
1 TTTTATAAATATTTTATGA-T
38182559 TTTTATAA
1 TTTTATAA
38182567 CCACGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
21 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAAATATTTTATGAT
Found at i:38183769 original size:21 final size:22
Alignment explanation
Indices: 38183727--38183772 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
38183717 TTGAAAAATT
38183727 AATGACAAAATTAAATTAAAAA
1 AATGACAAAATTAAATTAAAAA
* *
38183749 AATGACCAAATTAATTTAAAAA
1 AATGACAAAATTAAATTAAAAA
38183771 AA
1 AA
38183773 AAGAACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (22 bp):
AATGACAAAATTAAATTAAAAA
Found at i:38186985 original size:3 final size:3
Alignment explanation
Indices: 38186977--38187016 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
38186967 GCATCTTCAC
38186977 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
38187017 CTTTAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38188817 original size:13 final size:13
Alignment explanation
Indices: 38188796--38188849 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
38188786 TACAGAGCAT
*
38188796 TAACGTAAAAACG
1 TAACATAAAAACG
*
38188809 TAACATAAAAACATAT
1 TAACATAAAAAC---G
*
38188825 TAACGTAAAAACG
1 TAACATAAAAACG
38188838 TAACATAAAAAC
1 TAACATAAAAAC
38188850 ATACATTTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 22 0.67
16 11 0.33
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (13 bp):
TAACATAAAAACG
Found at i:38188836 original size:29 final size:29
Alignment explanation
Indices: 38188794--38188852 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
38188784 GTTACAGAGC
38188794 ATTAACGTAAAAACGTAACATAAAAACAT
1 ATTAACGTAAAAACGTAACATAAAAACAT
38188823 ATTAACGTAAAAACGTAACATAAAAACAT
1 ATTAACGTAAAAACGTAACATAAAAACAT
38188852 A
1 A
38188853 CATTTCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (29 bp):
ATTAACGTAAAAACGTAACATAAAAACAT
Found at i:38201790 original size:17 final size:18
Alignment explanation
Indices: 38201765--38201798 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38201755 ATAAAAAATT
38201765 AAAGAAGGAGG-AGAAAA
1 AAAGAAGGAGGAAGAAAA
*
38201782 AAAGGAGGAGGAAGAAA
1 AAAGAAGGAGGAAGAAA
38201799 CATCGTACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AAAGAAGGAGGAAGAAAA
Found at i:38201928 original size:17 final size:17
Alignment explanation
Indices: 38201906--38201938 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38201896 ATAAGTACAC
38201906 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
38201923 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
38201939 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:38215563 original size:47 final size:47
Alignment explanation
Indices: 38215500--38215841 Score: 514
Period size: 47 Copynumber: 7.3 Consensus size: 47
38215490 TGAATGTATA
38215500 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
38215547 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38215594 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT----GTA
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
38215639 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38215686 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38215733 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
38215780 TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38215827 TATAAATGTGATAAG
1 TATATATGTGATAAG
38215842 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
43 40 0.15
45 2 0.01
46 2 0.01
47 186 0.69
48 2 0.01
49 38 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38215629 original size:22 final size:22
Alignment explanation
Indices: 38215601--38215672 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
38215591 GTGTATATAT
38215601 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ** **
38215623 ATGTGATGAATGTGTATAT---AT
1 ATGTGAT-AAGGCCTA-ATGGCCG
38215644 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
38215666 ATGTGAT
1 ATGTGAT
38215673 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 7 0.20
22 14 0.40
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.31
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:38215650 original size:139 final size:137
Alignment explanation
Indices: 38215490--38215841 Score: 517
Period size: 139 Copynumber: 2.5 Consensus size: 137
38215480 AATTGTGATG
*
38215490 TGAATGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
38215555 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
66 TGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
38215620 CCGATGTGA
129 CCGATGTGA
38215629 TGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * *
38215694 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCC
66 TGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
38215759 GATGTGA
131 GATGTGA
* * * * * * *
38215766 TGAATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 TGAATGT----GTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
38215830 AAATGTGATAAG
61 ATATGTGATAAG
38215842 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
137 39 0.20
139 100 0.51
140 2 0.01
141 54 0.28
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (137 bp):
TGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGATAAGGCCGAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGA
Found at i:38232498 original size:50 final size:51
Alignment explanation
Indices: 38232393--38232499 Score: 164
Period size: 50 Copynumber: 2.1 Consensus size: 51
38232383 TTATTGAGGT
* * *
38232393 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
*
38232444 -ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCG-G
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
38232493 TATGAGA
1 TATGAGA
38232500 ACTCCCATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
49 1 0.02
50 50 0.98
ACGTcount: A:0.24, C:0.22, G:0.34, T:0.20
Consensus pattern (51 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:38239874 original size:50 final size:50
Alignment explanation
Indices: 38239769--38239901 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 50
38239759 TTATTAAGGT
* * * *
38239769 TATGAAAGGTCCCACGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGATGGCACCAA
*
38239819 GATGAGAGGTTCCC-CGTAAGACCATGTCTGGGACATGGC-ATGGTCACCAA
1 TATGAGAGG-TCCCACGTAAGACCATGTCTGGGACATGGCGATGG-CACCAA
** * *
38239869 TATGAGAACTCCCATGTAAGACCATATCTGGGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGA
