Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
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: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 31
Found at i:2130809 original size:31 final size:32
Alignment explanation
Indices: 2130751--2130812 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
2130741 CAAAAAAAGG
**
2130751 GGGATTTTGAAATATTGTCTTTGATTGTAAAT
1 GGGATTTTGAAATATTGTAATTGATTGTAAAT
*
2130783 GGGATTTTGAAA-ATTTTAATTGATTGTAAA
1 GGGATTTTGAAATATTGTAATTGATTGTAAA
2130813 CAAAGAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (32 bp):
GGGATTTTGAAATATTGTAATTGATTGTAAAT
Found at i:2135499 original size:20 final size:20
Alignment explanation
Indices: 2135454--2135504 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
2135444 ATGTGATCCC
*
2135454 AGTATCGATACCACCCCATT
1 AGTATCGATACCAACCCATT
2135474 -GATATCGATACCAACCC-TGT
1 AG-TATCGATACCAACCCAT-T
*
2135494 AGTATCAATAC
1 AGTATCGATAC
2135505 TCTTTACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
20 23 0.88
21 1 0.04
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (20 bp):
AGTATCGATACCAACCCATT
Found at i:2139081 original size:14 final size:14
Alignment explanation
Indices: 2139036--2139072 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
2139026 TCCATTTAAA
2139036 ATTTCCATCGATTG
1 ATTTCCATCGATTG
2139050 ATTTCCATCGATTG
1 ATTTCCATCGATTG
2139064 ATTTCCATC
1 ATTTCCATC
2139073 TTATGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (14 bp):
ATTTCCATCGATTG
Found at i:2140446 original size:28 final size:28
Alignment explanation
Indices: 2140406--2140466 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
2140396 TTAAATGGAG
2140406 TCACATGCATAGCACATGGCCTGGCTGA
1 TCACATGCATAGCACATGGCCTGGCTGA
*
2140434 TCACATGCATAGCACATGGCCTGGTTGA
1 TCACATGCATAGCACATGGCCTGGCTGA
2140462 TCACA
1 TCACA
2140467 AGGCGTGCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (28 bp):
TCACATGCATAGCACATGGCCTGGCTGA
Found at i:2140476 original size:28 final size:28
Alignment explanation
Indices: 2140406--2140480 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
2140396 TTAAATGGAG
*
2140406 TCACATGCATAGCACATGGCCTGGCTGA
1 TCACAGGCATAGCACATGGCCTGGCTGA
* *
2140434 TCACATGCATAGCACATGGCCTGGTTGA
1 TCACAGGCATAGCACATGGCCTGGCTGA
*
2140462 TCACAAGGCGT-GCACATGG
1 TCAC-AGGCATAGCACATGG
2140481 ATCTCTAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 39 0.91
29 4 0.09
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (28 bp):
TCACAGGCATAGCACATGGCCTGGCTGA
Found at i:2154677 original size:26 final size:26
Alignment explanation
Indices: 2154641--2154702 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
2154631 TGATATTAAA
2154641 TCAT-AAAGCTTATCACATTTTAATT
1 TCATGAAAGCTTATCACATTTTAATT
2154666 TCATGAAAGCTTATCACATTTTAATT
1 TCATGAAAGCTTATCACATTTTAATT
2154692 TCATGAAAGCT
1 TCATGAAAGCT
2154703 CATTTGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.11
26 32 0.89
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (26 bp):
TCATGAAAGCTTATCACATTTTAATT
Found at i:2155528 original size:8 final size:8
Alignment explanation
Indices: 2155494--2155569 Score: 62
Period size: 8 Copynumber: 9.0 Consensus size: 8
2155484 AAAGTTAGTT
2155494 AAAAATAA
1 AAAAATAA
**
2155502 GAAAAGGAA
1 -AAAAATAA
* *
2155511 AATAAGAA
1 AAAAATAA
2155519 AAAAATAA
1 AAAAATAA
2155527 AAAAATAA
1 AAAAATAA
*
2155535 ACAACAACAA
1 A-AA-AATAA
*
2155545 AAAAAAACA
1 AAAAATA-A
2155554 AAAAATAA
1 AAAAATAA
2155562 AAAAATAA
1 AAAAATAA
2155570 TAATTAGATC
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
8 33 0.60
9 17 0.31
10 5 0.09
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (8 bp):
AAAAATAA
Found at i:2156892 original size:15 final size:13
Alignment explanation
Indices: 2156858--2156885 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2156848 ATAATAATAG
2156858 TAATATATATACA
1 TAATATATATACA
2156871 TAATATATATACA
1 TAATATATATACA
2156884 TA
1 TA
2156886 TGCTATACAA
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:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATATATATACA
Found at i:2165534 original size:19 final size:20
Alignment explanation
Indices: 2165510--2165551 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2165500 GAGAATGTAA
2165510 AAACATGG-AAAATAAAAAT
1 AAACATGGAAAAATAAAAAT
2165529 AAACATGGAAAAATAAAAAT
1 AAACATGGAAAAATAAAAAT
2165549 AAA
1 AAA
2165552 ATGCAAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (20 bp):
AAACATGGAAAAATAAAAAT
Found at i:2171688 original size:28 final size:29
Alignment explanation
Indices: 2171647--2171706 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
2171637 GTATGAAAGC
2171647 TTTTCAAATTTTTTAATAGAAAAGGGTTT
1 TTTTCAAATTTTTTAATAGAAAAGGGTTT
2171676 TTTTCAAATTTTTTAATAGAAAAGGGTTT
1 TTTTCAAATTTTTTAATAGAAAAGGGTTT
2171705 TT
1 TT
2171707 CAAAAGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTCAAATTTTTTAATAGAAAAGGGTTT
Found at i:2173441 original size:17 final size:18
Alignment explanation
Indices: 2173421--2173456 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
2173411 TGAAATAAAA
2173421 AAAATTGTT-TTGTTTTT
1 AAAATTGTTGTTGTTTTT
2173438 AAAATTGTTGTTGTTTTT
1 AAAATTGTTGTTGTTTTT
2173456 A
1 A
2173457 TTTAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
AAAATTGTTGTTGTTTTT
Found at i:2179821 original size:45 final size:44
Alignment explanation
Indices: 2179757--2180047 Score: 311
Period size: 45 Copynumber: 6.5 Consensus size: 44
2179747 TTACTTATAA
* * * * * * *
2179757 CATACCTTTATGTTAATAATGCACCCCTATGCATTTAAATCATAG
1 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAA-CATAG
*
2179802 CATACTTTTTTGTTGATAATGTACCCATATACATTTCAACTATAG
1 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC-ATAG
*
2179847 TATACTTTAT-TGTTGATAATGTACCCATATACATTTCAAC-TAGTG
1 CATACTTT-TCTGTTGATAATGTACCCATATACATTTCAACATA--G
*
2179892 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAA
1 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAA-CATAG
* * * * *
2179937 TATACTTTACTATTGATAATGTAACCATATACTTTTCAAC-TAGTG
1 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAACATA--G
*
2179982 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAAGTATAG
1 CATACTTTTCTGTTGATAATGTACCCATATACATTTCAA-CATAG
*
2180027 CAT-CCTTTCATGTTGATAATG
1 CATACTTTTC-TGTTGATAATG
2180048 CACTTGTATG
Statistics
Matches: 211, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
43 4 0.02
44 8 0.04
45 193 0.91
46 2 0.01
47 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (44 bp):
CATACTTTTCTGTTGATAATGTACCCATATACATTTCAACATAG
Found at i:2179895 original size:90 final size:89
Alignment explanation
Indices: 2179801--2180047 Score: 386
Period size: 90 Copynumber: 2.7 Consensus size: 89
2179791 TTAAATCATA
*
2179801 GCATACTTTTTTGTTGATAATGTACCCATATACATTTCAACTATAGTATACTTTATTGTTGATAA
1 GCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATACTTTA-TGTTGATAA
*
2179866 TGTACCCATATACATTTCAACTAGT
65 TGTAACCATATACATTTCAACTAGT
* * *
2179891 GCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAATATACTTTACTATTGATAA
1 GCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATACTTTA-TGTTGATAA
*
2179956 TGTAACCATATACTTTTCAACTAGT
65 TGTAACCATATACATTTCAACTAGT
* * *
2179981 GCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAGTATAGCATCCTTTCATGTTGATAA
1 GCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATACTTT-ATGTTGATAA
2180046 TG
65 TG
2180048 CACTTGTATG
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 142 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (89 bp):
GCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATACTTTATGTTGATAAT
GTAACCATATACATTTCAACTAGT
Found at i:2180062 original size:135 final size:136
Alignment explanation
Indices: 2179752--2180050 Score: 376
Period size: 135 Copynumber: 2.2 Consensus size: 136
2179742 CATTCTTACT
* * * * * ** *
2179752 TATAACATACCTTT-ATGTTAATAATGCACCCCTATGCATTTAAATCATAGCATACTTTTTTGTT
1 TATAGCATACCTTTCATGTTGATAATGCACCCATATGCATTTAAACCATAACATACTTTACTATT
* *
2179816 GATAATGTACCCATATACATTTCAACTATAGTATACTTTATTGTTGATAATGTACCCATATACAT
66 GATAATGTAACCATATACATTTCAACTATAGCATACTTTATTGTTGATAATGTACCCATATACAT
2179881 TTCAAC
131 TTCAAC
* * * * *
2179887 TAGT-GCATACTTTTC-TGTTGATAATGTACCCATATACATTTCAACCATAATATACTTTACTAT
1 TA-TAGCATACCTTTCATGTTGATAATGCACCCATATGCATTTAAACCATAACATACTTTACTAT
*
2179950 TGATAATGTAACCATATACTTTTCAACTAGT-GCATACTTT-TCTGTTGATAATGTACCCATATA
65 TGATAATGTAACCATATACATTTCAACTA-TAGCATACTTTAT-TGTTGATAATGTACCCATATA
*
2180013 CATTTCAAG
128 CATTTCAAC
2180022 TATAGCAT-CCTTTCATGTTGATAATGCAC
1 TATAGCATACCTTTCATGTTGATAATGCAC
2180051 TTGTATGCAT
Statistics
Matches: 139, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
134 7 0.05
135 130 0.94
136 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (136 bp):
TATAGCATACCTTTCATGTTGATAATGCACCCATATGCATTTAAACCATAACATACTTTACTATT
GATAATGTAACCATATACATTTCAACTATAGCATACTTTATTGTTGATAATGTACCCATATACAT
TTCAAC
Found at i:2184519 original size:19 final size:19
Alignment explanation
Indices: 2184483--2184521 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2184473 TTTAAGTTTT
*
2184483 TAAATTAATTTTATAAATA
1 TAAATTAATTTTAAAAATA
2184502 TAAATT-ATTTTAAAAA-A
1 TAAATTAATTTTAAAAATA
2184519 TAA
1 TAA
2184522 TTTTTAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATTAATTTTAAAAATA
Found at i:2193290 original size:38 final size:39
Alignment explanation
Indices: 2193235--2193323 Score: 135
Period size: 38 Copynumber: 2.3 Consensus size: 39
2193225 AACATTGTGA
*
2193235 CATTTTGAAGGCTCGTACCAGTATAA-ATAATGTTGAGG
1 CATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGAGG
*
2193273 CATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGGGG
1 CATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGAGG
*
2193312 CACTATTGAAGG
1 CA-TTTTGAAGG
2193324 TCTGTTTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 25 0.54
39 13 0.28
40 8 0.17
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (39 bp):
CATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGAGG
Found at i:2194937 original size:37 final size:36
Alignment explanation
Indices: 2194834--2195029 Score: 302
Period size: 37 Copynumber: 5.4 Consensus size: 36
2194824 TTTGATCTTA
* *
2194834 GAAGCAAATCTTCTTAAGTCTTCATGGAAGAGTAGT
1 GAAGCAAATCATCTTAAGCCTTCATGGAAGAGTAGT
*
2194870 GAAGCAAATCATCTTAAGCCTTCATAGAAGAGTAGT
1 GAAGCAAATCATCTTAAGCCTTCATGGAAGAGTAGT
*
2194906 GAAGCAAATCATCTATAAGCCTTCACGGAAGAGTAGT
1 GAAGCAAATCATCT-TAAGCCTTCATGGAAGAGTAGT
*
2194943 GAAGCAAATTAATCTTAAGCCTTCATGGAAGAGTAGT
1 GAAGCAAA-TCATCTTAAGCCTTCATGGAAGAGTAGT
*
2194980 GAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAGT
1 GAAGCAAATC-ATCTTAAGCCTTCATGGAAGAGTAGT
*
2195017 GACGCAAATCATC
1 GAAGCAAATCATC
2195030 ATCGAGTTAT
Statistics
Matches: 147, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
36 51 0.35
37 91 0.62
38 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (36 bp):
GAAGCAAATCATCTTAAGCCTTCATGGAAGAGTAGT
Found at i:2195255 original size:55 final size:55
Alignment explanation
Indices: 2195039--2195605 Score: 578
Period size: 55 Copynumber: 10.4 Consensus size: 55
2195029 CATCGAGTTA
* ** * *
2195039 TATACTCCCTGAAAGAAGA-GG-G-AG-TCCGGTTACCGAATATTGTTCGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
* ** * *
2195090 TATACTCCCTGAAAGAAGAGGGATCAGA-TAATTTTGCCTAAGATT-ATCGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTT-CCGAAGATTGTTCGAGTCC
* * * * * *
2195144 TATAATCTCTAAAAGAAGAGAGAGCAGACCTATTTT-CGAAGATTGCTCGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
* * * *
2195198 TATACTCCATGAAAGAAGAGGGAGCATACCCATTTGCCGAAGATTGTTTGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
* *
2195253 TATACTCCCTGAAAGAAGAGGGAG-ATGACCCATTTTTCGAAGATTGTTCGAATCC
1 TATACTCCCTGAAAGAAGAGGGAGCA-GACCCATTTTCCGAAGATTGTTCGAGTCC
* ** * * **
2195308 TATACTCCTTGAAAGAAGAATGAGCAGAACCGTTTAACGAAGATTGTTCGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
* * * *
2195363 TACACTACCTGAAAGAATAGGGAG-AGGACCCATTTTCCGAAGATTGTTCGAGTCA
1 TATACTCCCTGAAAGAAGAGGGAGCA-GACCCATTTTCCGAAGATTGTTCGAGTCC
* * * *
2195418 TATACTCCCTGAAAGAAAAGGGAGCGGACCCATTTTCTGAAGATTGTTCAAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
* * * ***
2195473 TATACT-CCTGAAATAAGAGGGAGCACACCTATTTTTTTAAGATTGTTCGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
* * *** * *
2195527 TATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCGAAGATTGTTTGAGTCC
1 TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
*
2195582 TATACTCCCTAAAAGAAGAGGGAG
1 TATACTCCCTGAAAGAAGAGGGAG
2195606 TGAACCCGTC
Statistics
Matches: 425, Mismatches: 78, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
51 19 0.04
52 2 0.00
53 7 0.02
54 119 0.28
55 277 0.65
56 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (55 bp):
TATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTCCGAAGATTGTTCGAGTCC
Found at i:2195527 original size:274 final size:273
Alignment explanation
Indices: 2195072--2195600 Score: 670
Period size: 274 Copynumber: 1.9 Consensus size: 273
2195062 GTCCGGTTAC
* * * * *
2195072 CGAATATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGATCAGATAATTTTGCCTAAGATTAT
1 CGAAGATTGTTCGAGTCCTACACTACCTGAAAGAAGAGGGATCAGACAATTTTGCCGAAGATTAT
* * * * *
2195137 CGAGTCCTATAATCTCTAAAAGAAGAGAGAGCAGACCTATTTTCGAAGATTGCTCGAGTCCTATA
66 CGAGTCATATAATCCCTAAAAGAAAAGAGAGCAGACCCATTTTCGAAGATTGCTCAAGTCCTATA
* *
2195202 CTCCATGAAAGAAGAGGGAGCATACCCATTTGCCGAAGATTGTTTGAGTCCTATACTCCCTGAAA
131 CTCCATGAAAGAAGAGGGAGCACACCCATTTGCCGAAGATTGTTCGAGTCCTATACTCCCTGAAA
* *
2195267 GAAGAGGGAG-ATGACCCATTTTTCGAAGATTGTTCGAATCCTATACTCCTTGAAAGAAGAATGA
196 GAAGAGGGAGCAT-ACCCATTTTTCGAAGATTGTTCGAATCCTATACTCCCTAAAAGAAGAATGA
2195331 GCAGAACCGTTTAA
260 GCAGAACCGTTTAA
* * *
2195345 CGAAGATTGTTCGAGTCCTACACTACCTGAAAGAATAGGGA-GAGGACCCATTTT-CCGAAGATT
1 CGAAGATTGTTCGAGTCCTACACTACCTGAAAGAAGAGGGATCA-GA-CAATTTTGCCGAAGATT
* * * * * *
2195408 GTTCGAGTCATATACTCCCTGAAAGAAAAGGGAGCGGACCCATTTTCTGAAGATTGTTCAAGTCC
64 -ATCGAGTCATATAATCCCTAAAAGAAAAGAGAGCAGACCCATTTTC-GAAGATTGCTCAAGTCC
* * **** *
2195473 TATACTCC-TGAAATAAGAGGGAGCACACCTATTTTTTTAAGATTGTTCGAGTCCTATACTCCTT
127 TATACTCCATGAAAGAAGAGGGAGCACACCCATTTGCCGAAGATTGTTCGAGTCCTATACTCCCT
*** * *
2195537 GAAAGAAGAGGGAGCATACTTGTTTTTCGAAGATTGTTTGAGTCCTATACTCCCTAAAAGAAGA
192 GAAAGAAGAGGGAGCATACCCATTTTTCGAAGATTGTTCGAATCCTATACTCCCTAAAAGAAGA
2195601 GGGAGTGAAC
Statistics
Matches: 216, Mismatches: 35, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
272 1 0.00
273 47 0.22
274 143 0.66
275 25 0.12
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (273 bp):
CGAAGATTGTTCGAGTCCTACACTACCTGAAAGAAGAGGGATCAGACAATTTTGCCGAAGATTAT
CGAGTCATATAATCCCTAAAAGAAAAGAGAGCAGACCCATTTTCGAAGATTGCTCAAGTCCTATA
CTCCATGAAAGAAGAGGGAGCACACCCATTTGCCGAAGATTGTTCGAGTCCTATACTCCCTGAAA
GAAGAGGGAGCATACCCATTTTTCGAAGATTGTTCGAATCCTATACTCCCTAAAAGAAGAATGAG
CAGAACCGTTTAA
Found at i:2195863 original size:22 final size:23
Alignment explanation
Indices: 2195811--2195863 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
2195801 TATATTTTAG
*
2195811 TAATTATATTTATATTAGTTAGAT
1 TAATTA-ATTAATATTAGTTAGAT
*
2195835 TTATTAATTAATATT-GTTTA-AT
