Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 35 of 125
Found at i:10142309 original size:7 final size:7
Alignment explanation
Indices: 10142297--10142322 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10142287 ATGATGAAGT
10142297 GATGAGG
1 GATGAGG
10142304 GATGAGG
1 GATGAGG
10142311 GATGAGG
1 GATGAGG
10142318 GATGA
1 GATGA
10142323 TTTGGAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:10166363 original size:31 final size:31
Alignment explanation
Indices: 10166326--10166393 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
10166316 TACAATTTGA
*
10166326 TCATTGAACCATTCGAAAGTTTTTATTTAAG
1 TCATTGAACCATTCAAAAGTTTTTATTTAAG
* **
10166357 TTATTGAATTATTCAAAAGTTTTTATTTAAG
1 TCATTGAACCATTCAAAAGTTTTTATTTAAG
10166388 TCATTG
1 TCATTG
10166394 GATAGTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (31 bp):
TCATTGAACCATTCAAAAGTTTTTATTTAAG
Found at i:10166783 original size:2 final size:2
Alignment explanation
Indices: 10166684--10166765 Score: 69
Period size: 2 Copynumber: 41.0 Consensus size: 2
10166674 TTGTATATTT
* * * *
10166684 TA TA CA TA TA TA CTA TT TA TA TA TA TA CA TA TCA -A TG T- TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * *
10166726 TC CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10166766 CTAACTTTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
1 2 0.03
2 58 0.92
3 3 0.05
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:10171037 original size:30 final size:30
Alignment explanation
Indices: 10171001--10171099 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 30
10170991 TCTTGAATTG
10171001 ATGCGAGCACGAGTAGTAAGAACACTAATA
1 ATGCGAGCACGAGTAGTAAGAACACTAATA
* * ** * *
10171031 ATGCGAGCATG-G-ACCTTGCGAGC-TTGAA-A
1 ATGCGAGCACGAGTA--GTAAGAACACT-AATA
10171060 GATGCGAGCACGAGTAGTAAGAACACTAATA
1 -ATGCGAGCACGAGTAGTAAGAACACTAATA
10171091 ATGCGAGCA
1 ATGCGAGCA
10171100 TGGACCTTGC
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
28 1 0.02
29 3 0.06
30 41 0.84
31 3 0.06
32 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.17
Consensus pattern (30 bp):
ATGCGAGCACGAGTAGTAAGAACACTAATA
Found at i:10171140 original size:15 final size:15
Alignment explanation
Indices: 10171134--10171236 Score: 100
Period size: 15 Copynumber: 6.9 Consensus size: 15
10171124 CGAGCACTGG
*
10171134 TGTTGCGAGCACTCA
1 TGTTGCGAACACTCA
*
10171149 TGTTGCGAACACTGGA
1 TGTTGCGAACACT-CA
*
10171165 -GCTGCGAACACTCA
1 TGTTGCGAACACTCA
*
10171179 TGTTGCGAACACACA
1 TGTTGCGAACACTCA
* * * *
10171194 CGATGCGAACATTGA
1 TGTTGCGAACACTCA
* *
10171209 TGTTGCAAACACTCG
1 TGTTGCGAACACTCA
10171224 TGTTGCGAACACT
1 TGTTGCGAACACT
10171237 GATGAAGGGC
Statistics
Matches: 68, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
14 1 0.01
15 66 0.97
16 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.23
Consensus pattern (15 bp):
TGTTGCGAACACTCA
Found at i:10171156 original size:60 final size:60
Alignment explanation
Indices: 10171000--10171130 Score: 262
Period size: 60 Copynumber: 2.2 Consensus size: 60
10170990 ATCTTGAATT
10171000 GATGCGAGCACGAGTAGTAAGAACACTAATAATGCGAGCATGGACCTTGCGAGCTTGAAA
1 GATGCGAGCACGAGTAGTAAGAACACTAATAATGCGAGCATGGACCTTGCGAGCTTGAAA
10171060 GATGCGAGCACGAGTAGTAAGAACACTAATAATGCGAGCATGGACCTTGCGAGCTTGAAA
1 GATGCGAGCACGAGTAGTAAGAACACTAATAATGCGAGCATGGACCTTGCGAGCTTGAAA
10171120 GATGCGAGCAC
1 GATGCGAGCAC
10171131 TGGTGTTGCG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (60 bp):
GATGCGAGCACGAGTAGTAAGAACACTAATAATGCGAGCATGGACCTTGCGAGCTTGAAA
Found at i:10171240 original size:30 final size:30
Alignment explanation
Indices: 10171122--10171236 Score: 113
Period size: 30 Copynumber: 3.8 Consensus size: 30
10171112 GCTTGAAAGA
* * *
10171122 TGCGAGCACTGGTGTTGCGAGCACTCATGT
1 TGCGAACACTCGTGTTGCGAACACTCATGT
* * *
10171152 TGCGAACACTGGAGCTGCGAACACTCATGT
1 TGCGAACACTCGTGTTGCGAACACTCATGT
* ** * * *
10171182 TGCGAACACACACGATGCGAACATTGATGT
1 TGCGAACACTCGTGTTGCGAACACTCATGT
*
10171212 TGCAAACACTCGTGTTGCGAACACT
1 TGCGAACACTCGTGTTGCGAACACT
10171237 GATGAAGGGC
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (30 bp):
TGCGAACACTCGTGTTGCGAACACTCATGT
Found at i:10172666 original size:3 final size:3
Alignment explanation
Indices: 10172658--10172688 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10172648 TTTGTATCAA
10172658 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10172689 GCTAGTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10177511 original size:15 final size:15
Alignment explanation
Indices: 10177483--10177607 Score: 81
Period size: 15 Copynumber: 8.3 Consensus size: 15
10177473 GTGAACATTG
* *
10177483 GTGTTACGAGCACTC
1 GTGTTGCGAACACTC
* *
10177498 GTGTTGCAAACACTA
1 GTGTTGCGAACACTC
* *
10177513 GAGCTGCGAACACTC
1 GTGTTGCGAACACTC
* * *
10177528 ATGTTGTGAACACTG
1 GTGTTGCGAACACTC
*
10177543 GAGTTGCGAACACTC
1 GTGTTGCGAACACTC
* *
10177558 ATGTTGCGAACACAC
1 GTGTTGCGAACACTC
** * *
10177573 ACGATGCGAACA-TT
1 GTGTTGCGAACACTC
*
10177587 GATGTTGCGAACGCTC
1 G-TGTTGCGAACACTC
10177603 GTGTT
1 GTGTT
10177608 ATGAGCGTGG
Statistics
Matches: 79, Mismatches: 29, Indels: 4
0.71 0.26 0.04
Matches are distributed among these distances:
15 77 0.97
16 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (15 bp):
GTGTTGCGAACACTC
Found at i:10177533 original size:30 final size:30
Alignment explanation
Indices: 10177493--10177598 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
10177483 GTGTTACGAG
* *
10177493 CACTCGTGTTGCAAACACTAGAGCTGCGAA
1 CACTCATGTTGCGAACACTAGAGCTGCGAA
* * *
10177523 CACTCATGTTGTGAACACTGGAGTTGCGAA
1 CACTCATGTTGCGAACACTAGAGCTGCGAA
* *
10177553 CACTCATGTTGCGAACAC-ACACGATGCGAA
1 CACTCATGTTGCGAACACTAGA-GCTGCGAA
* *
10177583 CATTGATGTTGCGAAC
1 CACTCATGTTGCGAAC
10177599 GCTCGTGTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 1 0.02
30 63 0.98
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (30 bp):
CACTCATGTTGCGAACACTAGAGCTGCGAA
Found at i:10177584 original size:45 final size:45
Alignment explanation
Indices: 10177517--10177607 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
10177507 ACACTAGAGC
* * * *
10177517 TGCGAACACTCATGTTGTGAACACTGGA-GTTGCGAACACTCATGT
1 TGCGAACACACACGATGCGAACA-TGGATGTTGCGAACACTCATGT
* * *
10177562 TGCGAACACACACGATGCGAACATTGATGTTGCGAACGCTCGTGT
1 TGCGAACACACACGATGCGAACATGGATGTTGCGAACACTCATGT
10177607 T
1 T
10177608 ATGAGCGTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (45 bp):
TGCGAACACACACGATGCGAACATGGATGTTGCGAACACTCATGT
Found at i:10181459 original size:51 final size:51
Alignment explanation
Indices: 10181393--10181636 Score: 364
Period size: 51 Copynumber: 4.8 Consensus size: 51
10181383 CCATATAGGA
* * * *
10181393 ATTCATATACTCACGATGACACTGAGTCATCGGACCTTTAATTCGTTATGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGG
* * *
10181444 ATTCATTTACTCACGATGACACTTGGTCATCGGACCTTTAATCCGTAAAGA
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGG
* *
10181495 ATTCATTTACTCACGATGACACTTAATCATCGAACCTTTAA-TCTGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTC-GTAAAGG
*
10181546 ATTCATTTACTCACGATGACACTTAGTCATCAGACCTTTAATTCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGG
*
10181597 ATTCATTTACTCACAATGACACTTAGTCATCGGACTCTTT
1 ATTCATTTACTCACGATGACACTTAGTCATCGGAC-CTTT
10181637 CATTTATAGC
Statistics
Matches: 173, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
50 1 0.01
51 166 0.96
52 6 0.03
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGG
Found at i:10181525 original size:102 final size:102
Alignment explanation
Indices: 10181348--10181636 Score: 368
Period size: 102 Copynumber: 2.8 Consensus size: 102
10181338 TTTCATTTAA
* ** * * *
10181348 TACTCACGATGACA--TAGGTCATCAGACCCCTTGTTCCATATAGGAATTCATATACTCACGATG
1 TACTCACGATGACACTTA-GTCATCAGA-CCTTTAATCCGTA-AAGAATTCATTTACTCACGATG
* * *
10181411 ACACTGAGTCATCGGACCTTTAAT-TCGTTATGGATTCATT
63 ACACTTAGTCATCGGACCTTTAATCT-GTAAAGGATTCATT
* *
10181451 TACTCACGATGACACTTGGTCATCGGACCTTTAATCCGTAAAGAATTCATTTACTCACGATGACA
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGAATTCATTTACTCACGATGACA
* *
10181516 CTTAATCATCGAACCTTTAATCTGTAAAGGATTCATT
66 CTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
* * *
10181553 TACTCACGATGACACTTAGTCATCAGACCTTTAATTCGTAAAGGATTCATTTACTCACAATGACA
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGAATTCATTTACTCACGATGACA
10181618 CTTAGTCATCGGACTCTTT
66 CTTAGTCATCGGAC-CTTT
10181637 CATTTATAGC
Statistics
Matches: 162, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
102 125 0.77
103 28 0.17
104 8 0.05
105 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (102 bp):
TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGAATTCATTTACTCACGATGACA
CTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
Found at i:10187276 original size:149 final size:148
Alignment explanation
Indices: 10187040--10187346 Score: 488
Period size: 149 Copynumber: 2.1 Consensus size: 148
10187030 TTAAGAAAAT
*
10187040 GCACACGACCGTGGGCCAGGACGTGTGTTTAACCGTGGGAGCATTCAGGCACGAGTCACACTCCC
1 GCACACG-CCGTGGGCCAGGACGTGTCTTTAACCGTGGGAGCATTCAGGCACGAGTCACACTCCC
* * * * * *
10187105 ATGTGTAGCTGCGAAATTAGGACCCAGGGCCATGGACTAGACCCTGTTCCAGGCCGTGTAAGTCC
65 ATGTGTAGCTACGAAATTAGGACCCACGACCATGGACTAGACCATGTGCCAAGCCGTGTAAGTCC
10187170 TGCAGCTAACACGCCTAAG
130 TGCAGCTAACACGCCTAAG
* * *
10187189 GCACACGCTCGTGGGCCAGGATGTGTCTTTAACCGTGGGAGCATTTAGGCACGAGTCACACTCTC
1 GCACACGC-CGTGGGCCAGGACGTGTCTTTAACCGTGGGAGCATTCAGGCACGAGTCACACTCCC
* *
10187254 GTGTGTAGCTACGAAATTAGGACCCACGACCATGGACTAGGCCATGTGCCAAGCCGTGTAAGTCC
65 ATGTGTAGCTACGAAATTAGGACCCACGACCATGGACTAGACCATGTGCCAAGCCGTGTAAGTCC
10187319 TGCAGCTAACACGCCTAAG
130 TGCAGCTAACACGCCTAAG
10187338 GCACACGCC
1 GCACACGCC
10187347 CGTGTGAGCC
Statistics
Matches: 145, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
148 2 0.01
149 143 0.99
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.19
Consensus pattern (148 bp):
GCACACGCCGTGGGCCAGGACGTGTCTTTAACCGTGGGAGCATTCAGGCACGAGTCACACTCCCA
TGTGTAGCTACGAAATTAGGACCCACGACCATGGACTAGACCATGTGCCAAGCCGTGTAAGTCCT
GCAGCTAACACGCCTAAG
Found at i:10187982 original size:26 final size:26
Alignment explanation
Indices: 10187953--10188146 Score: 96
Period size: 26 Copynumber: 7.7 Consensus size: 26
10187943 ATACTTTTGT
*
10187953 GTTTATGCTCGCCAGCTTATATATGC
1 GTTTACGCTCGCCAGCTTATATATGC
* * ** *
10187979 GTTTACACTCGCTAGCTTGCACA--C
1 GTTTACGCTCGCCAGCTTATATATGC
* *
10188003 GTTTACGCTCGTCAGCTTATATATGG
1 GTTTACGCTCGCCAGCTTATATATGC
** * ** *
10188029 GTTTGTGCTCACCAGCTTGCACA--C
1 GTTTACGCTCGCCAGCTTATATATGC
* *** *
10188053 GTTTATAG-TCATTAGCTTATTTATGC
1 GTTTA-CGCTCGCCAGCTTATATATGC
* * * * *
10188079 ATTTACGCTTGCCAACTTACACA--C
1 GTTTACGCTCGCCAGCTTATATATGC
* *
10188103 GTTTACGCTCGTCAGCTTATTTATGC
1 GTTTACGCTCGCCAGCTTATATATGC
10188129 GTTTACGCTCGCCAGCTT
1 GTTTACGCTCGCCAGCTT
10188147 GCACAATATA
Statistics
Matches: 113, Mismatches: 47, Indels: 16
0.64 0.27 0.09
Matches are distributed among these distances:
24 48 0.42
25 2 0.02
26 63 0.56
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.37
Consensus pattern (26 bp):
GTTTACGCTCGCCAGCTTATATATGC
Found at i:10188013 original size:50 final size:50
Alignment explanation
Indices: 10187953--10188151 Score: 229
Period size: 50 Copynumber: 4.0 Consensus size: 50
10187943 ATACTTTTGT
* * * *
10187953 GTTTATGCTCGCCAGCTTATATATGCGTTTACACTCGCTAGCTTGCACAC
1 GTTTACGCTCGTCAGCTTATATATGCGTTTACGCTCGCCAGCTTGCACAC
* ** *
10188003 GTTTACGCTCGTCAGCTTATATATGGGTTTGTGCTCACCAGCTTGCACAC
1 GTTTACGCTCGTCAGCTTATATATGCGTTTACGCTCGCCAGCTTGCACAC
* * * * * * * *
10188053 GTTTATAG-TCATTAGCTTATTTATGCATTTACGCTTGCCAACTTACACAC
1 GTTTA-CGCTCGTCAGCTTATATATGCGTTTACGCTCGCCAGCTTGCACAC
*
10188103 GTTTACGCTCGTCAGCTTATTTATGCGTTTACGCTCGCCAGCTTGCACA
1 GTTTACGCTCGTCAGCTTATATATGCGTTTACGCTCGCCAGCTTGCACA
10188152 ATATATATAT
Statistics
Matches: 120, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.01
50 118 0.98
51 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (50 bp):
GTTTACGCTCGTCAGCTTATATATGCGTTTACGCTCGCCAGCTTGCACAC
Found at i:10188144 original size:100 final size:100
Alignment explanation
Indices: 10187966--10188151 Score: 264
Period size: 100 Copynumber: 1.9 Consensus size: 100
10187956 TATGCTCGCC
* * * * *
10187966 AGCTTATATATGCGTTTACACTCGCTAGCTTGCACACGTTTACGCTCGTCAGCTTATATATGGGT