38239902 TATGACATTG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 7 0.10
50 59 0.84
51 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGATGGCACCAA
Found at i:38240190 original size:20 final size:20
Alignment explanation
Indices: 38240165--38240203 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38240155 TGATTTACTT
38240165 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
38240185 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
38240204 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:38246438 original size:44 final size:43
Alignment explanation
Indices: 38246378--38246462 Score: 161
Period size: 44 Copynumber: 2.0 Consensus size: 43
38246368 CACCTTTAAA
38246378 AAACTGCCAATCGTTCTCTTTTTTTATTCCTCCTCTTTTTTTTT
1 AAACTGCCAATCGTTCTCTTTTTTTATTCCTCCT-TTTTTTTTT
38246422 AAACTGCCAATCGTTCTCTTTTTTTATTCCTCCTTTTTTTT
1 AAACTGCCAATCGTTCTCTTTTTTTATTCCTCCTTTTTTTT
38246463 CTTTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 7 0.17
44 34 0.83
ACGTcount: A:0.14, C:0.25, G:0.05, T:0.56
Consensus pattern (43 bp):
AAACTGCCAATCGTTCTCTTTTTTTATTCCTCCTTTTTTTTTT
Found at i:38246600 original size:22 final size:21
Alignment explanation
Indices: 38246565--38246622 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
38246555 AAAGGGTATC
* *
38246565 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
38246586 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
38246609 TGCATATCATATCT
1 TACAAATCATATCT
38246623 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:38247395 original size:132 final size:132
Alignment explanation
Indices: 38247170--38247929 Score: 1240
Period size: 132 Copynumber: 5.8 Consensus size: 132
38247160 TAGGATTTTC
* * * *
38247170 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGATTCAATGTACTCCGCTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
38247235 AACCACAGGGAGGTAAAATCGGCTATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
38247300 GA
131 GA
* * *
38247302 AATTTTTAATCTATCCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
38247367 AACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
38247432 GA
131 GA
*
38247434 AATCTTCAATCTATTACACTGTTG-CCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
* * * *
38247498 TAACCACAGGGAGGTAAAATCTGCCATCTTGGATCTGCTCCGTTACTGCTTAG-GGGATAAGATC
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATC
38247562 TGA
130 TGA
* * *
38247565 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGATTCAATGTACTTCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
** * *
38247630 AACCACAGGGAGGTAAAATCCGCCAT-TTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
38247694 GA
131 GA
*
38247696 AATCTTCAATCTATTCCACTGTTGTCCAGGTAAGTAGAATTACT-GCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
38247760 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATTT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
*
38247825 GC
131 GA
38247827 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
38247892 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
38247930 TCACTGTTGG
Statistics
Matches: 584, Mismatches: 39, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
130 65 0.11
131 231 0.40
132 288 0.49
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
GA
Found at i:38247833 original size:262 final size:263
Alignment explanation
Indices: 38247170--38247934 Score: 1257
Period size: 262 Copynumber: 2.9 Consensus size: 263
38247160 TAGGATTTTC
* * *
38247170 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGATTCAATGTACTCCGCTGT
1 AATCTTCAATCTATTCCACTGTTG-CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
38247235 AACCACAGGGAGGTAAAATCGGCTATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
* * *
38247300 GAAATTTTTAATCTATCCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
130 GAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
* * *
38247365 GTAACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGAT
195 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
38247430 CTGA
260 CTGA
*
38247434 AATCTTCAATCTATTACACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
38247499 AACCACAGGGAGGTAAAATCTGCCATCTTGGATCTGCTCCGTTACTGCTTAG-GGGATAAGATCT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
* * *
38247563 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGATTCAATGTACTTCACT
130 GAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
**
38247628 GTAACCACAGGGAGGTAAAATCCGCCAT-TTTTATCTGCTCCACTACTGCTTAGGGAGATAAGAT
195 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
38247692 CTGA
260 CTGA
*
38247696 AATCTTCAATCTATTCCACTGTTGTCCAGGTAAGTAGAATTACT-GCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTG-CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
38247760 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATTT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCT
*
38247825 GCAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
130 GAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
*
38247890 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCACT
195 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
38247935 GTTGGCGCAG
Statistics
Matches: 463, Mismatches: 34, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
261 69 0.15
262 175 0.38
263 113 0.24
264 106 0.23
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (263 bp):
AATCTTCAATCTATTCCACTGTTGCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
ACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCTG
AAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TGA
Found at i:38248050 original size:44 final size:44
Alignment explanation
Indices: 38247995--38248139 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 44
38247985 CACTGCAACC
* **
38247995 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
1 CAGGAAGGCAAGGCTGGTGTCTTTAATCTGCTTCGCTGTCGGCG
* * * * * ** *
38248039 CAGGAAGGCAAGATCTGCTATTTTTTAACCTGCTTCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGT-GTCTTTAATCTGCTTCGCTGTCGGCG
* *
38248084 CAGGGAGGCAAGGCTGGTGTCTTTAATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTTAATCTGCTTCGCTGTCGGCG
38248128 CAGGAAGGCAAG
1 CAGGAAGGCAAG
38248140 ATCTACTATT
Statistics
Matches: 76, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
43 17 0.22
44 27 0.36
45 17 0.22
46 15 0.20
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTTAATCTGCTTCGCTGTCGGCG
Found at i:38248074 original size:46 final size:46