1 TAATTAATTAATATTAG-TTAGAT
2195857 TAATTAA
1 TAATTAA
2195864 ATTGTTATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 9 0.36
23 11 0.44
24 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TAATTAATTAATATTAGTTAGAT
Found at i:2196501 original size:54 final size:55
Alignment explanation
Indices: 2196432--2196589 Score: 183
Period size: 55 Copynumber: 2.9 Consensus size: 55
2196422 CTTCCCTATC
* *
2196432 TTTTTCCAAAAATTGTTCAAGTCCTATACT-CCTGAAATAAGAGGGAGCATACCCA
1 TTTTT-CAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACCCA
** * * ***
2196487 TTTTTTGAAGATTGTTCAAGTTCTATACTCCCTGAAAGAAGAGTGAGCATACTTG
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACCCA
** * *
2196542 TTTTTCAAAGATTGTTTGATTCCTATACTCCCTAAAAGAAGAGGGAGC
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGC
2196590 GAACCCGTCC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 20 0.24
55 65 0.76
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (55 bp):
TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACCCA
Found at i:2197520 original size:56 final size:55
Alignment explanation
Indices: 2197422--2197580 Score: 203
Period size: 55 Copynumber: 2.9 Consensus size: 55
2197412 CTTCCCTATC
* *
2197422 TTTTTCCAAAAATTGTTCAAGTCCTATACT-CCTGAAATAAGAGGGAGCATACCCA
1 TTTTT-CAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACCCA
** * * ***
2197477 TTTTTTGAAGATTGTTTCAAGTTCTATACTCCCTGAAAGAAGAGTGAGCATACTTG
1 TTTTTCAAAGATTG-TTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACCCA
*
2197533 TTTTTCAAAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGC
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGC
2197581 GAACATGTCC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 6 0.07
55 50 0.57
56 32 0.36
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (55 bp):
TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACCCA
Found at i:2197599 original size:55 final size:53
Alignment explanation
Indices: 2197433--2197609 Score: 173
Period size: 55 Copynumber: 3.2 Consensus size: 53
2197423 TTTTCCAAAA
* *
2197433 ATTGTTCAAGTCCTATACT-CCTGAAATAAGAGGGAGCATACCCAT-TTTTTGAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATA--CATGTTTCT-AAG
* * * *
2197487 ATTGTTTCAAGTTCTATACTCCCTGAAAGAAGAGTGAGCATACTTGTTTTTCAAAG
1 ATTG-TTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACATG--TTTCTAAG
*
2197543 ATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCGA-ACATGTCCTTCTAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGC-ATACATGT--TTCTAAG
2197598 ATT-TCTCAAGTC
1 ATTGT-TCAAGTC
2197610 TCACTCATTC
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
53 1 0.01
54 7 0.07
55 64 0.63
56 27 0.26
57 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (53 bp):
ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCATACATGTTTCTAAG
Found at i:2197639 original size:991 final size:990
Alignment explanation
Indices: 2195460--2200463 Score: 4693
Period size: 990 Copynumber: 5.0 Consensus size: 990
2195450 TTTTCTGAAG
* * * *
2195460 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCACACCTATTTTTTTAAGATTGTTCGAGT
1 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTGTTCAAGT
* * * *
2195525 CCTATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCGAAGATTGTTTGAGTCCTATACTCC
66 TCTATACTCCCTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTGTTCGAGTCCTATACTCC
* * *
2195590 CTAAAAGAAGAGGGAGTGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTAAAGTTAC
131 CTGAAAGAAGAGGGAGCGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTAC
* *
2195655 AGTGAATTAGATTAATGTTTTGAA-TT-T-AT-----ACAAATTTCACTATCATTTGATCTTTAC
196 AGTGAATTAGATTAATGTTTTGAATTTATCATGGCCGACAAATTTCACTATCTTTTGATCTTTGC
* * * * *
2195712 TCTATTCTCGTTACACGATAATGAGCAAAGAGGGGCATACGTAAATGTTTGATTTGTCTGGGGTG
261 TCTATTCTCGTTACACGACAATGAGCAAAGAGGGGCAGATGTAAATGCTCGATTTGTCTGGGGTG
*
2195777 TTATTTGATTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATTAA
326 TTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATTAA
* * *
2195842 TTAATATTGTTTAATTAATTAAATTGTTATTGTATTTATATGTTAGAAGTATTATAATTATATAG
391 TTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATTATATAG
*
2195907 AGTATAAATAAATTAATATTGAATATATATGTATATTGA-TGGGCTTTAACGAAGTACTGATTAA
456 AGTATAAATAAATTAATATTGAATATATATGTATATTGATTGGGCTTTAACGAAATACTGATTAA
* *
2195971 ATATTTTATTTTTACAGGCCCACGTCAATTACAAATTACCCCAACCCATGCCCAATTGGAGAACG
521 ATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTGGAGAACG
* * * * *
2196036 CCCGAACCACTCAAATTCACGCGTGCATTGCATGCGCGCCACCTGAACAACAACAACAGGCTCTG
586 CCCGAACCACTCAGATTCGCGCGTGCATTGCATGCGCGCCACCTGAACAACAGCAAGAGCCTCTG
* * *
2196101 CTTGCCTGTTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTGCAAAATGAAATAACAAAAAAGC
651 CTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTGCAAAACGAAATAACAAAAAAGC
* * *
2196166 AATGAGCAAAACAGATTCTATGCAGGAGGG-ACGCAGAGATATCCAGAAAGGCATGCATAATAGA
716 AATGAGCAAAACAGATTCTTTG--GG-GGGCACGCAGAGATATCCAGCAAGGCATGCATAACAGA
* * *
2196230 AAGATTATTAGCAGATAAAAAGGTTTACATTCATCATTTGGAAGGGGGTCATTAGCAAATGGAGA
778 AAGATTATTAGCAGATAAAAAGGGTGACATTCATCATTTGGAAGGGGGTCATTAGAAAATGGAGA
*
2196295 GCATTTATCAATAACAGAAGGAATTGTAACCGGGGGGCTTCTGCTATTGAATTTGAAAATGAAAA
843 GCATTTATCAATAACAGAAGGAATTGTAACCGGGGGTCTTCTGCTATTGAATTTGAAAATGAAAA
2196360 AATAGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAAACAGTGTAATAGGGGTCTT
908 AATAGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAAACAGTGTAATAGGGGTCTT
2196425 CCCTATCTTTTTCCAAAA
973 CCCTATCTTTTTCCAAAA
2196443 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTGTTCAAGT
1 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTGTTCAAGT
* * *
2196508 TCTATACTCCCTGAAAGAAGAGTGAGCATACTTGTTTTTCAAAGATTGTTTGATTCCTATACTCC
66 TCTATACTCCCTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTGTTCGAGTCCTATACTCC
* * *
2196573 CTAAAAGAAGAGGGAGCGAACCCGTCCTTCTAAGATTTCTCAAGTCTTACTCATTTTGAAGTTAC
131 CTGAAAGAAGAGGGAGCGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTAC
** *
2196638 AGTGAATTAGATTAATGTTTTGAATTTATCATGGCCGAACAAATTTCTGTATCTTTTGATCTTTT
196 AGTGAATTAGATTAATGTTTTGAATTTATCATGGCCG-ACAAATTTCACTATCTTTTGATCTTTG
* * *
2196703 CTCTATTCTCGTTACACGACAATGAGTAAAGAGGGGCAGATGTAAATGGTCGATTTTTC-GAGGG
260 CTCTATTCTCGTTACACGACAATGAGCAAAGAGGGGCAGATGTAAATGCTCGATTTGTCTG-GGG
2196767 TGTTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATT
324 TGTTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATT
2196832 AATTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATTATAT
389 AATTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATTATAT
* *
2196897 AGAGTATAAATAAATTAATATTGAATATATATGCATATTGATTGGGGTTTAACGAAATACTGATT
454 AGAGTATAAATAAATTAATATTGAATATATATGTATATTGATTGGGCTTTAACGAAATACTGATT
2196962 AAATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTGGAGAA
519 AAATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTGGAGAA
*
2197027 CGCCCGAACCACTCAGATTTGCGCGTGCATTGCATGCGCGCCACCTGAACAACAGCAAGAGCCTC
584 CGCCCGAACCACTCAGATTCGCGCGTGCATTGCATGCGCGCCACCTGAACAACAGCAAGAGCCTC
* *
2197092 TGCTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTACAAAACGAAATAACAAAAAC
649 TGCTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTGCAAAACGAAATAACAAAAAA
* * *
2197157 GCAATGAGCAAAACAAATTCTTTGGGGGGCACGTAGAGACATCCAGCAAGGCATGCATAACAGAA
714 GCAATGAGCAAAACAGATTCTTTGGGGGGCACGCAGAGATATCCAGCAAGGCATGCATAACAGAA
* *
2197222 AGATTTTTAGCAGATAAAAAGGGTGACATTCA-CTGTTTGGAAGGGGGTCATTAGAAAATGGAGA
779 AGATTATTAGCAGATAAAAAGGGTGACATTCATC-ATTTGGAAGGGGGTCATTAGAAAATGGAGA
* *
2197286 GCATTTATCAAT-ACAAAAGGAATTGTAACTGGGGGTCTTCTGCTATTGAATTTGAAAATGAAAA
843 GCATTTATCAATAACAGAAGGAATTGTAACCGGGGGTCTTCTGCTATTGAATTTGAAAATGAAAA
2197350 AATAGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAAACAGTGTAATAGGGGTCTT
908 AATAGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAAACAGTGTAATAGGGGTCTT
2197415 CCCTATCTTTTTCCAAAA
973 CCCTATCTTTTTCCAAAA
2197433 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTGTTTCAAG
1 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTG-TTCAAG
*
2197498 TTCTATACTCCCTGAAAGAAGAGTGAGCATACTTGTTTTTCAAAGATTGTTCGAGTCCTATACTC
65 TTCTATACTCCCTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTGTTCGAGTCCTATACTC
**
2197563 CCTGAAAGAAGAGGGAGCGAACATGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTA
130 CCTGAAAGAAGAGGGAGCGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTA
* ** *
2197628 CAGTGAATTAGATTAATGTTTTAAATTTATCATGGTTGGACAAATTTCACTATATTTTGATCTTT
195 CAGTGAATTAGATTAATGTTTTGAATTTATCATGG-CCGACAAATTTCACTATCTTTTGATCTTT
* * ** * * *
2197693 GCTCTATTCTCGTTACACGACAATGAGCAAAGAGGGG-A-TTTTAGTAAT--TATATTTATAT-T
259 GCTCTATTCTCGTTACACGACAATGAGCAAAGAGGGGCAGATGTA--AATGCTCGATTTGTCTGG
* * * ** * * *
2197753 AGT-TAGATTT-A-TTAATTACTATT--GTTTAATTAAATAAATCGTTATTGTATTTATA-T-GT
322 GGTGT-TATTTGAGTT--TTA-T-TTGGGTTT--TTATAT-TTTAGTAATTATATTTATATTAGT
* * * ** ** * *
2197811 TACATATATTATAATT-ATATAGAGT-A-TAAATAAATTAATATTGAATATATATGTAAATTGAT
379 TAGATTTA-T-TAATTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATG----TT-A-
** * * * * * * * * *
2197873 CGGGCT-TTATCAA-AATATTGA-T-TAAAT--ATT-TTATT---TTTACAGGCCCACA-TCAGT
436 CACG-TATTAT-AATTATATAGAGTATAAATAAATTAATATTGAATATATATG--TATATTGA-T
***** *** ** * * ** ** * * *
2197927 TACAAATT-ACCCCA-ACCCATGCACA-ATTGGA---GAACA--CCCGA-ACCA-CT-CAGATT-
496 TGGGCTTTAACGAAATACTGAT-TAAATATTTTATTTTTACAGGCCC-ACATCAGTTACAAATTA
*** ** * * ** * * *
2197980 CGCGCGTGCATTGCATGCACGCCACGTGAACAACAGCAAG-AGC-CTCTGCTT-GC-CAGCTGTC
559 C-C-C---CAACCCATG--C-CCAATTGGAGAAC-GCCCGAACCACTCAGATTCGCGC-G-TG-C
** * * * ** ** * ** ** ***** ** * **
2198041 -TCACCTGCTCAACCAATTTGAAGGTACATGCAAAACGAAAT-AACAAAAAAGCAAT-TAGCAAA
612 ATTGCATGCGC-GCC-ACCTGAA-CAACA-GCAAGA-G-CCTCTGCTTGCCAGCTGTCTCGC-CT
* * ** * * * * * * * * *
2198103 ACT-GA-TTATTGGGAGG-GCAC-GC-AGA-GATAT-CCAACAAGGC-ATGCATAACAAAA-AGA
670 GCTCAACCAATTTGAAGGTAC-CTGCAAAACGAAATAACAAAAAAGCAATG---AGCAAAACAGA
* * * **** * ** * * * * * * * ** ** * *
2198159 TTATTAGTAGATAAAAGGGGTGACATTCATCATTTGGAAGGGGGTCATTAGAAA-ATGGA-GAGC
731 TTCTTTG-GGGGGCACGCAGAGATATCCAGCA--AGGCA-TGCAT-AACAGAAAGAT-TATTAGC
** ** * ** ** * * * ** *
2198222 ATTTATCAA---TAACA-GAAGGAATTGTAACCGGGGGTC-TTCTG-CTAT--TGA--ATTTGA-
790 AGATAAAAAGGGTGACATTCATCATTTGGAA--GGGGGTCATT-AGAAAATGGAGAGCATTT-AT
* * * * * * * * * ** *
2198276 AAATGAA-A-AAAGAGTGGGTAA--GGGGATTATTCATTCCCTCTT--A-TT-CAAA-GATCAAG
851 CAAT-AACAGAAGGAAT-TGTAACCGGGG-GTCTTC--T-GCTATTGAATTTGAAAATGAAAAAA
* * ** **** * * ** *
2198332 CAGT--GTAATAGGGGTCTTCCCTATCTTTTTTCGAAGATTGTTC-AAG-TCCTATACTCCTGAA
910 TAGTGGGT-A-AGGGG--AT---TA--TTCCTTC-CCCCTTATTCAAAGAT-C-AAAC-AGTGTA
* ** **** *
2198393 ATAAGAGGGAGCAGACCC-ACT-TTTTAAAGAT-
962 AT-AG-GGG-TC-TTCCCTA-TCTTTTTCCAAAA
* * ****
2198424 --TGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATATTGTTTTTCAAAGATGTTCGAAAG
1 ATTGTTCAAGTCCTATACTCC-TGAAATAAGAGGGAGCATA-CCCATTT------T-TT-G-AAG
* * * ***
2198487 ATTGTTCAAGTCCTATACT-CCTGAAATAAGAGGGAGCAGACCCACTTTTT-AAAGATTGTTCGA
55 ATTGTTCAAGTTCTATACTCCCTGAAAGAAGAGGGAGCATA-CTTGTTTTTCAAAGATTGTTCGA
* ** ** * *
2198550 GTCCTATACTCCTTGAAAGAAGAGGGAGC-ATACTTGTTTTTCAAAGATTGTTCGAGTCCTATAC
119 GTCCTATACTCCCTGAAAGAAGAGGGAGCGA-ACCCGTCCTTCTAAGA-T-TTC---T-C-A-AG
* * * *
2198614 TCCCTGAAAGAAGAGGGAGCGAACCCGTCCTTCT-AAGATTTCTCAAGTCTCACTCAATTTGAAG
175 T--CT--------------C--A--C-TCATTCTGAAG---T-T--A----CAGTGAATTAG-A-
* * * * **
2198678 TTACAGTGAATTAGATTAATGTTTTGAATTTATCATGGCCGGACAAATTTCACTATCTTCTT-AT
207 TTA-A-TG--TT--TTGAATTTATCA---------TGGCC-GACAAATTTCACTATCTT-TTGAT
* * *
2198742 CTTTGCTCTATTCTCGTTACACGACAATGAGCAAAGAGGGGAAAATGTAAATGCTCAATTTGTCT
255 CTTTGCTCTATTCTCGTTACACGACAATGAGCAAAGAGGGGCAGATGTAAATGCTCGATTTGTCT
2198807 GGGGTGTTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATT
320 GGGGTGTTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATT
2198872 TATTAATTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATT
385 TATTAATTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATT
*
2198937 ATATAGAGTATAAATAAATTAATATTGAATATATATGTATATTGATTGGGCTTTAATGAAATACT
450 ATATAGAGTATAAATAAATTAATATTGAATATATATGTATATTGATTGGGCTTTAACGAAATACT
* *
2199002 GATTAAATATTTTGTTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTAG
515 GATTAAATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTGG
* * * * * *
2199067 AGTACGCCCGAACCACTCAGATTCGCGTGTGAATTGTAGGCGTGCCACCTGAACAACAGCAAGAG
580 AGAACGCCCGAACCACTCAGATTCGCGCGTGCATTGCATGCGCGCCACCTGAACAACAGCAAGAG
* * * *
2199132 GCGCTGCTTGCCAGTTGTCTCGCCTTCTCAACCAATTTGAAGGTACCTGCAAAACGAAATAACAA
645 CCTCTGCTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTGCAAAACGAAATAACAA
* * *
2199197 AAAAGAAATGAGCAAAACAGATTCTTGGGGGGGCACACAGAGATATCCTA-CAAGGCATGCATAA
710 AAAAGCAATGAGCAAAACAGATTCTTTGGGGGGCACGCAGAGATATCC-AGCAAGGCATGCATAA
*
2199261 CAGAAAGATTATTAGCAGATAAAATGGGTGACATTCATCATTTGGAAGGGGGTCATTAGCAAAAT
774 CAGAAAGATTATTAGCAGATAAAAAGGGTGACATTCATCATTTGGAAGGGGGTCATTAG-AAAAT
2199326 GGAGAGCATTTATCAATAACAGAAGGAATTGTAACCGGGGGTCTAT-TGCTATTGAATTTGAAAA
838 GGAGAGCATTTATCAATAACAGAAGGAATTGTAACCGGGGGTCT-TCTGCTATTGAATTTGAAAA
* * * * *
2199390 TGAATAAATAGTGGCTAAGGGGATTATTCCTTCCCTCTTATTCAAAGATCAAGCAGTGTAATATG
902 TGAAAAAATAGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAAACAGTGTAATAGG
* * *
2199455 GGTCTTCCCTAT-ATTTTCCGAAG
967 GGTCTTCCCTATCTTTTTCCAAAA
* * * *
2199478 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGAAAACTCATTTTTTGAAGATTGTTCGAGT
1 ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTGTTCAAGT
* * *
2199543 TATATACTCCCTGATAGAAGAGGGAGCATACTT-TTTTTCGAAGATTGTTCGAGTCCTATACTCC
66 TCTATACTCCCTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTGTTCGAGTCCTATACTCC
* *
2199607 CTGAAGGAAGAGGGAGTGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTAC
131 CTGAAAGAAGAGGGAGCGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTAC
* * * *
2199672 AGTGAATTAGATTAATGTTTTTAATTTATCATGGCTTGATAAATTTCACTATCTTTTGATCTTTT
196 AGTGAATTAGATTAATGTTTTGAATTTATCATGGC-CGACAAATTTCACTATCTTTTGATCTTTG
* *
2199737 CTTTATTCTCGTTACACGGCAATGAGCAAAGAGGGGCAGATGTAAATGCTCGATTTGTCTGGGGT
260 CTCTATTCTCGTTACACGACAATGAGCAAAGAGGGGCAGATGTAAATGCTCGATTTGTCTGGGGT
*
2199802 ATTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATTA
325 GTTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATTA
* **
2199867 ATTAATATTGTTTAATTAAATAAATTGTTATTGTGTTTATATGTTACATATATTATAATTATATA
390 ATTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATTATATA
*
2199932 GA-TAATAAATAAATTAATATTGAATATATACGTATATTGATTGGGCTTTAACGAAATACTGATT
455 GAGT-ATAAATAAATTAATATTGAATATATATGTATATTGATTGGGCTTTAACGAAATACTGATT
*
2199996 AAATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCTAACCCATGCCCAATTGGAGAA
519 AAATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTGGAGAA
* * * *
2200061 CGCCCGAACTACTCAGATTCGCGCGTGCATTGCAGGCGCGCCACCTGAACAATAACAAGAGCCTC
584 CGCCCGAACCACTCAGATTCGCGCGTGCATTGCATGCGCGCCACCTGAACAACAGCAAGAGCCTC
* *
2200126 TGCTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAAGTACCTGCAAAATGAAATAACAAAAAA
649 TGCTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTGCAAAACGAAATAACAAAAAA
* *
2200191 GCAATAAGCAAAACAGATTCTTTGGGGGGGCACGCAGAGATATCCAGCAAGGAATGCATAACAGA