1 AGCTTATATATGCATTTACACTCGCCAACTTACACACGTTTACGCTCGTCAGCTTATATATGCGT
**
10188031 TTGTGCTCACCAGCTTGCACACGTTTATAGTCATT
66 TTACGCTCACCAGCTTGCACACGTTTATAGTCATT
* * * *
10188066 AGCTTATTTATGCATTTACGCTTGCCAACTTACACACGTTTACGCTCGTCAGCTTATTTATGCGT
1 AGCTTATATATGCATTTACACTCGCCAACTTACACACGTTTACGCTCGTCAGCTTATATATGCGT
*
10188131 TTACGCTCGCCAGCTTGCACA
66 TTACGCTCACCAGCTTGCACA
10188152 ATATATATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (100 bp):
AGCTTATATATGCATTTACACTCGCCAACTTACACACGTTTACGCTCGTCAGCTTATATATGCGT
TTACGCTCACCAGCTTGCACACGTTTATAGTCATT
Found at i:10190501 original size:53 final size:53
Alignment explanation
Indices: 10190419--10190822 Score: 537
Period size: 53 Copynumber: 7.6 Consensus size: 53
10190409 GTAAATGTAA
* *
10190419 AAAGGTCCTATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * *
10190472 AAAGGTCCGATGACTCTGTGTCATTGTGAGTTATATGAATCCTATTATGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * * ** * *
10190525 AAAGGTCCGACGACACGGTGTCATAATGAGTTATATGAATCTTATCAC-AGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGA-ATT
* * *
10190578 AAAGGTCCAATGACTCGGTGTCATCGTGAGTTATATGAATCTTATTACGAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
*
10190631 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAAT-CTATTGCCG-ATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATT-ACGAATT
** * *
10190683 AAAGGTCCGATGACTAGGTGTCATCAG-GAGTTATATGAATCCTATCACGGATT
1 AAAGGTCCGATGACTCTGTGTCATC-GTGAGTTATATGAATCCTATTACGAATT
* *
10190736 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAACCCTATTACAAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* *
10190789 AAAGTTCCGATGACTCCGTGTCATCGTGAGTTAT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTAT
10190823 CAAATGTGAA
Statistics
Matches: 308, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
52 46 0.15
53 261 0.85
54 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
Found at i:10190760 original size:158 final size:159
Alignment explanation
Indices: 10190419--10190822 Score: 623
Period size: 158 Copynumber: 2.5 Consensus size: 159
10190409 GTAAATGTAA
* *
10190419 AAAGGTCCTATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGAATTAAAGGTCCGATG
1 AAAGGTCCAATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATTAAAGGTCCGATG
* **
10190484 ACTCTGTGTCATTGTGAGTTATATGAATCCTATTATGGATTAAAGGTCCGACGACACGGTGTCAT
66 ACTCTGTGTCATCGTGAGTTATATGAATCCTATTACCGATTAAAGGTCCGACGACACGGTGTCAT
* *
10190549 AATGAGTTATATGAATCTTATCACAGATT
131 AAGGAGTTATATGAATCCTATCACAGATT
* *
10190578 AAAGGTCCAATGACTCGGTGTCATCGTGAGTTATATGAATCTTATTACGAATTAAAGGTCCGATG
1 AAAGGTCCAATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATTAAAGGTCCGATG
* *
10190643 ACTCTGTGTCATCGTGAGTTATATGAAT-CTATTGCCGATTAAAGGTCCGATGACTA-GGTGTCA
66 ACTCTGTGTCATCGTGAGTTATATGAATCCTATTACCGATTAAAGGTCCGACGAC-ACGGTGTCA
* *
10190706 TCAGGAGTTATATGAATCCTATCACGGATT
130 TAAGGAGTTATATGAATCCTATCACAGATT
* * * *
10190736 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAACCCTATTACAAATTAAAGTTCCGATG
1 AAAGGTCCAATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATTAAAGGTCCGATG
*
10190801 ACTCCGTGTCATCGTGAGTTAT
66 ACTCTGTGTCATCGTGAGTTAT
10190823 CAAATGTGAA
Statistics
Matches: 224, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
158 135 0.60
159 89 0.40
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (159 bp):
AAAGGTCCAATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATTAAAGGTCCGATG
ACTCTGTGTCATCGTGAGTTATATGAATCCTATTACCGATTAAAGGTCCGACGACACGGTGTCAT
AAGGAGTTATATGAATCCTATCACAGATT
Found at i:10196170 original size:33 final size:32
Alignment explanation
Indices: 10196124--10196304 Score: 123
Period size: 33 Copynumber: 5.4 Consensus size: 32
10196114 AGTGTATATA
10196124 GATGTAAGACCATAGCTAGGCTATGACATTAT
1 GATGTAAGACCATAGCTAGGCTATGACATTAT
* * *
10196156 GATGTTAAGACCATAGTTGGGCTATGACATTCT
1 GATG-TAAGACCATAGCTAGGCTATGACATTAT
* * * * *
10196189 AACGTAAGACCAT-GGTTGGACTATGGCAGTGTATAT
1 GATGTAAGACCATAGCTAGG-CTATGACA---T-TAT
* * * *
10196225 ATATGTAAGATCATAGCTAGGCTATGGCATTTT
1 -GATGTAAGACCATAGCTAGGCTATGACATTAT
* * *
10196258 GGTGTTAAGACCATAGAC-ATGTTATGACATTAT
1 GATG-TAAGACCATAG-CTAGGCTATGACATTAT
10196291 GAATGTAAGACCAT
1 G-ATGTAAGACCAT
10196305 GGTCGGGCCA
Statistics
Matches: 115, Mismatches: 23, Indels: 21
0.72 0.14 0.13
Matches are distributed among these distances:
31 4 0.03
32 22 0.19
33 60 0.52
34 4 0.03
35 1 0.01
36 2 0.02
37 18 0.16
38 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (32 bp):
GATGTAAGACCATAGCTAGGCTATGACATTAT
Found at i:10196264 original size:102 final size:102
Alignment explanation
Indices: 10196083--10196273 Score: 310
Period size: 102 Copynumber: 1.9 Consensus size: 102
10196073 ACAGGCTGCC
*
10196083 TTCTGACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
1 TTCTAACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
10196148 GACATTATGATGTTAAGACCATAGTTGGGCTATGACA
66 GACATTATGATGTTAAGACCATAGTTGGGCTATGACA
* * * *
10196185 TTCTAACGTAAGACCATGGTTGGACTATGGCAGTGTATATATATGTAAGATCATAGCTAGGCTAT
1 TTCTAACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
* * *
10196250 GGCATTTTGGTGTTAAGACCATAG
66 GACATTATGATGTTAAGACCATAG
10196274 ACATGTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (102 bp):
TTCTAACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
GACATTATGATGTTAAGACCATAGTTGGGCTATGACA
Found at i:10196284 original size:102 final size:102
Alignment explanation
Indices: 10196083--10196307 Score: 306
Period size: 102 Copynumber: 2.2 Consensus size: 102
10196073 ACAGGCTGCC
*
10196083 TTCTGACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
1 TTCTAACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
***
10196148 GACATTATGATGTTAAGACCATAGTTGGGCTATGACA
66 GACATTATGATGTTAAGACCATAGACAGGCTATGACA
* * * *
10196185 TTCTAACGTAAGACCATGGTTGGACTATGGCAGTGTATATATATGTAAGATCATAGCTAGGCTAT
1 TTCTAACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
* * * * *
10196250 GGCATTTTGGTGTTAAGACCATAGACATGTTATGACA
66 GACATTATGATGTTAAGACCATAGACAGGCTATGACA
* *
10196287 TTATGAATGTAAGACCATGGT
1 TTCT-AACGTAAGACCATGGT
10196308 CGGGCCATGG
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
102 92 0.86
103 15 0.14
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (102 bp):
TTCTAACGTAAGACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGCTAGGCTAT
GACATTATGATGTTAAGACCATAGACAGGCTATGACA
Found at i:10199998 original size:21 final size:21
Alignment explanation
Indices: 10199972--10200038 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
10199962 TTACTATTTT
10199972 GACCAACATTCACCATTCTTA
1 GACCAACATTCACCATTCTTA
** * *
10199993 GACCAATGTTTACTATT-TT-
1 GACCAACATTCACCATTCTTA
10200012 GACCAACATTCACCATTCTTA
1 GACCAACATTCACCATTCTTA
10200033 GACCAA
1 GACCAA
10200039 TGTTTACAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 13 0.36
20 4 0.11
21 19 0.53
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (21 bp):
GACCAACATTCACCATTCTTA
Found at i:10200002 original size:40 final size:40
Alignment explanation
Indices: 10199957--10200052 Score: 183
Period size: 40 Copynumber: 2.4 Consensus size: 40
10199947 ATTCTTGATT
10199957 AATGTTTACTATTTTGACCAACATTCACCATTCTTAGACC
1 AATGTTTACTATTTTGACCAACATTCACCATTCTTAGACC
10199997 AATGTTTACTATTTTGACCAACATTCACCATTCTTAGACC
1 AATGTTTACTATTTTGACCAACATTCACCATTCTTAGACC
*
10200037 AATGTTTACAATTTTG
1 AATGTTTACTATTTTG
10200053 GCCACTATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (40 bp):
AATGTTTACTATTTTGACCAACATTCACCATTCTTAGACC
Found at i:10200017 original size:19 final size:19
Alignment explanation
Indices: 10199957--10200052 Score: 75
Period size: 21 Copynumber: 4.8 Consensus size: 19
10199947 ATTCTTGATT
*
10199957 AATGTTTACTATTTTGACC
1 AATGTTTACCATTTTGACC
** *
10199976 AACATTCACCATTCTTAGACC
1 AATGTTTACCATT-TT-GACC
*
10199997 AATGTTTACTATTTTGACC
1 AATGTTTACCATTTTGACC
** *
10200016 AACATTCACCATTCTTAGACC
1 AATGTTTACCATT-TT-GACC
*
10200037 AATGTTTACAATTTTG
1 AATGTTTACCATTTTG
10200053 GCCACTATTT
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
19 23 0.40
20 8 0.14
21 26 0.46
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (19 bp):
AATGTTTACCATTTTGACC
Found at i:10200100 original size:20 final size:20
Alignment explanation
Indices: 10200075--10200112 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10200065 TGTTTGCCAT
10200075 TCTTTGACCAATGATTGAAA
1 TCTTTGACCAATGATTGAAA
* *
10200095 TCTTTGACTAATGTTTGA
1 TCTTTGACCAATGATTGA
10200113 TATTTTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
TCTTTGACCAATGATTGAAA
Found at i:10200856 original size:98 final size:98
Alignment explanation
Indices: 10200680--10201518 Score: 946
Period size: 98 Copynumber: 8.6 Consensus size: 98
10200670 TACAAAGGGG
* * * *
10200680 CAGAGTAAAACAAGTATCAGATCTCAATCTCCACTGAAGTTGCAATGGAATGGAGTGAAGCCACA
1 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCCCA
* *
10200745 CCCAAATCCTATATCCTTGAAGATGCAGTGGATT
66 TCCAAATCCTATATCCCTGAAGATGCAGTGGA-T
* * * * *
10200779 C-GATTGAAACAAGTAGCAAATCTCAATCTCCACTAAAGTTACAATGGAATGGAGTGAAGCCCCA
1 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCCCA
* * *
10200843 TCCAAATCTTATATCCCTAAAGATGCAATGGAT
66 TCCAAATCCTATATCCCTGAAGATGCAGTGGAT
* * * * *
10200876 CAAATTAAAACAAGTAACAAATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAGTGAAGCCACA
1 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCCCA
* *
10200941 TCCAAATCTTATATCCCT-ATAGATACAGTGGAT
66 TCCAAATCCTATATCCCTGA-AGATGCAGTGGAT
* *
10200974 C-GAATTAAAACAAGTA-CAAGATCTTAATCTCCACTGAAGTTGCAGTGGAATGGAGTGATGCCA
1 CAG-ATTAAAACAAGTAGC-AGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCC-
* *
10201037 CC-T-CAAACCCTATATCCCTGAAGATGCAGTCGAT
63 CCATCCAAATCCTATATCCCTGAAGATGCAGTGGAT
* * * *
10201071 CGGATTAAAACAAGTAGCAGATCTCAATCTTCACTGAAGTTGTAGTGCAATGGAGTGAAG--CCA
1 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCCCA
*
10201134 TCCCAAATCCTATATCCCTAAAGATGCAGTGGAT
66 T-CCAAATCCTATATCCCTGAAGATGCAGTGGAT
10201168 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTT-CTAGTGGAATGGAGTGAAGCCAC
1 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGC-AGTGGAATGGAGTGAAGCC-C
* *
10201232 C--CCAAATCCTATATCCCTAAAGATACAGTGGAT
64 CATCCAAATCCTATATCCCTGAAGATGCAGTGGAT
* *
10201265 CAAATTAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGT-G---GGAGTGAAGCCACC
1 CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCC-CC
* * *
10201326 --CCAAATCCTATATCCTTGAAGTTGCA-AGGAT
65 ATCCAAATCCTATATCCCTGAAGATGCAGTGGAT
** ** * *
10201357 TGGATT-AAACTAACAGTAATAGATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAGTAAAGCC
1 CAGATTAAAAC--A-AGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCC
* *
10201421 ACA-CCTAAATCCTAAATCCCTGAAGATGCAGTGGAT
63 CCATCC-AAATCCTATATCCCTGAAGATGCAGTGGAT
* * * *
10201457 CAAATT-AAACTAACAGTAGCAGATCTCAATATCCACTGAAGTTGTAGTGGAATGGTGTGAAG
1 CAGATTAAAAC--A-AGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAG
10201519 TTACAAACCT
Statistics
Matches: 641, Mismatches: 73, Indels: 51
0.84 0.10 0.07
Matches are distributed among these distances:
91 4 0.01
92 7 0.01
93 37 0.06
94 32 0.05
95 2 0.00
96 1 0.00
97 237 0.37
98 238 0.37
99 23 0.04
100 60 0.09
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (98 bp):
CAGATTAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCCCA
TCCAAATCCTATATCCCTGAAGATGCAGTGGAT
Found at i:10200872 original size:48 final size:48
Alignment explanation
Indices: 10200720--10200874 Score: 116
Period size: 48 Copynumber: 3.2 Consensus size: 48
10200710 CCACTGAAGT
* * * * *
10200720 TGCAATGGAATGGAGTGAAGCCACACCCAAATCCTATATCCTTGAAGA
1 TGCAATGGAATGGAGTGAAGCCCCATCCAAATCTTATATCCCTAAAGA
* * * * * * * * * *
10200768 TGCAGTGGATTCGATTGAA--ACAAGTAGCAAATCTCAATCTCCACTAAAGT
1 TGCAATGGAATGGAGTGAAGCCCCA-T-CCAAATCT-TATATCC-CTAAAGA
*
10200818 TACAATGGAATGGAGTGAAGCCCCATCCAAATCTTATATCCCTAAAGA
1 TGCAATGGAATGGAGTGAAGCCCCATCCAAATCTTATATCCCTAAAGA
10200866 TGCAATGGA
1 TGCAATGGA
10200875 TCAAATTAAA
Statistics
Matches: 74, Mismatches: 27, Indels: 12
0.65 0.24 0.11
Matches are distributed among these distances:
46 1 0.01
48 35 0.47
49 10 0.14
50 25 0.34
51 1 0.01
52 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (48 bp):
TGCAATGGAATGGAGTGAAGCCCCATCCAAATCTTATATCCCTAAAGA
Found at i:10201100 original size:97 final size:97
Alignment explanation
Indices: 10200685--10201518 Score: 1001