Alignment explanation
Indices: 38248022--38248151 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 46
38248012 TGTCTTCGAT
38248022 CTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAAC
1 CTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAAC
** * * * * * * *
38248068 CTGCTTCGCTG-CAACCCAGGGAGGCAAG-GCTGGT-GTCTTTAAT
1 CTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAAC
* *
38248111 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTT
1 CTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTT
38248152 CACTGATCTG
Statistics
Matches: 62, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
43 17 0.27
44 16 0.26
45 16 0.26
46 13 0.21
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (46 bp):
CTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAAC
Found at i:38248116 original size:43 final size:43
Alignment explanation
Indices: 38247973--38248121 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
38247963 TTTTTTTTTG
* *
38247973 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTC
1 TTTAACCTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
** * ** * * * * * *
38248016 TTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTT
1 TTTAACCTGCTTCGCTG-CAACCCAGGGAGGCAAG-GCTGGT-GTC
38248062 TTTAACCTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
1 TTTAACCTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
*
38248105 TTTAATCTGCTTCGCTG
1 TTTAACCTGCTTCGCTG
38248122 TCGGTGCAGG
Statistics
Matches: 78, Mismatches: 25, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
43 29 0.37
44 17 0.22
45 17 0.22
46 15 0.19
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.28
Consensus pattern (43 bp):
TTTAACCTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
Found at i:38248124 original size:89 final size:89
Alignment explanation
Indices: 38247973--38248151 Score: 304
Period size: 89 Copynumber: 2.0 Consensus size: 89
38247963 TTTTTTTTTG
*
38247973 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGC
1 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGC
*
38248038 GCAGGAAGGCAAGATCTGCTATTT
66 GCAGGAAGGCAAGATCTACTATTT
* * * *
38248062 TTTAACCTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTAATCTGCTTCGCTGTCGGT
1 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGC
38248127 GCAGGAAGGCAAGATCTACTATTT
66 GCAGGAAGGCAAGATCTACTATTT
38248151 T
1 T
38248152 CACTGATCTG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (89 bp):
TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGC
GCAGGAAGGCAAGATCTACTATTT
Found at i:38249395 original size:14 final size:15
Alignment explanation
Indices: 38249371--38249399 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38249361 GGCCTCTCCT
38249371 TTTTCTTTTTCTTTG
1 TTTTCTTTTTCTTTG
38249386 TTTT-TTTTTCTTTG
1 TTTTCTTTTTCTTTG
38249400 CTATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTCTTTG
Found at i:38255015 original size:22 final size:21
Alignment explanation
Indices: 38254980--38255113 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
38254970 AAAGGGTATC
* *
38254980 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
38255001 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
38255024 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
38255043 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
38255062 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
38255081 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
38255100 TGCATATCATATCT
1 TACAAATCATATCT
38255114 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:38255023 original size:23 final size:22
Alignment explanation
Indices: 38254980--38255037 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
38254970 AAAGGGTATC
* *
38254980 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
38255001 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
38255024 TGCATATCATATCT
1 TACAAATCATATCT
38255038 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:38255040 original size:19 final size:19
Alignment explanation
Indices: 38255016--38255126 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
38255006 AATCATATCT
38255016 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
38255035 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
38255054 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
38255073 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
38255092 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
38255111 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
38255127 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38255063 original size:38 final size:38
Alignment explanation
Indices: 38255016--38255119 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
38255006 AATCATATCT
38255016 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
38255054 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
38255092 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
38255120 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:38258745 original size:41 final size:41
Alignment explanation
Indices: 38258678--38259061 Score: 359
Period size: 41 Copynumber: 9.4 Consensus size: 41
38258668 TCTAAACAGA
* *
38258678 GGCACGTATGTGCAATTCAAGAGTACCGAAATACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAATACAAATAGG
* * * *
38258719 GGAACATATGTGCAATTCAGGGGTACC-AAAGTAC-AACAGT
1 GGCACGTATGTGCAATTCAGGGGTACCGAAA-TACAAATAGG
* * * * * *
38258759 GTCATGTATGTGCAATTAAAGGGTACC-AAAGTACAAACAGT
1 GGCACGTATGTGCAATTCAGGGGTACCGAAA-TACAAATAGG
* * *
38258800 GGCACGTATGTGCAATTCAGGGGTA-CTAAAGTACAAACAGT
1 GGCACGTATGTGCAATTCAGGGGTACCGAAA-TACAAATAGG
* *
38258841 GGCACGTATGTGTAATTTAGGGGTACC-AAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAA-TACAAATAGG
* * * * * *
38258882 GGCACGTATGTGCAATTTAGGGGTATCGGAGTAAAAATATG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAATACAAATAGG
* * *
38258923 GGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAATACAAATAGG
* * **
38258964 GGCACGTAT-TCCCAATTCAAGGGTACTAAAATACAAATAGG
1 GGCACGTATGT-GCAATTCAGGGGTACCGAAATACAAATAGG
* **
38259005 GGCACATATGTGCAATTCAGGGGTATTGAAATACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAATACAAATAGG
* *
38259046 GGTACATATGTG-AATT
1 GGCACGTATGTGCAATT
38259062 TTAGGGGTTT
Statistics
Matches: 292, Mismatches: 44, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
40 41 0.14
41 248 0.85