714 GCAATGAGCAAAACAGATTCTTT-GGGGGGCACGCAGAGATATCCAGCAAGGCATGCATAACAGA
* * * *
2200256 AAGATTATTAGCAAATAAAAGGGGTGACATTCATCATTTGAAAGGGGGTCATTAGCAAATGGAGA
778 AAGATTATTAGCAGATAAAAAGGGTGACATTCATCATTTGGAAGGGGGTCATTAGAAAATGGAGA
2200321 GCATTTATCAATAACAGAAGGAATTGTAACCGGGGGTTCTTCTGCTATTGAATTTGAAAATGAAA
843 GCATTTATCAATAACAGAAGGAATTGTAACCGGGGG-TCTTCTGCTATTGAATTTGAAAATGAAA
*
2200386 AAACAGTGGGTAAGGGGATTATTCCTT-CCCCTTATTCAAAGATCAAGA-AGTGTAATAGGGGTC
907 AAATAGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAA-ACAGTGTAATAGGGGTC
2200449 TTCCCTATCTTTTTC
971 TTCCCTATCTTTTTC
2200464 GAAAGAAATA
Statistics
Matches: 3198, Mismatches: 552, Indels: 534
0.75 0.13 0.12
Matches are distributed among these distances:
978 3 0.00
979 7 0.00
980 14 0.00
981 13 0.00
982 20 0.01
983 226 0.07
984 16 0.01
985 39 0.01
986 61 0.02
987 36 0.01
988 65 0.02
989 70 0.02
990 805 0.25
991 497 0.16
992 259 0.08
993 231 0.07
994 12 0.00
995 3 0.00
997 2 0.00
998 73 0.02
999 29 0.01
1000 10 0.00
1001 2 0.00
1003 3 0.00
1004 2 0.00
1005 4 0.00
1006 3 0.00
1007 8 0.00
1008 2 0.00
1011 1 0.00
1013 1 0.00
1014 1 0.00
1016 6 0.00
1017 4 0.00
1019 1 0.00
1021 1 0.00
1022 1 0.00
1024 1 0.00
1026 4 0.00
1027 6 0.00
1029 1 0.00
1030 1 0.00
1032 1 0.00
1035 2 0.00
1036 8 0.00
1037 3 0.00
1038 4 0.00
1039 2 0.00
1040 3 0.00
1042 2 0.00
1043 3 0.00
1044 12 0.00
1045 69 0.02
1046 20 0.01
1047 2 0.00
1048 1 0.00
1049 3 0.00
1050 12 0.00
1051 2 0.00
1052 7 0.00
1053 94 0.03
1054 40 0.01
1055 63 0.02
1056 75 0.02
1057 32 0.01
1058 56 0.02
1059 43 0.01
1060 10 0.00
1061 20 0.01
1062 5 0.00
1063 19 0.01
1064 12 0.00
1065 14 0.00
1066 13 0.00
1067 1 0.00
1068 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (990 bp):
ATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCATACCCATTTTTTGAAGATTGTTCAAGT
TCTATACTCCCTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTGTTCGAGTCCTATACTCC
CTGAAAGAAGAGGGAGCGAACCCGTCCTTCTAAGATTTCTCAAGTCTCACTCATTCTGAAGTTAC
AGTGAATTAGATTAATGTTTTGAATTTATCATGGCCGACAAATTTCACTATCTTTTGATCTTTGC
TCTATTCTCGTTACACGACAATGAGCAAAGAGGGGCAGATGTAAATGCTCGATTTGTCTGGGGTG
TTATTTGAGTTTTATTTGGGTTTTTATATTTTAGTAATTATATTTATATTAGTTAGATTTATTAA
TTAATATTGTTTAATTAAATAAATTGTTATTGTATTTATATGTTACACGTATTATAATTATATAG
AGTATAAATAAATTAATATTGAATATATATGTATATTGATTGGGCTTTAACGAAATACTGATTAA
ATATTTTATTTTTACAGGCCCACATCAGTTACAAATTACCCCAACCCATGCCCAATTGGAGAACG
CCCGAACCACTCAGATTCGCGCGTGCATTGCATGCGCGCCACCTGAACAACAGCAAGAGCCTCTG
CTTGCCAGCTGTCTCGCCTGCTCAACCAATTTGAAGGTACCTGCAAAACGAAATAACAAAAAAGC
AATGAGCAAAACAGATTCTTTGGGGGGCACGCAGAGATATCCAGCAAGGCATGCATAACAGAAAG
ATTATTAGCAGATAAAAAGGGTGACATTCATCATTTGGAAGGGGGTCATTAGAAAATGGAGAGCA
TTTATCAATAACAGAAGGAATTGTAACCGGGGGTCTTCTGCTATTGAATTTGAAAATGAAAAAAT
AGTGGGTAAGGGGATTATTCCTTCCCCCTTATTCAAAGATCAAACAGTGTAATAGGGGTCTTCCC
TATCTTTTTCCAAAA
Found at i:2198456 original size:55 final size:54
Alignment explanation
Indices: 2198365--2198633 Score: 279
Period size: 55 Copynumber: 4.7 Consensus size: 54
2198355 TCTTTTTTCG
* *
2198365 AAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTA
1 AAGATTGTTCGAGTCCTATACTCCTGAAAGAAGAGGGAGCAGACCCACTTTTTA
* ** * **
2198419 AAGATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATATTGTTTTTCAAAGATGTTCGA
1 AAGATTGTTCGAGTCCTATACTCC-TGAAAGAAGAGGGAGC--A--G----ACCCA-CT-TTTTA
* *
2198484 AAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTA
1 AAGATTGTTCGAGTCCTATACTCCTGAAAGAAGAGGGAGCAGACCCACTTTTTA
* ***
2198538 AAGATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATA-CTTGTTTTTCA
1 AAGATTGTTCGAGTCCTATACTCC-TGAAAGAAGAGGGAGCAGACCCACTTTTT-A
2198593 AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGC
1 AAGATTGTTCGAGTCCTATACT-CCTGAAAGAAGAGGGAGC
2198634 GAACCCGTCC
Statistics
Matches: 179, Mismatches: 22, Indels: 27
0.79 0.10 0.12
Matches are distributed among these distances:
54 55 0.31
55 72 0.40
56 4 0.02
57 1 0.01
59 1 0.01
60 1 0.01
62 1 0.01
63 2 0.01
64 16 0.09
65 26 0.15
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (54 bp):
AAGATTGTTCGAGTCCTATACTCCTGAAAGAAGAGGGAGCAGACCCACTTTTTA
Found at i:2198541 original size:65 final size:66
Alignment explanation
Indices: 2198418--2198549 Score: 171
Period size: 65 Copynumber: 2.0 Consensus size: 66
2198408 CCCACTTTTT
* * ***
2198418 AAAGATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATATTGTTTTTCAAAGA-TGTTC
1 AAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACACTTTTTCAAAGATTGTTC
2198482 G
66 G
*
2198483 AAAGATTGTTCAAGTCCTATACTCC-TGAAATAAGAGGGAGCAGACCCACTTTTT-AAAGATTGT
1 AAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGA--CACTTTTTCAAAGATTGT
2198546 TCG
64 TCG
2198549 A
1 A
2198550 GTCCTATACT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 17 0.29
65 29 0.50
66 12 0.21
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (66 bp):
AAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACACTTTTTCAAAGATTGTTC
G
Found at i:2198576 original size:119 final size:121
Alignment explanation
Indices: 2198361--2198604 Score: 467
Period size: 119 Copynumber: 2.0 Consensus size: 121
2198351 CCTATCTTTT
2198361 TTCG-AAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTAAAGATT
1 TTCGAAAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTAAAGATT
2198425 GTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATA-TTGTTTTTCAAAGA-TG
66 GTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTG
2198479 TTCGAAAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTAAAGATT
1 TTCGAAAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTAAAGATT
2198544 GTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTG
66 GTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTG
2198600 TTCGA
1 TTCGA
2198605 GTCCTATACT
Statistics
Matches: 123, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
118 4 0.03
119 98 0.80
120 14 0.11
121 7 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (121 bp):
TTCGAAAGATTGTTCAAGTCCTATACTCCTGAAATAAGAGGGAGCAGACCCACTTTTTAAAGATT
GTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCAAAGATTG
Found at i:2198652 original size:55 final size:55
Alignment explanation
Indices: 2198484--2198653 Score: 202
Period size: 55 Copynumber: 3.1 Consensus size: 55
2198474 AGATGTTCGA
* * * *
2198484 AAGATTGTTCAAGTCCTATACT-CCTGAAATAAGAGGGAGCAGACCC-ACTTTTT
1 AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCGTCTTTCT
* * ** * *
2198537 AAAGATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCATACTTGTTTTTCA
1 -AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCGTCTTTCT
*
2198593 AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGC-GAACCCGTCCTTCT
1 AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAG-ACCCGTCTTTCT
2198648 AAGATT
1 AAGATT
2198654 TCTCAAGTCT
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
54 21 0.22
55 72 0.75
56 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (55 bp):
AAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCGTCTTTCT
Found at i:2199533 original size:54 final size:54
Alignment explanation
Indices: 2199468--2199622 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 54
2199458 CTTCCCTATA
* * *
2199468 TTTTCCGAAGATTGTTCAAGTCCTATACT-CCTGAAATAAGAGGGAGAAAACTCAT
1 TTTTTCGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGAAAACT--T
** * * *
2199523 TTTTT-GAAGATTGTTCGAGTTATATACTCCCTGATAGAAGAGGGAGCATACTT
1 TTTTTCGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGAAAACTT
*
2199576 TTTTTCGAAGATTGTTCGAGTCCTATACTCCCTGAAGGAAGAGGGAG
1 TTTTTCGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAG
2199623 TGAACCCGTC
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 6 0.07
54 57 0.66
55 23 0.27
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (54 bp):
TTTTTCGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGAAAACTT
Found at i:2203167 original size:18 final size:18
Alignment explanation
Indices: 2203144--2203212 Score: 93
Period size: 18 Copynumber: 3.7 Consensus size: 18
2203134 AATATTTGTC
2203144 CCGAAGGACCACTATGTT
1 CCGAAGGACCACTATGTT
*
2203162 CCGAAGGACCACAGATTGTT
1 CCGAAGGACCAC-TA-TGTT
* *
2203182 CCGAAGAACCACTATGTC
1 CCGAAGGACCACTATGTT
2203200 CCGAAGGACCACT
1 CCGAAGGACCACT
2203213 CCTTAAGAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
18 27 0.61
19 2 0.05
20 15 0.34
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.17
Consensus pattern (18 bp):
CCGAAGGACCACTATGTT
Found at i:2203195 original size:38 final size:38
Alignment explanation
Indices: 2203139--2203211 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
2203129 CACTGAATAT
* *
2203139 TTGTCCCGAAGGACCACTATGTTCCGAAGGACCACAGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACAGA
*
2203177 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCAC
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCAC
2203212 TCCTTAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACAGA
Found at i:2209449 original size:40 final size:38
Alignment explanation
Indices: 2209384--2209481 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 38
2209374 CACTGAATAT
*
2209384 TTGTTCCGAAGGACCACTATATCCCGAGGGACCACTGA
1 TTGTTCCGAAGGACCACTATATCCCGAAGGACCACTGA
*
2209422 TTGTTCCGAAGAGAACCACTATGTCCCGAAGGACCACTGTA
1 TTGTTCCGAAG-G-ACCACTATATCCCGAAGGACCACTG-A
* *
2209463 TATATCCCGAAGGACCACT
1 T-TGTTCCGAAGGACCACT
2209482 CCTTAAGAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
38 11 0.21
39 1 0.02
40 29 0.56
41 3 0.06
42 8 0.15
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (38 bp):
TTGTTCCGAAGGACCACTATATCCCGAAGGACCACTGA
Found at i:2209459 original size:18 final size:18
Alignment explanation
Indices: 2209389--2209459 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 18
2209379 AATATTTGTT
*
2209389 CCGAAGGACCACTATATC
1 CCGAAGGACCACTATGTC
* *
2209407 CCGAGGGACCACTGATTGTT
1 CCGAAGGACCACT-A-TGTC
2209427 CCGAAGAGAACCACTATGTC
1 CCGAAG-G-ACCACTATGTC
2209447 CCGAAGGACCACT
1 CCGAAGGACCACT
2209460 GTATATATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 18 0.41
19 2 0.05
20 16 0.36
21 2 0.05
22 6 0.14
ACGTcount: A:0.30, C:0.31, G:0.23, T:0.17
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:2211149 original size:20 final size:21
Alignment explanation
Indices: 2211124--2211166 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2211114 AATAAAGCCC
2211124 TTGTTTT-GGAGCTCTTACAG
1 TTGTTTTCGGAGCTCTTACAG
* *
2211144 TTGTTTTCGTAGCTCTTTCAG
1 TTGTTTTCGGAGCTCTTACAG
2211165 TT
1 TT
2211167 CAAGTGGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (21 bp):
TTGTTTTCGGAGCTCTTACAG
Found at i:2225876 original size:21 final size:21
Alignment explanation
Indices: 2225852--2225933 Score: 155
Period size: 21 Copynumber: 3.9 Consensus size: 21
2225842 TTTTCAAAGG
*
2225852 CATGCACCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
2225873 CATGCATCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
2225894 CATGCATCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
2225915 CATGCATCGATGCATCAAT
1 CATGCATCGATGCATCAAT
2225934 GAATAAATTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCATCGATGCATCAATAC
Found at i:2225982 original size:19 final size:19
Alignment explanation
Indices: 2225958--2225995 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2225948 ATCGAATGCA
2225958 TTCCATGCACCAATGCACT
1 TTCCATGCACCAATGCACT
* *
2225977 TTCCATGCATCGATGCACT
1 TTCCATGCACCAATGCACT
2225996 CTGATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (19 bp):
TTCCATGCACCAATGCACT
Found at i:2226022 original size:64 final size:65
Alignment explanation
Indices: 2225893--2226058 Score: 192
Period size: 64 Copynumber: 2.5 Consensus size: 65
2225883 TGCATCAATA
* * *
2225893 CCATGCATCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CCATGCACCAATGCA-CAAT-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGC
2225957 ATT
63 ATT
** * *
2225960 CCATGCACCAATGCACTTTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 CCATGCACCAATGCACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATT
** * *
2226024 TGATGCATCGATGCACAATCCATGCATCGATGCAC
1 CCATGCACCAATGCACAATCCATGCATCGATGCAC
2226059 CAGGCTATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
64 53 0.62
65 15 0.18
66 4 0.05
67 13 0.15
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (65 bp):
CCATGCACCAATGCACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATT
Found at i:2226081 original size:64 final size:63
Alignment explanation
Indices: 2225944--2226103 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 63
2225934 GAATAAATTG
* * * ** *
2225944 AAACATCGAATGCATTCCATGCACCAATGCACTTTCCATGCATCGATGCA-C-TCTGATTTAATT
1 AAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACCAGCT-ATTT--TT
2226007 A
63 A
* *
2226008 AAACATCGAATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCTATTTTTC
1 AAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACCA-GCTATTTTTA
* *
2226072 AAACTTCGAATGCACTTCATGCATCGATGCAC
1 AAACATCGAATGCATTTCATGCATCGATGCAC
2226104 TTTTAGTGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 75 0.91
65 1 0.01
66 4 0.05
67 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (63 bp):
AAACATCGAATGCATTTCATGCATCGATGCACAATCCATGCATCGATGCACCAGCTATTTTTA
Found at i:2234193 original size:21 final size:21
Alignment explanation
Indices: 2234169--2234208 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2234159 TTTTCAAAGG
2234169 CATGCA-CTGATGCATCAATAC
1 CATGCATC-GATGCATCAATAC
2234190 CATGCATCGATGCATCAAT
1 CATGCATCGATGCATCAAT
2234209 GAATAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCATCGATGCATCAATAC
Found at i:2234257 original size:19 final size:19
Alignment explanation
Indices: 2234233--2234270 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2234223 ATCGAATGCA
2234233 TTCCATGCACCGATGCACT
1 TTCCATGCACCGATGCACT
*
2234252 TTCCATGCATCGATGCACT
1 TTCCATGCACCGATGCACT
2234271 CTGATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (19 bp):
TTCCATGCACCGATGCACT
Found at i:2234297 original size:64 final size:64
Alignment explanation
Indices: 2234189--2234314 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
2234179 TGCATCAATA
*
2234189 CCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCATTCCATGCACCGATGCACTTT
1 CCATGCATCGATGCATC-ATGAATAAATTAAAACATCGAATGCATTCCATGCACCGATGCACTTT
* * ** *
2234254 CCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCAC
1 CCATGCATCGATGCA-TCATGAATAAATTAAAACATCGAATGCATTCCATGCACCGATGCAC
2234315 CAAGCTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
64 37 0.69
65 15 0.28
66 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (64 bp):
CCATGCATCGATGCATCATGAATAAATTAAAACATCGAATGCATTCCATGCACCGATGCACTTT
Found at i:2252824 original size:21 final size:21
Alignment explanation
Indices: 2252798--2252848 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2252788 ATACTGGGTC
**
2252798 CTTAGTATTGATATTGAGTCA
1 CTTAGTATCAATATTGAGTCA
* *
2252819 TTTAGTATCAATATTGAGTCC
1 CTTAGTATCAATATTGAGTCA
2252840 CTTAGTATC
1 CTTAGTATC
2252849 CATACCCACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (21 bp):
CTTAGTATCAATATTGAGTCA
Found at i:2256507 original size:32 final size:32
Alignment explanation
