Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 18 of 33
Found at i:2675155 original size:88 final size:87
Alignment explanation
Indices: 2674976--2675176 Score: 298
Period size: 88 Copynumber: 2.3 Consensus size: 87
2674966 TCACCCTTCA
* *
2674976 AAAGTCCACAAGTCAGTGGCA-TATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
* *
2675040 ACAAGTCAGTGGCATCTTTTTC
66 ACAAATCAGTGGCACCTTTTTC
*
2675062 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCC
2675126 CACAAATCAGTGGCACCCTTTTTC
65 CACAAATCAGTGGCA-CCTTTTTC
* * *
2675150 GAAGCCCACAAGTCGGTGGCATCTTTT
1 AAAGCCCACAAGTCAGTGGCATTTTTT
2675177 CCAAAGTCGA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 20 0.19
87 29 0.28
88 55 0.53
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
ACAAATCAGTGGCACCTTTTTC
Found at i:2675189 original size:29 final size:29
Alignment explanation
Indices: 2674976--2675208 Score: 256
Period size: 29 Copynumber: 8.0 Consensus size: 29
2674966 TCACCCTTCA
* *
2674976 AAAGTCCACAAGTCAGTGGCATATTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
2675005 AAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
2675033 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
2675062 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
2675092 AAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
2675120 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
2675150 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
2675179 AAAGTCGACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
2675209 TTTTGTAAGC
Statistics
Matches: 171, Mismatches: 26, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
27 20 0.12
28 29 0.17
29 66 0.39
30 35 0.20
31 21 0.12
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:2675198 original size:117 final size:117
Alignment explanation
Indices: 2674972--2675208 Score: 307
Period size: 117 Copynumber: 2.0 Consensus size: 117
2674962 TTCCTCACCC
* ** *
2674972 TTCAAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAG
1 TTCAAAAGCCCACAAGTCAGTGGCATATCCTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAG
* * * *
2675037 CCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTT
66 CCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGCACTCTTT
* **
2675089 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGA
1 TTCAAAAGCCCACAAGTCAGTGGCATATCCTTCAAAGCCCACAAATCAGTGGCAACC--TTTAAA
* * * *
2675152 AGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCGACAACTCCGTGGCACTCTTT
64 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGCACTCTTT
2675206 TTC
1 TTC
2675209 TTTTGTAAGC
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
115 25 0.24
116 1 0.01
117 77 0.75
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (117 bp):
TTCAAAAGCCCACAAGTCAGTGGCATATCCTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAG
CCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGCACTCTTT
Found at i:2675285 original size:32 final size:31
Alignment explanation
Indices: 2675244--2675380 Score: 177
Period size: 32 Copynumber: 4.4 Consensus size: 31
2675234 ACTCTTTTCT
*
2675244 TCTAAAGCCCACACAAGTTGGTGGCAATCCCC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCCC
* ** *
2675276 TCTAAAGCCCACACAAGGCGGTGGCAGGCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCC
2675307 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCT-AAAGCCCACACAAGTCGGTGGCAACCC-C
* *
2675340 TCTAAAGCCCACACAAGTCAGTGGCAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCC
2675371 TCT-AAGCCCA
1 TCTAAAGCCCA
2675381 ATATCGCTGG
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.08
31 8 0.09
32 74 0.80
33 3 0.03
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.16
Consensus pattern (31 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCC
Found at i:2675348 original size:64 final size:63
Alignment explanation
Indices: 2675242--2675380 Score: 201
Period size: 64 Copynumber: 2.2 Consensus size: 63
2675232 GCACTCTTTT
* *
2675242 CTTCTAAAGCCCACACAAGTTGGTGGCAATCCCCTCTAAAGCCCACACAAGGCGGTGGCAGGC
1 CTTCTAAAGCCCACACAAGTCGGTGGCAATCCCCTCTAAAGCCCACACAAGGCAGTGGCAGGC
* **
2675305 CTTCTCAAAGCCCACACAAGTCGGTGGCAA-CCCTCTCTAAAGCCCACACAAGTCAGTGGCAACC
1 CTTCT-AAAGCCCACACAAGTCGGTGGCAATCCC-CTCTAAAGCCCACACAAGGCAGTGGCAGGC
2675369 CTTCT-AAGCCCA
1 CTTCTAAAGCCCA
2675381 ATATCGCTGG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
62 7 0.10
63 8 0.12
64 54 0.78
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (63 bp):
CTTCTAAAGCCCACACAAGTCGGTGGCAATCCCCTCTAAAGCCCACACAAGGCAGTGGCAGGC
Found at i:2675431 original size:49 final size:49
Alignment explanation
Indices: 2675373--2676194 Score: 598
Period size: 49 Copynumber: 16.8 Consensus size: 49
2675363 GCAACCCTTC
* *
2675373 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2675422 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2675465 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2675514 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
2675557 TAAGTCCAATTATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAA-TATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
2675607 TAAGTCCAATGTAGCTGGCTTTGAATCAGCACATTGGCA-CGT--TC--
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
2675651 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2675699 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
2675742 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