42 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCGAAATACAAATAGG
Found at i:38258876 original size:82 final size:82
Alignment explanation
Indices: 38258671--38259029 Score: 395
Period size: 82 Copynumber: 4.4 Consensus size: 82
38258661 ACCCGAGTCT
* * * * * *
38258671 AAACAGAGGCACGTATGTGCAATTCAAGAGTACCGAAA-TACAAATAGGGGAACATATGTGCAAT
1 AAACAGTGGCACGTATGTGCAATTCAGGGGTACC-AAAGTACAAACAGGGGCACGTATGTGCAAT
*
38258735 TCAGGGGTACCAAAGTAC
65 TCAGGGGTACTAAAGTAC
* * * * *
38258753 -AACAGTGTCATGTATGTGCAATTAAAGGGTACCAAAGTACAAACAGTGGCACGTATGTGCAATT
1 AAACAGTGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATT
38258817 CAGGGGTACTAAAGTAC
66 CAGGGGTACTAAAGTAC
* * *
38258834 AAACAGTGGCACGTATGTGTAATTTAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATT
1 AAACAGTGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATT
* ** *
38258899 TAGGGGTA-TCGGAGTAA
66 CAGGGGTACT-AAAGTAC
* * * *
38258916 AAATA-TGGGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCACGTAT-TCCCAA
1 AAACAGT-GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGT-GCAA
* *
38258979 TTCAAGGGTACTAAAATAC
64 TTCAGGGGTACTAAAGTAC
* * *
38258998 AAATAGGGGCACATATGTGCAATTCAGGGGTA
1 AAACAGTGGCACGTATGTGCAATTCAGGGGTA
38259030 TTGAAATACA
Statistics
Matches: 234, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.01
81 70 0.30
82 160 0.68
83 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (82 bp):
AAACAGTGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATT
CAGGGGTACTAAAGTAC
Found at i:38258904 original size:21 final size:21
Alignment explanation
Indices: 38258841--38258904 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
38258831 TACAAACAGT
*
38258841 GGCACGTATGTGTAATTTAGG
1 GGCACGTATGTGCAATTTAGG
* ** * * *
38258862 GGTACCAAAGTACAA-ATAGG
1 GGCACGTATGTGCAATTTAGG
38258882 GGCACGTATGTGCAATTTAGG
1 GGCACGTATGTGCAATTTAGG
38258903 GG
1 GG
38258905 TATCGGAGTA
Statistics
Matches: 29, Mismatches: 13, Indels: 2
0.66 0.30 0.05
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (21 bp):
GGCACGTATGTGCAATTTAGG
Found at i:38259043 original size:123 final size:122
Alignment explanation
Indices: 38258678--38259107 Score: 413
Period size: 123 Copynumber: 3.5 Consensus size: 122
38258668 TCTAAACAGA
* * * * * * *
38258678 GGCACGTATGTGCAATTCAAGAGTACCGAAATACAAATAGGGGAACATATGTGCAATTCAGGGGT
1 GGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGT
* * * * * * *
38258743 ACCAAAGTAC-AACAGTGTCATGTATGTGCAATTAAAGGGTA-CCAAAGTACAAACAG
66 ACCAAAGTACAAATAGGGGCACGTATGTGCAATTAAGGGGTATCGAAA-TACAAATAG
* * * *
38258799 TGGCACGTATGTGCAATTCAGGGGTA-CTAAAGTACAAACAGTGGCACGTATGTGTAATTTAGGG
1 -GGCACGTATGTGCAATTCAGGGGTATC-GAAGTACAAACAGGGGCACGTATGTGCAATTCAGGG
* * * *
38258863 GTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTATCGGAGTAAAAATATG
64 GTACCAAAGTACAAATAGGGGCACGTATGTGCAATTAAGGGGTATCGAAATACAAATA-G
* *
38258923 GGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCACGTAT-TCCCAATTCAAGGG
1 GGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGT-GCAATTCAGGGG
* * * * *
38258987 TACTAAAATACAAATAGGGGCACATATGTGCAATTCAGGGGTATTGAAATACAAATAGG
65 TACCAAAGTACAAATAGGGGCACGTATGTGCAATTAAGGGGTATCGAAATACAAATA-G
* * * * * ** * *
38259046 GGTACATATGTG-AATTTTAGGGGTTTCGAAGTATAAA-AAAGGCATGTATGTGCGATTCAGGG
1 GGCACGTATGTGCAA-TTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAATTCAGGG
38259108 AATAATTAAC
Statistics
Matches: 253, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
121 1 0.00
122 83 0.33
123 165 0.65
124 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (122 bp):
GGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGT
ACCAAAGTACAAATAGGGGCACGTATGTGCAATTAAGGGGTATCGAAATACAAATAG
Found at i:38266107 original size:16 final size:16
Alignment explanation
Indices: 38266086--38266117 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38266076 GTTTTGTTGC
*
38266086 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
38266102 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
38266118 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:38266403 original size:51 final size:48
Alignment explanation
Indices: 38266345--38266531 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 48
38266335 CCGCTTCACA
* * *
38266345 TAGTAGCCTACACATAGTACTACACATGTGACCATTACTATGAGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACTAT-AG-TACACG
* * * *
38266396 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTAT--AGTACACG
* * * *
38266447 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-AT-ACTATAGTACACG
38266497 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
38266532 CACTTTCACT
Statistics
Matches: 112, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
49 2 0.02
50 38 0.34
51 66 0.59
52 5 0.04
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACTATAGTACACG
Found at i:38266524 original size:101 final size:102
Alignment explanation
Indices: 38266343--38266527 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
38266333 TACCGCTTCA
* * *
38266343 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACTATGAGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATGAGATACACGTAGTAGCCTGCA
38266408 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * *
38266445 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCT-AG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATGAGATACACGTAGTAGCCTGC
38266508 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
38266528 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 36 0.47
102 35 0.46
103 5 0.07
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATGAGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:38266551 original size:101 final size:102
Alignment explanation
Indices: 38266339--38266527 Score: 274
Period size: 102 Copynumber: 1.9 Consensus size: 102
38266329 ATGATACCGC
* * *
38266339 TTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTACTATGAGATACATGTAGTAGCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATGAGATACACGTAGTAGCC
*
38266404 TGCACATAGTACTACACACGTGATCGAAGCTATCCGG
66 TGCACATAGTACTACACACGTGATCCAAGCTATCCGG
* * * * *
38266441 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCT-AG-TACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATGAGATACACGTAGTAGC
38266504 CTGCACATAGTACTACACACGTGA
65 CTGCACATAGTACTACACACGTGA
38266528 CCATCACTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 36 0.46
102 37 0.47