Indices: 2256471--2256553 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
2256461 CAGACACTTA
* *
2256471 TGTGCCTTATCTGAATGCAACATTGACTCTGT
1 TGTGCATTATCTGAATGCAACATTGACTCTAT
* *
2256503 TGTGCATTATATGAATACAACATTGACTCTAT
1 TGTGCATTATCTGAATGCAACATTGACTCTAT
*
2256535 TGTACATTATCTGAATGCA
1 TGTGCATTATCTGAATGCA
2256554 TTACTGCCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTGCATTATCTGAATGCAACATTGACTCTAT
Found at i:2264162 original size:47 final size:47
Alignment explanation
Indices: 2264112--2264604 Score: 752
Period size: 47 Copynumber: 10.5 Consensus size: 47
2264102 TCATAACATT
* * *
2264112 CGTTCATGCATTTTTAGTTATGGCATTCTTTCATGCCTTAGTGCATT
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * * *
2264159 CGTTCATGTATTTTTAGTTATGGCATCCTTTCATACCTTAATGTATT
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
2264206 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
2264253 CGTTCATGCGTTTTTAGTTATGGCGTCCTTTCATGCCTTAATACATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* *
2264300 CGTTCATGCATTTTTAGTTATGGCATTCTTTCATGCCTTAATGAATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * **
2264347 CCTTCATACATTTTTAGTTATGGCATCCTTTCATGCCTTTGTGCATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
2264394 CCTTCATGTATTTTTTAGTTATGGCATCATTTCATGCCTTAATGCATC
1 CGTTCATGCA-TTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
2264442 CGTTCATGCATTTTTAGTTATGGTATCCTTTCATTCATTAATGCATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
*
2264489 CGTTCATGCATTTTTAGTTATGGCATCCTTTCGTGCCTTAATGCATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
2264536 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
1 CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
**
2264583 TATTCATGCATTTTTAGTTATG
1 CGTTCATGCATTTTTAGTTATG
2264605 AATTCGGTTT
Statistics
Matches: 404, Mismatches: 41, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
47 362 0.90
48 42 0.10
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (47 bp):
CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
Found at i:2264474 original size:27 final size:27
Alignment explanation
Indices: 2264437--2264571 Score: 109
Period size: 27 Copynumber: 5.5 Consensus size: 27
2264427 ATGCCTTAAT
2264437 GCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCGTTCATGCATTTTTAGTTATG
* * *
2264464 GTATCCTTTCATTCA---TTA---AT-
1 GCATCCGTTCATGCATTTTTAGTTATG
2264484 GCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCGTTCATGCATTTTTAGTTATG
* * *
2264511 GCATCCTTTCGTGC---CTTA---AT-
1 GCATCCGTTCATGCATTTTTAGTTATG
2264531 GCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCGTTCATGCATTTTTAGTTATG
*
2264558 GCATCCTTTCATGC
1 GCATCCGTTCATGC
2264572 CTTAATGCAT
Statistics
Matches: 81, Mismatches: 13, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
20 24 0.30
21 4 0.05
23 6 0.07
24 6 0.07
26 4 0.05
27 37 0.46
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.44
Consensus pattern (27 bp):
GCATCCGTTCATGCATTTTTAGTTATG
Found at i:2270527 original size:81 final size:81
Alignment explanation
Indices: 2270373--2271090 Score: 946
Period size: 81 Copynumber: 8.9 Consensus size: 81
2270363 CCTTTATTAT
* * * * * * *
2270373 TTTTACCCAAAGGCATTTAGCCTTTTATCTAACTTGCATTGATTGACACCTTTCTGCCAAATGCA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCA-TAATTGACACCTTTCTGTCAAATGCA
2270438 CAGCTAGGCCATTAATC
65 CAGCTAGGCCATTAATC
* *
2270455 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTATCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
* *
2270520 AACTAGGCCTTTAATC
66 AGCTAGGCCATTAATC
* * * * *
2270536 TTTTACTCAAGGGTATTTAAGCC-TTCATCTATCTGGCATAATTGAGACATTTTTGTCAAATGCA
1 TTTTACTCAAAGGTATTTAA-CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
*
2270600 CAACTAGGCCATTAATC
65 CAGCTAGGCCATTAATC
* * * * * * *
2270617 TTTTACTCAAGGGTATTTAACTTTTCATCTAACTAGCATAACTGACACTTTTCTATCAAATGTAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
*
2270682 AGCTAGGCAATTAATC
66 AGCTAGGCCATTAATC
* * * *
2270698 TTTTACTCAAAGGTATGTAACCTTTCATCTAACTGGCATAATTGACACATTTCCG-CGAAATACA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AAATGCA
*
2270762 CAGCTAGGCTATTAATC
65 CAGCTAGGCCATTAATC
* *
2270779 TTTTACTC-AAGGTATTTAGCCCTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
2270843 AGCTAGGCCATTAATC
66 AGCTAGGCCATTAATC
* * * **
2270859 TTTTACTCAAGGGTATTTAACCCTTCATCTAACTAGCATAATTGACATATTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
* *
2270924 AACTAGGCCATTAAAC
66 AGCTAGGCCATTAATC
* *
2270940 TTTTACTCAAGGGTATTTAACCCATT-ATCTAACT-GCATAATTGACACCTTTCTGTCAAATGCA
1 TTTTACTCAAAGGTATTTAA-CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
* *
2271003 -AACTAAGCCATTAATC
65 CAGCTAGGCCATTAATC
*
2271019 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCT-TCCAAATGCA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT-CAAATGCA
2271083 CAGCTAGG
65 CAGCTAGG
2271091 TCATATTTTA
Statistics
Matches: 562, Mismatches: 64, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
78 4 0.01
79 42 0.07
80 126 0.22
81 351 0.62
82 39 0.07
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
AGCTAGGCCATTAATC
Found at i:2271258 original size:54 final size:55
Alignment explanation
Indices: 2271230--2271355 Score: 216
Period size: 55 Copynumber: 2.3 Consensus size: 55
2271220 TTTACTTGGG
*
2271230 TTGCACACATAGTGTCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACATAGTGTCCATACAGAAATTCATAAACTTATTATAAATTTCTTAGTT
* * *
2271285 TTGCACACGTAGTGCCCATACAAAAATTCATAAACTTATTATAAATTTCTTAGTT
1 TTGCACACATAGTGTCCATACAGAAATTCATAAACTTATTATAAATTTCTTAGTT
2271340 TTGCACACATAGTGTC
1 TTGCACACATAGTGTC
2271356 ATTTGGTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (55 bp):
TTGCACACATAGTGTCCATACAGAAATTCATAAACTTATTATAAATTTCTTAGTT
Found at i:2271304 original size:55 final size:54
Alignment explanation
Indices: 2271210--2271353 Score: 209
Period size: 55 Copynumber: 2.6 Consensus size: 54
2271200 AATTCACATT
** *
2271210 CTTATTATAATTTACTT-GGGTTGCACACATAGTGTCCATACAGAAATTCATAAA
1 CTTATTATAATTT-CTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATAAA
* *
2271264 CTTATTATGAATTTCTTAGTTTTGCACACGTAGTGCCCATACAAAAATTCATAAA
1 CTTATTAT-AATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATAAA
2271319 CTTATTATAAATTTCTTAGTTTTGCACACATAGTG
1 CTTATTAT-AATTTCTTAGTTTTGCACACATAGTG
2271354 TCATTTGGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 11 0.14
55 70 0.86
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (54 bp):
CTTATTATAATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATAAA
Found at i:2275825 original size:81 final size:81
Alignment explanation
Indices: 2275618--2276433 Score: 1027
Period size: 81 Copynumber: 10.1 Consensus size: 81
2275608 AATCTTTTAG
* * * * * * * * *
2275618 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATTGATTGACACCTTTCTGCCAAATG
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCA-TAATTGACACATTTCTGTCAAATG
*
2275683 CACAGCTAGGCCATAAA
65 CACAGCTAGGCCATTAA
* ** * * * *
2275700 TATTTTTACTCAAATGTATTTAATCTTTCATCTAACTGACATAATTGACACATTTATGTCAAATG
1 T-CTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATG
*
2275765 CACATCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
2275782 TCTTTGACTCAAGGGTATTTAACCCTTCATTTAACTGGAATAATTGACACATTT-TGTCAAATGC
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
2275846 AC-GACTAGACCATTAA
66 ACAG-CTAGGCCATTAA
2275862 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACATC-TTTCTGTCAAATG
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATG
*
2275926 CACATCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* ** *
2275943 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCT-TCCAAATG
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGT-CAAATG
2276007 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
2276024 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTCGAATAATTGACACATTTATGTCAAATGC
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
2276089 ACAGCTAGTCCATTAA
66 ACAGCTAGGCCATTAA
* ** * *
2276105 TCTTTAACTCAAGGGTATTTAACCCTTCATCTAACTATCATAATTGGCATC-TTTCTATCAAATG
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATG
*
2276169 CACATCTAGGCCATT--
65 CACAGCTAGGCCATTAA
* * * * * *
2276184 TCTTTTACTCAAGGGTATTTAATCGTTCATTTAACTGGCATAATTAACATATTTCTATCAAATGC
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
2276249 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
2276265 TCTTTTACTCAAGGGTATTTAAACCTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
2276330 ACAGCTAGGTCATTAA
66 ACAGCTAGGCCATTAA
* * ** * *
2276346 T-TGTTTTCTCAAAGGTATTTAACATTTCATATAACTGGCATAATTGACACATTTCTGCCAAATG
1 TCT-TTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATG
*
2276410 CACAGTTAGGCCATTAA
65 CACAGCTAGGCCATTAA
2276427 TCTTTTA
1 TCTTTTA
2276434 TTTTAGAACT
Statistics
Matches: 640, Mismatches: 80, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
79 68 0.11
80 75 0.12
81 426 0.67
82 40 0.06
83 31 0.05
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:2276310 original size:322 final size:320
Alignment explanation
Indices: 2275618--2276431 Score: 1109
Period size: 322 Copynumber: 2.5 Consensus size: 320
2275608 AATCTTTTAG
* * * * * *
2275618 TCTTTTACCCAAAGGCATTTAGC-CTTTCATCTAACTTGCATTGATTGACACCTTTCTGCCAAAT
1 TCTTTTACTCAAAGGTATTTAACAC-TTCATCTAACTGGCA-TAATTGACACCTTTCTTCCAAAT
* * *
2275682 GCACAGCTAGGCCATAAATATTTTTACTCAAATGTATTTAATCTTTCATCTAACTGACATAATTG
64 GCACAGCTAGGCCAT-TA-ATTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGA-ATAATTG
* *
2275747 ACACATTTATGTCAAATGCACATCTAGGCCATTAATCTTTGACTCAAGGGTATTTAACCCTTCAT
126 ACACATTTATGTCAAATGCACAGCTAGGCCATTAATCTTTAACTCAAGGGTATTTAACCCTTCAT
* * *
2275812 TTAACTGGAATAATTGACACATTTTGTCAAATGCACGACTAGACCATTAATCTTTTACTCAAGGG
191 CTAACTAGAATAATTGACACATTTTATCAAATGCACGACTAGACCATT-ATCTTTTACTCAAGGG
* * * *
2275877 TATTTAACCCTTCATCTAACTGGCATAATTGACATCTTTCTGTCAAATGCACATCTAGGCCATTA
255 TATTTAACCCTTCATCTAACTGGCATAATTAACATATTTCTATCAAATGCACAGCTAGGCCATTA
2275942 A
320 A
*
2275943 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACACTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGC
* *
2276008 ACAGCTAGGCCATTAATCTTTTACTCAAGGGTATTTAACCCTTCATCTAACTCGAATAATTGACA
66 ACAGCTAGGCCATTAAT-TTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GAATAATTGACA
*
2276073 CATTTATGTCAAATGCACAGCTAGTCCATTAATCTTTAACTCAAGGGTATTTAACCCTTCATCTA
129 CATTTATGTCAAATGCACAGCTAGGCCATTAATCTTTAACTCAAGGGTATTTAACCCTTCATCTA
** * *
2276138 ACTATCATAATTGGCATC-TTTCTATCAAATGCAC-ATCTAGGCCATT-TCTTTTACTCAAGGGT
194 ACTAGAATAATTGACA-CATTT-TATCAAATGCACGA-CTAGACCATTATCTTTTACTCAAGGGT
* * *
2276200 ATTTAATCGTTCATTTAACTGGCATAATTAACATATTTCTATCAAATGCACAGCTAGGCCATTAA
256 ATTTAACCCTTCATCTAACTGGCATAATTAACATATTTCTATCAAATGCACAGCTAGGCCATTAA
*
2276265 TCTTTTACTCAAGGGTATTTAA-ACCTTCATCTAACTGGCATAATTGACACCTTTCTAT-CAAAT
1 TCTTTTACTCAAAGGTATTTAACA-CTTCATCTAACTGGCATAATTGACACCTTTCT-TCCAAAT
* * * * *
2276328 GCACAGCTAGGTCATTAATTGTTTTCTCAAAGGTATTTAACATTTCATATAACTGGCATAATTGA
64 GCACAGCTAGGCCATTAATT-TTTACTCAAAGGTATTTAACCTTTCATCTAACT-GAATAATTGA
* * *
2276393 CACATTTCTGCCAAATGCACAGTTAGGCCATTAATCTTT
127 CACATTTATGTCAAATGCACAGCTAGGCCATTAATCTTT
2276432 TATTTTAGAA
Statistics
Matches: 437, Mismatches: 43, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
321 2 0.00
322 223 0.51
323 119 0.27
324 59 0.14
325 34 0.08
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (320 bp):
TCTTTTACTCAAAGGTATTTAACACTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGC
ACAGCTAGGCCATTAATTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGAATAATTGACACA
TTTATGTCAAATGCACAGCTAGGCCATTAATCTTTAACTCAAGGGTATTTAACCCTTCATCTAAC
TAGAATAATTGACACATTTTATCAAATGCACGACTAGACCATTATCTTTTACTCAAGGGTATTTA
ACCCTTCATCTAACTGGCATAATTAACATATTTCTATCAAATGCACAGCTAGGCCATTAA
Found at i:2277000 original size:21 final size:19
Alignment explanation
Indices: 2276983--2277019 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2276973 TCGATACACT
*
2276983 ATATTATAGTACCGATACC
1 ATATTACAGTACCGATACC
*
2277002 CTATTACAGTACCGATAC
1 ATATTACAGTACCGATAC
2277020 TATTTCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
ATATTACAGTACCGATACC
Found at i:2279637 original size:47 final size:47
Alignment explanation
Indices: 2279579--2280074 Score: 778
Period size: 47 Copynumber: 10.6 Consensus size: 47
2279569 TATTATCATA
* * * *
2279579 GCATCCTTTCATGTATTTTTAGTTATGACATCATTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
* * *
2279626 GCATCCGTTCATTCATTTTTAGTTATGGCATCCATTAATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
*
2279673 GCATCCATTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
2279720 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
* * * *
2279767 GCATCTGTTCATGCATTTTTAATTATGGTATCCTTTCATACCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
** * * * *
2279814 GCATATGTTCATGTATTTTTAGCTATGTCATCCTTCCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
2279861 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
*
2279908 GCATCCTTTCATGCATTTTTAGTTAT-GCATCCTTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
* *
2279954 GCATTCGTTCATGTATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
* *
2280001 GCATCTGTTCAAGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
2280048 GCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCGTTCATGCATTTTTAGTTATG
2280075 AATTTGTTTA
Statistics
Matches: 408, Mismatches: 40, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 0.11
47 365 0.89
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (47 bp):
GCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
Found at i:2279658 original size:27 final size:27
Alignment explanation
Indices: 2279626--2279760 Score: 100
Period size: 27 Copynumber: 5.5 Consensus size: 27
2279616 ATGCCTTAAT
* *
2279626 GCATCCGTTCATTCATTTTTAGTTATG
1 GCATCCATTCATGCATTTTTAGTTATG
* *
2279653 GCATCCATTAATGC---CTTA---AT-
1 GCATCCATTCATGCATTTTTAGTTATG
2279673 GCATCCATTCATGCATTTTTAGTTATG
1 GCATCCATTCATGCATTTTTAGTTATG
* *
2279700 GCATCCTTTCATGC---CTTA---AT-
1 GCATCCATTCATGCATTTTTAGTTATG
*
2279720 GCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCATTCATGCATTTTTAGTTATG
*
2279747 GCATCCTTTCATGC
1 GCATCCATTCATGC
2279761 CTTAATGCAT
Statistics
Matches: 83, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
20 26 0.31
21 4 0.05
23 6 0.07
24 6 0.07
26 4 0.05
27 37 0.45
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (27 bp):
GCATCCATTCATGCATTTTTAGTTATG
Found at i:2279725 original size:20 final size:20
Alignment explanation
Indices: 2279700--2279780 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 20
2279690 TTTAGTTATG
2279700 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
2279720 GCATCCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
2279746 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
2279767 GCAT-CTGTTCATGC
1 GCATCCT-TTCATGC
2279781 ATTTTTAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
19 2 0.04
20 24 0.49
21 2 0.04
23 3 0.06
24 3 0.06
26 2 0.04
27 13 0.27
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2283409 original size:31 final size:31
Alignment explanation