2675794 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * * * *
2675849 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT--CTT
* * * * * * * * ** * *
2675900 T---TCTC-ATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTC-CAAT-AT-AGC--T--GGCC-TTGAATC-AG-CAT--ATTGGCACCTT--CATCTT
* * * *
2675959 TAAGCCCGATATTGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2676008 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
2676051 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TTCATCTT
* * * *
2676102 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA-CTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * *
2676156 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
2676195 TCTTTATCAC
Statistics
Matches: 612, Mismatches: 96, Indels: 124
0.74 0.12 0.15
Matches are distributed among these distances:
43 164 0.27
44 30 0.05
45 4 0.01
46 4 0.01
47 1 0.00
48 6 0.01
49 180 0.29
50 19 0.03
51 45 0.07
52 39 0.06
53 7 0.01
54 36 0.06
55 52 0.08
56 4 0.01
57 2 0.00
58 1 0.00
59 11 0.02
60 1 0.00
61 3 0.00
62 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:2675482 original size:43 final size:43
Alignment explanation
Indices: 2675419--2675785 Score: 437
Period size: 43 Copynumber: 8.1 Consensus size: 43
2675409 GCACCTTCAT
*
2675419 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
2675462 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
2675509 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
2675554 CTTTAAGTCCAATTATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAA-TATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
2675602 ATCTTTAAGTCCAATGTAGCTGGCTTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
2675647 GTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-A---C
*
2675694 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
2675739 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
2675782 CTTT
1 CTTT
2675786 TCCATCTTTA
Statistics
Matches: 279, Mismatches: 26, Indels: 38
0.81 0.08 0.11
Matches are distributed among these distances:
43 130 0.47
44 29 0.10
45 3 0.01
47 2 0.01
48 2 0.01
49 101 0.36
50 12 0.04
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2675530 original size:92 final size:92
Alignment explanation
Indices: 2675368--2675838 Score: 789
Period size: 92 Copynumber: 5.1 Consensus size: 92
2675358 CAGTGGCAAC
*
2675368 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
2675433 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
2675461 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
2675526 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
2675553 CCTTTAAGTCCAATTATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAA-TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
2675618 TAGCTGGCTTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
2675646 CGTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
2675711 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
2675738 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
*
2675803 TGTAGCTGGCCTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
2675833 TCCTTT
1 -CCTTT
2675839 TTCTCATCTT
Statistics
Matches: 357, Mismatches: 16, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
92 216 0.61
93 92 0.26
94 2 0.01
95 42 0.12
96 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2675874 original size:55 final size:52
Alignment explanation
Indices: 2675739--2676183 Score: 212
Period size: 54 Copynumber: 8.6 Consensus size: 52
2675729 ACATTGGCAC
* *
2675739 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* *
2675791 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* * * * * * * *
2675846 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTAT-CACT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTT-TCCA-T
* * * * * * * * * ** *
2675899 TTTCTCA-TCTTCATCTTTAAG-T--CCAATGTAGCTGGC-C-TTGAATCAGCACATTGGCAC
1 CTT-TAAGTC--CA-ATAT-AGCTGGCC-TTGAATC-AGCACATTG-A-CA-C-CTTTTCCAT
* * * * * *
2675956 CTTTAAGCCCGATATTGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* *
2676005 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* *
2676048 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* *
2676099 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC-TTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* * * *
2676153 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
2676184 ACATATTGGC
Statistics
Matches: 293, Mismatches: 65, Indels: 68
0.69 0.15 0.16
Matches are distributed among these distances:
43 40 0.14
45 1 0.00
49 40 0.14
50 6 0.02
51 34 0.12
52 44 0.15
53 10 0.03
54 49 0.17
55 47 0.16
56 13 0.04
57 4 0.01
58 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:2675976 original size:43 final size:43
Alignment explanation
Indices: 2675913--2676094 Score: 247
Period size: 43 Copynumber: 4.1 Consensus size: 43
2675903 TCATCTTCAT
*
2675913 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
2675956 CTTTAAGCCCGATATTGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
2676003 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
2676048 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
2676091 CTTT
1 CTTT
2676095 TCATCTTTAA
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
43 82 0.68
45 1 0.01
47 1 0.01
49 37 0.31
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2675989 original size:309 final size:307