103 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATGAGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATCCGG
Found at i:38269165 original size:21 final size:21
Alignment explanation
Indices: 38269135--38269176 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38269125 TCTTCCAGCA
38269135 AGGCAACACCTTTGGAGATCT
1 AGGCAACACCTTTGGAGATCT
*
38269156 AGGCAGCACCTTTGGAGATCT
1 AGGCAACACCTTTGGAGATCT
38269177 TATTCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
AGGCAACACCTTTGGAGATCT
Found at i:38270304 original size:12 final size:12
Alignment explanation
Indices: 38270287--38270326 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
38270277 AGATTCAAAA
38270287 ATTTCAATAACC
1 ATTTCAATAACC
38270299 ATTTCAATAACC
1 ATTTCAATAACC
38270311 ATTTCAATAACC
1 ATTTCAATAACC
38270323 ATTT
1 ATTT
38270327 TCACCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTTCAATAACC
Found at i:38278532 original size:9 final size:9
Alignment explanation
Indices: 38278518--38278551 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
38278508 TATCATTTTC
38278518 CATTTTATT
1 CATTTTATT
38278527 CATTTTATT
1 CATTTTATT
38278536 CATTTTATT
1 CATTTTATT
38278545 CATTTTA
1 CATTTTA
38278552 GTCCTCTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (9 bp):
CATTTTATT
Found at i:38284601 original size:50 final size:50
Alignment explanation
Indices: 38284509--38284607 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
38284499 TCTATATGGC
* * *
38284509 ACCATATTGTGTAAGACCATAACCGGTGGGTGATGGCGTCATATAGAAAG
1 ACCATATTGTGTAAGACCATAACCAGTGAGTGATGGCATCATATAGAAAG
* * * * *
38284559 ACCATATTGTTTAAGACCATAACTAGTGAGTTATGGTATCATATGGAAA
1 ACCATATTGTGTAAGACCATAACCAGTGAGTGATGGCATCATATAGAAA
38284608 AAACTAAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (50 bp):
ACCATATTGTGTAAGACCATAACCAGTGAGTGATGGCATCATATAGAAAG
Found at i:38284756 original size:27 final size:27
Alignment explanation
Indices: 38284717--38284788 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
38284707 CATATCGGAA
* *
38284717 AAAGGAAGTCTTTGTGGCCATCTAT-G
1 AAAGGAAGCCTTTATGGCCATCTATAG
*
38284743 AAATGGAAGCCTTTATGGCGATCTATAG
1 AAA-GGAAGCCTTTATGGCCATCTATAG
*
38284771 AAAGGAATGCCTTCATGG
1 AAAGGAA-GCCTTTATGG
38284789 TGCGTTCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 23 0.59
28 13 0.33
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (27 bp):
AAAGGAAGCCTTTATGGCCATCTATAG
Found at i:38284971 original size:27 final size:27
Alignment explanation
Indices: 38284941--38285001 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
38284931 ACATTGAGAG
*
38284941 AATAATATGTGT-GCTAAACTCTAAAGA
1 AATAATATGTATGGC-AAACTCTAAAGA
* *
38284968 AATAATATGTATGGCGAACTCTAAAGG
1 AATAATATGTATGGCAAACTCTAAAGA
38284995 AATAATA
1 AATAATA
38285002 CATATAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (27 bp):
AATAATATGTATGGCAAACTCTAAAGA
Found at i:38285011 original size:27 final size:27
Alignment explanation
Indices: 38284957--38285043 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
38284947 ATGTGTGCTA
* **
38284957 AACTCTAAAGAAATAATATGTATGGCG
1 AACTCTAAAGGAATAATACATATGGCG
*
38284984 AACTCTAAAGGAATAATACATATAGCG
1 AACTCTAAAGGAATAATACATATGGCG
* *
38285011 AACTCTGAAGGAATAGTACATATGGCG
1 AACTCTAAAGGAATAATACATATGGCG
38285038 AACTCT
1 AACTCT
38285044 GAAAAAATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (27 bp):
AACTCTAAAGGAATAATACATATGGCG
Found at i:38287644 original size:21 final size:23
Alignment explanation
Indices: 38287599--38287647 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
38287589 TGCACATAGT
38287599 TATGAAAACCCTTTTACGAGTAG
1 TATGAAAACCCTTTTACGAGTAG
* *
38287622 TATGAAAGCCC-TTTA-GGGTAG
1 TATGAAAACCCTTTTACGAGTAG
38287643 TATGA
1 TATGA
38287648 GACTTTGCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (23 bp):
TATGAAAACCCTTTTACGAGTAG
Found at i:38287768 original size:37 final size:37
Alignment explanation
Indices: 38287701--38287976 Score: 177
Period size: 37 Copynumber: 7.5 Consensus size: 37
38287691 GACGATAGCC
* * * *
38287701 ATGGCATGATCCAAGAAAGTCTGCCAGACTCACCTAT
1 ATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTAT
* * ** *
38287738 ATGGCATGGTCCAGGGAGGTCAGCCGGACTCATTTAC
1 ATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTAT
* *
38287775 AAGG-ATGATCCAGGGAGGTTC-GCCAGA-TCCACCTTT
1 ATGGCATGATCCAGGGAGG-TCAGCCAGACT-CACCTAT
* * ** **
38287811 AAGGCATAATCCAATGAGGTCAGTAAGACTCACCTAT
1 ATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTAT
* * * *
38287848 ATGGCATGATCTAGGGAGGTCAGCTAAACTCGCCTAT
1 ATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTAT
* * * *
38287885 ATGGCATAACCCAGGGAGGTTCA-CCAGA-TCCATCTTT
1 ATGGCATGATCCAGGGAGG-TCAGCCAGACT-CACCTAT
* * * ** *
38287922 AAGGCATAATCCAGGGAGGTTAGCTTGACTC-GCTCAT
1 ATGGCATGATCCAGGGAGGTCAGCCAGACTCACCT-AT
*
38287959 ATGGCATGATCTAGGGAG
1 ATGGCATGATCCAGGGAG
38287977 TTTCACCAGA
Statistics
Matches: 180, Mismatches: 49, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
35 1 0.01
36 32 0.18
37 142 0.79
38 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (37 bp):
ATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTAT
Found at i:38288016 original size:111 final size:111
Alignment explanation
Indices: 38287726--38287976 Score: 292
Period size: 111 Copynumber: 2.3 Consensus size: 111
38287716 AAAGTCTGCC
* * ** ** * * *
38287726 AGACTCACCTATATGGCATGGTCCAGGGAGGTCAGCCGGACTCATTTACAAGG-ATGATCCAGGG
1 AGACTCACCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTATAAGGCATAACCCAGGG
* *
38287790 AGGTTCGCCAGATCCACCTTTAAGGCATAATCCAATGAGGTCAGTA
66 AGGTTCACCAGATCCACCTTTAAGGCATAATCCAAGGAGGTCAGTA
* * *
38287836 AGACTCACCTATATGGCATGATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCATAACCCAGGG
1 AGACTCACCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTATAAGGCATAACCCAGGG
* * *
38287901 AGGTTCACCAGATCCATCTTTAAGGCATAATCCAGGGAGGTTAGCT-
66 AGGTTCACCAGATCCACCTTTAAGGCATAATCCAAGGAGGTCAG-TA
* *
38287947 TGACTC-GCTCATATGGCATGATCTAGGGAG
1 AGACTCACCT-ATATGGCATGATCTAGGGAG
38287977 TTTCACCAGA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
110 45 0.38
111 73 0.61
112 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (111 bp):
AGACTCACCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTATAAGGCATAACCCAGGG
AGGTTCACCAGATCCACCTTTAAGGCATAATCCAAGGAGGTCAGTA
Found at i:38288045 original size:74 final size:73
Alignment explanation
Indices: 38287850--38288046 Score: 223