Indices: 2283374--2283434 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2283364 GGTTTAGTTC
**
2283374 GATCCTGTCAGGTCAGGTAAAATAAGATACG
1 GATCCTGTCAGAACAGGTAAAATAAGATACG
*
2283405 GATCCTGTCAGAACAGGTAAAATAGGATAC
1 GATCCTGTCAGAACAGGTAAAATAAGATAC
2283435 AAGTCGTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (31 bp):
GATCCTGTCAGAACAGGTAAAATAAGATACG
Found at i:2284413 original size:11 final size:11
Alignment explanation
Indices: 2284393--2284434 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2284383 TTATAGAAGT
2284393 ATGCATGTATG
1 ATGCATGTATG
*
2284404 ATGTATGTATG
1 ATGCATGTATG
*
2284415 ATGCATGTATA
1 ATGCATGTATG
*
2284426 ATACATGTA
1 ATGCATGTA
2284435 CATATATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (11 bp):
ATGCATGTATG
Found at i:2284664 original size:14 final size:14
Alignment explanation
Indices: 2284643--2284687 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
2284633 ATATATACTC
2284643 ATATATATA-AAGT
1 ATATATATATAAGT
*
2284656 ATGTAATATATAAGT
1 ATAT-ATATATAAGT
2284671 ATATATATATAAGT
1 ATATATATATAAGT
2284685 ATA
1 ATA
2284688 AAATATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 3 0.11
14 18 0.64
15 7 0.25
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (14 bp):
ATATATATATAAGT
Found at i:2285544 original size:16 final size:16
Alignment explanation
Indices: 2285525--2285558 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2285515 TCAATTACAG
2285525 GTCATGTTCATAACAA
1 GTCATGTTCATAACAA
*
2285541 GTCATGTTGATAACAA
1 GTCATGTTCATAACAA
2285557 GT
1 GT
2285559 TGGCTATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (16 bp):
GTCATGTTCATAACAA
Found at i:2286519 original size:13 final size:13
Alignment explanation
Indices: 2286501--2286530 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2286491 TATTTAACCA
2286501 AATATTAGATAAT
1 AATATTAGATAAT
*
2286514 AATATTAGGTAAT
1 AATATTAGATAAT
2286527 AATA
1 AATA
2286531 AAACAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (13 bp):
AATATTAGATAAT
Found at i:2287400 original size:28 final size:28
Alignment explanation
Indices: 2287346--2287401 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2287336 TGTCATTGCA
* *
2287346 TTCAACCACTGGCTCCATGACATAATGT
1 TTCAACCACTGACTCCATGACAAAATGT
* *
2287374 TTCAACCATTGACTCCATGATAAAATGT
1 TTCAACCACTGACTCCATGACAAAATGT
2287402 AAACAGAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
TTCAACCACTGACTCCATGACAAAATGT
Found at i:2289587 original size:42 final size:43
Alignment explanation
Indices: 2289495--2289586 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
2289485 TAACAATAAA
2289495 AATA-TAATATTATATTATTAAAATTATCAGTAAATATAATCT
1 AATATTAATATTATATTATTAAAATTATCAGTAAATATAATCT
2289537 AATAATTAATATT-T-TTATTAAAATTAT-AGTAAA-ATAA--T
1 AAT-ATTAATATTATATTATTAAAATTATCAGTAAATATAATCT
2289575 -ATATTAATATTA
1 AATATTAATATTA
2289587 AATAATAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
36 9 0.19
37 2 0.04
38 1 0.02
40 4 0.09
41 6 0.13
42 16 0.34
43 2 0.04
44 7 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (43 bp):
AATATTAATATTATATTATTAAAATTATCAGTAAATATAATCT
Found at i:2289837 original size:12 final size:12
Alignment explanation
Indices: 2289820--2289859 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2289810 AATAAATAAT
2289820 TAATATAATTAA
1 TAATATAATTAA
2289832 TAATATAA--AA
1 TAATATAATTAA
2289842 -AATATAATTAA
1 TAATATAATTAA
2289853 TAATATA
1 TAATATA
2289860 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
11 2 0.08
12 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATATAATTAA
Found at i:2289845 original size:21 final size:21
Alignment explanation
Indices: 2289808--2289859 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2289798 TTTTTTTATT
**
2289808 TTAATAA-ATAATTAATATAA
1 TTAATAATATAAAAAATATAA
2289828 TTAATAATATAAAAAATATAA
1 TTAATAATATAAAAAATATAA
2289849 TTAATAATATA
1 TTAATAATATA
2289860 TCATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAATAATATAAAAAATATAA
Found at i:2289845 original size:63 final size:63
Alignment explanation
Indices: 2289777--2289897 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 63
2289767 ATTTTTTCTT
* *
2289777 AAAATATAATATAATACA-ATAT-TTTTTTATTTTAATAAATAATTAATATAATTAATAATATAA
1 AAAATATAAT-TAATA-ATATATCATTTTTATTTTAATAAATAAATAATATAATTAATAATATAA
* *
2289840 AAAATATAATTAATAATATATCATTTTTATTTTCATAAATAAATAATATAATTTATAA
1 AAAATATAATTAATAATATATCATTTTTATTTTAATAAATAAATAATATAATTAATAA
2289898 GAATTTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 1 0.02
62 9 0.17
63 42 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (63 bp):
AAAATATAATTAATAATATATCATTTTTATTTTAATAAATAAATAATATAATTAATAATATAA
Found at i:2296889 original size:17 final size:17
Alignment explanation
Indices: 2296851--2296902 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2296841 ATATCGTCAA
*
2296851 TTTTTTGAAAATTTTAA-
1 TTTTTTG-AAATATTAAT
*
2296868 ATTTTT-AAATATTAAT
1 TTTTTTGAAATATTAAT
*
2296884 TTTTTTGAAATTTTAAT
1 TTTTTTGAAATATTAAT
2296901 TT
1 TT
2296903 AGACCTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.28
16 5 0.17
17 16 0.55
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTTGAAATATTAAT
Found at i:2297297 original size:216 final size:221
Alignment explanation
Indices: 2297026--2297465 Score: 836
Period size: 216 Copynumber: 2.0 Consensus size: 221
2297016 TAAGCTTAAT
2297026 TTTAAAGAGTTCAACAAAGTTAACTTCAGATTTCTATCAATTTAGTCATACTTTTGAAAATTTTA
1 TTTAAAGAGTTCAACAAAGTTAACTTCAGATTTCTATCAATTTAGTCATACTTTTGAAAATTTTA
2297091 ACAAATTTAACCATCACATTTACATATTTTTAAATTTCATACTAATAATGATATTAAAAAATATA
66 ACAAATTTAACCATCACATTTACATATTTTTAAATTTCATACTAATAATGATATTAAAAAATATA
2297156 TAAAAAATCTATTTTTCACATTTACACATTATAAAAAAAACATATATGATTAACCAGCATT-TTA
131 TAAAAAATCTATTTTTCACATTTACACATTATAAAAAAAACATATATGATTAACCAGCATTCTTA
2297220 TTTTGCACATTTATACTTAAAATCCC
196 TTTTGCACATTTATACTTAAAATCCC
2297246 TTTAAAGAGTT-AACAAAGTTAA-TTCA-ATTTCT-TCAATTTAGTCATACTTTTGAAAATTTTA
1 TTTAAAGAGTTCAACAAAGTTAACTTCAGATTTCTATCAATTTAGTCATACTTTTGAAAATTTTA
2297307 ACAAATTTAACCATCACATTTACATATTTTTAAATTTCATACTAATAATGATATTAAAAAATATA
66 ACAAATTTAACCATCACATTTACATATTTTTAAATTTCATACTAATAATGATATTAAAAAATATA
*
2297372 TAAAAAATCTATTTTTCACATTTACACATTATCAAAAAAACATATATGATTAACCAGCATTCTTA
131 TAAAAAATCTATTTTTCACATTTACACATTATAAAAAAAACATATATGATTAACCAGCATTCTTA
2297437 TTTTGCACATTTATACTTAAAATCCC
196 TTTTGCACATTTATACTTAAAATCCC
2297463 TTT
1 TTT
2297466 CATGATTCAC
Statistics
Matches: 218, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
216 154 0.71
217 38 0.17
218 4 0.02
219 11 0.05
220 11 0.05
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (221 bp):
TTTAAAGAGTTCAACAAAGTTAACTTCAGATTTCTATCAATTTAGTCATACTTTTGAAAATTTTA
ACAAATTTAACCATCACATTTACATATTTTTAAATTTCATACTAATAATGATATTAAAAAATATA
TAAAAAATCTATTTTTCACATTTACACATTATAAAAAAAACATATATGATTAACCAGCATTCTTA
TTTTGCACATTTATACTTAAAATCCC
Found at i:2299397 original size:19 final size:18
Alignment explanation
Indices: 2299361--2299400 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
2299351 TCCTATATCA
2299361 TATATGTATATAATAACT
1 TATATGTATATAATAACT
2299379 TATATG-ATATCATATAACT
1 TATATGTATAT-A-ATAACT
2299398 TAT
1 TAT
2299401 GCTCTATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATGTATATAATAACT
Found at i:2299769 original size:27 final size:27
Alignment explanation
Indices: 2299735--2299789 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2299725 TCTATTATAC
2299735 TAATTCATATAAATGATCACATAACTA
1 TAATTCATATAAATGATCACATAACTA
2299762 TAATTCATATAAATGATCACATAACTA
1 TAATTCATATAAATGATCACATAACTA
2299789 T
1 T
2299790 GTACTTACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (27 bp):
TAATTCATATAAATGATCACATAACTA
Found at i:2304979 original size:24 final size:24
Alignment explanation
Indices: 2304951--2305008 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
2304941 AACTATAAGG
*
2304951 TATCGGTACATCTTTTTACTGGTA
1 TATCGGTACATCCTTTTACTGGTA
2304975 TATCGGTACATCCTTTTACTGGTA
1 TATCGGTACATCCTTTTACTGGTA
2304999 TATCGGTACA
1 TATCGGTACA
2305009 CTACCTATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TATCGGTACATCCTTTTACTGGTA
Found at i:2309529 original size:18 final size:18
Alignment explanation
Indices: 2309506--2309607 Score: 195
Period size: 18 Copynumber: 5.7 Consensus size: 18
2309496 AAACTCGGAA
2309506 TTTTATTAAAATAAAATG
1 TTTTATTAAAATAAAATG
2309524 TTTTATTAAAATAAAATG
1 TTTTATTAAAATAAAATG
2309542 TTTTATTAAAATAAAATG
1 TTTTATTAAAATAAAATG
2309560 TTTTATTAAAATAAAATG
1 TTTTATTAAAATAAAATG
*
2309578 TTTTATTAAAATAAATTG
1 TTTTATTAAAATAAAATG
2309596 TTTTATTAAAAT
1 TTTTATTAAAAT
2309608 CACCTGGTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
18 83 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTATTAAAATAAAATG
Found at i:2314590 original size:40 final size:38
Alignment explanation
Indices: 2314546--2314668 Score: 108
Period size: 40 Copynumber: 3.2 Consensus size: 38
2314536 CTTGAGTCAA
2314546 TTTTTACTCGAAATAAGAAGATTTATTTCACTCAAGATTG
1 TTTTTACTCGAAA-AA-AAGATTTATTTCACTCAAGATTG
* * * **
2314586 TTTTT-CT-GAAAACAAGATTT-TGTCTCGCTTAAGACGG
1 TTTTTACTCGAAAAAAAGATTTAT-T-TCACTCAAGATTG
* *
2314623 TTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATTG
1 TTTTTACTCGAAA-AAAAGATTT-ATTTCACTCAAGATTG
2314663 TTTTTA
1 TTTTTA
2314669 AAGAAGATTG
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
35 1 0.02
36 8 0.12
37 15 0.23
38 6 0.09
39 6 0.09
40 26 0.41
41 1 0.02
42 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (38 bp):
TTTTTACTCGAAAAAAAGATTTATTTCACTCAAGATTG
Found at i:2314608 original size:77 final size:76
Alignment explanation
Indices: 2314523--2314972 Score: 299
Period size: 77 Copynumber: 5.9 Consensus size: 76
2314513 CTCGAAATAG
* *
2314523 AAGA-TTTGTCTCGCTTGAGTCAATTTTTACTCGAAATAAGAAGATTTATTTCACTCAAGATTGT
1 AAGATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAA-AAGATTTATTTCACTCAAGATTGT
2314587 TTTTCTGAAAAC
65 TTTTCTGAAAAC
* ** * * *
2314599 AAGATTTTGTCTCGCTTAAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATTG-
1 AAGATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAAGATTT-ATTTCACTCAAGATTGT
*
2314663 TTTT-T--AAAG
65 TTTTCTGAAAAC
* * * * * * * * **
2314672 AAGATTGTATCTCGCTTGAGA-TAGTTTCACTTGAAACAAAAGATTTTATCTCGCTTGAGATAT-
1 AAGATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAAGA-TTTATTTCACTCAAGAT-TG
**
2314735 TTTCACTCG-AAAC
64 TTTTTCT-GAAAAC
* * * * ** ** * * * ** *
2314748 ATACGATTGTATCTCGCTTAAGA-TAGCTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGATA
1 A-A-GATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAAGA-TTTATTTCACTCAAGATT
** *
2314812 GTTTCCCTCGAAATAG
63 GTTTTTCT-GAAA-AC
* *
2314828 AAGA-TTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTCACTCAGGATTGT
1 AAGATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAA-AAGATTTATTTCACTCAAGATTGT
* *
2314892 TTTTCTTAAAAT
65 TTTTCTGAAAAC
** * * *
2314904 AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATTGT
1 AAGATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAAGATTT-ATTTCACTCAAGATTGT
2314969 TTTT
65 TTTT
2314973 AAAGAAGATT
Statistics
Matches: 296, Mismatches: 61, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
72 24 0.08
73 27 0.09
74 1 0.00
75 1 0.00
76 29 0.10
77 112 0.38
78 93 0.31
79 7 0.02
80 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (76 bp):
AAGATTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAAAGATTTATTTCACTCAAGATTGTT
TTTCTGAAAAC
Found at i:2314725 original size:39 final size:39
Alignment explanation
Indices: 2314406--2316032 Score: 1302
Period size: 39 Copynumber: 42.3 Consensus size: 39
2314396 TTTTATAAAG
* * * **
2314406 AAGACTTTATCTCTCTTGAGATA-TTTGCCCTTAAAACAGA
1 AAGATTTTATCTCGCTTGAGATAGTTT-CACTCGAAACA-A
* * * *
2314446 AA-ATTTTATCTCACTTGAGATAGTTTCCCTCAAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2314484 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * *
2314523 AAGA-TTTGTCTCGCTTGAG-TCAATTTTTACTCGAAATAA
1 AAGATTTTATCTCGCTTGAGAT--AGTTTCACTCGAAACAA
* * ** * ** *
2314562 GAAGA-TTTATTTCACTCAAGATTGTTTTTCT-GAAA-AC
1 -AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * ** * *
2314599 AAGATTTTGTCTCGCTTAAGACGGTTTTTACTCGAAAGAA
1 AAGATTTTATCTCGCTTGAGATAG-TTTCACTCGAAACAA
* * * * ** * * * *
2314639 AACATTTCATTTCACTCAATATTGTTT---T--TAA-AG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2314672 AAGATTGTATCTCGCTTGAGATAGTTTCACTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2314711 AAGATTTTATCTCGCTTGAGATATTTTCACTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * * * *
2314750 ACGATTGTATCTCGCTTAAGATAGCTTCCCTCGAAAAAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2314789 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * * *
2314828 AAGA-TTTGTCTCGCTTGAGACAATTTTTACTTGAAACAA
1 AAGATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAA
* * * * ** * *
2314867 GAAGA-TTTATTTCAC-TCAGGATTGTTTTTCT-TAAA-AT
1 -AAGATTTTATCTCGCTTGA-GATAGTTTCACTCGAAACAA
* ** * *
2314904 AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAA
1 AAGATTTTATCTCGCTTGAGATAG-TTTCACTCGAAACAA
* * * * ** * * * *
2314944 AACATTTCATTTCACTCAATATTGTTT---T--TAA-AG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2314977 AAGATTGTATCTCGCATGAGATAGTTTCAC-CTGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTC-GAAACAA
* * * *
2315016 AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2315055 AAGATTTTATCTCGCTTCAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2315094 AAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAA-AA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315132 GAAGATTTTATCTCGCTTGAGATATTTTCACTCGAAACAG
1 -AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * *
2315172 AAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
2315211 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAA-AA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315249 GAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 -AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
*
2315289 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315328 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * * *
2315367 AAGATTTTATCTCACTTAAGATAGTTTCCCTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * * *
2315406 AAGA-TTTGTCTCGCTTGAGACAATTTTTACTTGAAACAA
1 AAGATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAA
* * * * ** * *
2315445 GAAGA-TTTATTTCAC-TCAGGATTGTTTTTCT-TAAA-AT
1 -AAGATTTTATCTCGCTTGA-GATAGTTTCACTCGAAACAA
* ** * *
2315482 AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAA
1 AAGATTTTATCTCGCTTGAGATAG-TTTCACTCGAAACAA
* * * * ** * * * *
2315522 AACATTTCATTTCACTAAATATTGTTT---T--TAA-AG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2315555 AAGATTGTATCTCGCATGAGATAGTTTCAC-CTGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTC-GAAACAA
* * * *
2315594 AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315633 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * *
2315672 AAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAA-AA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315710 GAAGATTTTATCTCGCTTGAGATATTTTCACTCGAAACAG