Period size: 97 Copynumber: 8.6 Consensus size: 97
10200675 AGGGGCAGAG
* *
10200685 TAAAACAAGTATCAGATCTCAATCTCCACTGAAGTTGCAATGGAATGGAGTGAAGCCACACCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCAC-CCCAA
* *
10200750 ATCCTATATCCTTGAAGATGCAGTGGATTC-GAT
65 ATCCTATATCCCTGAAGATGCAGTGGA-TCAAAT
* * * * *
10200783 TGAAACAAGTAGCAAATCTCAATCTCCACTAAAGTTACAATGGAATGGAGTGAAGCC-CCATCCA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCACC--CCA
* * *
10200847 AATCTTATATCCCTAAAGATGCAATGGATCAAAT
64 AATCCTATATCCCTGAAGATGCAGTGGATCAAAT
* * * *
10200881 TAAAACAAGTAACAAATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAGTGAAGCCACATCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCAC-CCCAA
* * *
10200946 ATCTTATATCCCT-ATAGATACAGTGGATCGAAT
65 ATCCTATATCCCTGA-AGATGCAGTGGATCAAAT
* * *
10200979 TAAAACAAGTA-CAAGATCTTAATCTCCACTGAAGTTGCAGTGGAATGGAGTGATGCCACCTCAA
1 TAAAACAAGTAGC-AGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCACCCCAA
* * **
10201043 ACCCTATATCCCTGAAGATGCAGTCGATCGGAT
65 ATCCTATATCCCTGAAGATGCAGTGGATCAAAT
* * * *
10201076 TAAAACAAGTAGCAGATCTCAATCTTCACTGAAGTTGTAGTGCAATGGAGTGAAGCCATCCCAAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCACCCCAAA
* *
10201141 TCCTATATCCCTAAAGATGCAGTGGATCAGAT
66 TCCTATATCCCTGAAGATGCAGTGGATCAAAT
10201173 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTT-CTAGTGGAATGGAGTGAAGCCACCCCAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGC-AGTGGAATGGAGTGAAGCCACCCCAA
* *
10201237 ATCCTATATCCCTAAAGATACAGTGGATCAAAT
65 ATCCTATATCCCTGAAGATGCAGTGGATCAAAT
*
10201270 TAAAACAAGTAGCAGATCTCAATCTCCACTAAAGTTGCAGT-G---GGAGTGAAGCCACCCCAAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCACCCCAAA
* * * *
10201331 TCCTATATCCTTGAAGTTGCAAGGATTGGATTAAAC
66 TCCTATATCCCTGAAGATGC-A-G--TGGATCAAAT
** * * *
10201367 T--AAC-AGTAATAGATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAGTAAAGCCACACCTAA
1 TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCAC-CCCAA
*
10201429 ATCCTAAATCCCTGAAGATGCAGTGGATCAAAT
65 ATCCTATATCCCTGAAGATGCAGTGGATCAAAT
* * *
10201462 T-AAACTAACAGTAGCAGATCTCAATATCCACTGAAGTTGTAGTGGAATGGTGTGAAG
1 TAAAAC--A-AGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAG
10201519 TTACAAACCT
Statistics
Matches: 640, Mismatches: 71, Indels: 48
0.84 0.09 0.06
Matches are distributed among these distances:
93 35 0.05
94 31 0.05
95 14 0.02
96 5 0.01
97 256 0.40
98 233 0.36
99 23 0.04
100 43 0.07
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (97 bp):
TAAAACAAGTAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCACCCCAAA
TCCTATATCCCTGAAGATGCAGTGGATCAAAT
Found at i:10202006 original size:14 final size:16
Alignment explanation
Indices: 10201977--10202010 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
10201967 TTACCTAAAA
10201977 CCAAATTACACCAAGC
1 CCAAATTACACCAAGC
10201993 CCAAA-TAC-CCAAGC
1 CCAAATTACACCAAGC
10202007 CCAA
1 CCAA
10202011 CTAAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 3 0.17
16 5 0.28
ACGTcount: A:0.44, C:0.41, G:0.06, T:0.09
Consensus pattern (16 bp):
CCAAATTACACCAAGC
Found at i:10214463 original size:15 final size:15
Alignment explanation
Indices: 10214436--10214474 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10214426 TAAAAGAAAG
10214436 AACAAATATAAAGTGA
1 AACAAA-ATAAAGTGA
* *
10214452 AATAAAATAAAGTTA
1 AACAAAATAAAGTGA
10214467 AACAAAAT
1 AACAAAAT
10214475 TTTGTTGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (15 bp):
AACAAAATAAAGTGA
Found at i:10216674 original size:21 final size:20
Alignment explanation
Indices: 10216631--10216699 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
10216621 GAGCCCAGAC
* **
10216631 CGTGTGGTTATCCCACACACT
1 CGTGTGGCTAT-CCACATGCT
10216652 CGTGTGGCTATCCTACATGCT
1 CGTGTGGCTATCC-ACATGCT
* *
10216673 CGTGTCGCTACTCCACATGTT
1 CGTGTGGCTA-TCCACATGCT
10216694 CGTGTG
1 CGTGTG
10216700 TCTACCCGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.88
22 3 0.08
ACGTcount: A:0.14, C:0.30, G:0.23, T:0.32
Consensus pattern (20 bp):
CGTGTGGCTATCCACATGCT
Found at i:10217956 original size:40 final size:40
Alignment explanation
Indices: 10217903--10218015 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
10217893 TCGACTCAAG
* *
10217903 GCCTACTAGGCACAAAGCCCGATAAACACATCGGCGCAAA
1 GCCTACTAGGCACAAAGCCCGATAAATACATCGGCACAAA
* * * * * *
10217943 GCCTGCTACGCACAAAGCCAGATAAATATACCAGCACAAA
1 GCCTACTAGGCACAAAGCCCGATAAATACATCGGCACAAA
*
10217983 GCCTACTAGGCACAAAGCCCAATAAATACATCG
1 GCCTACTAGGCACAAAGCCCGATAAATACATCG
10218016 CCATACCAAC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.40, C:0.31, G:0.17, T:0.12
Consensus pattern (40 bp):
GCCTACTAGGCACAAAGCCCGATAAATACATCGGCACAAA
Found at i:10225732 original size:15 final size:15
Alignment explanation
Indices: 10225690--10225730 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
10225680 AACATTATTT
10225690 TTTTTTCTTTT-TCA
1 TTTTTTCTTTTCTCA
10225704 TTTTCTTCCTTTTCTCA
1 TTTT-TT-CTTTTCTCA
10225721 -TTTTTCTTTT
1 TTTTTTCTTTT
10225731 TCAAATGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 8 0.33
17 3 0.12
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCTTTTCTCA
Found at i:10228314 original size:24 final size:24
Alignment explanation
Indices: 10228282--10228331 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
10228272 CCTAAGCAGA
10228282 ATGAGAGATTGGATATTGATAATC
1 ATGAGAGATTGGATATTGATAATC
10228306 ATGAGAGATTGGATATTGATAATC
1 ATGAGAGATTGGATATTGATAATC
10228330 AT
1 AT
10228332 TCTGTGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (24 bp):
ATGAGAGATTGGATATTGATAATC
Found at i:10233943 original size:21 final size:21
Alignment explanation
Indices: 10233919--10233958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10233909 GTGGCTATCC
*
10233919 TACATGCCCGTGTGGTTACTT
1 TACACGCCCGTGTGGTTACTT
* *
10233940 TACACGCCTGTGTGTTTAC
1 TACACGCCCGTGTGGTTAC
10233959 CCATGTAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (21 bp):
TACACGCCCGTGTGGTTACTT
Found at i:10235288 original size:40 final size:40
Alignment explanation
Indices: 10235180--10235289 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
10235170 GCTTAAGGCC
* * * * *
10235180 TGCTAGGCACAAAGGCT-GATAAACACACCGGCATAAAGTT
1 TGCTAGGCACAAA-GCTCGATAAATACACTGACACAAAGCT
* *
10235220 TCCTAGGCACAAAGCCCGATAAATACACTGACACAAAGCT
1 TGCTAGGCACAAAGCTCGATAAATACACTGACACAAAGCT
*
10235260 TGCTAGGCAGAAAGCTCGATAAATACACTG
1 TGCTAGGCACAAAGCTCGATAAATACACTG
10235290 CCATAACAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (40 bp):
TGCTAGGCACAAAGCTCGATAAATACACTGACACAAAGCT
Found at i:10240275 original size:70 final size:70
Alignment explanation
Indices: 10240182--10240375 Score: 307
Period size: 70 Copynumber: 2.8 Consensus size: 70
10240172 TTATTTATCT
* * *
10240182 AAGTTAATTGTTAAATTACTGATAATTTTGAAAGGGAACAATGGTTGTTCCAGTGAGGTTTTAGA
1 AAGTTAATTGTTAACTTACTGATAATTTCGAAAGGGAACAATAGTTGTTCCAGTGAGGTTTTAGA
*
10240247 TACCC
66 TACCA
*
10240252 AAGTTAATTGTTAACTTACTGATAATTTGGAAAGGGAACAATAGTTGTTCCAGTGAGGTTTTAGA
1 AAGTTAATTGTTAACTTACTGATAATTTCGAAAGGGAACAATAGTTGTTCCAGTGAGGTTTTAGA
*
10240317 TATCA
66 TACCA
* * *
10240322 AAGTTAATTGTTAACTTACTAATAATTTCGAAAGTGAACAATTGTTGTTCCAGT
1 AAGTTAATTGTTAACTTACTGATAATTTCGAAAGGGAACAATAGTTGTTCCAGT
10240376 AAGAAAAATC
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 115 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (70 bp):
AAGTTAATTGTTAACTTACTGATAATTTCGAAAGGGAACAATAGTTGTTCCAGTGAGGTTTTAGA
TACCA
Found at i:10244918 original size:13 final size:13
Alignment explanation
Indices: 10244900--10244927 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10244890 GGCTTGAGAC
10244900 CCCCACGGGTGAA
1 CCCCACGGGTGAA
10244913 CCCCACGGGTGAA
1 CCCCACGGGTGAA
10244926 CC
1 CC
10244928 AATGTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (13 bp):
CCCCACGGGTGAA
Found at i:10250377 original size:19 final size:19
Alignment explanation
Indices: 10250351--10250399 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
10250341 AACTTTGATC
**
10250351 TTTAAAAAAAGTGATTTTTT
1 TTTAAAAAAA-TGAGATTTT
*
10250371 TTTAAAAAAATTAGATTTT
1 TTTAAAAAAATGAGATTTT
10250390 TTTAAAAAAA
1 TTTAAAAAAA
10250400 AATTGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (19 bp):
TTTAAAAAAATGAGATTTT
Found at i:10250408 original size:19 final size:20
Alignment explanation
Indices: 10250354--10250409 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
10250344 TTTGATCTTT
* **
10250354 AAAAAAAGTGATTTTTTTTT
1 AAAAAAATTGATTTTTTTAA
10250374 AAAAAAATTAGATTTTTTTAA
1 AAAAAAATT-GATTTTTTTAA
10250395 AAAAAAATTG-TTTTT
1 AAAAAAATTGATTTTT
10250410 AGTCATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 9 0.28
21 18 0.56
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
AAAAAAATTGATTTTTTTAA
Found at i:10250475 original size:137 final size:138
Alignment explanation
Indices: 10250220--10250658 Score: 462
Period size: 137 Copynumber: 3.1 Consensus size: 138
10250210 AAAAGTTTTA
* * * * * * *
10250220 TGATTTTTTAAAAAAAAAAAAGTTTAAATTTTTAAAAATAAAAATATGGTTTTGGTCATCTTAAA
1 TGATTTTTTTAAAAAAAGAAAG-TTAGATTTTTTAAAA-AAAAATATGTTTTTAGTCATTTTAAA
*
10250285 GGAAAAGTTTAAATTTTTAAACAAAGTATTGATTTTTTTAACTATTTCAAAATAAAAACTTTGAT
64 -GAAAACTTTAAATTTTTAAACAAAGT-TTGATTTTTTTAACTATTTCAAAATAAAAACTTTGAT
10250350 CTTTAAAAAAAG
127 CTTTAAAAAAAG
** *
10250362 TGATTTTTTT-TTAAAA-AAA-TTAGATTTTTTTAAAAAAAAAT-TGTTTTTAGTCATTTTCAAC
1 TGATTTTTTTAAAAAAAGAAAGTTAGA-TTTTTTAAAAAAAAATATGTTTTTAGTCATTTT-AAA
* *
10250423 GAAAACTTTGAATTTTTAAACAAAGATTTGATTTTTTTAACTATTTCGAAATAAAAGA-TTTGAT
64 GAAAACTTTAAATTTTTAAACAAAG-TTTGATTTTTTTAACTATTTCAAAATAAAA-ACTTTGAT
10250487 CTTTAAGAAAAATAG
127 CTTT-A-AAAAA-AG
*
10250502 TGATTTTTTTAAGAAAAAAGAAAGTTTAGA-TTTTTAAAAATAAAATCTAT-TTTTTAATCATTT
1 TGATTTTTTT-A-AAAAAAGAAAG-TTAGATTTTTTAAAAA-AAAA--TATGTTTTTAGTCATTT
* * *
10250565 TAAAGAAAATTTTTAAATCTTTAAACAAACTTTTGATTTTTTTTAACTATTTCAAAAT-AAAACT
60 TAAAGAAAA-CTTTAAATTTTTAAACAAA-GTTTGA-TTTTTTTAACTATTTCAAAATAAAAACT
* *
10250629 TTAATCTTTAAGAAAAG
122 TTGATCTTTAAAAAAAG
*
10250646 TAATTTTTTTAAA
1 TGATTTTTTTAAA
10250659 GAAGAAAACT
Statistics
Matches: 252, Mismatches: 24, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
137 74 0.29
138 15 0.06
139 14 0.06
140 15 0.06
141 4 0.02
142 11 0.04
143 5 0.02
144 24 0.10
145 8 0.03
146 14 0.06
147 47 0.19
148 21 0.08
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (138 bp):
TGATTTTTTTAAAAAAAGAAAGTTAGATTTTTTAAAAAAAAATATGTTTTTAGTCATTTTAAAGA
AAACTTTAAATTTTTAAACAAAGTTTGATTTTTTTAACTATTTCAAAATAAAAACTTTGATCTTT
AAAAAAAG
Found at i:10254814 original size:25 final size:25
Alignment explanation
Indices: 10254567--10254820 Score: 235
Period size: 25 Copynumber: 10.2 Consensus size: 25
10254557 ACAGAGTTTA
* *
10254567 GCTCTTACGAGCCAG-TCAAAATATT
1 GCTCTTACGAGCCAGAT-AGAATATC
* * * *
10254592 GCTCTTATGAGCCACACAAAATATC
1 GCTCTTACGAGCCAGATAGAATATC
* * *
10254617 GCTCTTACGAGCTAGACAGAATATT
1 GCTCTTACGAGCCAGATAGAATATC
*
10254642 GCTCCTACGAGCCAG-TCAGAATATC
1 GCTCTTACGAGCCAGAT-AGAATATC
* *
10254667 GCTCTTAAGAGCCAG-TCAGAATATT
1 GCTCTTACGAGCCAGAT-AGAATATC
* *
10254692 GCTCTTATGAGCTAGATAGAATATC
1 GCTCTTACGAGCCAGATAGAATATC
* *
10254717 ACCCTTACGAGCCAGATAGAATATC
1 GCTCTTACGAGCCAGATAGAATATC
*
10254742 ACTCTTACGAGCCAGATAGAATATC
1 GCTCTTACGAGCCAGATAGAATATC
* * * *
10254767 ACTCGTACGAGCCAAACAGAATATC
1 GCTCTTACGAGCCAGATAGAATATC
* * * *
10254792 GCTTTTACGAGCTAGATAAAATATT
1 GCTCTTACGAGCCAGATAGAATATC
10254817 GCTC
1 GCTC
10254821 CACCGAGCCA
Statistics
Matches: 190, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
25 189 0.99
26 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (25 bp):
GCTCTTACGAGCCAGATAGAATATC
Found at i:10258875 original size:26 final size:26
Alignment explanation
Indices: 10258846--10259095 Score: 247
Period size: 26 Copynumber: 9.6 Consensus size: 26
10258836 CGTTGGCCAA
* *
10258846 CATGAGTATACATTAACGCTCGTCAG
1 CATGAGTATACGTTTACGCTCGTCAG
* * * * *
10258872 CATGATTATGCATTTACGCTCGCCAA
1 CATGAGTATACGTTTACGCTCGTCAG
* * *
10258898 CATGAATATACATTTATGCTCGTCAG
1 CATGAGTATACGTTTACGCTCGTCAG
* *
10258924 CATGAATATACGTTTACGCTCGTGAG
1 CATGAGTATACGTTTACGCTCGTCAG
*
10258950 CATG-GATATACGTTTACGCTCGTGAG
1 CATGAG-TATACGTTTACGCTCGTCAG
* *
10258976 CATG-GATATACATTTATGCTCGTCAG
1 CATGAG-TATACGTTTACGCTCGTCAG
**
10259002 GGTG-GATATACGTTTACGCTCGTCAG