Alignment explanation
Indices: 2675598--2676267 Score: 1241
Period size: 309 Copynumber: 2.2 Consensus size: 307
2675588 ATATTGGCAC
* * * *
2675598 CTTCATCTTTAAGTCCAATGTAGCTGGCTTTGAATCAGCACATTGGCACGTTCAAGTCCAATATC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATC
*
2675663 GCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
2675728 CACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
131 CACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCT
2675793 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAA
195 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC-TTGACATCCTTTTTCTCATCTTTAAGCCCAA
2675858 TATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
259 TATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
* *
2675907 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCGATATT
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATC
*
2675972 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
2676037 CACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTT
131 CACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTT
2676102 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
196 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
2676167 TCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
261 TCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
*
2676214 CTTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
2676268 TCTTTAAGTC
Statistics
Matches: 352, Mismatches: 9, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
307 133 0.38
308 38 0.11
309 181 0.51
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (307 bp):
CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATC
GCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTT
TAAGTTCAATGTAGCTGGCCTTGAATCAGCACTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
TCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
Found at i:2676014 original size:92 final size:92
Alignment explanation
Indices: 2675904--2676133 Score: 397
Period size: 92 Copynumber: 2.5 Consensus size: 92
2675894 TCACTTTTCT
*
2675904 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCGAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAAT
*
2675969 ATTGCTGGCCTTGAATCAGCATATTGG
66 ATAGCTGGCCTTGAATCAGCATATTGG
*
2675996 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAAT
2676061 ATAGCTGGCCTTGAATCAGCATATTGG
66 ATAGCTGGCCTTGAATCAGCATATTGG
* *
2676088 CACCTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 CA--TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
2676134 TTGACATCCT
Statistics
Matches: 131, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 91 0.69
94 40 0.31
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAAT
ATAGCTGGCCTTGAATCAGCATATTGG
Found at i:2676124 original size:51 final size:52
Alignment explanation
Indices: 2676048--2676207 Score: 173
Period size: 51 Copynumber: 3.1 Consensus size: 52
2676038 ACATTGGCAC
2676048 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
* * * * *
2676099 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA-CTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC--TTTATCAT
* * * * * *
2676153 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
2676204 CTTT
1 CTTT
2676208 TCTCATCTTC
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
50 5 0.06
51 38 0.43
52 6 0.07
53 3 0.03
54 32 0.36
55 5 0.06
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
Found at i:2676372 original size:169 final size:172
Alignment explanation
Indices: 2676048--2676432 Score: 460
Period size: 170 Copynumber: 2.2 Consensus size: 172
2676038 ACATTGGCAC
* * * * *
2676048 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTTCAATG
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* *
2676113 TAGCTGGCCTTGAATCAGCACTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGT
66 TAGCTAGCC-TGAATCAGCACTTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGT
* *
2676178 GAATCAACATATTGGCATCTTTATCACT-TTTCTCATCTTCAT
130 GAATCAACATATTGGCATCTTTATCACTCTTTATCATCATCAT
2676220 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** ** * *
2676283 TCGCTAGCC-GCATATTGGCTA-TT-TTATCCTTTTTCTCATCTTTAAACCCAATTTTGTTGGCC
66 TAGCTAGCCTG-A-ATCAGC-ACTTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* * *
2676345 GTGAATCAACGTATTGGTCCT-TTTATCACTCTTTATCCTCATCAT
128 GTGAATCAACATATTGG-CATCTTTATCACTCTTTATCATCATCAT
* * * * *
2676390 CTTTAAGACCAGTGTTGCAGGCCTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
2676433 ATTGCAAAAT
Statistics
Matches: 184, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
168 1 0.01
169 60 0.33
170 78 0.42
171 4 0.02
172 41 0.22
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (172 bp):
CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACTTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTG
AATCAACATATTGGCATCTTTATCACTCTTTATCATCATCAT
Found at i:2676944 original size:23 final size:21
Alignment explanation
Indices: 2676918--2676966 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
2676908 AAATGAAAAA
2676918 ATACATTTGGTCCAAATGTATCG
1 ATACA-TT-GTCCAAATGTATCG
* *
2676941 ATACATTGTTCTAATGTATCG
1 ATACATTGTCCAAATGTATCG
2676962 ATACA
1 ATACA
2676967 AGGTCCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 2 0.08
23 5 0.21
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (21 bp):
ATACATTGTCCAAATGTATCG
Found at i:2677130 original size:13 final size:13