1 -AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* * * *
2315750 AAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
2315789 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAA-AA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315827 GAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 -AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
*
2315867 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315906 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315945 AAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
* *
2315984 AAGATTTTATCTCGCTTGAGATAGTTTCTCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
2316023 AAGATTTTAT
1 AAGATTTTAT
2316033 AAGAAACTAA
Statistics
Matches: 1288, Mismatches: 243, Indels: 113
0.78 0.15 0.07
Matches are distributed among these distances:
33 55 0.04
34 6 0.00
36 16 0.01
37 37 0.03
38 88 0.07
39 988 0.77
40 97 0.08
41 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
Found at i:2315028 original size:305 final size:305
Alignment explanation
Indices: 2314404--2315425 Score: 1279
Period size: 305 Copynumber: 3.3 Consensus size: 305
2314394 TTTTTTATAA
* * * ** * *
2314404 AGAAGACTTTATCTCTCTTGAGATA-TTTGCCCTTAAAACAGAAAATTTTATCTCACTTGAGATA
1 AGAAGATTTTATCTCGCTTGAGATAGTTT-CACTCGAAACAGAAGATTTTATCTCACTTAAGATA
*
2314468 GTTTCCCTC-AAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATTTGT
65 GTTTCCCTCGAAAA-AAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATTTGT
* * *
2314532 CTCGCTTGAGTCAATTTTTACTCGAAATAAGAAGATTTATTTCACTCAAGATTGTTTTTCTGAAA
129 CTCGCTTGAGACAATTTTTACTCGAAACAAGAAGATTTATTTCACTCAGGATTGTTTTTCTGAAA
*
2314597 ACAAGATTTTGTCTCGCTTAAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATT
194 ACAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATT
*
2314662 GTTTTTAAAGAAGATTGTATCTCGCTTGAGATAGTTTCACTTGAAAC
259 GTTTTTAAAGAAGATTGTATCTCGCTTGAGATAGTTTCACCTGAAAC
* * * * * *
2314709 AAAAGATTTTATCTCGCTTGAGATATTTTCACTCGAAACATACGATTGTATCTCGCTTAAGATAG
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTAAGATAG
*
2314774 CTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATTTGTCT
66 TTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATTTGTCT
* * *
2314839 CGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTCACTCAGGATTGTTTTTCTTAAAAT
131 CGCTTGAGACAATTTTTACTCGAAACAAGAAGATTTATTTCACTCAGGATTGTTTTTCTGAAAAC
2314904 AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATTGT
196 AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATTGT
*
2314969 TTTTAAAGAAGATTGTATCTCGCATGAGATAGTTTCACCTGAAAC
261 TTTTAAAGAAGATTGTATCTCGCTTGAGATAGTTTCACCTGAAAC
* * * * *
2315014 AGAAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAGAAGATTTTATCTCGCTTCAGATAG
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTAAGATAG
* * * * * *
2315079 TTTCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAAAAGAAGATTTTATC
66 TTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGA-TTTGTC
* * * * * **
2315144 TCGCTTGAGA-TATTTTCACTCGAAAC-AGAAGATTGTATCTCACT-TGAGATAGTTTCCCTCGA
130 TCGCTTGAGACAATTTTTACTCGAAACAAGAAGATT-TATTTCACTCAG-GATTGTTTTTCT-GA
* * ** * * * * * **
2315206 AACAGAAGATTTTATCTCGCTTGAGATAG-TTTCACTCGAAA-AAGAAGATTTTATCTCGCTTGA
192 AA-ACAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAA-AACATTTCATTTCACTCAA
* * * *
2315269 GATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCA-CTCGAAAC
255 TATTGTTT---T--TAA-AGAAGATTGTATCTCGCTTGAGATAGTTTCACCT-GAAAC
* * *
2315326 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTAAGATAG
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTAAGATAG
* * *
2315391 TTTCCCTCGAAATAGAAGA-TTTGTCTCGCTTGAGA
66 TTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGA
2315426 CAATTTTTAC
Statistics
Matches: 625, Mismatches: 77, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
304 9 0.01
305 413 0.66
306 55 0.09
307 22 0.04
309 1 0.00
311 18 0.03
312 107 0.17
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (305 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTAAGATAG
TTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATTTGTCT
CGCTTGAGACAATTTTTACTCGAAACAAGAAGATTTATTTCACTCAGGATTGTTTTTCTGAAAAC
AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTTCATTTCACTCAATATTGT
TTTTAAAGAAGATTGTATCTCGCTTGAGATAGTTTCACCTGAAAC
Found at i:2315426 original size:578 final size:578
Alignment explanation
Indices: 2314314--2316029 Score: 2547
Period size: 578 Copynumber: 3.0 Consensus size: 578
2314304 TCTAACTTCA
* *
2314314 GATTGTTTTTCTTAAAA-CAGA-TTTGTCTCACTTGAGACGGTTTTTACTCGAAA-AAAGACATT
1 GATTGTTTTTCTTAAAATAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAA-ACATT
* * * *
2314376 TCATTTCACTTAAGATTGTTTTTTATAAAGAAGACTT-TATCTCTCTTGAGATA-TTTGC-CCTT
65 TCATTTCACTAAATATTG--TTTT-TAAAGAAGA-TTGTATCTCGCATGAGATAGTTT-CACC-T
* * * * * *
2314438 AAAACAGAAAATTTTATCTCACTTGAGATAGTTTC-CCTCAAAACAGAAGATTTTATCTCGCTTG
124 GAAACAGAAGATTTTATCTCGCTTGAAATAGTTTCACC-CGAAATAGAAGATTTTATCTCGCTTG
* * * * * ** *
2314502 AGATAGTTTCCCTCGAAATAGAAGA-TTTGTCTCGCTTGA-GTCAATTTTTACTCGAAATAAGAA
188 AGATAGTTTCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGT--AGTTTCCCTTGAAA-AAGAA
* * ** ** * * * * * **
2314565 GA-TTTATTTCACTCAAGAT-TGTTTTTCT-GAAA-ACAAGATTTTGTCTCGCTTAAGACGGTTT
250 GATTTTATCTCGCTTGAGATAT-TTTCACTCGAAACAGAAGATTGTATCTCACTTGAGATAG-TT
** * * * * * * ** * * * *
2314626 TTACTCGAAAGAAAACATTTCATTTCACTCAATATTGTTT---T---TAAAGAAGATTGTATCTC
313 TCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAAAAGAAGATTTTATCTC
* * * * *
2314685 GCTTGAGATAGTTTCACTTGAAACAAAAGATTTTATCTCGCTTGAGATATTTTCACTCGAAACAT
378 GCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * * * * * *
2314750 ACGATTGTATCTCGCTTAAGATAGCTTCCCTCGAAAAAAAAGATTTTATCTCGCTTGAGATAGTT
443 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTGAGATAGTT
2314815 TCCCTCGAAATAGAAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTC
508 TCCCTCGAAATAGAAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTC
2314880 ACTCAG
573 ACTCAG
2314886 GATTGTTTTTCTTAAAATAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTT
1 GATTGTTTTTCTTAAAATAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTT
*
2314951 CATTTCACTCAATATTGTTTTTAAAGAAGATTGTATCTCGCATGAGATAGTTTCACCTGAAACAG
66 CATTTCACTAAATATTGTTTTTAAAGAAGATTGTATCTCGCATGAGATAGTTTCACCTGAAACAG
*
2315016 AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAGAAGATTTTATCTCGCTTCAGATAGTT
131 AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAGAAGATTTTATCTCGCTTGAGATAGTT
2315081 TCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAAAAGAAGATTTTATCTC
196 TCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAAAAGAAGATTTTATCTC
2315146 GCTTGAGATATTTTCACTCGAAACAGAAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
261 GCTTGAGATATTTTCACTCGAAACAGAAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
2315211 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAAAAGAAGATTTTATCTCGCTTGAGATAGTT
326 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAAAAGAAGATTTTATCTCGCTTGAGATAGTT
2315276 TCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTC
391 TCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTC
*
2315341 GCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTAAGATAGTTTCCCTCGAAATAG
456 GCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAATAG
2315406 AAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTCACTCAG
521 AAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTCACTCAG
2315464 GATTGTTTTTCTTAAAATAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTT
1 GATTGTTTTTCTTAAAATAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTT
2315529 CATTTCACTAAATATTGTTTTTAAAGAAGATTGTATCTCGCATGAGATAGTTTCACCTGAAACAG
66 CATTTCACTAAATATTGTTTTTAAAGAAGATTGTATCTCGCATGAGATAGTTTCACCTGAAACAG
2315594 AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAGAAGATTTTATCTCGCTTGAGATAGTT
131 AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAGAAGATTTTATCTCGCTTGAGATAGTT
2315659 TCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAAAAGAAGATTTTATCTC
196 TCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAAAAGAAGATTTTATCTC
2315724 GCTTGAGATATTTTCACTCGAAACAGAAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
261 GCTTGAGATATTTTCACTCGAAACAGAAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
2315789 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAAAAGAAGATTTTATCTCGCTTGAGATAGTT
326 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAAAAGAAGATTTTATCTCGCTTGAGATAGTT
2315854 TCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTC
391 TCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTC
* *
2315919 GCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAACAA
456 GCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAATAG
* * * *
2315984 AAGATTTTATCTCGCTTGAGATAGTTTCT-CTTGAAACAA-AAGATTT
521 AAGA-TTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTT
2316030 TATAAGAAAC
Statistics
Matches: 1054, Mismatches: 70, Indels: 35
0.91 0.06 0.03
Matches are distributed among these distances:
570 9 0.01
571 129 0.12
572 76 0.07
573 24 0.02
574 52 0.05
575 4 0.00
577 7 0.01
578 733 0.70
579 20 0.02
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (578 bp):
GATTGTTTTTCTTAAAATAAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAAAACATTT
CATTTCACTAAATATTGTTTTTAAAGAAGATTGTATCTCGCATGAGATAGTTTCACCTGAAACAG
AAGATTTTATCTCGCTTGAAATAGTTTCACCCGAAATAGAAGATTTTATCTCGCTTGAGATAGTT
TCCCTTGAAACAAAAGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAAAAGAAGATTTTATCTC
GCTTGAGATATTTTCACTCGAAACAGAAGATTGTATCTCACTTGAGATAGTTTCCCTCGAAACAG
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAAAAGAAGATTTTATCTCGCTTGAGATAGTT
TCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTC
GCTTGAGATAGTTTCCCTTGAAACAAAAGATTTTATCTCACTTGAGATAGTTTCCCTCGAAATAG
AAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTCACTCAG
Found at i:2315546 original size:77 final size:76
Alignment explanation
Indices: 2315406--2315550 Score: 193
Period size: 77 Copynumber: 1.9 Consensus size: 76
2315396 CTCGAAATAG
* * * *
2315406 AAGATTTGTCTCGCTTGAGACAATTTTTACTTGAAACAAGAAGATTTATTTCACTCAGGATTGTT
1 AAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAGAACATTTATTTCACTAAAGATTGTT
2315471 TTTCTTAAAAT
66 TTTCTTAAAAT
** * *
2315482 AAGATTTTGTCTCGCTTGAGACGGTTTTTACTCGAAAGAA-AACATTTCATTTCACTAAATATTG
1 AAGA-TTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAGAACATTT-ATTTCACTAAAGATTG
2315546 TTTTT
64 TTTTT
2315551 AAAGAAGATT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
76 10 0.17
77 49 0.83
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (76 bp):
AAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAGAACATTTATTTCACTAAAGATTGTT
TTTCTTAAAAT
Found at i:2320851 original size:3 final size:3
Alignment explanation
Indices: 2320845--2320876 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2320835 GATGATGATG
2320845 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2320877 CAAAATAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2324893 original size:248 final size:245
Alignment explanation
Indices: 2324417--2324898 Score: 847
Period size: 246 Copynumber: 2.0 Consensus size: 245
2324407 TTTAAAGATT
*
2324417 GATCTAGTATGTTTAGCCTCAACAAAAAAATCATATTTTCTAGTGTTGTCATTATCTAGATTAGG
1 GATCTAGTATGTTTAGCCTCAACAAAAAAATCATATTTTCTAGTGTTGTCATTATCTAGATTAAG
*
2324482 TAGTAATTTCATTTTCTCAAGTATACTTTGTTTGAAATATTGATTGTTGGAAAGCTATAAATTAA
66 TAGTAATTTCATTTTCTCAAGTATACTTTGTTTGAAATATTGATTGTTGGAAAGCTATAAATAAA
*
2324547 TCTTTTGGACTATCATTTGTAAGCTTATGTAATTTAAATGACCGAACTTGTAGTACCATAGATAA
131 TCTTCTGGACTATCATTTGTAAGCTTATGTAATTTAAATGACCGAACTTGTAGTACCATAGATAA
*
2324612 GAACTATCTTCTGTAATAGTTTGGAAGCATGGAGAACTTGTAGTGCCATA
196 GAAATATCTTCTGTAATAGTTTGGAAGCATGGAGAACTTGTAGTGCCATA
**
2324662 GATCTAGTATGTTTAGCCTCAACAAAAATTTCATATTTTGCTAGTGTTGTCATTATCTAGATTAA
1 GATCTAGTATGTTTAGCCTCAACAAAAAAATCATATTTT-CTAGTGTTGTCATTATCTAGATTAA
* *
2324727 GTAGTAATTTCATTTTCTTAAGTATACTTTGTTTGAAATATTGATTGTTGGTAAGCTATAAATAA
65 GTAGTAATTTCATTTTCTCAAGTATACTTTGTTTGAAATATTGATTGTTGGAAAGCTATAAATAA
* *
2324792 ATCTTCTGGACTGCATCATTTGTAAGCTTTTGTAATTTAAATGACCGAACTTGTAGTGCCATAGA
130 ATCTTCTGGACT--ATCATTTGTAAGCTTATGTAATTTAAATGACCGAACTTGTAGTACCATAGA
2324857 TAAGAAATATCTTCTGTAATAGTTTGGAAGCATGGAGAACTT
193 TAAGAAATATCTTCTGTAATAGTTTGGAAGCATGGAGAACTT
2324899 AGTGATTGTG
Statistics
Matches: 224, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
245 37 0.17
246 97 0.43
248 90 0.40
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (245 bp):
GATCTAGTATGTTTAGCCTCAACAAAAAAATCATATTTTCTAGTGTTGTCATTATCTAGATTAAG
TAGTAATTTCATTTTCTCAAGTATACTTTGTTTGAAATATTGATTGTTGGAAAGCTATAAATAAA
TCTTCTGGACTATCATTTGTAAGCTTATGTAATTTAAATGACCGAACTTGTAGTACCATAGATAA
GAAATATCTTCTGTAATAGTTTGGAAGCATGGAGAACTTGTAGTGCCATA
Found at i:2328646 original size:15 final size:15
Alignment explanation
Indices: 2328626--2328672 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
2328616 ACCTTACAAT
2328626 CCCTCAAGAATATAC
1 CCCTCAAGAATATAC
2328641 CCCTCAAGAATATA-
1 CCCTCAAGAATATAC
2328655 CCCTCAAGAATATAC
1 CCCTCAAGAATATAC
2328670 CCC
1 CCC
2328673 AATTCTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 14 0.45
15 17 0.55
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.19
Consensus pattern (15 bp):
CCCTCAAGAATATAC
Found at i:2328660 original size:14 final size:14
Alignment explanation
Indices: 2328626--2328671 Score: 83
Period size: 14 Copynumber: 3.2 Consensus size: 14
2328616 ACCTTACAAT
2328626 CCCTCAAGAATATA
1 CCCTCAAGAATATA
2328640 CCCCTCAAGAATATA
1 -CCCTCAAGAATATA
2328655 CCCTCAAGAATATA
1 CCCTCAAGAATATA
2328669 CCC
1 CCC
2328672 CAATTCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 17 0.55
15 14 0.45
ACGTcount: A:0.39, C:0.35, G:0.07, T:0.20
Consensus pattern (14 bp):
CCCTCAAGAATATA
Found at i:2329346 original size:65 final size:64
Alignment explanation
Indices: 2329168--2329347 Score: 177
Period size: 65 Copynumber: 2.8 Consensus size: 64
2329158 GTATCAAGTA
* * * * * *
2329168 CATTTGATGTTTCA-AAATAGCCAGAGTGCATCGATGAATGGTTGCTGCATCGATGCATCAAATG
1 CATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATG
* * *
2329232 CATTCGATGTTTTCATAAAATCCTTAGTGCATCAATGCATGGTAT-GTGCATCGATACATGAAAT
1 CATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGT-TGGTGCATCGATACATCAAAT
2329296 G
64 G
** * *
2329297 CATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATTGGTGCAT
1 CATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGG-TTGGTGCAT
2329348 TGGTGCATCA
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
63 3 0.03
64 31 0.33
65 57 0.60
66 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (64 bp):
CATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATG
Found at i:2330000 original size:14 final size:15
Alignment explanation
Indices: 2329981--2330009 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2329971 TCAAGCATTT
2329981 AACAATCCA-AAACA
1 AACAATCCAGAAACA
2329995 AACAATCCAGAAACA
1 AACAATCCAGAAACA
2330010 TAAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:2331930 original size:23 final size:23
Alignment explanation