Period size: 74 Copynumber: 2.7 Consensus size: 73
38287840 TCACCTATAT
* * * *
38287850 GGCATGATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCATAACCCAGGGAGGTTCACCAGATC
1 GGCATAATCTAGGGAGGTTAGCTAAACTCG-CTATATGGCATAATCTAGGGAGGTTCACCAGATC
* *
38287915 CATCTTTAA
65 AACCTTTAA
* ** * *
38287924 GGCATAATCCAGGGAGGTTAGCTTGACTCGCTCATATGGCATGATCTAGGGAGTTTCACCAGATC
1 GGCATAATCTAGGGAGGTTAGCTAAACTCGCT-ATATGGCATAATCTAGGGAGGTTCACCAGATC
38287989 AACCTTTAA
65 AACCTTTAA
* * * * *
38287998 GGCATAATCTAGTGAGGTTAGCCAAACACGCATGTATGGCACAATCTAG
1 GGCATAATCTAGGGAGGTTAGCTAAACTCGC-TATATGGCATAATCTAG
38288047 TAGAGTCCAT
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
73 2 0.02
74 98 0.97
75 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (73 bp):
GGCATAATCTAGGGAGGTTAGCTAAACTCGCTATATGGCATAATCTAGGGAGGTTCACCAGATCA
ACCTTTAA
Found at i:38289531 original size:21 final size:21
Alignment explanation
Indices: 38289507--38289546 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38289497 TTTGCCTAAT
*
38289507 ATGTAAATTGGATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
*
38289528 ATGTAAATTGTATTAAATT
1 ATGTAAATTGGATTAAATT
38289547 TATGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:38289555 original size:21 final size:21
Alignment explanation
Indices: 38289506--38289557 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
38289496 TTTTGCCTAA
*
38289506 TATGTAAATTGGATTGAATTG
1 TATGTAAATTGGATTAAATTG
* *
38289527 AATGTAAATTGTATTAAATT-
1 TATGTAAATTGGATTAAATTG
38289547 TATGTTAAATT
1 TATG-TAAATT
38289558 CATTCGTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (21 bp):
TATGTAAATTGGATTAAATTG
Found at i:38289897 original size:24 final size:24
Alignment explanation
Indices: 38289870--38289933 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
38289860 GAGAGAGCGC
*
38289870 CCCGTTATTAGCTCTCATGAGCTT
1 CCCGTTATTAGCTCTCACGAGCTT
* * **
38289894 CCCGTTATATGGTTCTTGCGAGCTT
1 CCCGTTAT-TAGCTCTCACGAGCTT
*
38289919 CCCGTTAATAGCTCT
1 CCCGTTATTAGCTCT
38289934 TCGGAGCATC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.38
Consensus pattern (24 bp):
CCCGTTATTAGCTCTCACGAGCTT
Found at i:38289940 original size:24 final size:24
Alignment explanation
Indices: 38289870--38289946 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
38289860 GAGAGAGCGC
* *
38289870 CCCGTTATTAGCTC-TCATGAGCTT
1 CCCGTTAATAGCTCTTC-GGAGCTT
* *
38289894 CCCGTTATATGGTTCTT-GCGAGCTT
1 CCCGTTA-ATAGCTCTTCG-GAGCTT
*
38289919 CCCGTTAATAGCTCTTCGGAGCAT
1 CCCGTTAATAGCTCTTCGGAGCTT
38289943 CCCG
1 CCCG
38289947 ATCGATTGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 23 0.55
25 18 0.43
26 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.34
Consensus pattern (24 bp):
CCCGTTAATAGCTCTTCGGAGCTT
Found at i:38290064 original size:25 final size:26
Alignment explanation
Indices: 38290009--38290065 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
38289999 CCCGATATAT
*
38290009 GGCTCTTTGTGAGCTTCTCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
38290035 GGCTCTTTGTGAGCTTCCCG-TTAAC
1 GGCTCTTTGTGAGCTTCCCGATTAAA
38290060 GGCTCT
1 GGCTCT
38290066 CCGGAGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.37
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:38290170 original size:25 final size:24
Alignment explanation
Indices: 38290085--38290175 Score: 74
Period size: 25 Copynumber: 3.7 Consensus size: 24
38290075 CCTGATACTA
* *
38290085 GCTCGTATGAGCTTCCCAATTACG
1 GCTCGTATGAGCTTCCCATTTATG
* **
38290109 GCTCTTATGAGCTTCTTATTATATG
1 GCTCGTATGAGCTTCCCATT-TATG
** * *
38290134 GCTCAAAAGAGCTTCCCGTTTATG
1 GCTCGTATGAGCTTCCCATTTATG
38290158 TGCTCGTATGAGCATTCC
1 -GCTCGTATGAGC-TTCC
38290176 TGAATATGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
24 20 0.40
25 26 0.52
26 4 0.08
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
GCTCGTATGAGCTTCCCATTTATG
Found at i:38301442 original size:17 final size:17
Alignment explanation
Indices: 38301420--38301456 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
38301410 GCTGGAGAAT
38301420 GTTGCAGTAATATGATG
1 GTTGCAGTAATATGATG
*
38301437 GTTGCAGTAATATGGTG
1 GTTGCAGTAATATGATG
38301454 GTT
1 GTT
38301457 TACTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.38
Consensus pattern (17 bp):
GTTGCAGTAATATGATG
Found at i:38306137 original size:275 final size:281
Alignment explanation
Indices: 38305596--38306137 Score: 676
Period size: 275 Copynumber: 1.9 Consensus size: 281
38305586 TAATTGTTAT
* *
38305596 ATTACATAAATGTATTATTTATAAAATCATATATATGAAATATAAAGATATTTATTATATAAATA
1 ATTACATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
* * * *
38305661 ATTAAATTTTGATTTTAAAACTAAAGCAGAATTATTTTTTTTACTTTTTTGGTTAATGGAAAAAA
66 ATTAAATTTTAATTTTAAAACTAAAG-AGAATTATTTTTTTCACTATTTTGATTAATGGAAAAAA
* *
38305726 AATACTTTAAAATAAAGTAATTTGATAAAAAAAATTAACTTTTTTATTTATTGTCATATAAATGC
130 AATACTTTAAAATAAAATAATTTGATAAAAAAAATTAACTTTTTTAATTATTGTCATATAAATGC
* ** *
38305791 ATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTTTTTATACCTGTGATAAATCTAGTAAATA
195 ATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATA
38305856 ATAAAAACCATTTATATAATAA
260 ATAAAAACCATTTATATAATAA
* * *
38305878 ATTATATAAAT-TATTATTTATAAAATTATACACATGAAATATAAAGTTATTTATTATATAAATA
1 ATTACATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
* * *
38305942 ATTAAATTTTAATATTTAAAACTAAAG-TAA-TA-TTTTTTCACTATTTT-ATTAAT-GAAACAT
66 ATTAAATTTTAAT-TTTAAAACTAAAGAGAATTATTTTTTTCACTATTTTGATTAATGGAAAAAA
* ** **
38306002 AATACTTTAAAGATAAAAT-ATTT-CTACATTAATTTTAACCTTTTTTAAATTA-T-T-ATATAA
130 AATACTTTAAA-ATAAAATAATTTGATA-AAAAAAATTAA-CTTTTTT-AATTATTGTCATATAA
* * * ** *
38306062 ATTCATTTAACAGAAGTGTTTTAAAAGAATCAGGATTCTTATTTATAAATATGATAAATTTTA-T
191 ATGCATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAA-TCTAGT
38306126 AAATAATAAAAA
255 AAATAATAAAAA
38306138 ATATTTAAAA
Statistics
Matches: 225, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
275 70 0.31
276 31 0.14
277 19 0.08
278 17 0.08
279 2 0.01
280 2 0.01
281 61 0.27
282 23 0.10
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (281 bp):
ATTACATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
ATTAAATTTTAATTTTAAAACTAAAGAGAATTATTTTTTTCACTATTTTGATTAATGGAAAAAAA
ATACTTTAAAATAAAATAATTTGATAAAAAAAATTAACTTTTTTAATTATTGTCATATAAATGCA
TTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATAA
TAAAAACCATTTATATAATAA
Found at i:38306160 original size:20 final size:20
Alignment explanation