Alignment explanation
Indices: 2677112--2677137 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2677102 ATCACTTAAA
2677112 TGTATCGATACAT
1 TGTATCGATACAT
2677125 TGTATCGATACAT
1 TGTATCGATACAT
2677138 GATCTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2689385 original size:42 final size:42
Alignment explanation
Indices: 2689330--2689448 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2689320 TTCTTCTCTC
*
2689330 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCATGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCATGTCT
* * *
2689372 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCATGTCT
* *
2689414 CTCCTCCTATCATCCCTCCTCTCTCTTTTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCT
2689449 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCATGTCT
Found at i:2691757 original size:42 final size:42
Alignment explanation
Indices: 2691702--2691820 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2691692 TTCTTCTCTC
* *
2691702 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCATGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
2691744 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
2691786 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2691821 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
Found at i:2697884 original size:24 final size:24
Alignment explanation
Indices: 2697857--2697928 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
2697847 CCCTAATAGA
2697857 CTTATTGTGCTAACAAGCCCAATT
1 CTTATTGTGCTAACAAGCCCAATT
*
2697881 CTTA--GT--T-A-AA-CCCTAATGGA
1 CTTATTGTGCTAACAAGCCC-AAT--T
2697901 CTTATTGTGCTAACAAGCCCAATT
1 CTTATTGTGCTAACAAGCCCAATT
2697925 CTTA
1 CTTA
2697929 ATTAAACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 1 0.03
20 5 0.14
22 4 0.11
24 9 0.25
25 1 0.03
26 5 0.14
27 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (24 bp):
CTTATTGTGCTAACAAGCCCAATT
Found at i:2697907 original size:44 final size:44
Alignment explanation
Indices: 2697844--2697936 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
2697834 ACATTAACAC
*
2697844 AAACCCTAATAGACTTATTGTGCTAACAAGCCCAATTCTTAGTT
1 AAACCCTAATAGACTTATTGTGCTAACAAGCCCAATTCTTAATT
*
2697888 AAACCCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATT
1 AAACCCTAATAGACTTATTGTGCTAACAAGCCCAATTCTTAATT
2697932 AAACC
1 AAACC
2697937 AAAATAACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (44 bp):
AAACCCTAATAGACTTATTGTGCTAACAAGCCCAATTCTTAATT
Found at i:2699150 original size:156 final size:157
Alignment explanation
Indices: 2698945--2699317 Score: 518
Period size: 156 Copynumber: 2.4 Consensus size: 157
2698935 AAACACGATC
* * *
2698945 TGATGCTTTGGTTTCATAGGAA-AAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTAATT
1 TGATGCTTTGGTTT--T-GTAAGAAGCTTTTCTTTCCACCATTTTTCTTAGAATCAAAGTTAATC
* * *
2699009 CGTTAATCGAGACAAACATGGATCCTCATGTTAATCACCACTCTATTCTTGATTGGGCACCATAA
63 CATTAACCGAGACAAACATGGATCCTCATGGTAATCACCACTCTATTCTTGATTGGGCACCATAA
*
2699074 ACACTTTTTCC-CATGGGGACACACAATAT
128 ACACATTTTCCTCATGGGGACACACAATAT
* *
2699103 TGATGCTTT-ATGTTTGTAAGAAGCTTTTCTTTCCACCATTTTTCTTAGAATCAAAGTTTATCCA
1 TGATGCTTTGGT-TTTGTAAGAAGCTTTTCTTTCCACCATTTTTCTTAGAATCAAAGTTAATCCA
* * ** * *
2699167 TTAGCCGAGATAAACATGGATTGTCATGGTAATCACCGCTCTATTCTTGTTTGGGCACCATAAAC
65 TTAACCGAGACAAACATGGATCCTCATGGTAATCACCACTCTATTCTTGATTGGGCACCATAAAC
* *
2699232 ACATTTTCCTCATTGGGACACACGATAT
130 ACATTTTCCTCATGGGGACACACAATAT
* *
2699260 TGATGCTTTGGTTTTGTAAGAAGCTTTTCTTTCCCCCATTTTTCCTAGAATCAAAGTT
1 TGATGCTTTGGTTTTGTAAGAAGCTTTTCTTTCCACCATTTTTCTTAGAATCAAAGTT
2699318 CGTCTCTCAA
Statistics
Matches: 191, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
155 3 0.02
156 106 0.55
157 70 0.37
158 12 0.06
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (157 bp):
TGATGCTTTGGTTTTGTAAGAAGCTTTTCTTTCCACCATTTTTCTTAGAATCAAAGTTAATCCAT
TAACCGAGACAAACATGGATCCTCATGGTAATCACCACTCTATTCTTGATTGGGCACCATAAACA
CATTTTCCTCATGGGGACACACAATAT
Found at i:2699357 original size:157 final size:156
Alignment explanation
Indices: 2698967--2699357 Score: 414
Period size: 156 Copynumber: 2.5 Consensus size: 156
2698957 TTCATAGGAA
* * * * * * *
2698967 AAGCTTTTCTTTCCACCA-TTTTCCTTAGAATCAAAGTTAATTCGTTAATCGAGACAAACATGGA
1 AAGCTTTTCTTTCCACCATTTTTCC-TAGAATCAAAGTTCATCCATCAAACAAGATAAACATGGA
*** ** *
2699031 TCCTCATGTTAATCACCACTCTATTCTTGATTGGGCACCATAAACACTTTTTCCCATGGGGACAC
65 TTGACATAATAATCACCACTCTATTCTTGATTGGGCACCATAAACACATTTTCCCATGGGGACAC
2699096 ACAATATTGATGCTTTATGTTTGTAAG
130 ACAATATTGATGCTTTATGTTTGTAAG
* * * ** *
2699123 AAGCTTTTCTTTCCACCATTTTTCTTAGAATCAAAGTTTATCCATTAGCCGAGATAAACATGGAT
1 AAGCTTTTCTTTCCACCATTTTTCCTAGAATCAAAGTTCATCCATCAAACAAGATAAACATGGAT
* ** * * *
2699188 TGTCATGGTAATCACCGCTCTATTCTTGTTTGGGCACCATAAACACATTTTCCTCATTGGGACAC
66 TGACATAATAATCACCACTCTATTCTTGATTGGGCACCATAAACACATTTTCC-CATGGGGACAC
* *
2699253 ACGATATTGATGCTTT-GGTTTTGTAAG
130 ACAATATTGATGCTTTATG-TTTGTAAG
* * * *
2699280 AAGCTTTTCTTTCCCCCATTTTTCCTAGAATCAAAGTTCGTCTC-TCAAATAAGAT-AA-GTGTG
1 AAGCTTTTCTTTCCACCATTTTTCCTAGAATCAAAGTTCATC-CATCAAACAAGATAAACATG-G
2699342 ACTTGACATAATAATC
64 A-TTGACATAATAATC
2699358 TCTATTCTTT
Statistics
Matches: 200, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
155 2 0.01
156 104 0.52
157 93 0.47
158 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (156 bp):
AAGCTTTTCTTTCCACCATTTTTCCTAGAATCAAAGTTCATCCATCAAACAAGATAAACATGGAT