1 CATGAG-TATACGTTTACGCTCGTCAG
10259028 CATG-GATATACGTTTACGCTCGTCAG
1 CATGAG-TATACGTTTACGCTCGTCAG
* *
10259054 CATGAATATACGTTTACGCTCGTAAG
1 CATGAGTATACGTTTACGCTCGTCAG
* *
10259080 GATGAATATACGTTTA
1 CATGAGTATACGTTTA
10259096 TGCTACTAGA
Statistics
Matches: 196, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
26 196 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (26 bp):
CATGAGTATACGTTTACGCTCGTCAG
Found at i:10258934 original size:78 final size:78
Alignment explanation
Indices: 10258846--10259095 Score: 331
Period size: 78 Copynumber: 3.2 Consensus size: 78
10258836 CGTTGGCCAA
* * * * * * *
10258846 CATGAGTATACATTAACGCTCGTCAGCAT-GATTATGCATTTACGCTCGCCAACATGAATATACA
1 CATGAATATACGTTTACGCTCGTCAGCATGGA-TATACGTTTACGCTCGTCAGCATGAATATACA
10258910 TTTATGCTCGTCAG
65 TTTATGCTCGTCAG
* * *
10258924 CATGAATATACGTTTACGCTCGTGAGCATGGATATACGTTTACGCTCGTGAGCATGGATATACAT
1 CATGAATATACGTTTACGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGAATATACAT
10258989 TTATGCTCGTCAG
66 TTATGCTCGTCAG
** * *
10259002 GGTGGATATACGTTTACGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGAATATACGT
1 CATGAATATACGTTTACGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGAATATACAT
* *
10259067 TTACGCTCGTAAG
66 TTATGCTCGTCAG
*
10259080 GATGAATATACGTTTA
1 CATGAATATACGTTTA
10259096 TGCTACTAGA
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 148 0.99
79 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (78 bp):
CATGAATATACGTTTACGCTCGTCAGCATGGATATACGTTTACGCTCGTCAGCATGAATATACAT
TTATGCTCGTCAG
Found at i:10259089 original size:52 final size:52
Alignment explanation
Indices: 10258846--10259095 Score: 302
Period size: 52 Copynumber: 4.8 Consensus size: 52
10258836 CGTTGGCCAA
* * * * * * * *
10258846 CATGAGTATACATTAACGCTCGTCAGCATGATTATGCATTTACGCTCGCCAA
1 CATGAATATACGTTTACGCTCGTCAGCATGAATATACGTTTACGCTCGTCAG
* * *
10258898 CATGAATATACATTTATGCTCGTCAGCATGAATATACGTTTACGCTCGTGAG
1 CATGAATATACGTTTACGCTCGTCAGCATGAATATACGTTTACGCTCGTCAG
* * * * *
10258950 CATGGATATACGTTTACGCTCGTGAGCATGGATATACATTTATGCTCGTCAG
1 CATGAATATACGTTTACGCTCGTCAGCATGAATATACGTTTACGCTCGTCAG
** * *
10259002 GGTGGATATACGTTTACGCTCGTCAGCATGGATATACGTTTACGCTCGTCAG
1 CATGAATATACGTTTACGCTCGTCAGCATGAATATACGTTTACGCTCGTCAG
* *
10259054 CATGAATATACGTTTACGCTCGTAAGGATGAATATACGTTTA
1 CATGAATATACGTTTACGCTCGTCAGCATGAATATACGTTTA
10259096 TGCTACTAGA
Statistics
Matches: 170, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 170 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (52 bp):
CATGAATATACGTTTACGCTCGTCAGCATGAATATACGTTTACGCTCGTCAG
Found at i:10262178 original size:3 final size:3
Alignment explanation
Indices: 10262170--10262221 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
10262160 AATGGCCCAA
* * * * *
10262170 ATT ATT ATT ATC ATT ACT ACT ACT ATT ATT ATT ATT AAAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
10262216 ATT ATT
1 ATT ATT
10262222 TTTAGGGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:10262429 original size:3 final size:3
Alignment explanation
Indices: 10262423--10262453 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
10262413 AGGTAAGAAG
*
10262423 ACA ACA ACA ACA ACA ACA AAA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
10262454 GCATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:10262841 original size:148 final size:147
Alignment explanation
Indices: 10262657--10262969 Score: 452
Period size: 148 Copynumber: 2.1 Consensus size: 147
10262647 AAAGTTTTGA
* * *
10262657 TTTTTT-AAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAATCATTTTAAAGG
1 TTTTTTAAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATATATTTTTTAATCATTTTAAAGA
* ** ** *
10262721 AAAA-TTTAAATTTTTAAACAAAG-TTTTAATTTTTTTTAGTTATTTCGAAATAAAAGCTTTGAT
66 AAAATTTTAAATCTTTAAACAAAGTTTTTAATTTTTTGAAACTATTTCGAAATAAAAACTTTGAT
10262784 CTTTAAGAAAAGTAGTGAT
131 CTTTAAGAAAAGTAGT--T
*
10262803 TTTTTTAAGAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTAATCATTTTAAAG
1 TTTTTTAA-AAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATATATTTTTTAATCATTTTAAAG
* *
10262868 AAAAATTTTAAATCTTTAAAGAAAGTTTTTTATTTTTTGAAACTATTTCGAAATAAAAACTTTGA
65 AAAAATTTTAAATCTTTAAACAAAGTTTTTAATTTTTTGAAACTATTTCGAAATAAAAACTTTGA
10262933 TCTTTAAGAAAAGTAGTT
130 TCTTTAAGAAAAGTAGTT
* *
10262951 TTTCTTAAAAAAAAAAAAG
1 TTTTTTAAAAAAAAGAAAG
10262970 AAAAGTTTGA
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
146 6 0.04
147 11 0.07
148 65 0.44
149 17 0.11
150 50 0.34
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (147 bp):
TTTTTTAAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATATATTTTTTAATCATTTTAAAGA
AAAATTTTAAATCTTTAAACAAAGTTTTTAATTTTTTGAAACTATTTCGAAATAAAAACTTTGAT
CTTTAAGAAAAGTAGTT
Found at i:10262898 original size:22 final size:23
Alignment explanation
Indices: 10262848--10262899 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
10262838 ATAAAAATAT
10262848 GTTTTTT-AATCATTTTAAAGAAA
1 GTTTTTTAAATCA-TTTAAAGAAA
**
10262871 -AATTTTAAATC-TTTAAAGAAA
1 GTTTTTTAAATCATTTAAAGAAA
10262892 GTTTTTTA
1 GTTTTTTA
10262900 TTTTTTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (23 bp):
GTTTTTTAAATCATTTAAAGAAA
Found at i:10263555 original size:17 final size:17
Alignment explanation
Indices: 10263525--10263571 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
10263515 ATAATTTTTA
10263525 TTTATTCTTA-TTTCATC
1 TTTATT-TTATTTTCATC
*
10263542 TTTATTTTATTTTCATG
1 TTTATTTTATTTTCATC
*
10263559 TCTATTTATATTT
1 TTTATTT-TATTT
10263572 ATGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 3 0.12
17 18 0.69
18 5 0.19
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATTTTATTTTCATC
Found at i:10265650 original size:20 final size:19
Alignment explanation
Indices: 10265621--10265736 Score: 103
Period size: 20 Copynumber: 5.8 Consensus size: 19
10265611 AAAATTGAAA
*
10265621 AAAAAATCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
10265640 CAAAAATTCAAAATAATATTT
1 -AAAAATTCAAAATAAT-TTT
10265661 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
10265679 AAAAATTCAAAAAATATTTT
1 AAAAATTCAAAATA-ATTTT
*
10265699 CAAAAAATT-ATAATAATTTTT
1 --AAAAATTCAAAATAA-TTTT
*
10265720 AAAAAATTCTAAATAAT
1 -AAAAATTCAAAATAAT
10265737 ATATAAAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
17 2 0.02
18 3 0.04
19 23 0.28
20 26 0.32
21 20 0.25
22 7 0.09
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:10265743 original size:21 final size:21
Alignment explanation
Indices: 10265620--10265754 Score: 97
Period size: 19 Copynumber: 6.7 Consensus size: 21
10265610 AAAAATTGAA
* *
10265620 AAAAAAATCAAAATAAT-TTT
1 AAAAAATTCAAAATAATATAT
*
10265640 CAAAAATTCAAAATAATAT-T
1 AAAAAATTCAAAATAATATAT
* *
10265660 -TAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATATAT
*
10265679 -AAAAATTCAAAA-AATATTTT
1 AAAAAATTCAAAATAATA-TAT
* * *
10265699 CAAAAAATT-ATAATAATTTTT
1 -AAAAAATTCAAAATAATATAT
*
10265720 AAAAAATTCTAAATAATATAT
1 AAAAAATTCAAAATAATATAT
10265741 AAAAAAGTT-AAAAT
1 AAAAAA-TTCAAAAT
10265755 TTTAAAATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.03
19 26 0.28
20 26 0.28
21 25 0.27
22 12 0.13
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (21 bp):
AAAAAATTCAAAATAATATAT
Found at i:10265752 original size:20 final size:19
Alignment explanation
Indices: 10265700--10265752 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
10265690 AAATATTTTC
* *
10265700 AAAAAATTATAATAATTTTT
1 AAAAAATTA-AATAATATAT
10265720 AAAAAATTCTAAATAATATAT
1 AAAAAA-T-TAAATAATATAT
10265741 AAAAAAGTTAAA
1 AAAAAA-TTAAA
10265753 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 10 0.36
21 16 0.57
22 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAAATTAAATAATATAT
Found at i:10276924 original size:24 final size:25
Alignment explanation
Indices: 10276872--10276922 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10276862 TTCTTGAACC
10276872 AATTCAGCATTTATAGCAAAAAAAA
1 AATTCAGCATTTATAGCAAAAAAAA
10276897 AATTCAGCATTTATAGCAAAAAAAA
1 AATTCAGCATTTATAGCAAAAAAAA
10276922 A
1 A
10276923 TTTCTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.24
Consensus pattern (25 bp):
AATTCAGCATTTATAGCAAAAAAAA
Found at i:10277717 original size:24 final size:24
Alignment explanation
Indices: 10277688--10277737 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
10277678 CTCACCCTCT
*
10277688 TCTTTGTG-CTTCTTCTTCTTTTTA
1 TCTTTGTGTC-TCTTCCTCTTTTTA
10277712 TCTTTGTGTCTCTTCCTCTTTTTA
1 TCTTTGTGTCTCTTCCTCTTTTTA
10277736 TC
1 TC
10277738 CGTCAAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.04, C:0.24, G:0.08, T:0.64
Consensus pattern (24 bp):
TCTTTGTGTCTCTTCCTCTTTTTA
Found at i:10278024 original size:20 final size:22
Alignment explanation
Indices: 10277994--10278034 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10277984 CTTCATTTCA
10277994 TTTTCTTCTTCTT-TTTCTCCC
1 TTTTCTTCTTCTTCTTTCTCCC
10278015 TTTT-TTCTTCTTCTTTCTCC
1 TTTTCTTCTTCTTCTTTCTCC
10278035 TTTATCTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTCTTCTTCTTCTTTCTCCC
Found at i:10287717 original size:12 final size:10
Alignment explanation
Indices: 10287687--10287713 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10287677 CATTCTCTTC
10287687 TTTCTCTAGT
1 TTTCTCTAGT
10287697 TTTCTCTAGT
1 TTTCTCTAGT
10287707 TTTCTCT
1 TTTCTCT
10287714 CTAGCCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.22, G:0.07, T:0.63
Consensus pattern (10 bp):
TTTCTCTAGT
Found at i:10293204 original size:73 final size:73
Alignment explanation
Indices: 10293102--10293248 Score: 231
Period size: 73 Copynumber: 2.0 Consensus size: 73
10293092 TGTTGAACTT
* *
10293102 GTATCGATACAAGTATTCTAGAGAGCAAAAATGTATAGTTGTAGGGAAGATGTATCGATACTTGG
1 GTATAGATACAAGTATTCTAGAGAGCAAAAATGTATAGTTCTAGGGAAGATGTATCGATACTTGG
10293167 AATAGTGA
66 AATAGTGA
* * * * *
10293175 GTATAGATACAAGTATTCTAGAGCGCAAAAATGTATAGTTCTAGGGAATATTTCTCGATGCTTGG
1 GTATAGATACAAGTATTCTAGAGAGCAAAAATGTATAGTTCTAGGGAAGATGTATCGATACTTGG
10293240 AATAGTGA
66 AATAGTGA
10293248 G
1 G
10293249 CATCATTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (73 bp):
GTATAGATACAAGTATTCTAGAGAGCAAAAATGTATAGTTCTAGGGAAGATGTATCGATACTTGG
AATAGTGA
Found at i:10297069 original size:20 final size:21
Alignment explanation
Indices: 10297009--10297075 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
10296999 GTGTCGGTTG
* *
10297009 TTGTTTGCACTTTAGTACCTC
1 TTGTTTGCACTTCAGTGCCTC
* *
10297030 TTTTTTTTCACTTC-GATGCCTC
1 -TTGTTTGCACTTCAG-TGCCTC
10297052 -TGTTTGCACTTCAGTGCC-C
1 TTGTTTGCACTTCAGTGCCTC
10297071 TTGTT
1 TTGTT
10297076 ATTACAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 1 0.03
20 18 0.50
21 2 0.06
22 15 0.42
ACGTcount: A:0.10, C:0.25, G:0.15, T:0.49
Consensus pattern (21 bp):
TTGTTTGCACTTCAGTGCCTC
Found at i:10301337 original size:17 final size:17
Alignment explanation
Indices: 10301315--10301358 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
10301305 TTATTTTTAA
10301315 TTATTTTTTAATTCAAT-
1 TTATTTTTTAATT-AATG
*
10301332 TTATTTTTTTATTAATG
1 TTATTTTTTAATTAATG
10301349 TTATATTTTT
1 TTAT-TTTTT
10301359 CATGTTTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
18 5 0.21
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTTTTAATTAATG
Found at i:10301357 original size:18 final size:19
Alignment explanation
Indices: 10301316--10301358 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
10301306 TATTTTTAAT
10301316 TATTTTTTAATTCAATTTA
1 TATTTTTTAATTCAATTTA
10301335 T-TTTTTT-ATT-AATGTTA
1 TATTTTTTAATTCAAT-TTA
10301352 TATTTTT
1 TATTTTT
10301359 CATGTTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 11 0.50
19 1 0.05
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTTTTTAATTCAATTTA
Found at i:10303545 original size:239 final size:237
Alignment explanation
Indices: 10303073--10303534 Score: 739
Period size: 239 Copynumber: 1.9 Consensus size: 237
10303063 AATGCCTCCA
10303073 ATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATTAGAGA
1 ATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATTAGAGA
* *
10303138 TTTTTACTTCTAACAAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAATTCTT
66 TTTTTACTTCTAACAAGAACCCTAAAGGATACATAAATAATTCTAGTAAAATACATTCAATTCTT
*
10303203 AAAATAATTCTATTTTAGAATCCTAAAAAAAATCTAAAAAAATTACTAATGAATTAAGAGAAATA
131 AAAATAATTCTATTTTAGAATCCT-AAAAAAACCT-AAAAAATTACTAATGAATTAAGAGAAATA
* *