Indices: 38306101--38306160 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
38306091 TCAGGATTCT
* *
38306101 TATTTATAAAT-ATGATAAA
1 TATTTATAAATAATAAAAAA
38306120 T-TTTATAAATAATAAAAAA
1 TATTTATAAATAATAAAAAA
*
38306139 TATTTA-AAATGATAAAACAA
1 TATTTATAAATAATAAAA-AA
38306159 TA
1 TA
38306161 ATATAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 18 0.51
20 8 0.23
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (20 bp):
TATTTATAAATAATAAAAAA
Found at i:38311859 original size:12 final size:13
Alignment explanation
Indices: 38311842--38311873 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
38311832 CTAAAAGACC
38311842 ATAAAAAT-AAAA
1 ATAAAAATAAAAA
38311854 ATAAAAATAAAAA
1 ATAAAAATAAAAA
38311867 ATAAAAA
1 ATAAAAA
38311874 ACCAAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:38311874 original size:7 final size:6
Alignment explanation
Indices: 38311842--38311873 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
38311832 CTAAAAGACC
38311842 ATAAAA ATAAAA ATAAAA ATAAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA A
38311874 ACCAAGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:38314797 original size:32 final size:32
Alignment explanation
Indices: 38314754--38314815 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
38314744 TTTGATTTTC
38314754 AAAATAGTTTGATATAACAAACTATTAAGATG
1 AAAATAGTTTGATATAACAAACTATTAAGATG
*
38314786 AAAATATTTTGATATAACAAACTATTAAGA
1 AAAATAGTTTGATATAACAAACTATTAAGA
38314816 ATTAAATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (32 bp):
AAAATAGTTTGATATAACAAACTATTAAGATG
Found at i:38320220 original size:45 final size:44
Alignment explanation
Indices: 38320147--38320279 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 44
38320137 GGCTATACAC
* *
38320147 CTAAAATGAATAAGACCGTAACTGAAAGATGCTATGGCATCATG
1 CTAAAATGAATAAGACCATAGCTGAAAGATGCTATGGCATCATG
* * * * * *
38320191 ACTAAAATGAGTAAGACCATGGCTAAAAGATGTTATAGCATTATG
1 -CTAAAATGAATAAGACCATAGCTGAAAGATGCTATGGCATCATG
* * * * *
38320236 GTAAATAAGACTAAGACCATAGCTGAAACACGCTATGGCATCAT
1 CTAAA-ATGAATAAGACCATAGCTGAAAGATGCTATGGCATCAT
38320280 AGTTAGTACG
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 4 0.06
45 65 0.94
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (44 bp):
CTAAAATGAATAAGACCATAGCTGAAAGATGCTATGGCATCATG
Found at i:38323251 original size:67 final size:67
Alignment explanation
Indices: 38323129--38323327 Score: 213
Period size: 67 Copynumber: 3.0 Consensus size: 67
38323119 AAAGAGGTTT
* * * * ** * *
38323129 AAGGTGTAAGACCATAGCTCGGCTTTGACCACCAATAAAGTCCGCCAAAATGTTAAATATGGGTT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTTCGCCAGGACGTTAAACATGGGTT
38323194 AC
66 AC
* * * * *
38323196 AAGGTGTAAGACCATAGCTTGGATATGACAACCAATAGAGTTCACCTGGACGTTAAACATGAGTT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTTCGCCAGGACGTTAAACATG-GGT
*
38323261 TCC
65 TAC
* *
38323264 AAGGTGT-AGAACCATAGCTCAGCTATGACAACTAATAGAG-TCTGCCAGGACGTTAAACATGGG
1 AAGGTGTAAG-ACCATAGCTCGGCTATGACAACCAATAGAGTTC-GCCAGGACGTTAAACATGGG
38323327 T
64 T
38323328 CATACTGTGT
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
67 55 0.51
68 53 0.49
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (67 bp):
AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTTCGCCAGGACGTTAAACATGGGTT
AC
Found at i:38323281 original size:68 final size:68
Alignment explanation
Indices: 38323129--38323324 Score: 182
Period size: 68 Copynumber: 2.9 Consensus size: 68
38323119 AAAGAGGTTT
* * * * * ** ** * * *
38323129 AAGGTGTAAGACCATAGCTCGGCTTTGACCACCAATAAAGTCCGCCAAAATGTTAAATATG-GGT
1 AAGGTGTAAGACCATAGCTCAGATATGACAACCAATAGAGTCTACCAGGACGTTAAACATGAGTT
*
38323193 TAC
66 TCC
** *
38323196 AAGGTGTAAGACCATAGCTTGGATATGACAACCAATAGAGT-TCACCTGGACGTTAAACATGAGT
1 AAGGTGTAAGACCATAGCTCAGATATGACAACCAATAGAGTCT-ACCAGGACGTTAAACATGAGT
38323260 TTCC
65 TTCC
* * *
38323264 AAGGTGT-AGAACCATAGCTCAGCTATGACAACTAATAGAGTCTGCCAGGACGTTAAACATG
1 AAGGTGTAAG-ACCATAGCTCAGATATGACAACCAATAGAGTCTACCAGGACGTTAAACATG
38323325 GGTCATACTG
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
67 50 0.48
68 54 0.51
69 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (68 bp):
AAGGTGTAAGACCATAGCTCAGATATGACAACCAATAGAGTCTACCAGGACGTTAAACATGAGTT
TCC
Found at i:38332607 original size:6 final size:6
Alignment explanation
Indices: 38332598--38332633 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
38332588 AAAAACAAAA
38332598 AAAATC AAAATC AAAATC AATAATC AATAATC AAAA
1 AAAATC AAAATC AAAATC AA-AATC AA-AATC AAAA
38332634 AAAGAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATC
Found at i:38332657 original size:24 final size:24
Alignment explanation
Indices: 38332626--38332701 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
38332616 AATAATCAAT
38332626 AATCAAAAAAAGAAGAAAAAGAAA
1 AATCAAAAAAAGAAGAAAAAGAAA
* * *
38332650 AATCAAAATCAAG--GTCAAAATAAA
1 AATCAAAA-AAAGAAG-AAAAAGAAA
*
38332674 AATGAAAAAAGAGAAGAAAAAGGAAA
1 AATCAAAAAA-AGAAGAAAAA-GAAA
38332700 AA
1 AA
38332702 GGAAAAAGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 2 0.05
24 24 0.62
25 7 0.18
26 6 0.15
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.08
Consensus pattern (24 bp):
AATCAAAAAAAGAAGAAAAAGAAA
Found at i:38332700 original size:6 final size:7
Alignment explanation
Indices: 38332689--38332713 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38332679 AAAAAGAGAA
38332689 GAAAAAG
1 GAAAAAG
38332696 GAAAAAG
1 GAAAAAG
38332703 GAAAAAG
1 GAAAAAG
38332710 GAAA
1 GAAA
38332714 GAGCGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
GAAAAAG
Found at i:38334795 original size:44 final size:44
Alignment explanation
Indices: 38334730--38334942 Score: 354
Period size: 44 Copynumber: 4.8 Consensus size: 44
38334720 AGTGGAATCA
* *
38334730 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTC
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
38334774 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
38334818 CAAAACCTAGCTCCCTCACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
38334862 CAAAACCTAGCTCCCCGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * *
38334906 CAAAATCTAGCTCTCTGACCAGTAGTGGAATAGGTTG
1 CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTG
38334943 GAAATCACAG
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 158 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (44 bp):
CAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:38334997 original size:132 final size:132
Alignment explanation
Indices: 38334730--38334997 Score: 317
Period size: 132 Copynumber: 2.0 Consensus size: 132
38334720 AGTGGAATCA
*
38334730 CAAAACCTAGCTCCCTAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
1 CAAAACCTAGCTCCCCAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
* * * * *
38334795 GCAGTGGAATAGGTAGAAGATTGCAAAACCTAGCTCCCTCACCAGCAGTGGAATAGGTTGAAGAT
66 GCAGTGGAATAGGTAGAAGATTGCAAAACCTAGCTCCCTAACCAGCAGCGGAATAGATGGAAGAC
*
38334860 TG
131 GG
* * * *
38334862 CAAAACCTAGCTCCCCGACCAGCAGTGGAATAGGTTGAAGATTGCAAAATCTAGCTCTCTGACCA
1 CAAAACCTAGCTCCCCAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
* * * * * * * *
38334927 GTAGTGGAATAGGTTGGAA-A-T-CACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATGGAA
66 GCAGTGGAATAGG-TAGAAGATTGCA-AAACCTAG-CTCCCTAACCAGCAGCGGAATAGATGGAA
38334989 GACGG
128 GACGG
38334994 CAAA
1 CAAA
38334998 TCTTATCTTC
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 2 0.02
131 6 0.05
132 102 0.89
133 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (132 bp):
CAAAACCTAGCTCCCCAACCAGCAGTGGAATAGGTTGAAGATTCCAAAACCTAGCTCCCTGACCA
GCAGTGGAATAGGTAGAAGATTGCAAAACCTAGCTCCCTAACCAGCAGCGGAATAGATGGAAGAC
GG
Found at i:38335268 original size:128 final size:128
Alignment explanation
Indices: 38334929--38335304 Score: 614
Period size: 129 Copynumber: 2.9 Consensus size: 128
38334919 TCTGACCAGT
* * *
38334929 AGTGGAATAGGTTGGAAATCACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGAT-GGAAGACG
1 AGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CG
* *
38334993 GCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGC
65 GCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCTGGTCAGC
*
38335057 ACTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCG
1 AGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCG
*
38335122 GCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATGTCCCTGGTCAGC
65 GCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCTGGTCAGC
* *
38335186 AGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAAGCGG
1 AGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGG
* *
38335251 AAAATCTTATCTTCAAGTGTAAGAAAGCAGATTCAAGCCACAAGT-CT-TATCCCT
66 CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCT
38335305 ATGAAGTCAT
Statistics
Matches: 233, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
126 6 0.03
127 2 0.01
128 106 0.45
129 115 0.49
130 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (128 bp):
AGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGG
CAAATCTTATCTTCAAGTGTAAGGAAGCAGATTCAAGCCACAAGTCCTATATCCCTGGTCAGC
Found at i:38335363 original size:44 final size:44
Alignment explanation
Indices: 38335315--38335627 Score: 138
Period size: 44 Copynumber: 7.2 Consensus size: 44
38335305 ATGAAGTCAT
* *
38335315 AGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAGGTTGC
1 AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
* ** ** * *
38335359 AGTGGAGTAGATTGAAGTCG-ATAATCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGACCGAAGAAGCA-AATCTTATCTCCCTGAAGTTGC
** *** * *
38335403 AGTGGAGTGGATTAAAGTAA-CAGATCTTATCTCTCTGAAGTTGC
1 AGTGGAGCAGACCGAAG-AAGCAAATCTTATCTCCCTGAAGTTGC
* ** * ** * *
38335447 AGTAGAGTGGATCGCATCAGGC----CTTATCTCCCTGAGGTTGC
1 AGTGGAGCAGACCG-AAGAAGCAAATCTTATCTCCCTGAAGTTGC
* * * * * * **
38335488 AGTGAAGCATACTG-AGAAAACAAGTCTTATCCCCCTGAAGTCAC
1 AGTGGAGCAGACCGAAG-AAGCAAATCTTATCTCCCTGAAGTTGC
* * * *
38335532 AGTGGGGCAGACCGAAGAAGTAAATCTTATCTCCCTGAGGTTGT
1 AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
** ** * *
38335576 AGTGGAGCAGATTGAAGTCG-ATAATCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGACCGAAGAAGCA-AATCTTATCTCCCTGAAGTTGC
*
38335620 AATGGAGC
1 AGTGGAGC
38335628 GGATTAAACT
Statistics
Matches: 197, Mismatches: 60, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
40 2 0.01
41 24 0.12
43 2 0.01
44 164 0.83
45 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
AGTGGAGCAGACCGAAGAAGCAAATCTTATCTCCCTGAAGTTGC
Found at i:38335529 original size:217 final size:216
Alignment explanation
Indices: 38335290--38335941 Score: 790
Period size: 217 Copynumber: 2.9 Consensus size: 216
38335280 GATTCAAGCC
** *
38335290 ACAAGTCTTATCCCTATGAAGTCATAGTGGGGCAGACCGAAGAAGCAAATCTTATCTCCCTGAGG
1 ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAGAAG-AAATCTTATCTCCCTGAGG
*
38335355 TTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAG
65 TTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAA
* * * * *
38335420 TAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGCCTTATCTCCCTGAGGT
130 TAA-AGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGAT
* * *
38335485 TGCAGTGAAGCATACT-GAGAA-A
194 TACAGTGAA-CAGACTAAAGAATA
38335507 ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAGAAGTAAATCTTATCTCCCTGAGG
1 ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAGAAG-AAATCTTATCTCCCTGAGG
* * * * *
38335572 TTGTAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAATGGAGCGGATTAAAC
65 TTGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAA
*
38335637 TAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGAT
130 TAAA-GATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGAT
*
38335702 TACAGTGGAATAGACTAAAGAATTCCTA
194 TACAGT-GAACAGACTAAAGAA----TA
* * * ** *
38335730 ATCGAAAATGGTGAATCTTATCTCCCT-AAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTA
1 A-C---AA----G--TCTTATCCCCCTGAA-GTCACAGTGGGGCAGACCGAAG-AAGAAATCTTA
* * * * *
38335794 TCTCCCTGAGATTACAGTTGAGCT-GATTGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGG
54 TCTCCCTGAGGTTGCAGTGGAG-TAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGG
38335858 AGTGGATTAAAATAAAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTA
118 AGTGGATTAAAAT-AAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTA
38335923 TCTCCCTGAGATTACAGTG
182 TCTCCCTGAGATTACAGTG
38335942 GAATAGACCG
Statistics
Matches: 377, Mismatches: 36, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
216 1 0.00
217 187 0.50
218 7 0.02
223 2 0.01
224 1 0.00
227 2 0.01
231 1 0.00
232 3 0.01
233 168 0.45
234 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (216 bp):
ACAAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAGAAGAAATCTTATCTCCCTGAGGT
TGCAGTGGAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAAT
AAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
CAGTGAACAGACTAAAGAATA
Done.