TGACATAATAATCACCACTCTATTCTTGATTGGGCACCATAAACACATTTTCCCATGGGGACACA
CAATATTGATGCTTTATGTTTGTAAG
Found at i:2700805 original size:157 final size:159
Alignment explanation
Indices: 2700614--2701062 Score: 396
Period size: 159 Copynumber: 2.8 Consensus size: 159
2700604 TGATTTTCCA
* * * ** * * *
2700614 CATTTGGATACACAATTTTGATGCTTTGAATTTGCGAG-GAAGCTT-TTC-TTTCTACCATAT-T
1 CATTGGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAAGCTTGATCATTT-TACCAT-TCT
* * * *
2700675 CCTTA-AAACAAAGTTCATCCCTCAAATGAGACAAATAT-GAT-TTGACACAATAATATCCATTA
64 CCTTAGAAACAAAGTTCATCCATCAAATAAAAC-AATATGGATACT--CACAATAATATCCATTA
* *
2700737 TTTTCATGA-TTAGACAACAAAAACAAATATTCCT
126 TTTTCATGACTT-GACAACAAAAACAAAAATGCCT
* **
2700771 CATTGGGATACAGGATATTGATGCTTTGGTTTTGCAAGAAAAGCTTGATCATTTTGGCATTCTCC
1 CATTGGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAAGCTTGATCATTTTACCATTCTCC
* * * * * * * *
2700836 TTAGAATCAATGTTCATCTATCAAATAAAACTATATGGATACTCAGAATAATCTCCATTCTTTTT
66 TTAGAAACAAAGTTCATCCATCAAATAAAACAATATGGATACTCACAATAATATCCATTATTTTC
* *
2700901 GTGACTTGGCAACAAAAACAAAAATGCCT
131 ATGACTTGACAACAAAAACAAAAATGCCT
* *
2700930 CATTGGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAAGCTTGATCATTTT-CACATTCTC
1 CATTGGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAAGCTTGATCATTTTAC-CATTCTC
* * ** * * * * * * * *
2700994 TTTAGAATCATTGCTCATCCAT-AAAAAAAACTATATGGATTCTCATAATAATCTCCTTTTTTTT
65 CTTAGAAACAAAGTTCATCCATCAAATAAAACAATATGGATACTCACAATAATATCCATTATTTT
2701058 CATGA
130 CATGA
2701063 TTGGGCACCA
Statistics
Matches: 241, Mismatches: 42, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
157 31 0.13
158 47 0.20
159 133 0.55
160 29 0.12
161 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (159 bp):
CATTGGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAAGCTTGATCATTTTACCATTCTCC
TTAGAAACAAAGTTCATCCATCAAATAAAACAATATGGATACTCACAATAATATCCATTATTTTC
ATGACTTGACAACAAAAACAAAAATGCCT
Found at i:2700914 original size:159 final size:157
Alignment explanation
Indices: 2700751--2701057 Score: 461
Period size: 159 Copynumber: 1.9 Consensus size: 157
2700741 CATGATTAGA
* * * *
2700751 CAACAAAAACAAATATTCCTCATTGGGATACAGGATATTGATGCTTTGGTTTTGCAAGAAAAGCT
1 CAACAAAAACAAAAATGCCTCATTGGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAAGCT
** * * *
2700816 TGATCATTTTGGCATTCTCCTTAGAATCAATGTTCATCTATCAAATAAAACTATATGGATACTCA
66 TGATCATTTTCACATTCTCCTTAGAATCAATGCTCATCCAT-AAAAAAAACTATATGGATACTCA
2700881 GAATAATCTCCATTCTTTTTGTGACTTGG
130 GAATAATCTCC-TTCTTTTTGTGACTTGG
*
2700910 CAACAAAAACAAAAATGCCTCATTGGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAAGCT
1 CAACAAAAACAAAAATGCCTCATTGGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAAGCT
* * * *
2700975 TGATCATTTTCACATTCTCTTTAGAATCATTGCTCATCCATAAAAAAAACTATATGGATTCTCAT
66 TGATCATTTTCACATTCTCCTTAGAATCAATGCTCATCCATAAAAAAAACTATATGGATACTCAG
*
2701040 AATAATCTCCTTTTTTTT
131 AATAATCTCCTTCTTTTT
2701058 CATGATTGGG
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
157 7 0.05
158 31 0.23
159 95 0.71
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (157 bp):
CAACAAAAACAAAAATGCCTCATTGGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAAGCT
TGATCATTTTCACATTCTCCTTAGAATCAATGCTCATCCATAAAAAAAACTATATGGATACTCAG
AATAATCTCCTTCTTTTTGTGACTTGG
Found at i:2704820 original size:21 final size:20
Alignment explanation
Indices: 2704796--2704845 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
2704786 GAAACTCAAT
*
2704796 GAAAAAAGAGAGAAAAAGAAA
1 GAAAAAAAAGAG-AAAAGAAA
2704817 GAAAAAAAAGAGAAAAGAAA
1 GAAAAAAAAGAGAAAAGAAA
2704837 GAAAGAAAA
1 GAAA-AAAA
2704846 TAAGGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
GAAAAAAAAGAGAAAAGAAA
Found at i:2704832 original size:20 final size:21
Alignment explanation
Indices: 2704796--2704845 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
2704786 GAAACTCAAT
*
2704796 GAAAAAAGAGAGAAAAAGAAA
1 GAAAAAAAAGAGAAAAAGAAA
2704817 GAAAAAAAAGAG-AAAAGAAA
1 GAAAAAAAAGAGAAAAAGAAA
*
2704837 GAAAGAAAA
1 GAAAAAAAA
2704846 TAAGGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAGAGAAAAAGAAA
Found at i:2704837 original size:11 final size:10
Alignment explanation
Indices: 2704798--2704840 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
2704788 AACTCAATGA
*
2704798 AAAAAGAGAG
1 AAAAAGAAAG
2704808 AAAAAGAAAG
1 AAAAAGAAAG
2704818 AAAAA-AAAG
1 AAAAAGAAAG
2704827 AGAAAAGAAAG
1 A-AAAAGAAAG
2704838 AAA
1 AAA
2704841 GAAAATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 5 0.17
10 20 0.67
11 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:2704837 original size:24 final size:23
Alignment explanation
Indices: 2704797--2704866 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
2704787 AAACTCAATG
*
2704797 AAAAAAGAGAGAAAAAGAAAGAA
1 AAAAAAGAGAAAAAAAGAAAGAA
2704820 AAAAAAGAGAAAAGAAAGAAAG-A
1 AAAAAAGAGAAAA-AAAGAAAGAA
* * *
2704843 AAATAAG-GAAAAATAGAAACAA
1 AAAAAAGAGAAAAAAAGAAAGAA
2704865 AA
1 AA
2704867 TGCTTGAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.15
22 8 0.20
23 19 0.46
24 8 0.20
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAAGAAAGAA
Found at i:2704860 original size:21 final size:21
Alignment explanation
Indices: 2704796--2704867 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
2704786 GAAACTCAAT
2704796 GAAAA-AAGAGAGAAAAAGAAA
1 GAAAATAAGAGA-AAAAAGAAA
*
2704817 GAAAAAAAAGAGAAAAGAAAGAAA
1 G-AAAATAAGAG-AAA-AAAGAAA
2704841 GAAAATAAG-GAAAAATAGAAA