10303268 TTAAAATTCCTCTACAACTTATTTGATCTTTTATTATTACTTCG
194 TTAAAATTCATCTACAACTTATTCGATCTTTTATTATTACTTCG
* *
10303312 ATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTGAATTAGAGA
1 ATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATTAGAGA
* * * * * *
10303377 TTTTTATTTCTGACGAGAACCCTAAATGATACATAAATAATTCTAGTAAAATGCATTTAATTCTT
66 TTTTTACTTCTAACAAGAACCCTAAAGGATACATAAATAATTCTAGTAAAATACATTCAATTCTT
* * *
10303442 AAAATTAATTTTATTTTAGACTCCT-AAAAACCCT-AAAAATTACTAATGAATTAAGAGAAATAT
131 AAAA-TAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAATTACTAATGAATTAAGAGAAATAT
10303505 TAAAATTCATCTACAACTTATTCGATCTTT
195 TAAAATTCATCTACAACTTATTCGATCTTT
10303535 CATCATTATT
Statistics
Matches: 206, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
236 57 0.28
238 7 0.03
239 124 0.60
240 18 0.09
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.37
Consensus pattern (237 bp):
ATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATTAGAGA
TTTTTACTTCTAACAAGAACCCTAAAGGATACATAAATAATTCTAGTAAAATACATTCAATTCTT
AAAATAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAATTACTAATGAATTAAGAGAAATATT
AAAATTCATCTACAACTTATTCGATCTTTTATTATTACTTCG
Found at i:10304833 original size:151 final size:148
Alignment explanation
Indices: 10304601--10305263 Score: 816
Period size: 152 Copynumber: 4.4 Consensus size: 148
10304591 TAATTAAAAC
* *
10304601 AAAATTACTACTTTACTTCAAAATCAAAACTTTTATTTC-AATATAGTTAAAAAAAATCAAAACT
1 AAAATCACTACTTTACTT-AAAATCCAAACTTTTATTTCGAA-ATAGTT-AAAAAAATCAAAACT
* *
10304665 TTGTTTAAAAATTTAAACTTTTTCTTTAAACTCACT-AAAAACAGATTTTTATTTTTTTAAAATC
63 TTATTTAAAAATTTAAACTTTTTCTTTAAA-TCACTAAAAAATAGATTTTTATTTTTTTAAAATC
10304729 TAAACTTTCTTTCTTTTTTTAATG
127 TAAACTTT-TTTC-TTTTTTAATG
* *
10304753 AAAATCACTACTTTACTTAAAATTTCAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAA-TCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
*
10304818 ATTTAAAAATTTAAACTTTGTCTTTAAAATCACTAAAAAATAGATTTTTATTTTTTTAAAATCT-
65 ATTTAAAAATTTAAACTTTTTCTTT-AAATCACTAAAAAATAGATTTTTATTTTTTTAAAATCTA
10304882 AACATTTCTTTCTTTTTTAATG
129 AAC-TTT-TTTCTTTTTTAATG
* *
10304904 AAAATAACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAAATT
1 AAAATCACTACTTTACTT-AAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
* ** *
10304969 TATTTAAAAATTTAAATTTTTTCTTTAAA--A-TAACTAAT---TTTTTTTTATTTTTAAAAT-T
64 TATTTAAAAATTTAAACTTTTTCTTTAAATCACTAAAAAATAGATTTTTATT-TTTTTAAAATCT
* * *
10305027 ATAAATTTTCTCTTTTTTAAAG
128 A-AACTTTTTTCTTTTTTAATG
10305049 AAAATCACTA-TTTCACTTCAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTT
1 AAAATCACTACTTT-ACTT-AAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTT
* * *
10305113 TATTTAAAAATTTAAACCTTTTT-TTTAAATAACTAAAAAATAGATTTTTA-TTTTTAAAAATAT
64 TATTTAAAAATTTAAA-CTTTTTCTTTAAATCACTAAAAAATAGATTTTTATTTTTTTAAAATCT
*
10305176 AAACTTTGTCTT-TGTTTTAA-G
128 AAACTTT-T-TTCTTTTTTAATG
* * *
10305197 AAAATCACTATTTTACTTAAAAATCCAAACTTTTCTTTCGAAATCGTTTTAAAAAAATCAAAACT
1 AAAATCACTACTTTACTT-AAAATCCAAACTTTTATTTCGAAATAG--TTAAAAAAATCAAAACT
10305262 TT
63 TT
10305264 TCCCAAAATC
Statistics
Matches: 454, Mismatches: 33, Indels: 50
0.85 0.06 0.09
Matches are distributed among these distances:
144 40 0.09
145 67 0.15
146 14 0.03
147 8 0.02
148 60 0.13
149 15 0.03
150 25 0.06
151 105 0.23
152 118 0.26
153 2 0.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (148 bp):
AAAATCACTACTTTACTTAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTA
TTTAAAAATTTAAACTTTTTCTTTAAATCACTAAAAAATAGATTTTTATTTTTTTAAAATCTAAA
CTTTTTTCTTTTTTAATG
Found at i:10305689 original size:3 final size:3
Alignment explanation
Indices: 10305681--10305731 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
10305671 GAAACCCTAA
*
10305681 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10305729 AAT
1 AAT
10305732 GATGATGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10306166 original size:42 final size:42
Alignment explanation
Indices: 10306120--10306768 Score: 886
Period size: 42 Copynumber: 15.5 Consensus size: 42
10306110 TCTATACTTA
* * *
10306120 GGCCTCTAATTGTAATGAAAAGTAAATGGATCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
10306162 GGCCTCCAAATGCAATGAAAAGTAAATGGACCTGCATACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
**
10306204 GGTTTCTAAATGCAATGAAAAGTAAAT-GAGCCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGA-CCTCCACACCTG
* *
10306246 GGCCTCTAAATGTAATGAAAAGTAAATGGACCTTCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * * ** *
10306288 GGCCTTTAAATGTAATGATAAGTAAATGGACCTCCTTACCTT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* *
10306330 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCCG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
*
10306372 AGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* **
10306414 GGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACATGTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
10306456 GGCCTCTGAATACAATGAAAAGTAAATGGACCTCCACACTTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
10306498 TGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCCG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
*
10306540 AGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * **
10306582 GGCCTCTAAATACAATGAAAAGTAAATAGACCTCCACATGTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
10306624 GGCCTCTGAATACAATGAAAAGTAAATGGACCTCCACACTTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * * *
10306666 TGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCTACACCTA
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * * *
10306708 GGCCTTTGAATGCGATCAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
10306750 GGCCTCTAAATGCAATGAA
1 GGCCTCTAAATGCAATGAA
10306769 TGCTTTCCTT
Statistics
Matches: 527, Mismatches: 78, Indels: 4
0.87 0.13 0.01
Matches are distributed among these distances:
41 2 0.00
42 523 0.99
43 2 0.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
Found at i:10307193 original size:10 final size:10
Alignment explanation
Indices: 10307156--10307202 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
10307146 TTGCTCTCTC
*
10307156 TTTCTATTTT
1 TTTCTTTTTT
10307166 TTTCTTTTTT
1 TTTCTTTTTT
*
10307176 CTTCTTTTTT
1 TTTCTTTTTT
*
10307186 TTTGTTTTTT
1 TTTCTTTTTT
10307196 GTTTCTT
1 -TTTCTT
10307203 AATTTAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
10 26 0.84
11 5 0.16
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:10314233 original size:18 final size:19
Alignment explanation
Indices: 10314202--10314238 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10314192 AATTAAATCA
10314202 TAAAACATTACGAACAAAT
1 TAAAACATTACGAACAAAT
*
10314221 TAAAACA-TACGAATAAAT
1 TAAAACATTACGAACAAAT
10314239 GCTCATGACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (19 bp):
TAAAACATTACGAACAAAT
Found at i:10317065 original size:150 final size:149
Alignment explanation
Indices: 10316911--10317571 Score: 881
Period size: 148 Copynumber: 4.4 Consensus size: 149
10316901 TGATTAAAAC
* * * * *
10316911 AAAATTACTACTTTACTTCAAAATCAAAACTTTTATTTCAAAATAGTTAAAAAAATCAGAACTTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
10316976 ATTTAAAAATTTAAACTTTTTTTATAAAA-AACTAAAAAATAGATTTTTATTTTTTAAAAATATA
66 ATTTAAAAATTTAAACTTTTTTT-TAAAATAACTAAAAAATAGATTTTTA-TTTTTAAAAATATA
*
10317040 AACTTTGTTTCTTTTTGAATG
129 AACTTTGTTTCTTTTTTAATG
* *
10317061 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAATTTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* * * * * *
10317126 ATTTAAATATTTAAACTTTTTTCTTTAAAATCACTAAAAAACATATTTTTTATTTTT--TAATTT
66 ATTTAAAAATTTAAAC-TTTTT-TTTAAAATAACTAAAAAATAGA-TTTTTATTTTTAAAAATAT
*
10317189 AAACTTTATTTCTTTTTTAATG
128 AAACTTTGTTTCTTTTTTAATG
* * *
10317211 AAAATCATTACTTTACTT-AAAATCTAACCTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* *
10317275 ATTTAAAAATTGAAAATTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAA
66 ATTTAAAAATTTAAACTTTTT-TTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAA
* * *
10317340 A-ATT-TCTCTTTTTTAAAG
130 ACTTTGTTTCTTTTTTAATG
* * *
10317358 AAAATCATTATTTTACTTCAAAATCCAAACTTTTATTTCGAAATAGTTTAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAG-TTAAAAAAATCAAAACTT
* * *
10317423 TGTTTAAAAATTTAAACTTTTTTTTAAATTAACTAAAAAATTGATTTTTATTTTTAAAAATATAA
65 TATTTAAAAATTTAAACTTTTTTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAA
10317488 ACTTTGTCTT-TTTTTTAAT-
130 ACTTTGT-TTCTTTTTTAATG
* * * *
10317507 AAAATCACTATTTTACTTAAAAAT-CAAACTTTTATTTCGAAATTGTTTTAAAAAACCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAG-TTAAAAAAATCAAAACTT
10317571 T
65 T
10317572 TCCCAAAATC
Statistics
Matches: 453, Mismatches: 47, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
147 40 0.09
148 132 0.29
149 123 0.27
150 123 0.27
151 11 0.02
152 18 0.04
153 6 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (149 bp):
AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
ATTTAAAAATTTAAACTTTTTTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAAA
CTTTGTTTCTTTTTTAATG
Found at i:10317968 original size:3 final size:3
Alignment explanation
Indices: 10317960--10317990 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10317950 CATGAAACCC
10317960 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10317991 TGTAACAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10325199 original size:18 final size:19
Alignment explanation
Indices: 10325178--10325224 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
10325168 TGAAATAAGG
10325178 ATGAAAATGAGAAT-AGAA
1 ATGAAAATGAGAATGAGAA
* *
10325196 ATGAAATTGA-TATGAGAA
1 ATGAAAATGAGAATGAGAA
10325214 A-GAAAATGAGA
1 ATGAAAATGAGA
10325225 TTGATTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.19
Consensus pattern (19 bp):
ATGAAAATGAGAATGAGAA
Found at i:10325210 original size:23 final size:24
Alignment explanation
Indices: 10325184--10325234 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
10325174 AAGGATGAAA
10325184 ATGAGAATAG-AAATGAAATTGA-T
1 ATGAGAA-AGAAAATGAAATTGATT
*
10325207 ATGAGAAAGAAAATGAGATTGATT
1 ATGAGAAAGAAAATGAAATTGATT
10325231 ATGA
1 ATGA
10325235 AAATTCGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 2 0.08
23 18 0.72
24 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (24 bp):
ATGAGAAAGAAAATGAAATTGATT
Found at i:10331663 original size:16 final size:16
Alignment explanation
Indices: 10331642--10331673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10331632 GGTAATTTTT
*
10331642 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
10331658 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
10331674 TTTGTAAGGA
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:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:10332541 original size:195 final size:195
Alignment explanation
Indices: 10332152--10332592 Score: 496
Period size: 195 Copynumber: 2.3 Consensus size: 195
10332142 ACGCGATGAT
* * **
10332152 TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATTGTGAGTCAGGAATTG
1 TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAGGAATAA
* * *
10332217 AGAAAAGAATCCAATAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAATACATATT
66 AGAAAAGAATCCAATAATGGATTACAGGCCCTACAATGGCTGAGATCTATGCATAAATACATACT
* * *
10332282 CTCGACAACTCGTGTGAGCAACATCATTAGAGAACAGTTATATTCACAGATACCGTATCGATGGC
131 CTCGACAACTCGTGTGAGCAACATCATTAGAGAACAGTTATATACACAGACACCGTACCGATGGC
*
10332347 TGAGGTACCGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTC-GAGAA-A
1 TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAG-GAATA
* * * * * * * * ** *
10332410 AAGATATGGATCCTA-AATGTATTATAGGCTCTACAATGGCTGGGA-CTATGC-TTTATGCATAC
65 AAGAAAAGAATCCAATAATGGATTACAGGCCCTACAATGGCTGAGATCTATGCATAAATACATAC
* * * * * * * * *
10332472 TCTCGATAGCTCGTGTGAGTAGCATCGTTAGGGAACTGTTTATAGTACGGACAGGCATCGTACCG
130 TCTCGACAACTCGTGTGAGCAACATCATTAGAGAACAG-TTATA-TAC--ACAGACACCGTACCG
10332537 ATGGC
191 ATGGC
* * *
10332542 TGGGGTACCGCATACGTTGCGAGTCCTCGACAGCTCGTGTAAGCAGCATCG
1 TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
10332593 AGTACTGGTA
Statistics
Matches: 206, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
191 38 0.18
192 10 0.05
193 27 0.13
194 11 0.05
195 120 0.58
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (195 bp):
TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAGGAATAA
AGAAAAGAATCCAATAATGGATTACAGGCCCTACAATGGCTGAGATCTATGCATAAATACATACT
CTCGACAACTCGTGTGAGCAACATCATTAGAGAACAGTTATATACACAGACACCGTACCGATGGC
Found at i:10333962 original size:3 final size:3
Alignment explanation
Indices: 10333954--10333979 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10333944 TGTTGCAATA
10333954 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
10333980 AATTTGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:10335195 original size:22 final size:22
Alignment explanation
Indices: 10335170--10335213 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10335160 TTGATGAGTC
10335170 AGTGATAGAGAGCATCTATGTA
1 AGTGATAGAGAGCATCTATGTA
*
10335192 AGTGTTAGAGAGCATCTATGTA
1 AGTGATAGAGAGCATCTATGTA
10335214 GTGTAGGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (22 bp):
AGTGATAGAGAGCATCTATGTA
Found at i:10337300 original size:3 final size:3
Alignment explanation
Indices: 10337292--10337317 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10337282 TTTCTATAGT
10337292 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
10337318 AAATGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:10340305 original size:11 final size:11
Alignment explanation
Indices: 10340289--10340321 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10340279 AGTTCACAAA
10340289 ATTATTTTTCC
1 ATTATTTTTCC
*
10340300 ATTATTTTTCA
1 ATTATTTTTCC
10340311 ATTATTTTTCC
1 ATTATTTTTCC
10340322 CTCAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTTCC
Found at i:10343147 original size:56 final size:57
Alignment explanation
Indices: 10342996--10343149 Score: 172
Period size: 56 Copynumber: 2.7 Consensus size: 57
10342986 TATATTATGA
* * *
10342996 TTTTTATT-AATTCATATTTTAATAATAAT-TATATTAAGAATGTTATTAAATTATATACT
1 TTTTTATTAAATT-ATA-TTTAATAATAATCT-TATTAA-AATATGATTAAAATATATACT
* * * *
10343055 ATTTTATTAAATTGTATTTAATAATAATC-AAGTTAAAATATGATTAAAATATTTA-T
1 TTTTTATTAAATTATATTTAATAATAATCTTA-TTAAAATATGATTAAAATATATACT
10343111 TTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
1 TTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
10343150 TTAACAACAA
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
56 35 0.43
57 17 0.21
58 16 0.20
59 9 0.11
60 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (57 bp):
TTTTTATTAAATTATATTTAATAATAATCTTATTAAAATATGATTAAAATATATACT
Found at i:10343337 original size:16 final size:16
Alignment explanation
Indices: 10343325--10343370 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
10343315 GATTACAACC
10343325 CTATTCCATTACAGCT
1 CTATTCCATTACAGCT
*
10343341 CTATTGCATTACAGCT
1 CTATTCCATTACAGCT
10343357 CTATTCCATTACAG
1 CTATTCCATTACAG
10343371 GAACCAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (16 bp):
CTATTCCATTACAGCT
Found at i:10344235 original size:15 final size:14
Alignment explanation
Indices: 10344217--10344278 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 14
10344207 TAGGAGCGCT
10344217 AGAAATAAATAAATA
1 AGAAA-AAATAAATA
10344232 AGAAAAAAGTAAAATA
1 AGAAAAAA-T-AAATA
* *
10344248 AAAAATAAATAAAGAA
1 AGAAA-AAATAAA-TA
10344264 AGAAAAAAT-AATA
1 AGAAAAAATAAATA
10344277 AG
1 AG
10344279 GAAAGGACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 3 0.08
14 5 0.13
15 13 0.33
16 15 0.38
17 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (14 bp):
AGAAAAAATAAATA
Found at i:10344291 original size:19 final size:19
Alignment explanation
Indices: 10344247--10344283 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10344237 AAAGTAAAAT
10344247 AAAAAATAAATAAAGAAAG
1 AAAAAATAAATAAAGAAAG
*
10344266 AAAAAAT-AATAAGGAAAG
1 AAAAAATAAATAAAGAAAG
10344284 GACAAAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (19 bp):
AAAAAATAAATAAAGAAAG
Found at i:10344493 original size:5 final size:5
Alignment explanation
Indices: 10344478--10344512 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
10344468 ATTGAAGGGA
10344478 AAAATT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
10344513 AATGACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:10346059 original size:13 final size:13
Alignment explanation
Indices: 10346041--10346066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10346031 TGTAGCTTCA
10346041 ATCCGACCCACTG
1 ATCCGACCCACTG
10346054 ATCCGACCCACTG
1 ATCCGACCCACTG
10346067 CAACTTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (13 bp):
ATCCGACCCACTG
Found at i:10346250 original size:50 final size:50
Alignment explanation
Indices: 10346196--10346548 Score: 204
Period size: 50 Copynumber: 7.0 Consensus size: 50
10346186 TTTAATGTCC
* * *
10346196 TAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTTCTG
1 TAACTTCATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCTTCTG
* * * * * *
10346246 TAACTTCAAT-TCGAC-CCACTACAACTTCAGGG-GTATAGGATCTGATGT-TG
1 TAACTTC-ATCTTG-CTCTACTGCAACTTCAGGGAG-ATAAGATTTGCT-TCTG
* * * * *
10346296 TAGCTTCATCTTGCTCTACTGCATCTTCAGAGAGATAAAGATTTGCTACTA
1 TAACTTCATCTTGCTCTACTGCAACTTCAGGGAGAT-AAGATTTGCTTCTG
** * * * * * * *
10346347 TAGTTTTAAT-TTGATC-CCTGCAACTTCAAGGATATAGGATTTGGTGTC-G
1 TA-ACTTCATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCT-TCTG
* * * * *
10346396 TAACTTCATCTTTCTCTACTGCATCTTTAAGGAGATAAGATTTGCTTCTA
1 TAACTTCATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCTTCTG
* * * * *
10346446 TAGCTTCAATC-TGAC-CTATTGCAACTTCAGGG-GTATAAGATTTGATGCGG
1 TAACTTC-ATCTTG-CTCTACTGCAACTTCAGGGAG-ATAAGATTTGCTTCTG
** * *
10346496 TAACTTCATCTTGCTCTACTGCAACTTCAAAGAGATAAATATTTGCTACTG
1 TAACTTCATCTTGCTCTACTGCAACTTCAGGGAGAT-AAGATTTGCTTCTG
10346547 TA
1 TA
10346549 GCTTTAATTC
Statistics
Matches: 221, Mismatches: 61, Indels: 41
0.68 0.19 0.13
Matches are distributed among these distances:
48 4 0.02
49 25 0.11
50 151 0.68
51 37 0.17
52 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (50 bp):
TAACTTCATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCTTCTG
Found at i:10346272 original size:100 final size:101
Alignment explanation
Indices: 10346057--10346586 Score: 543
Period size: 100 Copynumber: 5.3 Consensus size: 101
10346047 CCCACTGATC
* * * * * *
10346057 CGACCCACTGCAACTTTAGGGGTGTAGGATTTGATGTTGTAACTTCATCTTACTTTACTGCATCT
1 CGACCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCTACTGCATCT
* *
10346122 TTAAAGAGATAAAGATTTGATACTGTAGTTTTAATT
66 TTAAAGAGATAAAGATTTGCTACTGTAGCTTTAATT
** * ** * * * *
10346158 C-AATCTCTATAACTTTAGGGATATAGGATTTAATGTCCTAACTTCATCTTGCTCCACTGCATCT
1 CGACCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCTACTGCATCT
** * * *
10346222 TTAGGGAGAT-AAGATTTGCTTCTGTAACTTCAATT
66 TTAAAGAGATAAAGATTTGCTACTGTAGCTTTAATT
* * * * *
10346257 CGACCCACTACAACTTCAGGGGTATAGGATCTGATGTTGTAGCTTCATCTTGCTCTACTGCATCT
1 CGACCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCTACTGCATCT
* * * *
10346322 TCAGAGAGATAAAGATTTGCTACTATAGTTTTAATT
66 TTAAAGAGATAAAGATTTGCTACTGTAGCTTTAATT
* * * * *
10346358 TGATCC-CTGCAACTTCAAGGATATAGGATTTGGTGTCGTAACTTCATCTTTCTCTACTGCATCT
1 CGACCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCTACTGCATCT
* * * *
10346422 TTAAGGAGAT-AAGATTTGCTTCTATAGCTTCAA-T
66 TTAAAGAGATAAAGATTTGCTACTGTAGCTTTAATT
* * * * *
10346456 CTGACCTATTGCAACTTCAGGGGTATAAGATTTGATG-CGGTAACTTCATCTTGCTCTACTGCAA
1 C-GACCCACTGCAACTTCAGGGATATAGGATTTGATGTC-GTAACTTCATCTTGCTCTACTGCAT
* *
10346520 CTTCAAAGAGATAAATATTTGCTACTGTAGCTTTAATT
64 CTTTAAAGAGATAAAGATTTGCTACTGTAGCTTTAATT
* * *
10346558 CAATCC-TTGCAACTTCAGGGATATAGGAT
1 CGACCCACTGCAACTTCAGGGATATAGGAT
10346587 ATGGTGTTGT
Statistics
Matches: 346, Mismatches: 76, Indels: 15
0.79 0.17 0.03
Matches are distributed among these distances:
98 1 0.00
99 45 0.13
100 252 0.73
101 46 0.13
102 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (101 bp):
CGACCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCTACTGCATCT
TTAAAGAGATAAAGATTTGCTACTGTAGCTTTAATT
Found at i:10346402 original size:200 final size:199
Alignment explanation
Indices: 10346057--10346593 Score: 732
Period size: 200 Copynumber: 2.7 Consensus size: 199
10346047 CCCACTGATC
* * * *
10346057 CGACCCACTGCAACTTTAGGGGTGTAGGATTTGATGTTGTAACTTCATCTTACTTTACTGCATCT
1 CGACCCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAACTTCATCTTGCTCTACTGCATCT
* * * ** *
10346122 TTAAAGAGATAAAGATTTGATACTGTAGTTTTAATTCAATCTCTATAACTTTAGGGATATAGGAT
66 TCAAAGAGATAAAGATTTGCTACTGTAGTTTTAATTCAATCCCTGCAACTTCAGGGATATAGGAT
** * *
10346187 TTAATGTCCTAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTTCTGTAACTT
131 TTGGTGTCCTAACTTCATCTTGCTCCACTGCATCTTTAAGGAGATAAGATTTGCTTCTATAACTT
10346252 CAATT
196 CAA-T
* * *
10346257 CGACCCACTACAACTTCAGGGGTATAGGATCTGATGTTGTAGCTTCATCTTGCTCTACTGCATCT
1 CGACCCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAACTTCATCTTGCTCTACTGCATCT
* * ** *
10346322 TCAGAGAGATAAAGATTTGCTACTATAGTTTTAATTTGATCCCTGCAACTTCAAGGATATAGGAT
66 TCAAAGAGATAAAGATTTGCTACTGTAGTTTTAATTCAATCCCTGCAACTTCAGGGATATAGGAT
* * * *
10346387 TTGGTGTCGTAACTTCATCTTTCTCTACTGCATCTTTAAGGAGATAAGATTTGCTTCTATAGCTT
131 TTGGTGTCCTAACTTCATCTTGCTCCACTGCATCTTTAAGGAGATAAGATTTGCTTCTATAACTT
10346452 CAAT
196 CAAT
* * * ** *
10346456 CTGACCTATTGCAACTTCAGGGGTATAAGATTTGATGCGGTAACTTCATCTTGCTCTACTGCAAC
1 C-GACCCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAACTTCATCTTGCTCTACTGCATC
* * *
10346521 TTCAAAGAGATAAATATTTGCTACTGTAGCTTTAATTCAATCCTTGCAACTTCAGGGATATAGGA
65 TTCAAAGAGATAAAGATTTGCTACTGTAGTTTTAATTCAATCCCTGCAACTTCAGGGATATAGGA
*
10346586 TATGGTGT
130 TTTGGTGT
10346594 TGTGGCTTCA
Statistics
Matches: 292, Mismatches: 44, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
199 2 0.01
200 290 0.99
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (199 bp):
CGACCCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAACTTCATCTTGCTCTACTGCATCT
TCAAAGAGATAAAGATTTGCTACTGTAGTTTTAATTCAATCCCTGCAACTTCAGGGATATAGGAT
TTGGTGTCCTAACTTCATCTTGCTCCACTGCATCTTTAAGGAGATAAGATTTGCTTCTATAACTT
CAAT
Found at i:10346621 original size:50 final size:50
Alignment explanation
Indices: 10346567--10346777 Score: 190
Period size: 50 Copynumber: 4.2 Consensus size: 50
10346557 TCAATCCTTG
* * *
10346567 CAACTTCAGGGATATAGGATATGGTGTTGTGGCTTCACTCCATTCCACTA
1 CAACTTCAGGGATATAGGATTTGGTGTTATAGCTTCACTCCATTCCACTA
* * ** * ** * * * ** *
10346617 CAACTTCAGGGAGATTGAGATCCGCTACTATAGTTTTAATTTGA-TCCACTG
1 CAACTTCAGGGATATAG-GATTTGGTGTTATAG-CTTCACTCCATTCCACTA
* *
10346668 CAACTTCAAGGATATAGGATTTGGTGTTATAGCTTCACTCCATTCCATTA
1 CAACTTCAGGGATATAGGATTTGGTGTTATAGCTTCACTCCATTCCACTA
* * * * *
10346718 TAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCTACTT
1 CAACTTCAGGGATATAGGATTTGGTGTTATAGCTTCACTCCATTCCACTA
10346768 CAACTTCAGG
1 CAACTTCAGG
10346778 AAGATTGAGA
Statistics
Matches: 120, Mismatches: 38, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
49 5 0.04
50 82 0.68
51 28 0.23
52 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (50 bp):
CAACTTCAGGGATATAGGATTTGGTGTTATAGCTTCACTCCATTCCACTA
Found at i:10346621 original size:100 final size:101
Alignment explanation
Indices: 10346517--10346725 Score: 249
Period size: 101 Copynumber: 2.1 Consensus size: 101
10346507 TGCTCTACTG
* ** * * *
10346517 CAACTTCAAAGAGATAAATATTTGCTACTGTAGCTTTAATTCAATCC-TTGCAACTTCAGGGATA
1 CAACTTCAAAGAGATAAAGATCCGCTACTATAGCTTTAATTCAATCCACTGCAACTTCAAGGATA
* *
10346581 TAGGATATGGTGTTGTGGCTTCACTCCATTCCACTA
66 TAGGATATGGTGTTATAGCTTCACTCCATTCCACTA
** ** * **
10346617 CAACTTCAGGGAGATTGAGATCCGCTACTATAGTTTTAATTTGATCCACTGCAACTTCAAGGATA
1 CAACTTCAAAGAGATAAAGATCCGCTACTATAGCTTTAATTCAATCCACTGCAACTTCAAGGATA
* *
10346682 TAGGATTTGGTGTTATAGCTTCACTCCATTCCATTA
66 TAGGATATGGTGTTATAGCTTCACTCCATTCCACTA
*
10346718 TAACTTCA
1 CAACTTCA
10346726 GGGATATAGG
Statistics
Matches: 90, Mismatches: 18, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
100 36 0.40
101 54 0.60
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (101 bp):
CAACTTCAAAGAGATAAAGATCCGCTACTATAGCTTTAATTCAATCCACTGCAACTTCAAGGATA
TAGGATATGGTGTTATAGCTTCACTCCATTCCACTA
Found at i:10346646 original size:300 final size:301
Alignment explanation
Indices: 10346061--10346694 Score: 721
Period size: 300 Copynumber: 2.1 Consensus size: 301
10346051 CTGATCCGAC
* * * * * * *
10346061 CCACTGCAACTTTAGGGGTGTAGGATTTGATGTTGTAACTTCATCTTACTTTACTGCATCTTTAA
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTCGTAACTTCATCTTACTCTACTGCATCTTTAA
* * * * *
10346126 AGAGATAAAGATTTGATACTGTAGTTTTAATTCAATCTCTATAACTTTAGGGATATAGGATTTAA