Indices: 2331890--2331968 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 23
2331880 ACCCGATGGA
*
2331890 TGCATCGATGCACTTTCAAGGTG
1 TGCATCGATGCACCTTCAAGGTG
* * *
2331913 TGCATCGGTGCGCCTTCATGGTG
1 TGCATCGATGCACCTTCAAGGTG
** *
2331936 T--ATCGATGCATATTCAAGG-A
1 TGCATCGATGCACCTTCAAGGTG
2331956 TGCATCGATGCAC
1 TGCATCGATGCAC
2331969 TGTTAGGTGT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 1 0.02
21 13 0.30
22 9 0.21
23 20 0.47
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCACCTTCAAGGTG
Found at i:2335490 original size:20 final size:21
Alignment explanation
Indices: 2335452--2335491 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2335442 GAAGCTTTAA
* *
2335452 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACCTTTGAT
2335473 GATCATC-ATTTACCTTTGA
1 GATCATCAATTTACCTTTGA
2335492 AAGTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACCTTTGAT
Found at i:2337499 original size:37 final size:37
Alignment explanation
Indices: 2337449--2337523 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
2337439 AGTCAATAGA
2337449 GCCGTTTAAGTGTGAAAACAATTAATTAAAGCAGTTC
1 GCCGTTTAAGTGTGAAAACAATTAATTAAAGCAGTTC
2337486 GCCGTTTAAGTGTGAAAACAATTAATTAAAGCAGTTC
1 GCCGTTTAAGTGTGAAAACAATTAATTAAAGCAGTTC
2337523 G
1 G
2337524 GAGCGTCAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (37 bp):
GCCGTTTAAGTGTGAAAACAATTAATTAAAGCAGTTC
Found at i:2337813 original size:65 final size:62
Alignment explanation
Indices: 2337613--2337824 Score: 189
Period size: 65 Copynumber: 3.3 Consensus size: 62
2337603 TAGTACATCT
* * * * *
2337613 TAGTGCACCGATGCATCAAGTACATTCGATGTTTCA-AAATAGC-CAGAGTGAATCGATGCATGG
1 TAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGG
*
2337676 CTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATGCTCAGTGCATCGATGCATGG
1 -TAGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGG
* * **
2337741 TATGTGCATCGATGCATGAAATGCATTTGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATG
1 TA-GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATG
2337804 G
62 G
*
2337805 ATTAGTGCATCGGTGCATCA
1 --TAGTGCATCGATGCATCA
2337825 CTTTGATAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 49 0.39
65 63 0.50
66 6 0.05
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (62 bp):
TAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGG
Found at i:2338102 original size:26 final size:26
Alignment explanation
Indices: 2338073--2338129 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2338063 TTTTCAACAA
*
2338073 TTTAATTATTATTTCATTTTTT-ATAT
1 TTTAATTAATATTT-ATTTTTTAATAT
*
2338099 TTTATTTAATATTTATTTTTTAATAT
1 TTTAATTAATATTTATTTTTTAATAT
*
2338125 ATTAA
1 TTTAA
2338130 ATTTCTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTAATTAATATTTATTTTTTAATAT
Found at i:2342891 original size:29 final size:29
Alignment explanation
Indices: 2342855--2342970 Score: 180
Period size: 29 Copynumber: 4.0 Consensus size: 29
2342845 GTCCAAAGTC
* *
2342855 AAAT-ATTACGAAAATATCATTGTTTTAA
1 AAATAATTACCAAAATATCACTGTTTTAA
* *
2342883 CAATAATTACCAAAATATCATTGTTTTAA
1 AAATAATTACCAAAATATCACTGTTTTAA
*
2342912 AAATAATTACCAAAATATCACTGTTGTAA
1 AAATAATTACCAAAATATCACTGTTTTAA
2342941 AAATAATTACCAAAATATCACTGTTTTAA
1 AAATAATTACCAAAATATCACTGTTTTAA
2342970 A
1 A
2342971 TATATGTTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 3 0.04
29 78 0.96
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (29 bp):
AAATAATTACCAAAATATCACTGTTTTAA
Found at i:2348238 original size:30 final size:31
Alignment explanation
Indices: 2348176--2348238 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
2348166 TAGGTCCATA
* * * *
2348176 AGGAATTACCAACCGATGCTGAACCTATCAG
1 AGGAATTACCAACCAACGATGAACCTACCAG
*
2348207 AGGAATTACCAA-CAACGATGAACCTGCCAG
1 AGGAATTACCAACCAACGATGAACCTACCAG
2348237 AG
1 AG
2348239 TCTTTACAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (31 bp):
AGGAATTACCAACCAACGATGAACCTACCAG
Found at i:2349173 original size:29 final size:29
Alignment explanation
Indices: 2349137--2349433 Score: 284
Period size: 29 Copynumber: 10.4 Consensus size: 29
2349127 AATATTACGA
* *
2349137 AAAATATCACCTTTTTTTAAAA-AATTACC
1 AAAATATCA-CTGTTTTAAAAATAATTACC
* *
2349166 AAAATATCACCGTTTTAACAAA-AATTAAC
1 AAAATATCACTGTTTTAA-AAATAATTACC
* *
2349195 AAAATATCATTGTTTTAAAAATAATTACA
1 AAAATATCACTGTTTTAAAAATAATTACC
* *
2349224 AAAATATCACTGCTATAAAAATAATTACC
1 AAAATATCACTGTTTTAAAAATAATTACC
* * *
2349253 AAAATATTATTGTTTTAAAAATAATTCCC
1 AAAATATCACTGTTTTAAAAATAATTACC
* *
2349282 AAAATATCACCGTTTTAAAAATAATTCCC
1 AAAATATCACTGTTTTAAAAATAATTACC
*
2349311 AAAATATCA---TTTTAAAAATAATTACG
1 AAAATATCACTGTTTTAAAAATAATTACC
* * * *
2349337 AAAATA-AAATCTTTTAAAAATAATTACG
1 AAAATATCACTGTTTTAAAAATAATTACC
* * *
2349365 AAAGTAGCACCT-TTTTAAAAATAATTACA
1 AAAATATCA-CTGTTTTAAAAATAATTACC
* ** *
2349394 AAAATAACACCCTTTTAAAAATAATTACG
1 AAAATATCACTGTTTTAAAAATAATTACC
*
2349423 AAAATAACACT
1 AAAATATCACT
2349434 TAATGAAATT
Statistics
Matches: 228, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
28 32 0.14
29 173 0.76
30 1 0.00
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATATCACTGTTTTAAAAATAATTACC
Found at i:2349447 original size:86 final size:84
Alignment explanation
Indices: 2349207--2349502 Score: 256
Period size: 86 Copynumber: 3.5 Consensus size: 84
2349197 AATATCATTG
* * ***
2349207 TTTTAAAAATAATTACAAAAATATCA-CTGCTATAAAAATAATTACCAAAATATTATTGTTTTAA
1 TTTTAAAAATAATTACAAAAATATCACCT--TTTAAAAATAATTACGAAAATA--AAACTTTTAA
* * * *
2349271 AAATAATTCCCAAAATATCACCG
62 AAATAATTACAAAAATAACACCA
* *
2349294 TTTTAAAAATAATTCCCAAAATATCA--TTTTAAAAATAATTACGAAAATAAAATCTTTTAAAAA
1 TTTTAAAAATAATTACAAAAATATCACCTTTTAAAAATAATTACGAAAATAAAA-CTTTTAAAAA
* * * *
2349357 TAATTACGAAAGTAGCACCT
65 TAATTACAAAAATAACACCA
* * * *
2349377 TTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAATTACGAAAATAACACTTAATGAAA
1 TTTTAAAAATAATTACAAAAATATCA-CCTTTTAAAAATAATTACGAAAATAAAACTT-TTAAAA
* * *
2349442 TTAATTACAAAACTAACATCA
64 ATAATTACAAAAATAACACCA
* * * * *
2349463 TTTTAAACATATTTACGAAACTAGCACACTTTTAAAAATA
1 TTTTAAAAATAATTACAAAAATATCAC-CTTTTAAAAATA
2349503 TTCCCACAAT
Statistics
Matches: 174, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
82 1 0.01
83 47 0.27
84 20 0.11
85 4 0.02
86 78 0.45
87 24 0.14
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.32
Consensus pattern (84 bp):
TTTTAAAAATAATTACAAAAATATCACCTTTTAAAAATAATTACGAAAATAAAACTTTTAAAAAT
AATTACAAAAATAACACCA
Found at i:2349495 original size:29 final size:29
Alignment explanation
Indices: 2349207--2349502 Score: 202
Period size: 29 Copynumber: 10.4 Consensus size: 29
2349197 AATATCATTG
* * *
2349207 TTTTAAAAATAATTACAAAAATATCACTGC
1 TTTTAAAAATAATTACGAAAATAACAC-AC
* * ** ***
2349237 -TATAAAAATAATTACCAAAATATTATTG
1 TTTTAAAAATAATTACGAAAATAACACAC
* * *
2349265 TTTTAAAAATAATTCCCAAAATATCAC-C
1 TTTTAAAAATAATTACGAAAATAACACAC
* * *
2349293 GTTTTAAAAATAATTCCCAAAAT-A-TCA-
1 -TTTTAAAAATAATTACGAAAATAACACAC
2349320 TTTTAAAAATAATTACGAAAATAA-A-ATC
1 TTTTAAAAATAATTACGAAAATAACACA-C
* *
2349348 TTTTAAAAATAATTACGAAAGTAGCAC-C
1 TTTTAAAAATAATTACGAAAATAACACAC
* *
2349376 TTTTTAAAAATAATTACAAAAATAACACCC
1 -TTTTAAAAATAATTACGAAAATAACACAC
2349406 TTTTAAAAATAATTACGAAAAT-A-ACAC
1 TTTTAAAAATAATTACGAAAATAACACAC
* * *
2349433 TTAATGAAATTAATTAC-AAAACTAACATCA-
1 TT-TTAAAAATAATTACGAAAA-TAACA-CAC
* * * *
2349463 TTTTAAACATATTTACGAAACTAGCACAC
1 TTTTAAAAATAATTACGAAAATAACACAC
2349492 TTTTAAAAATA
1 TTTTAAAAATA
2349503 TTCCCACAAT
Statistics
Matches: 215, Mismatches: 34, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
26 21 0.10
27 11 0.05
28 38 0.18
29 136 0.63
30 7 0.03
31 2 0.01
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.32
Consensus pattern (29 bp):
TTTTAAAAATAATTACGAAAATAACACAC
Found at i:2349516 original size:57 final size:57
Alignment explanation
Indices: 2349150--2349516 Score: 236
Period size: 58 Copynumber: 6.5 Consensus size: 57
2349140 ATATCACCTT
* * * * ***
2349150 TTTTTAAAA-AATTACCAAAATATCACCGTTTTAACAAA-AATTAAC-AAAATATCATTG
1 TTTTAAAAATAATTACCAAAATAACATC-TTTTAA-AAATAATT-ACGAAAATAGCACAC
* * * * ** ***
2349207 TTTTAAAAATAATTACAAAAATATCA-CTGCTATAAAAATAATTACCAAAATATTATTG
1 TTTTAAAAATAATTACCAAAATAACATCT--TTTAAAAATAATTACGAAAATAGCACAC
* * * * * *
2349265 TTTTAAAAATAATTCCCAAAATATCACCGTTTTAAAAATAATTCCCAAAATA--TCA-
1 TTTTAAAAATAATTACCAAAATAACATC-TTTTAAAAATAATTACGAAAATAGCACAC
* * *
2349320 TTTTAAAAATAATTACGAAAATAAAATCTTTTAAAAATAATTACGAAAGTAGCAC-C
1 TTTTAAAAATAATTACCAAAATAACATCTTTTAAAAATAATTACGAAAATAGCACAC
* *
2349376 TTTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAATTACGAAAATA--ACAC
1 -TTTTAAAAATAATTACCAAAATAACA-TCTTTTAAAAATAATTACGAAAATAGCACAC
* * * * * *
2349433 TTAATGAAATTAATTA-CAAAACTAACATCATTTTAAACATATTTACGAAACTAGCACAC
1 TT-TTAAAAATAATTACCAAAA-TAACATC-TTTTAAAAATAATTACGAAAATAGCACAC
* *
2349492 TTTTAAAAAT-ATTCCCACAATAACA
1 TTTTAAAAATAATTACCAAAATAACA
2349517 CCATAACCAA
Statistics
Matches: 254, Mismatches: 37, Indels: 38
0.77 0.11 0.12
Matches are distributed among these distances:
54 20 0.08
55 23 0.09
56 11 0.04
57 82 0.32
58 110 0.43
59 7 0.03
60 1 0.00
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (57 bp):
TTTTAAAAATAATTACCAAAATAACATCTTTTAAAAATAATTACGAAAATAGCACAC
Found at i:2350031 original size:20 final size:20
Alignment explanation
Indices: 2350006--2350064 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
2349996 CGCTTCATTT
2350006 TATTTTATTCT-TAGTGCTAA
1 TATTTTATT-TATAGTGCTAA
2350026 TATTTTATTTATAGTGCTAA
1 TATTTTATTTATAGTGCTAA
2350046 T-TATTTATTTATAGTGCTA
1 TAT-TTTATTTATAGTGCTA
2350065 TAGGATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.05
20 35 0.95
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (20 bp):
TATTTTATTTATAGTGCTAA
Found at i:2351641 original size:3 final size:3
Alignment explanation
Indices: 2351628--2351657 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2351618 GGTCTACAAA
*
2351628 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2351658 TATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:2351662 original size:3 final size:3
Alignment explanation
Indices: 2351656--2351711 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
2351646 AATAATAATA
* * * *
2351656 ATT ATT ATT ATT ATT ATT ATT ACT ACT ACT ACTT -TT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
2351701 AATT ATT ATT A
1 -ATT ATT ATT A
2351712 CATTTTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 40 0.87
4 4 0.09
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2352756 original size:21 final size:20
Alignment explanation
Indices: 2352730--2352768 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2352720 ATTTCAATAA
2352730 AATAATATAATCACTTAAAAT
1 AATAATATAA-CACTTAAAAT
*
2352751 AATAATATAACATTTAAA
1 AATAATATAACACTTAAA
2352769 CATTCGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATATAACACTTAAAAT
Found at i:2353407 original size:19 final size:18
Alignment explanation
Indices: 2353379--2353442 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
2353369 TTCATTCTCG
*
2353379 ATTCAGAACTTATTTCCAA
1 ATTCATAACTTATTT-CAA
* *
2353398 ATTCATAACTTATTTTTAG
1 ATTCATAACTTA-TTTCAA
*
2353417 ATTCATAGCTTAATTTCAA
1 ATTCATAACTT-ATTTCAA
2353436 ATTCATA
1 ATTCATA
2353443 GCCCAATGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 33 0.89
20 4 0.11
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.44
Consensus pattern (18 bp):
ATTCATAACTTATTTCAA
Found at i:2357899 original size:24 final size:24
Alignment explanation
Indices: 2357871--2357921 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
2357861 GTTAATTCAT
2357871 CAAGTCTTTCTCACTAGAACTACC
1 CAAGTCTTTCTCACTAGAACTACC
2357895 CAAGTCTTTCTCACTAGAACTACC
1 CAAGTCTTTCTCACTAGAACTACC
2357919 CAA
1 CAA
2357922 AACCTTGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.27
Consensus pattern (24 bp):
CAAGTCTTTCTCACTAGAACTACC
Found at i:2359618 original size:14 final size:14
Alignment explanation
Indices: 2359599--2359630 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2359589 CTAACTTTTT
2359599 CTAACTTCTAACCA
1 CTAACTTCTAACCA
*
2359613 CTAACTTCTAACCG
1 CTAACTTCTAACCA
2359627 CTAA
1 CTAA
2359631 TTTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28
Consensus pattern (14 bp):
CTAACTTCTAACCA
Found at i:2359641 original size:3 final size:3
Alignment explanation
Indices: 2359633--2359668 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2359623 ACCGCTAATT
2359633 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2359669 GTTAAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2362835 original size:94 final size:94
Alignment explanation
Indices: 2362708--2362895 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 94
2362698 CAAAAGAAGA
* *
2362708 TTGTTTTCTTGTATATTTGATCAAAAATGAAGAAGTTGAGCAGTGTGATGTGATTTGTAGTTTCC
1 TTGTTTTCTTGTATATTCGATCAAAAATGAAGAAGTTGAGCAGTGTGATGTGATTTGTAATTTCC
2362773 ATATGCCTCAGTGTATTGAGACATTGTGT
66 ATATGCCTCAGTGTATTGAGACATTGTGT
*
2362802 TTGTTTTCTTGTATGTTCGATCAAAAATGAAGAAGTTGAGCAGTGTGATGTGATTTGTAATTTCC
1 TTGTTTTCTTGTATATTCGATCAAAAATGAAGAAGTTGAGCAGTGTGATGTGATTTGTAATTTCC
2362867 ATATGCCTCAGTGTATTGAGACATTGTGT
66 ATATGCCTCAGTGTATTGAGACATTGTGT
2362896 ATTTTTTGGA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (94 bp):
TTGTTTTCTTGTATATTCGATCAAAAATGAAGAAGTTGAGCAGTGTGATGTGATTTGTAATTTCC
ATATGCCTCAGTGTATTGAGACATTGTGT
Found at i:2364619 original size:172 final size:177
Alignment explanation
Indices: 2364310--2364659 Score: 656
Period size: 172 Copynumber: 2.0 Consensus size: 177
2364300 ACTATATAGG
2364310 ATCTCCTTGTAGTTTTTAGATGAAATTTAGAGTAACACTCGGAATTAACCCTTATGCTTTTGCCC
1 ATCTCCTTGTAGTTTTTA-ATGAAATTTAGAGTAACACTCGGAATTAACCCTTATGCTTTTGCCC
2364375 GCGAGCATTAAGGAATCTTTTGTGAAGGGCTTCTATGTTAATTCTACTTTTTCTGTGATTGAAGA
65 GCGAGCATTAAGGAATCTTTTGTGAAGGGCTTCTATGTTAATTCTACTTTTTCTGTGATTGAAGA
2364440 TGCTTTCCTTCATTTCTCAAGTGACAATCATTTTATACATTTT-ATAT
130 TGCTTTCCTTCATTTCTCAAGTGACAATCATTTTATACATTTTCATAT
2364487 ATCT-CTT-TAGTTTTT-ATG-AATTTAGAGTAACACTCGGAATTAACCCTTATGCTTTTGCCCG
1 ATCTCCTTGTAGTTTTTAATGAAATTTAGAGTAACACTCGGAATTAACCCTTATGCTTTTGCCCG
2364548 CGAGCATTAAGGAATCTTTTGTGAAGGGCTTCTATGTTAATTCTACTTTTTCTGTGATTGAAGAT
66 CGAGCATTAAGGAATCTTTTGTGAAGGGCTTCTATGTTAATTCTACTTTTTCTGTGATTGAAGAT
2364613 GCTTTCCTTCATTTCTCAAGTGACAATCATTTTATACATTTTCATAT
131 GCTTTCCTTCATTTCTCAAGTGACAATCATTTTATACATTTTCATAT
2364660 TCTTTATCAT
Statistics
Matches: 172, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
172 150 0.87
173 7 0.04
175 8 0.05
176 3 0.02
177 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (177 bp):
ATCTCCTTGTAGTTTTTAATGAAATTTAGAGTAACACTCGGAATTAACCCTTATGCTTTTGCCCG
CGAGCATTAAGGAATCTTTTGTGAAGGGCTTCTATGTTAATTCTACTTTTTCTGTGATTGAAGAT
GCTTTCCTTCATTTCTCAAGTGACAATCATTTTATACATTTTCATAT
Found at i:2364704 original size:20 final size:22
Alignment explanation
Indices: 2364666--2364707 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
2364656 ATATTCTTTA
2364666 TCATTCTTTACATTGTTTTATT
1 TCATTCTTTACATTGTTTTATT
*
2364688 TCATT-TTTA-ATTTTTTTATT
1 TCATTCTTTACATTGTTTTATT
2364708 ATTTTATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 4 0.21
22 5 0.26