1 GAAAATAAGAGAAAAA-AGAAA
*
2704862 CAAAAT
1 GAAAAT
2704868 GCTTGAGTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
20 2 0.05
21 14 0.32
22 5 0.11
23 14 0.32
24 9 0.20
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.04
Consensus pattern (21 bp):
GAAAATAAGAGAAAAAAGAAA
Found at i:2708136 original size:20 final size:22
Alignment explanation
Indices: 2708113--2708153 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
2708103 AAGCAATATA
2708113 TATCGATAC-TTCT-GGGTTTG
1 TATCGATACTTTCTAGGGTTTG
2708133 TATCGATACTTTCTAGGGTTT
1 TATCGATACTTTCTAGGGTTT
2708154 TAACCTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (22 bp):
TATCGATACTTTCTAGGGTTTG
Found at i:2709094 original size:97 final size:98
Alignment explanation
Indices: 2708897--2709142 Score: 334
Period size: 97 Copynumber: 2.5 Consensus size: 98
2708887 TTTTTGATTG
* * ** *
2708897 AAAAACAGGGTTGGAGTATCCCCTT-GGAAGAATGGGGTTGGAGTGTCTTCGATGATGACAATTT
1 AAAAACGGGGTTGGAGTAT-CCCTTCGGAAGAATGGGGTTGGAGTATCCCCAATGATGACAATTT
*
2708961 TAAGCAAAAATAAGATTTAAATCGTGACAAGTTT
65 TAAGCAAAAACAAGATTTAAATCGTGACAAGTTT
* * **
2708995 AAAAATGGGGTTGGAGTGTCCCTTCGGAAGAATTAGGTTGGAGTATCCCCAATGATGACAA-TTT
1 AAAAACGGGGTTGGAGTATCCCTTCGGAAGAATGGGGTTGGAGTATCCCCAATGATGACAATTTT
* *
2709059 AGGCAAAAACAAGATTTAAATCTTGACAAGTTT
66 AAGCAAAAACAAGATTTAAATCGTGACAAGTTT
* * *
2709092 AAAAACGAGGTTGGAATATCCCCTCGGAAGAATGGGGTTGGAGTATCCCCA
1 AAAAACGGGGTTGGAGTATCCCTTCGGAAGAATGGGGTTGGAGTATCCCCA
2709143 CGAATAAAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
97 82 0.64
98 46 0.36
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (98 bp):
AAAAACGGGGTTGGAGTATCCCTTCGGAAGAATGGGGTTGGAGTATCCCCAATGATGACAATTTT
AAGCAAAAACAAGATTTAAATCGTGACAAGTTT
Found at i:2711478 original size:20 final size:21
Alignment explanation
Indices: 2711454--2711506 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2711444 ATTTCAAGCA
*
2711454 CGTATCGATACATT-CACTTAT
1 CGTATTGATACATTAC-CTTAT
*
2711475 -GTATTGACACATTACCTTAT
1 CGTATTGATACATTACCTTAT
2711495 CGTATTGATACA
1 CGTATTGATACA
2711507 AATTATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (21 bp):
CGTATTGATACATTACCTTAT
Found at i:2722496 original size:29 final size:29
Alignment explanation
Indices: 2722446--2722510 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
2722436 TCTTGAGAGT
* *
2722446 TTCTTCACTTTGTAAGACCTTTTTCTTTG
1 TTCTTTACTTTGTAAGAACTTTTTCTTTG
*
2722475 TTCTTTACTTTGTGAGAACTTTTTCTTTG
1 TTCTTTACTTTGTAAGAACTTTTTCTTTG
2722504 TTCTTTA
1 TTCTTTA
2722511 AACAATAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (29 bp):
TTCTTTACTTTGTAAGAACTTTTTCTTTG
Found at i:2724294 original size:28 final size:27
Alignment explanation
Indices: 2724262--2724349 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 27
2724252 TATTCCTTCA
2724262 TTGATTTCTCTTCCTTTGATATTTCTT-
1 TTGATTTCT-TTCCTTTGATATTTCTTG
*
2724289 TCTGATTTTGTTTCCCTTT-ATATTTCTTG
1 T-TGA-TTTCTTT-CCTTTGATATTTCTTG
* *
2724318 TTGATTTCATTTCC-TTGATCTTTCTTA
1 TTGATTTC-TTTCCTTTGATATTTCTTG
2724345 TTGAT
1 TTGAT
2724350 CTTACTAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
26 2 0.04
27 19 0.37
28 20 0.39
29 10 0.20
ACGTcount: A:0.12, C:0.17, G:0.09, T:0.61
Consensus pattern (27 bp):
TTGATTTCTTTCCTTTGATATTTCTTG
Found at i:2725304 original size:112 final size:112
Alignment explanation
Indices: 2725073--2725309 Score: 316
Period size: 112 Copynumber: 2.1 Consensus size: 112
2725063 ATATGAAGGC
* * * **
2725073 TTGGTATTGATACCCAAGGTGTGGTATCGATATCTAGTGTGATTGTACCGATACAAGCCTTGGTG
1 TTGGTATCGATACCCAAGGTGTGGTATCAATATCTAGTGTGATTGTACCGATACAAGCCTTAGCA
* * * * *
2725138 GTAGCTAAAATTTGACTTTTGGATAGCAAGTATCGATACATGAAGAC
66 GTACCTAAAATTCGACTTTTGGACAGCAAGTATCGATACATCAAGAA
** *
2725185 TTGGTATCGATACCCAAGGTGTGGTATCAATATCTAGTGTGATTGTATTGATACATGGCCTTAGC
1 TTGGTATCGATACCCAAGGTGTGGTATCAATATCTAGTGTGATTGTACCGATACA-AGCCTTAGC
*
2725250 AGTACCTAAAATTCGATTTTTGGACAGCAAGTATCGATAC-TCAAGTAA
65 AGTACCTAAAATTCGACTTTTGGACAGCAAGTATCGATACATCAAG-AA
2725298 TT-GTATCGATAC
1 TTGGTATCGATAC
2725310 ATTATGGAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
112 65 0.60
113 44 0.40
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (112 bp):
TTGGTATCGATACCCAAGGTGTGGTATCAATATCTAGTGTGATTGTACCGATACAAGCCTTAGCA
GTACCTAAAATTCGACTTTTGGACAGCAAGTATCGATACATCAAGAA
Found at i:2731244 original size:175 final size:174
Alignment explanation
Indices: 2730954--2731303 Score: 443
Period size: 175 Copynumber: 2.0 Consensus size: 174
2730944 TTTAAACAAG
* * *
2730954 AACTCAATCTGACCTTATCAAGGCAACTTGTGGTGATCAAGATTCTTATAACTTTGGTTAGAATC
1 AACTCAACCTGACCTTATCAAGGCAACTTGTGGTGATAAAGATTCTTATAACTTTGGTCAGAATC
* ** * *
2731019 AACAGGTTTGATTAGGGCCAAGTTCTCTTTGGTTGATTTTGAAGATGATTCTAAGGG-TCTAATT
66 AACAGGTTTGATTAGAGCCAAGTTCTCTTTACTTGATTTTGAAAATGATTCT-AGGGTTCTAACT
* * * *
2731083 CCATCCAATCGGGTTTTAGTTTGTTTTCAGCATAAGGTTCGCATT
130 CCATCCAATCGAGATTTAGATTGTTTTCAACATAAGGTTCGCATT
* * * * **
2731128 AACTCAACCTGACCTTATCAAGGCTACTTTTGGTGATAAAGATTTTTTCTAACTTTGGTCCTAAT
1 AACTCAACCTGACCTTATCAAGGCAACTTGTGGTGATAAAGA-TTCTTATAACTTTGGTCAGAAT
* * *
2731193 CAGCTA-GTTTGATTAGAGTCAAGTTTTCTTTACTTGATTTTGAAAATGATTCTAGGGTTCTAAC
65 CAAC-AGGTTTGATTAGAGCCAAGTTCTCTTTACTTGATTTTGAAAATGATTCTAGGGTTCTAAC
* * *
2731257 TCCATCTAATTGAGATTTAGATTGTTTTCAACCTAAGGTTCGCATT
129 TCCATCCAATCGAGATTTAGATTGTTTTCAACATAAGGTTCGCATT
2731303 A
1 A
2731304 TTTTTTCACT
Statistics
Matches: 149, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