66 AGAGATAAAGATTTGATACTATAGCTTCAATTCAATCTCTATAACTTCAGGGATATAAGATTTAA
* * ** *
10346191 TGTCCTAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGCTTCTGTAACTTCAAT
131 TGTCCTAACTTCATCTTGCTCCACTGCAACTTCAAAGAGATAAGATTTGCTACTGTAACTTCAAT
* * * * *
10346256 TCGACCCACTACAACTTCAGGGGTATAGGATCTGATGTTGTAGCTTCATCTTGCTCTACTGCATC
196 TCAACCCACTACAACTTCAGGGATATAGGATATGATGTTGTAGCTTCATCTTGCTCTACTACAAC
**
10346321 TTCAGAGAGATAAAGATTTGCTACTATAGTTTTAATTTGAT
261 TTCAGAGAGATAAAGATCCGCTACTATAGTTTTAATTTGAT
*
10346362 CC-CTGCAACTTCAAGGATATAGGATTTGGTGTCGTAACTTCATCTTTCTCTACTGCATCTTTAA
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTCGTAACTTCATCTTACTCTACTGCATCTTTAA
* * * * *
10346426 GGAGAT-AAGATTTGCTTCTATAGCTTCAA-TCTGA-C-CTATTGCAACTTCAGGGGTATAAGAT
66 AGAGATAAAGATTTGATACTATAGCTTCAATTC-AATCTCTA-T--AACTTCAGGGATATAAGAT
* * * * *
10346487 TTGATG-CGGTAACTTCATCTTGCTCTACTGCAACTTCAAAGAGATAAATATTTGCTACTGTAGC
127 TTAATGTC-CTAACTTCATCTTGCTCCACTGCAACTTCAAAGAGAT-AAGATTTGCTACTGTAAC
* * * * * *
10346551 TTTAATTCAATCC-TTGCAACTTCAGGGATATAGGATATGGTGTTGTGGCTTCACTCCATT-C-C
190 TTCAATTCAACCCACTACAACTTCAGGGATATAGGATATGATGTTGTAGCTTCA-T-C-TTGCTC
* **
10346613 -ACTACAACTTCAGGGAGATTGAGATCCGCTACTATAGTTTTAATTTGAT
252 TACTACAACTTCAGAGAGATAAAGATCCGCTACTATAGTTTTAATTTGAT
10346662 CCACTGCAACTTCAAGGATATAGGATTTGGTGT
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGT
10346695 TATAGCTTCA
Statistics
Matches: 279, Mismatches: 44, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
297 3 0.01
298 4 0.01
299 20 0.07
300 189 0.68
301 59 0.21
302 2 0.01
303 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (301 bp):
CCACTGCAACTTCAAGGATATAGGATTTGGTGTCGTAACTTCATCTTACTCTACTGCATCTTTAA
AGAGATAAAGATTTGATACTATAGCTTCAATTCAATCTCTATAACTTCAGGGATATAAGATTTAA
TGTCCTAACTTCATCTTGCTCCACTGCAACTTCAAAGAGATAAGATTTGCTACTGTAACTTCAAT
TCAACCCACTACAACTTCAGGGATATAGGATATGATGTTGTAGCTTCATCTTGCTCTACTACAAC
TTCAGAGAGATAAAGATCCGCTACTATAGTTTTAATTTGAT
Found at i:10346714 original size:101 final size:100
Alignment explanation
Indices: 10346081--10346704 Score: 395
Period size: 100 Copynumber: 6.2 Consensus size: 100
10346071 TTTAGGGGTG
* * * * * * * *
10346081 TAGGATTTGATGTTGTAACTTCATC-TTACTTTACTGCATCTTTAAAGAGATAAAGATTTGATAC
1 TAGGATTTGGTGTTGTAACTTCATCATT-CTCTACTACAACTTCAAGGAGATTAAGATTTGCTAC
* * ** * ** * *
10346145 TGTAGTTTTAATTCAATCTCTATAACTTTAGGGATA
65 TATAGCTTTAATTTGATCCCTGCAACTTCAAGGATA
** ** * * * * * *
10346181 TAGGATTTAATGTCCTAACTTCATC-TTGCTCCACTGCATCTTTAGGGAGA-TAAGATTTGCTTC
1 TAGGATTTGGTGTTGTAACTTCATCATT-CTCTACTACAACTTCAAGGAGATTAAGATTTGCTAC
* * * * * * * *
10346244 TGTAACTTCAATTCGACCCACTACAACTTCAGGGGTA
65 TATAGCTTTAATTTGATCC-CTGCAACTTCAAGGATA
* * * * * *
10346281 TAGGATCTGATGTTGTAGCTTCATC-TTGCTCTACTGCATCTTC-AGAGAGATAAAGATTTGCTA
1 TAGGATTTGGTGTTGTAACTTCATCATT-CTCTACTACAACTTCAAG-GAGATTAAGATTTGCTA
*
10346344 CTATAGTTTTAATTTGATCCCTGCAACTTCAAGGATA
64 CTATAGCTTTAATTTGATCCCTGCAACTTCAAGGATA
* * * * * *
10346381 TAGGATTTGGTGTCGTAACTTCATCTTTCTCTACTGCATCTTTAAGGAGA-TAAGATTTGCTTCT
1 TAGGATTTGGTGTTGTAACTTCATCATTCTCTACTACAACTTCAAGGAGATTAAGATTTGCTACT
* * * * *
10346445 ATAGCTTCAATCTGA-CCTATTGCAACTTCAGGGGTA
66 ATAGCTTTAATTTGATCC--CTGCAACTTCAAGGATA
* * ** * * * *
10346481 TAAGATTTGATGCGGTAACTTCATC-TTGCTCTACTGCAACTTCAAAGAGATAAATATTTGCTAC
1 TAGGATTTGGTGTTGTAACTTCATCATT-CTCTACTACAACTTCAAGGAGATTAAGATTTGCTAC
* ** * *
10346545 TGTAGCTTTAATTCAATCCTTGCAACTTCAGGGATA
65 TATAGCTTTAATTTGATCCCTGCAACTTCAAGGATA
* ** * * **
10346581 TAGGATATGGTGTTGTGGCTTCACTCCATTC-C-ACTACAACTTCAGGGAGATTGAGATCCGCTA
1 TAGGATTTGGTGTTGTAACTTCA-T-CATTCTCTACTACAACTTCAAGGAGATTAAGATTTGCTA
*
10346644 CTATAGTTTTAATTTGATCCACTGCAACTTCAAGGATA
64 CTATAGCTTTAATTTGATCC-CTGCAACTTCAAGGATA
* *
10346682 TAGGATTTGGTGTTATAGCTTCA
1 TAGGATTTGGTGTTGTAACTTCA
10346705 CTCCATTCCA
Statistics
Matches: 418, Mismatches: 92, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
98 2 0.00
99 50 0.12
100 274 0.66
101 86 0.21
102 4 0.01
103 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (100 bp):
TAGGATTTGGTGTTGTAACTTCATCATTCTCTACTACAACTTCAAGGAGATTAAGATTTGCTACT
ATAGCTTTAATTTGATCCCTGCAACTTCAAGGATA
Found at i:10346733 original size:151 final size:151
Alignment explanation
Indices: 10346568--10346846 Score: 425
Period size: 151 Copynumber: 1.8 Consensus size: 151
10346558 CAATCCTTGC
** *
10346568 AACTTCAGGGATATAGGATATGGTGTTGTGGCTTCACTCCATTCCACTACAACTTCAGGGAGATT
1 AACTTCAGGGATATAGGATATGGTGTTGTAACTTCACTCCATTCCACTACAACTTCAGGAAGATT
* * * *
10346633 GAGATCCGCTACTATAGTTTTAATTTGA-TCCACTGCAACTTCAAGGATATAGGATTTGGTGTTA
66 GAGATCCGCCACTATAGTTTT-ACTTCATTCCACTGCAACTTCAAGGATATAGGAGTTGGTGTTA
10346697 TAGCTTCACTCCATTCCATTAT
130 TAGCTTCACTCCATTCCATTAT
* * *
10346719 AACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCTACTTCAACTTCAGGAAGATT
1 AACTTCAGGGATATAGGATATGGTGTTGTAACTTCACTCCATTCCACTACAACTTCAGGAAGATT
* * *
10346784 GAGATCCGCCACTGTAGTTTTACTTCATTCCACTGCAACTTCAGGGATATAGGAGTTGTTGTT
66 GAGATCCGCCACTATAGTTTTACTTCATTCCACTGCAACTTCAAGGATATAGGAGTTGGTGTT
10346847 TCACTAACCT
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
150 4 0.04
151 110 0.96
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (151 bp):
AACTTCAGGGATATAGGATATGGTGTTGTAACTTCACTCCATTCCACTACAACTTCAGGAAGATT
GAGATCCGCCACTATAGTTTTACTTCATTCCACTGCAACTTCAAGGATATAGGAGTTGGTGTTAT
AGCTTCACTCCATTCCATTAT
Found at i:10349033 original size:54 final size:54
Alignment explanation
Indices: 10348974--10349091 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
10348964 AGCGTAAAAT
* *
10348974 TTTTTTTTTGGTTTCAAGATGCCTTTTGCGAGTTCTCATCTCGACCTCTTTTTC
1 TTTTTTTTTGGTTTCAAGATGCCCTTTGCGAGTTCTCATCTCAACCTCTTTTTC
* * * * * *
10349028 TTTTTTTTTGGTTTCAAGATTCCCTTTGTGGGTTTTGATCTCAACCTCTTTTTT
1 TTTTTTTTTGGTTTCAAGATGCCCTTTGCGAGTTCTCATCTCAACCTCTTTTTC
10349082 TTCTTTTTTT
1 TT-TTTTTTT
10349092 TATCCCCTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 48 0.87
55 7 0.13
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.58
Consensus pattern (54 bp):
TTTTTTTTTGGTTTCAAGATGCCCTTTGCGAGTTCTCATCTCAACCTCTTTTTC
Found at i:10350451 original size:36 final size:36
Alignment explanation
Indices: 10350351--10350439 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
10350341 TCGTTAATCG
* * * * *
10350351 TTTTACTCCCTGTTAACCCACAGGTTATGAAGCTCA
1 TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
10350387 TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
1 TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
10350423 TTTTACTCCCTGTTGAC
1 TTTTACTCCCTGTTGAC
10350440 GAGAAGGTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (36 bp):
TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
Found at i:10354260 original size:23 final size:23
Alignment explanation
Indices: 10354207--10354308 Score: 82
Period size: 24 Copynumber: 4.4 Consensus size: 23
10354197 ATAATAAAAT
* **
10354207 AAAAATAATAGTAATGATAATAAC
1 AAAAATAATAATAATGATGCT-AC
*
10354231 AACAATAATAATAAT-ATGACTAC
1 AAAAATAATAATAATGATG-CTAC
* *
10354254 AATAATAATATTAATGATGCTA-
1 AAAAATAATAATAATGATGCTAC
* **
10354276 AAAAATAAAAATAATGATAATGAC
1 AAAAATAATAATAATGATGCT-AC
10354300 AAAAATAAT
1 AAAAATAAT
10354309 TACAATCGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
22 16 0.26
23 21 0.34
24 25 0.40
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (23 bp):
AAAAATAATAATAATGATGCTAC
Found at i:10354263 original size:3 final size:3
Alignment explanation
Indices: 10354196--10354246 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
10354186 TAACAACATA
* * * * *
10354196 AAT AAT AA- AAT AAA AAT AAT AGT AAT GAT AAT AAC AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10354243 AAT A
1 AAT A
10354247 TGACTACAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:10354531 original size:21 final size:22
Alignment explanation
Indices: 10354506--10354565 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
10354496 TGTTGGAAAT
*
10354506 AAATAAATAAGTAAA-AAAGTA
1 AAATAAATAAGTAAAGAAAGAA
*
10354527 AAATAAATAAATAAAGAAAGAA
1 AAATAAATAAGTAAAGAAAGAA
* *
10354549 AGAAAAAATAAGGAAAG
1 A-AATAAATAAGTAAAG
10354566 GACCAAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 14 0.44
22 6 0.19
23 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (22 bp):
AAATAAATAAGTAAAGAAAGAA
Found at i:10359235 original size:19 final size:19
Alignment explanation
Indices: 10359211--10359250 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10359201 TAGGTAAGCT
10359211 TGTATCGGTAGAAGTTACA
1 TGTATCGGTAGAAGTTACA
10359230 TGTATCGGTAGAAGTTACA
1 TGTATCGGTAGAAGTTACA
10359249 TG
1 TG
10359251 GTATGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.33
Consensus pattern (19 bp):
TGTATCGGTAGAAGTTACA
Found at i:10373971 original size:45 final size:45
Alignment explanation
Indices: 10373907--10373993 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
10373897 TTCTCTGGAC
*
10373907 ATATATAGATTATGATACACTCATGCTTTGGGTAAAACAAATTCT
1 ATATATAGATTATGATACACTCATGCTTTGGGTAAAAAAAATTCT
*
10373952 ATATATAGCTTATTG-TACACTCATGCTTTGGGTAAAAAAAAT
1 ATATATAGATTA-TGATACACTCATGCTTTGGGTAAAAAAAAT
10373994 GTAGAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (45 bp):
ATATATAGATTATGATACACTCATGCTTTGGGTAAAAAAAATTCT
Found at i:10379952 original size:21 final size:21
Alignment explanation
Indices: 10379926--10379975 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
10379916 AAGGTTCTAT
10379926 CGATACAAGTATGACTACTAC
1 CGATACAAGTATGACTACTAC
* * *
10379947 CGATACAATTATTACTTCTAC
1 CGATACAAGTATGACTACTAC
10379968 CGATACAA
1 CGATACAA
10379976 CAAACTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (21 bp):
CGATACAAGTATGACTACTAC
Found at i:10380884 original size:96 final size:93
Alignment explanation
Indices: 10380732--10380988 Score: 277
Period size: 94 Copynumber: 2.7 Consensus size: 93
10380722 TACACAATGC
* * * * * *
10380732 TGCTCACACTAAGCTGATGAGGACTCGAAACATATGCGATGCCTCAACCATTGATACGGTATCTG
1 TGCTCACACTAACCTGACGAGGACTCGCAACATATGCGGTACCTCAGCC-TTGATACGGTATCTG
* *
10380797 TACATATATAATTGTTACCAATATACGAT-G
65 TAC--ATATAACTGCTACCAATATACGATAG
* *
10380827 ATAG-TCACACTAACCTGACAAGGACTCTCAACATATGCGGTACCTCAGCCTTCGATACGGTATC
1 -T-GCTCACACTAACCTGACGAGGACTCGCAACATATGCGGTACCTCAGCCTT-GATACGGTATC
*
10380891 TGTACATATAACTGCTACCAGTATACGATAG
63 TGTACATATAACTGCTACCAATATACGATAG
* ** * *
10380922 TGCTCACA-TTACGCTGACGAGGACTCGCAACATATATGGTACCTCAGCCATGGATACGGTATAT
1 TGCTCACACTAAC-CTGACGAGGACTCGCAACATATGCGGTACCTCAGCC-TTGATACGGTATCT
10380986 GTA
64 GTA
10380989 ATCCAATCAT
Statistics
Matches: 137, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
93 4 0.03
94 73 0.53
95 4 0.03
96 55 0.40
97 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (93 bp):
TGCTCACACTAACCTGACGAGGACTCGCAACATATGCGGTACCTCAGCCTTGATACGGTATCTGT
ACATATAACTGCTACCAATATACGATAG
Found at i:10381564 original size:16 final size:16
Alignment explanation
Indices: 10381540--10381571 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10381530 TTCTTACAAA
*
10381540 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
10381556 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
10381572 AAAAATTTCG
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:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:10385909 original size:18 final size:21
Alignment explanation
Indices: 10385869--10385922 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
10385859 TAGGAAGGTT
10385869 CTACCGATACAAGTATGACTA
1 CTACCGATACAAGTATGACTA
* * *
10385890 CTACCGATACAATTATTACTT
1 CTACCGATACAAGTATGACTA
10385911 CTACCGATACAA
1 CTACCGATACAA
10385923 CAAACTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (21 bp):
CTACCGATACAAGTATGACTA
Found at i:10386529 original size:21 final size:21
Alignment explanation
Indices: 10386503--10386552 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10386493 AAGGTTCTAT
10386503 CGATACAAGTATGACTACTAC
1 CGATACAAGTATGACTACTAC
* * * *
10386524 CGATACAATTATTACTTCTAT
1 CGATACAAGTATGACTACTAC
10386545 CGATACAA
1 CGATACAA
10386553 CAAACTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (21 bp):
CGATACAAGTATGACTACTAC
Found at i:10387434 original size:94 final size:94
Alignment explanation
Indices: 10387292--10387471 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 94
10387282 AAATTTTCTT
* *