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (22 bp):
TCATTCTTTACATTGTTTTATT
Found at i:2366303 original size:9 final size:8
Alignment explanation
Indices: 2366289--2366336 Score: 62
Period size: 9 Copynumber: 5.8 Consensus size: 8
2366279 GATAAGGAAG
2366289 AAAATAATA
1 AAAATAA-A
2366298 AAAATAAA
1 AAAATAAA
2366306 TAAAATAAA
1 -AAAATAAA
2366315 ATAAATAAA
1 A-AAATAAA
2366324 AAAA-AAA
1 AAAATAAA
2366331 AAAATA
1 AAAATA
2366337 TAGATCCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.19
8 6 0.17
9 23 0.64
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATAAA
Found at i:2366317 original size:14 final size:13
Alignment explanation
Indices: 2366290--2366328 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
2366280 ATAAGGAAGA
*
2366290 AAATAATAAAAAT
1 AAATAAAAAAAAT
2366303 AAATAAAATAAAAT
1 AAATAAAA-AAAAT
2366317 AAATAAAAAAAA
1 AAATAAAAAAAA
2366329 AAAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAATAAAAAAAAT
Found at i:2366334 original size:24 final size:23
Alignment explanation
Indices: 2366289--2366336 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
2366279 GATAAGGAAG
* *
2366289 AAAATAATAAAAATAAATAAAAT
1 AAAATAATAAAAAAAAAAAAAAT
2366312 AAAATAAATAAAAAAAAAAAAAAT
1 AAAAT-AATAAAAAAAAAAAAAAT
2366336 A
1 A
2366337 TAGATCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (23 bp):
AAAATAATAAAAAAAAAAAAAAT
Found at i:2367430 original size:54 final size:55
Alignment explanation
Indices: 2367381--2368023 Score: 226
Period size: 55 Copynumber: 11.9 Consensus size: 55
2367371 ATTTTCAGGG
*
2367381 GTTTATTGA-CATTTTTAAATGAATTTTGAAAGAAGCTAACTCCGATTTTCTAAA
1 GTTTATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTAAA
* * * * * **
2367435 GTTTCTTGATTATTTTTAAATGAGTTTTTAAAGAAACTAAGTTTGATTTTC-AGAA
1 GTTTATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTA-AA
* * * ** * * *** *
2367490 GTTTCTTGATGATTTTCAAATGTGTTTTTAAAGAAACTAAGTATAATATTC-AGAA
1 GTTTATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTA-AA
* * * * * *
2367545 GATTCTT-AACGATTTTTAAATG-ATCTTTCAAAGAAACTAAGTCTGATTTTC-AGAA
1 GTTTATTGATC-ATTTTTAAATGAAT-TTTGAAAGAAACTAACTCCGATTTTCTA-AA
* * * * *
2367600 GTTTCTTGATGATTTTT--A--AA----GAAACAAAGT-A-T--GATTTTCAAAA
1 GTTTATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTAAA
* * * ** * * **
2367643 GTCTCTTGATAAATTTTTAAATGAGCTTTCAAAGAAACTAAGTATGA-TTT-TAGAA
1 GTTTATTGAT-CATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTA-AA
* * * * * * * *
2367698 GTTTCTTGGTGATTTTTAAATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAAAA
1 GTTTATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTAAA
* * * * * * *
2367753 GTTTCTTGA-CGATTTTCAAATGAGATTTT-AAAGAAATTAAGTCTGCTTTTCAAAA
1 GTTTATTGATC-ATTTTTAAATGA-ATTTTGAAAGAAACTAACTCCGATTTTCTAAA
* * * * * * *
2367808 GTGTCTTGA-CGATTTTTAAATGAGTTTTCAAAGAAGCTAAGTCTGATTTTC-AGAA
1 GTTTATTGATC-ATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTA-AA
* * * * * * *
2367863 GTTTCTTAATGATTTTTAAATGAGTTTAT-AAAGAAACTAAGTCTGATTTTCAAAA
1 GTTTATTGATCATTTTTAAATGAATTT-TGAAAGAAACTAACTCCGATTTTCTAAA
* * * * * *
2367918 GTTTCTTGA-CGATTTTCAAATGAGTTTTTAAAGAAACTAAGTCTGATTTTC-AGAA
1 GTTTATTGATC-ATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTA-AA
* * ** * * *
2367973 GTTTCA-TGATGATTTTTAAACGAGCTTTCAAATAAACTAAGTCCGATTTTC
1 GTTT-ATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTC
2368024 AAGAGGTTTC
Statistics
Matches: 484, Mismatches: 70, Indels: 69
0.78 0.11 0.11
Matches are distributed among these distances:
43 18 0.04
44 7 0.01
45 1 0.00
46 2 0.00
47 7 0.01
48 1 0.00
52 8 0.02
53 2 0.00
54 52 0.11
55 376 0.78
56 10 0.02
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (55 bp):
GTTTATTGATCATTTTTAAATGAATTTTGAAAGAAACTAACTCCGATTTTCTAAA
Found at i:2367456 original size:55 final size:55
Alignment explanation
Indices: 2367357--2367619 Score: 280
Period size: 55 Copynumber: 4.8 Consensus size: 55
2367347 CGATTTTTTT
* * ** * * * *
2367357 AGAAACTAAGCCTAATTTTCAGGGGTTTATTGA-CATTTTTAAATGAATTTTGAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
* * * * *
2367411 AGAAGCTAACTCCGATTTTCTA-AAGTTTCTTGATTATTTTTAAATGAGTTTTTAA
1 AGAAACTAAGTCTGATTTTC-AGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
* * * *
2367466 AGAAACTAAGTTTGATTTTCAGAAGTTTCTTGATGATTTTCAAATGTGTTTTTAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
* * * * * *
2367521 AGAAACTAAGTATAATATTCAGAAGATTCTTAACGATTTTTAAATGA-TCTTTCAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGT-TTTCAA
2367576 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAA
2367620 GAAACAAAGT
Statistics
Matches: 172, Mismatches: 33, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
54 25 0.15
55 147 0.85
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (55 bp):
AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
Found at i:2367635 original size:43 final size:43
Alignment explanation
Indices: 2367564--2367663 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
2367554 CGATTTTTAA
* * * * *
2367564 ATGATCTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTG
1 ATGAT-TTTTAAAGAAACAAAGTATGATTTTCAAAAGTCTCTTG
2367608 ATGATTTTTAAAGAAACAAAGTATGATTTTCAAAAGTCTCTTG
1 ATGATTTTTAAAGAAACAAAGTATGATTTTCAAAAGTCTCTTG
*
2367651 ATAAATTTTTAAA
1 AT-GATTTTTAAA
2367664 TGAGCTTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 35 0.71
44 14 0.29
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (43 bp):
ATGATTTTTAAAGAAACAAAGTATGATTTTCAAAAGTCTCTTG
Found at i:2367712 original size:98 final size:98
Alignment explanation
Indices: 2367514--2367717 Score: 288
Period size: 98 Copynumber: 2.1 Consensus size: 98
2367504 TTCAAATGTG
* * * *
2367514 TTTTTAAAGAAACTAAGTATAATATTCAGAAGATTCTTAACGATTTTTAAATGATCTTTCAAAGA
1 TTTTTAAAGAAACAAAGTATAATATTCAAAAGATTCTTAACAATTTTTAAATGAGCTTTCAAAGA
*
2367579 AACTAAGTCTGATTTTCAGAAGTTTCTTGATGA
66 AACTAAGTATGATTTTCAGAAGTTTCTTGATGA
* *
2367612 TTTTTAAAGAAACAAAGTATGATTTTCAAAAG-TCTCTTGATA-AATTTTTAAATGAGCTTTCAA
1 TTTTTAAAGAAACAAAGTATAATATTCAAAAGAT-TCTT-A-ACAATTTTTAAATGAGCTTTCAA
*
2367675 AGAAACTAAGTATGATTTT-AGAAGTTTCTTGGTGA
63 AGAAACTAAGTATGATTTTCAGAAGTTTCTTGATGA
2367710 TTTTTAAA
1 TTTTTAAA
2367718 TGAGTTTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
97 1 0.01
98 55 0.58
99 38 0.40
100 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (98 bp):
TTTTTAAAGAAACAAAGTATAATATTCAAAAGATTCTTAACAATTTTTAAATGAGCTTTCAAAGA
AACTAAGTATGATTTTCAGAAGTTTCTTGATGA
Found at i:2367782 original size:55 final size:54
Alignment explanation
Indices: 2367608--2368123 Score: 523
Period size: 55 Copynumber: 9.6 Consensus size: 54
2367598 AAGTTTCTTG
* * * * **
2367608 ATGATTTTTAAAGAAACAAAGTATGATTTTCAAAAGTCTCTTGATAAATTTTTAA
1 ATGAGTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGA-CGATTTTTAA
* * * **
2367663 ATGAGCTTTCAAAGAAACTAAGTATGATTTT-AGAAGTTTCTTGGTGATTTTTAA
1 ATGAG-TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
*
2367717 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAA
1 ATGAG-TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
* * *
2367772 ATGAGATTTTAAAGAAATTAAGTCTGCTTTTCAAAAGTGTCTTGACGATTTTTAA
1 ATGAG-TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
* * * *
2367827 ATGAGTTTTCAAAGAAGCTAAGTCTGATTTTCAGAAGTTTCTTAATGATTTTTAA
1 ATGAGTTTT-AAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
*
2367882 ATGAGTTTATAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAA
1 ATGAGTTT-TAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
* * *
2367937 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTTAA
1 ATGAG-TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
* * * * * **
2367992 ACGAGCTTTCAAATAAACTAAGTCCGATTTTCAAGAGGTTTCTTGAC-ATGATT-A
1 ATGAG-TTTTAAAGAAACTAAGTCTGATTTTCAA-AAGTTTCTTGACGATTTTTAA
* * * * * **
2368046 AT---TTTTAAAGAAGCTAAGCCCGATTTTCAGAGGTTTCTTGAC-ATGATT-A
1 ATGAGTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
* *
2368095 AT---TTTTAAAGAAGCTAAGCCTGATTTTCA
1 ATGAGTTTTAAAGAAACTAAGTCTGATTTTCA
2368124 TGGGTTTCTT
Statistics
Matches: 401, Mismatches: 54, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
49 47 0.12
50 23 0.06
54 42 0.10
55 253 0.63
56 36 0.09
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (54 bp):
ATGAGTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTTAA
Found at i:2367865 original size:165 final size:165
Alignment explanation
Indices: 2367613--2368037 Score: 627
Period size: 165 Copynumber: 2.6 Consensus size: 165
2367603 TCTTGATGAT
* * *
2367613 TTTTAAAGAAACAAAGTATGATTTTCAAAAGTCTCTTGATAAATTTTTAAATGAGCTTTCAAAGA
1 TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTCTCTTGA-AGATTTTTAAATGAGCTTTCAAAGA
* * *
2367678 AACTAAGTATGATTTT-AGAAGTTTCTTGGTGATTTTTAAATGAGTTTTTAAAGAAACTAAGTCT
65 AACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTATAAAGAAACTAAGTCT
2367742 GATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGA
130 GATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGA
* * * * *
2367778 TTTTAAAGAAATTAAGTCTGCTTTTCAAAAGTGTCTTGACGATTTTTAAATGAGTTTTCAAAGAA
1 TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTCTCTTGAAGATTTTTAAATGAGCTTTCAAAGAA
* *
2367843 GCTAAGTCTGATTTTCAGAAGTTTCTTAATGATTTTTAAATGAGTTTATAAAGAAACTAAGTCTG
66 ACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTATAAAGAAACTAAGTCTG
*
2367908 ATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGT
131 ATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGA
* * * * * *
2367943 TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTTAAACGAGCTTTCAAATAA
1 TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTCTCTTGAAGATTTTTAAATGAGCTTTCAAAGAA
* *
2368008 ACTAAGTCCGATTTTCAAGAGGTTTCTTGA
66 ACTAAGTCTGATTTTC-AGAAGTTTCTTGA
2368038 CATGATTAAT
Statistics
Matches: 231, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
164 36 0.16
165 184 0.80
166 11 0.05
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (165 bp):
TTTTAAAGAAACTAAGTCTGATTTTCAAAAGTCTCTTGAAGATTTTTAAATGAGCTTTCAAAGAA
ACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTATAAAGAAACTAAGTCTG
ATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGA
Found at i:2368070 original size:50 final size:50
Alignment explanation
Indices: 2368009--2368135 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 50
2367999 TTCAAATAAA
*
2368009 CTAAGTCCGATTTTCAAGAGGTTTCTTGACATGATTAATTTTTAAAGAAG
1 CTAAGCCCGATTTTCAAGAGGTTTCTTGACATGATTAATTTTTAAAGAAG
2368059 CTAAGCCCGATTTTC-AGAGGTTTCTTGACATGATTAATTTTTAAAGAAG
1 CTAAGCCCGATTTTCAAGAGGTTTCTTGACATGATTAATTTTTAAAGAAG
* *
2368108 CTAAGCCTGATTTTCATG-GGTTTCTTGA
1 CTAAGCCCGATTTTCAAGAGGTTTCTTGA
2368136 TGATTATTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 58 0.79
50 15 0.21
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (50 bp):
CTAAGCCCGATTTTCAAGAGGTTTCTTGACATGATTAATTTTTAAAGAAG
Found at i:2368244 original size:58 final size:54
Alignment explanation
Indices: 2368094--2368252 Score: 142
Period size: 57 Copynumber: 2.8 Consensus size: 54
2368084 TGACATGATT
* * * *
2368094 AATTTTTAAAGAAGCTAAGCCTGATTTTCATGGGTTTCTTGATGATTATTTCCAAAG
1 AATTTTT-AAGAAACTAAG-CTGATTTTCAAGGGTTTCTTGATGATAATAT-CAAAG
* * *
2368151 AATTTTTAA-ATAAGCTAAGACTAATTTTTAGGGGTTTCTTGATGATAACTAT-AAACG
1 AATTTTTAAGA-AA-CTAAG-CTGATTTTCAAGGGTTTCTTGATGATAA-TATCAAA-G
2368208 AAAGTTTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATG
1 -AA-TTTTTAAGAAACTAAGC-TGATTTTCAAGGGTTTCTTGATG
2368253 GGTAAGTCCT
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
55 1 0.01
56 6 0.07
57 38 0.45
58 29 0.35
59 9 0.11
60 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
AATTTTTAAGAAACTAAGCTGATTTTCAAGGGTTTCTTGATGATAATATCAAAG
Found at i:2368329 original size:20 final size:20
Alignment explanation
Indices: 2368254--2368330 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
2368244 TTCTTGATGG
* * *
2368254 GTAAGTCCTTCGGGCCATCA
1 GTAAGTCCTTCGAGTCATCT
* *
2368274 GTAAGTCTTTCGAG-CATGAT
1 GTAAGTCCTTCGAGTCAT-CT
*
2368294 GCTTAGATCCTTCGAGTCATCT
1 G-TAAG-TCCTTCGAGTCATCT
*
2368316 GTAAGTCTTTCGAGT
1 GTAAGTCCTTCGAGT
2368331 AAGATGATAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 3 0.07
20 22 0.50
21 6 0.14
22 10 0.23
23 3 0.07
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (20 bp):
GTAAGTCCTTCGAGTCATCT
Found at i:2368798 original size:156 final size:155
Alignment explanation
Indices: 2368561--2368882 Score: 450
Period size: 156 Copynumber: 2.1 Consensus size: 155
2368551 AGCAAGATAA
* * ** * *
2368561 TAAGTCATTTGGGCTATCCATAAGACCTTCGGGGAGGATGTTTTCACATGATTTTCGAAAAATGA
1 TAAGTCATTCGGGCCATCCATAAGACCTTCGGACAAGATGTTTTCACATGATTATCGAAAAATGA
* * *
2368626 GGAAGGGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATTG-TTTTTCTAGAAAAGTAAG
66 GAAAGCGATTTCCAAAGTGTCTCATTTAAATATTTTCTGAAAA-TGATTTTTCTAG-AAAGTAAG
*
2368690 AAAATAATTTCCAAAGTTTCATACTTTG
129 AAAATAATTTCCAAAG-TTCATACTTGG
*
2368718 TAAGTCCTTCGGGCCATCCATAAGACCTTC-GACAAGATGTTTTCACATGATTATCGAAAAATGA
1 TAAGTCATTCGGGCCATCCATAAGACCTTCGGACAAGATGTTTTCACATGATTATCGAAAAATGA
* *
2368782 GAAAGCGATTTCCAAAGTGTCTCATTTAAATCTTTTCTGAAAATGATTTTTCTTGAAAGTAAGAA
66 GAAAGCGATTTCCAAAGTGTCTCATTTAAATATTTTCTGAAAATGATTTTTCTAGAAAGTAAGAA
* * *
2368847 AATGATTTCCAATGTTCTTACTTGG
131 AATAATTTCCAAAGTTCATACTTGG
*
2368872 TAAGTCTTTCG
1 TAAGTCATTCG
2368883 AGCGTGATGC
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
154 19 0.13
155 24 0.16
156 77 0.52
157 27 0.18
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (155 bp):
TAAGTCATTCGGGCCATCCATAAGACCTTCGGACAAGATGTTTTCACATGATTATCGAAAAATGA
GAAAGCGATTTCCAAAGTGTCTCATTTAAATATTTTCTGAAAATGATTTTTCTAGAAAGTAAGAA
AATAATTTCCAAAGTTCATACTTGG
Found at i:2370814 original size:3 final size:3
Alignment explanation
Indices: 2370806--2370859 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
2370796 ACCACTAATT
*
2370806 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2370854 TT- TTA T
1 TTA TTA T
2370860 GTTCAAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2371094 original size:15 final size:14
Alignment explanation
Indices: 2371075--2371117 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2371065 CTATTTTTTT
*
2371075 ATTTCGGTCCTTTA
1 ATTTCAGTCCTTTA
* *
2371089 TCTTTCAGTACTTTA
1 -ATTTCAGTCCTTTA
2371104 ATTTCAGTCCTTTA
1 ATTTCAGTCCTTTA
2371118 GTTATAGCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (14 bp):
ATTTCAGTCCTTTA
Found at i:2376788 original size:54 final size:54
Alignment explanation
Indices: 2376705--2376874 Score: 286
Period size: 54 Copynumber: 3.1 Consensus size: 54
2376695 ATGTGTACTA
* * * * *
2376705 TCGGCACTATGTGTGCAATTCATGAAATTCATAATGAGTTTGTAAACTACTATT
1 TCGGCACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTACCATT
*
2376759 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
1 TCGGCACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTACCATT
2376813 TCGGCACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTACCATT
1 TCGGCACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTACCATT
2376867 TCGGCACT
1 TCGGCACT
2376875 TAGGTGCAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (54 bp):
TCGGCACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTACCATT
Done.