174 42 0.28
175 106 0.71
176 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (174 bp):
AACTCAACCTGACCTTATCAAGGCAACTTGTGGTGATAAAGATTCTTATAACTTTGGTCAGAATC
AACAGGTTTGATTAGAGCCAAGTTCTCTTTACTTGATTTTGAAAATGATTCTAGGGTTCTAACTC
CATCCAATCGAGATTTAGATTGTTTTCAACATAAGGTTCGCATT
Found at i:2733605 original size:166 final size:164
Alignment explanation
Indices: 2733275--2733686 Score: 465
Period size: 166 Copynumber: 2.5 Consensus size: 164
2733265 TTTTAATTTC
* * * *
2733275 AAAATTTCTTAAATATTATCATTTAA-TCAAAATTAAATCAGTTTTGAAAAATTCATTCATTTT-
1 AAAATTTATCAAATATTATTATTTAATTC-AAATTAAATCAGTTTTGAAAAATTCATTTATTTTC
* * * * * *
2733338 TTAAGTTTTTCATTTTTTTCTTGAAATTCTCCAGTTTCGAAAAATGAAGTTTTCTGCTCCGTAAA
65 ATGAGTTTTTC-TTTTTTTCTTGAAATCCCCCAGTTTCGAAAAACGAAGTTTTCTACTCCGTAAA
***
2733403 TGTTTTCGGAGGAATTTTCCTTGGTTTTTGATTTTT
129 TGTTTTCGGAGGAATTTTCCTTGGTTTAAAATTTTT
* * * **
2733439 AAAATTTATCAAATATTATTATTTAATTCATAGTAAATTAGTTTCAAAAAATTCATTTATTTTCA
1 AAAATTTATCAAATATTATTATTTAATTCAAATTAAATCAGTTTTGAAAAATTCATTTATTTTCA
*
2733504 TGAGTTTTTCTTTTTTTCTTTGAAATCCCCCTATTTTCGAAAAACCG-AGTTTTCTACTCCGTAA
66 TGAGTTTTTCTTTTTTTC-TTGAAATCCCCC-AGTTTCGAAAAA-CGAAGTTTTCTACTCCGTAA
* *
2733568 ATGTTTTCAGG-GGGATTTTTCTTGGTTTAAAATTTTT
128 ATGTTTTC-GGAGGAATTTTCCTTGGTTTAAAATTTTT
* * * * *
2733605 AAAATTCATCTAATATTATTATTAAATTCACATTAAATCAGTTTTGAAAAATTCAAATT-TTTTC
1 AAAATTTATCAAATATTATTATTTAATTCAAATTAAATCAGTTTTGAAAAATTC-ATTTATTTTC
* **
2733669 ATGAATTTTGATTTTTTT
65 ATGAGTTTTTCTTTTTTT
2733687 TATATATTAA
Statistics
Matches: 208, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
164 59 0.28
165 21 0.10
166 122 0.59
167 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.48
Consensus pattern (164 bp):
AAAATTTATCAAATATTATTATTTAATTCAAATTAAATCAGTTTTGAAAAATTCATTTATTTTCA
TGAGTTTTTCTTTTTTTCTTGAAATCCCCCAGTTTCGAAAAACGAAGTTTTCTACTCCGTAAATG
TTTTCGGAGGAATTTTCCTTGGTTTAAAATTTTT
Found at i:2734160 original size:11 final size:11
Alignment explanation
Indices: 2734144--2734180 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
2734134 GAAACTCAGT
2734144 GAAAAAAGAGA
1 GAAAAAAGAGA
*
2734155 GAAAAAAGAAA
1 GAAAAAAGAGA
2734166 GAAAAAA-AGA
1 GAAAAAAGAGA
2734176 GAAAA
1 GAAAA
2734181 GAAAGAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAGA
Found at i:2734182 original size:19 final size:20
Alignment explanation
Indices: 2734144--2734193 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 20
2734134 GAAACTCAGT
2734144 GAAAAAAGAGAGAAAAAAGAAA
1 GAAAAAA-AGAG-AAAAAGAAA
2734166 GAAAAAAAGAG-AAAAGAAA
1 GAAAAAAAGAGAAAAAGAAA
2734185 GAAAGAAAA
1 GAAA-AAAA
2734194 TAAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.44
20 4 0.15
21 4 0.15
22 7 0.26
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
GAAAAAAAGAGAAAAAGAAA
Found at i:2734203 original size:23 final size:23
Alignment explanation
Indices: 2734145--2734202 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
2734135 AAACTCAGTG
2734145 AAAAAAGAGAGAAA-AAAGAAAGA
1 AAAAAAGAGA-AAAGAAAGAAAGA
2734168 AAAAAAGAGAAAAGAAAGAAAGA
1 AAAAAAGAGAAAAGAAAGAAAGA
*
2734191 AAATAAG-GAAAA
1 AAAAAAGAGAAAA
2734203 ATAAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 8 0.24
23 25 0.76
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (23 bp):
AAAAAAGAGAAAAGAAAGAAAGA
Found at i:2749122 original size:58 final size:58
Alignment explanation
Indices: 2749020--2749136 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 58
2749010 GAAGAATAAA
** * * *
2749020 GCTTGGAGCCCAATTCGTATGTCCAAGAAAAGTGAAGCCTAATTTGCATGTATTCATG
1 GCTTGGAGCCCAATTCACATATCCAAGAAAAGTGAAGCCCAATTTGCATATATTCATG
* * *
2749078 GCTTGGAGCTCAATTCACATATCCAAGAAGAGTTG-AGCCCAATTTGCATATATTTATG
1 GCTTGGAGCCCAATTCACATATCCAAGAAAAG-TGAAGCCCAATTTGCATATATTCATG
2749136 G
1 G
2749137 GCCTATTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
58 48 0.96
59 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (58 bp):
GCTTGGAGCCCAATTCACATATCCAAGAAAAGTGAAGCCCAATTTGCATATATTCATG
Found at i:2749893 original size:11 final size:10
Alignment explanation
Indices: 2749867--2749892 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2749857 TTCCATCTTC
2749867 AAAAAAGAAA
1 AAAAAAGAAA
2749877 AAAAAAGAAA
1 AAAAAAGAAA
2749887 AAAAAA
1 AAAAAA
2749893 AAGATAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:2756326 original size:42 final size:42
Alignment explanation
Indices: 2756271--2756389 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2756261 TTCTTCTCTC
* *
2756271 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2756313 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2756355 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2756390 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2756330 original size:12 final size:11
Alignment explanation
Indices: 2756304--2756379 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2756294 TCTATTATCT
*
2756304 CTCCTGTCTCTC
1 CTCCTATCTC-C
2756316 CTCCTATCATCC
1 CTCCTATC-TCC
2756328 CTCCTATCT--
1 CTCCTATCTCC
*
2756337 CTACTATCT--
1 CTCCTATCTCC
*
2756346 CTCCTGTCTCTC
1 CTCCTATCTC-C
2756358 CTCCTATCATCC
1 CTCCTATC-TCC
*
2756370 CTCCTCTCTC
1 CTCCTATCTC
2756380 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2756331 original size:24 final size:24
Alignment explanation
Indices: 2756295--2756380 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2756285 CCTCCTCTCT
* *