10387292 TGTTACCAGTATACAATGCTCCTCATACTAAGCTGATGAGGACCCGCAACATATACGGTACCTCA
1 TGTTACCAGTATACAATGCTCCTCACACTAAGCTGACGAGGACCCGCAACATATACGGTACCTCA
*
10387357 GCCATCGATACGGTATCTGTACATATAAC
66 GCCATCGATACGGTATATGTACATATAAC
* * * * * ***
10387386 TGTTACCAGTATACGATGTTGCTCACACTAAGTTGACGAGGACTCGCAACATATGTTGTACCTCA
1 TGTTACCAGTATACAATGCTCCTCACACTAAGCTGACGAGGACCCGCAACATATACGGTACCTCA
*
10387451 GCCATTGATACGGTATATGTA
66 GCCATCGATACGGTATATGTA
10387472 ATCCAATCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (94 bp):
TGTTACCAGTATACAATGCTCCTCACACTAAGCTGACGAGGACCCGCAACATATACGGTACCTCA
GCCATCGATACGGTATATGTACATATAAC
Found at i:10388045 original size:16 final size:16
Alignment explanation
Indices: 10388021--10388052 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10388011 GCCTTACAAA
*
10388021 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
10388037 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
10388053 AAAAATTTCT
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:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:10428701 original size:5 final size:5
Alignment explanation
Indices: 10428691--10428739 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
10428681 TTGCAGCAAG
* * * *
10428691 ATTTT ATTTT ATTTT ACTTT A-TTT ATTTC ATTTC ATTTT GTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
10428740 TAGTTTAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:10428723 original size:24 final size:24
Alignment explanation
Indices: 10428691--10428738 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10428681 TTGCAGCAAG
* *
10428691 ATTTTATTTTATTTTACTTTATTT
1 ATTTCATTTCATTTTACTTTATTT
**
10428715 ATTTCATTTCATTTTGTTTTATTT
1 ATTTCATTTCATTTTACTTTATTT
10428739 TTAGTTTAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTCATTTCATTTTACTTTATTT
Found at i:10434962 original size:18 final size:18
Alignment explanation
Indices: 10434935--10434973 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10434925 GTGGCTTTGT
*
10434935 TTCTTCAGGATCTTCTTC
1 TTCTTCAGGATCTTCCTC
*
10434953 TTCTTTAGGATCTTCCTC
1 TTCTTCAGGATCTTCCTC
10434971 TTC
1 TTC
10434974 ATGATCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.10, T:0.51
Consensus pattern (18 bp):
TTCTTCAGGATCTTCCTC
Found at i:10435902 original size:26 final size:26
Alignment explanation
Indices: 10435873--10435922 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
10435863 ATAAAATATA
*
10435873 AACAATTTAAAATAAATTA-AAAAGTT
1 AACAATTT-AAACAAATTAGAAAAGTT
10435899 AACAATTTAAACAAATTAGAAAAG
1 AACAATTTAAACAAATTAGAAAAG
10435923 AATTTCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (26 bp):
AACAATTTAAACAAATTAGAAAAGTT
Found at i:10448401 original size:310 final size:310
Alignment explanation
Indices: 10447571--10448499 Score: 1770
Period size: 309 Copynumber: 3.0 Consensus size: 310
10447561 ACCTTCATGA
*
10447571 CCAATCGAGTAACTTCTTTCCTTACTACTTATAGGGCTACACATTGAGGATAATGTGTTTTCTAA
1 CCAATCGAGTAACTTCTTTCCTTACTACTTATAGGGCTACACATTGAGGACAATGTGTTTTCTAA
10447636 AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTCAGTTTTTCTT
66 AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTCAGTTTTTCTT
10447701 TTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTGATT
131 TTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTGATT
10447766 GTATTTATTGATAAATTTGGCATGATGATGAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
196 GTATTTATTGATAAATTTGGCATGATGATGAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
10447831 TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
261 TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
*
10447881 CCAATCGAGTAACTTC-TTCCTTACTACTTATAGGGCTACACATTAAGGACAATGTGTTTTCTAA
1 CCAATCGAGTAACTTCTTTCCTTACTACTTATAGGGCTACACATTGAGGACAATGTGTTTTCTAA
*
10447945 AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTTAGTTTTTCTT
66 AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTCAGTTTTTCTT
*
10448010 TTGATGTGTGCTTGAACTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTGATT
131 TTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTGATT
* * *
10448075 GTAATTATTTATAAATTTGGCATGATGATAAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
196 GTATTTATTGATAAATTTGGCATGATGATGAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
10448140 TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
261 TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
*
10448190 CCAATCGAGTAACTTCTTTCCTTACGACTTATAGGGCTACACATTGAGGACAATGTGTTTTCTAA
1 CCAATCGAGTAACTTCTTTCCTTACTACTTATAGGGCTACACATTGAGGACAATGTGTTTTCTAA
10448255 AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTCAGTTTTTCTT
66 AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTCAGTTTTTCTT
*
10448320 TTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTAATT
131 TTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTGATT
10448385 GTATTTATTGATAAATTTGGCATGATGATGAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
196 GTATTTATTGATAAATTTGGCATGATGATGAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
10448450 TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
261 TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
10448500 GATGTGCATA
Statistics
Matches: 603, Mismatches: 15, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
309 302 0.50
310 301 0.50
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (310 bp):
CCAATCGAGTAACTTCTTTCCTTACTACTTATAGGGCTACACATTGAGGACAATGTGTTTTCTAA
AGTGTGGGGGGCTAACATAAGAATTTTGGAATATAGTTTTAATTTTTAGTTTTTCAGTTTTTCTT
TTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGGTTAGGAGCATGAATAATAGGTTGATT
GTATTTATTGATAAATTTGGCATGATGATGAGGAATTTTTAATTTTTGAGCATGAAGTTTTTTAG
TTATATAGATTACATTAAGTATAGATGGAAAGGTATTATTGATACCAAGT
Found at i:10451993 original size:29 final size:29
Alignment explanation
Indices: 10451958--10452039 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
10451948 GCTTAATTGA
* * *
10451958 AAGATAGCCACGAAGGCGTCCACTTAACT
1 AAGATAGCCACAAAGGCATCCACATAACT
*
10451987 AAGATAGCCACAAAGGCATCCATACATCACT
1 AAGATAGCCACAAAGGCATCC--ACATAACT
*
10452018 -AGATAGCCACTAAGGCATCCAC
1 AAGATAGCCACAAAGGCATCCAC
10452040 CTCCATTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.04
29 19 0.41
30 19 0.41
31 6 0.13
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (29 bp):
AAGATAGCCACAAAGGCATCCACATAACT
Found at i:10455957 original size:40 final size:39
Alignment explanation
Indices: 10455884--10455996 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 39
10455874 CACTAAAATG
* * *
10455884 CATTCAGGGGCACAAGTGTGAAGTCCGGAGCACT-AGAGTA
1 CATTCAGGGGCACAAATGTGAA-TCAGGGGCACTGA-AGTA
* *
10455924 CGTTCAGGGGTACAAATGTGCAATCAGGGGCACTGAAGTA
1 CATTCAGGGGCACAAATGTG-AATCAGGGGCACTGAAGTA
* *
10455964 CATACAGGGGCATCAAA-GTGGAAACAGGGGCAC
1 CATTCAGGGGCA-CAAATGT-GAATCAGGGGCAC
10455997 AAATGTGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
40 52 0.87
41 8 0.13
ACGTcount: A:0.32, C:0.19, G:0.33, T:0.16
Consensus pattern (39 bp):
CATTCAGGGGCACAAATGTGAATCAGGGGCACTGAAGTA
Found at i:10472139 original size:379 final size:374
Alignment explanation
Indices: 10471445--10472181 Score: 1393
Period size: 379 Copynumber: 2.0 Consensus size: 374
10471435 ACAATGACAG
10471445 TAATGATTAATTTAGTGTGCATAACTGACATAACTGAGCTGACAACCCTATTCATATTAATTTTT
1 TAATGATTAATTTAGTGTGCATAACTGACATAACTGAGCTGACAACCCTATTCATATTAATTTTT
*
10471510 CTTCTATTAATTGCTTTAATATTACATCGAAAACCATTTCCTCGTGGGATCGATATCTGATAGCT
66 CTTCTATTAATTGCTTTAACATTACATCGAAAACCATTTCCTCGTGGGATCGATATCTGATAGCT
10471575 CTGTCTATCAACTATACTTGCATCGACGTGTGTACACTTGCATAATCGTGTGTTGTAAAAACACC
131 CTGTCTATCAACTATACTTGCATCGACGTGTGTACACTTGCATAATCGTGTGTTGTAAAAACACC
10471640 GAACAGTTCTCTTCTTTTTATGGTGGTTGTCCTTCTCCTTTTGGTATTAATGCTCAAAATTGTTA
196 GAACAGTTCTCTTCTTTTTATGGTGGTTGTCCTTCTCCTTTTGGTATTAATGCTCAAAATTGTTA
*
10471705 CGTCTTCTATAATGTGGGGTTCCTACAAAGAGAATTTAAAGCATATATACCAATATAAATTCTAA
261 CGTCTTCTATAATGTGGGGTTCCTACAAAGAGAAGTTAAAGCATATATACCAATATAAATTCTAA
10471770 TCCTACTCCTACGAATTATATAAGTCTAAATAATGATTAATTTAAAGCA
326 TCCTACTCCTACGAATTATATAAGTCTAAATAATGATTAATTTAAAGCA
*
10471819 TAATGATTAATTTAGTGTGCATAACTGACATAACTGAGCTGACAACCCTATTCGTATTATACTGA
1 TAATGATTAATTTAGTGTGCATAACTGACATAACTGAGCTGACAACCCTATTC--A-TAT--TAA
10471884 TTTTTCTTCTATTAATTGCTTTAACATTACATCGAAAACCATTTCCTCGTGGGATCGATATCTGA
61 TTTTTCTTCTATTAATTGCTTTAACATTACATCGAAAACCATTTCCTCGTGGGATCGATATCTGA
*
10471949 TAGCTCTGTCTATCAACTATACTTGCATTGACGTGTGTACACTTGCATAATCGTGTGTTGTAAAA
126 TAGCTCTGTCTATCAACTATACTTGCATCGACGTGTGTACACTTGCATAATCGTGTGTTGTAAAA
10472014 ACACCGAACAGTTCTCTTCTTTTTATGGTGGTTGTCCTTCTCCTTTTGGTATTAATGCTCAAAAT
191 ACACCGAACAGTTCTCTTCTTTTTATGGTGGTTGTCCTTCTCCTTTTGGTATTAATGCTCAAAAT
10472079 TGTTACGTCTTCTATAATGTGGGGTTCCTACAAAGAGAAGTTAAAGCATATATACCAATATAAAT
256 TGTTACGTCTTCTATAATGTGGGGTTCCTACAAAGAGAAGTTAAAGCATATATACCAATATAAAT
10472144 TCTAATCCTACTCCTACGAATTATATAAGTCTAAATAA
321 TCTAATCCTACTCCTACGAATTATATAAGTCTAAATAA
10472182 AAACAAAAAA
Statistics
Matches: 354, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
374 53 0.15
376 1 0.00
377 3 0.01
379 297 0.84
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (374 bp):
TAATGATTAATTTAGTGTGCATAACTGACATAACTGAGCTGACAACCCTATTCATATTAATTTTT
CTTCTATTAATTGCTTTAACATTACATCGAAAACCATTTCCTCGTGGGATCGATATCTGATAGCT
CTGTCTATCAACTATACTTGCATCGACGTGTGTACACTTGCATAATCGTGTGTTGTAAAAACACC
GAACAGTTCTCTTCTTTTTATGGTGGTTGTCCTTCTCCTTTTGGTATTAATGCTCAAAATTGTTA
CGTCTTCTATAATGTGGGGTTCCTACAAAGAGAAGTTAAAGCATATATACCAATATAAATTCTAA
TCCTACTCCTACGAATTATATAAGTCTAAATAATGATTAATTTAAAGCA
Found at i:10472272 original size:21 final size:21
Alignment explanation
Indices: 10472232--10472272 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10472222 TAAACAATTA
*
10472232 TTCTTCCTCATCCATCTCATC
1 TTCTTCCTCATCCATATCATC
10472253 TTCTTCCTCAT-CACTATCAT
1 TTCTTCCTCATCCA-TATCAT
10472273 TTCCTACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (21 bp):
TTCTTCCTCATCCATATCATC
Found at i:10485898 original size:16 final size:16
Alignment explanation
Indices: 10485857--10485891 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10485847 GACAACCCTG
10485857 GATACCTTCATGCATT
1 GATACCTTCATGCATT
10485873 GATACCTTCATGCATT
1 GATACCTTCATGCATT
10485889 GAT
1 GAT
10485892 CTTTTCAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (16 bp):
GATACCTTCATGCATT
Found at i:10488176 original size:17 final size:18
Alignment explanation
Indices: 10488146--10488186 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
10488136 TTGAAAGCAT
*
10488146 AAAATA-AAATATAATAG
1 AAAATAGAAATATAAAAG
10488163 AAAATAGAAA-ATAAAAG
1 AAAATAGAAATATAAAAG
*
10488180 CAAATAG
1 AAAATAG
10488187 TTGAGATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (18 bp):
AAAATAGAAATATAAAAG
Found at i:10496018 original size:22 final size:22
Alignment explanation
Indices: 10495992--10496034 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10495982 CAATTTAACT
10495992 TAATTTAGAACAAATAT-TCAAC
1 TAATTTAGAA-AAATATATCAAC
*
10496014 TAATTTATAAAAATATATCAA
1 TAATTTAGAAAAATATATCAA
10496035 TTCATAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (22 bp):
TAATTTAGAAAAATATATCAAC
Found at i:10497227 original size:40 final size:40
Alignment explanation
Indices: 10497178--10497283 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
10497168 CAAAACTGAC
* *
10497178 ACTAAAGTGCATTCAGAGGCAC-AAGTGTATATTCAGGGGA
1 ACTAAAGTGCATTCAGAGGCACGAA-TGTACAATCAGGGGA
* * *
10497218 ACTAGAGTGCATTCAGGGGCACGAATGTACAATCAGGGGC
1 ACTAAAGTGCATTCAGAGGCACGAATGTACAATCAGGGGA
** * *
10497258 ACCGAAGTGCATACAGGGGCATCGAA
1 ACTAAAGTGCATTCAGAGGCA-CGAA
10497284 GTGCAAACAG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
40 49 0.89
41 6 0.11
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (40 bp):
ACTAAAGTGCATTCAGAGGCACGAATGTACAATCAGGGGA
Found at i:10497274 original size:20 final size:20
Alignment explanation
Indices: 10497223--10497299 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
10497213 GGGGAACTAG
*
10497223 AGTGCATTCAGGGGCA-CGA
1 AGTGCATACAGGGGCACCGA
*
10497242 ATGTACA-ATCAGGGGCACCGA
1 A-GTGCATA-CAGGGGCACCGA
*
10497263 AGTGCATACAGGGGCATCGA
1 AGTGCATACAGGGGCACCGA
* *
10497283 AGTGCAAACAGGAGCAC
1 AGTGCATACAGGGGCAC
10497300 AAATGTGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 41 0.87
21 5 0.11
ACGTcount: A:0.32, C:0.22, G:0.32, T:0.13
Consensus pattern (20 bp):
AGTGCATACAGGGGCACCGA
Done.