2756295 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2756319 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2756340 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2756361 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2756381 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2756355 original size:18 final size:18
Alignment explanation
Indices: 2756286--2756356 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2756276 CCTGTCATCC
* *
2756286 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
2756304 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
2756326 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
2756346 CTCCTGTCTCT
1 CTCCTGTCTCT
2756357 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:2759928 original size:12 final size:12
Alignment explanation
Indices: 2759911--2759969 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
2759901 AAGAAGAGAG
2759911 AGGAGGGATGAT
1 AGGAGGGATGAT
*
2759923 AGGAGGAGA-GAC
1 AGGAGG-GATGAT
*
2759935 AGGAGAGATGAT
1 AGGAGGGATGAT
*
2759947 AGGAGTAGA-GAT
1 AGGAG-GGATGAT
2759959 AGGAGGG-TGAT
1 AGGAGGGATGAT
2759970 GACAACCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.15
12 28 0.72
13 5 0.13
ACGTcount: A:0.37, C:0.02, G:0.47, T:0.14
Consensus pattern (12 bp):
AGGAGGGATGAT
Found at i:2759938 original size:24 final size:24
Alignment explanation
Indices: 2759905--2759969 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
2759895 AAGAGAAAGA
*
2759905 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2759929 AGAGACAGGAGAGATGATAGGAGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2759953 AGAGATAGGAGGG-TGAT
1 AGAGACAGGAGGGATGAT
2759970 GACAACCATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 4 0.11
24 32 0.89
ACGTcount: A:0.38, C:0.02, G:0.48, T:0.12
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2772124 original size:146 final size:148
Alignment explanation
Indices: 2771745--2772145 Score: 469
Period size: 154 Copynumber: 2.7 Consensus size: 148
2771735 AAAATAAACG
* * **
2771745 AAAATGCCCCTA-GAGGATACATTCGACGTAGAAGTGCCCAATACCCCTAAAGGACTTAAAAAGG
1 AAAATGCCCCTAGGA-GATACTTTCGACGTAGAAGTACCTGATACCCCTAAAGGAC-TAAAAAGG
* * *
2771809 ATGTGGATGGGGTGAACCTATCCTAAATGCCCACCTTTAGCATAAAAGCGGACCTGGTGATAACC
64 ATGTGGATGGCGTGAACCTATCCTAAATGCCCACCTTCAG-AT--AA--GGACCTAGTGATAACC
* *
2771874 TAGGACTTGATTCTAAAAAATTACA
124 TAAGACTAGATTCTAAAAAATTACA
* * *
2771899 AAATTACCCCTAAGG-GATACTTTCGACATAGAAGTA-CTCGATACCCCTAAAGGACTAAAAAAG
1 AAAATGCCCCT-AGGAGATACTTTCGACGTAGAAGTACCT-GATACCCCTAAAGGACT-AAAAAG
*
2771962 GATGTGGATGGCGTGAATCTATCCTAAATGCCCACCTTCAG-T-A-GACCTAGTGATAACCTAAG
63 GATGTGGATGGCGTGAACCTATCCTAAATGCCCACCTTCAGATAAGGACCTAGTGATAACCTAAG
2772024 ACTA-AGTTCTGAAACAAA-TACA
128 ACTAGA-TTCT-AAA-AAATTACA
*
2772046 AAAATGCCCCTAGGAGATACTTTCGACGCAGAAGTACCTGATA-CCCTAAAGGACTAAAATAGGA
1 AAAATGCCCCTAGGAGATACTTTCGACGTAGAAGTACCTGATACCCCTAAAGGACTAAAA-AGGA
* *
2772110 TGTGGATAGTGTGAACCTATCCTAAATGCCCACCTT
65 TGTGGATGGCGTGAACCTATCCTAAATGCCCACCTT
2772146 TGGCATAAAA
Statistics
Matches: 217, Mismatches: 20, Indels: 28
0.82 0.08 0.11
Matches are distributed among these distances:
145 5 0.02
146 76 0.35
147 39 0.18
148 5 0.02
149 1 0.00
152 1 0.00
153 2 0.01
154 86 0.40
155 1 0.00
156 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (148 bp):
AAAATGCCCCTAGGAGATACTTTCGACGTAGAAGTACCTGATACCCCTAAAGGACTAAAAAGGAT
GTGGATGGCGTGAACCTATCCTAAATGCCCACCTTCAGATAAGGACCTAGTGATAACCTAAGACT
AGATTCTAAAAAATTACA
Found at i:2772288 original size:116 final size:117
Alignment explanation
Indices: 2772090--2772303 Score: 317
Period size: 116 Copynumber: 1.8 Consensus size: 117
2772080 TACCTGATAC
* * *
2772090 CCTAAAGGACTAAAATAGGATGTGGATAGTGTGAACCTATCCTAAATGCCCACCTTTGGCATAAA
1 CCTAAAGGACTAAAAAAGGATGCGGATAGTGTGAACCTATCCTAAATGCCCACCTTCGGCATAAA
*
2772155 AGCGGACCCAATAATAACCTAGGACTCGGTTCTCGTAAAAGTATTTGATATG
66 AGCGAACCCAATAATAACCTAGGACTCGGTTCTCGTAAAAGTATTTGATATG
2772207 CCTAAAGGACTAAAAAAGGATGCGGA-AG-GCATGAACCTATCCT-AATGCCCACCTTCGGCATA
1 CCTAAAGGACTAAAAAAGGATGCGGATAGTG--TGAACCTATCCTAAATGCCCACCTTCGGCATA
* ** *
2772269 AAAGTGAACCCGGTGATAACCTAGGACTCGGTTCT
64 AAAGCGAACCCAATAATAACCTAGGACTCGGTTCT
2772304 AAAAAAATAA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 1 0.01
116 50 0.57
117 36 0.41
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (117 bp):
CCTAAAGGACTAAAAAAGGATGCGGATAGTGTGAACCTATCCTAAATGCCCACCTTCGGCATAAA
AGCGAACCCAATAATAACCTAGGACTCGGTTCTCGTAAAAGTATTTGATATG
Found at i:2772424 original size:270 final size:263
Alignment explanation
Indices: 2771944--2772457 Score: 676
Period size: 270 Copynumber: 1.9 Consensus size: 263
2771934 ACTCGATACC
* * * *
2771944 CCTAAAGGACTAAAAAAGGATGTGGATGGCGTGAATCTATCCTAAATGCCCACCTTCAGTAGACC
1 CCTAAAGGACTAAAAAAGGATGCGGAAGGCATGAACCTATCCTAAATGCCCACCTTCAGTAGACC
* * * *
2772009 TAGTGATAACCTAAGACTAAGTTCTGAAACAAATACAAAAATGCCCCTAGGAGATACTTTCGACG
66 CAGTGATAACCTAAGACTAAGTTCTGAAAAAAATAAAAAAATGCCCCTAGGAGATACTTTCAACG
*
2772074 CAGAAGTACCTGATACCCTAAAGGACTAAAATAGGATGTGGATAGTGTGAACCTATCCTAAATGC
131 CAGAAGTACCTGATACCCTAAAGGACTAAAATAGGATGTGGATAGCGTGAACCTATCCTAAATGC
** *
2772139 CCACCTTTGGCATAAAAGCGGACCCAATAATAACCTAGGACTCGGTTCTCGTAAAAGTATTTGAT
196 CCACCTTCAGCATAAAAGCGGACCCAATAATAACCTAGGACTCGATTCTCGTAAAAGTATTTGAT
2772204 ATG
261 ATG
*
2772207 CCTAAAGGACTAAAAAAGGATGCGGAAGGCATGAACCTATCCT-AATGCCCACCTTCGGCATAAA
1 CCTAAAGGACTAAAAAAGGATGCGGAAGGCATGAACCTATCCTAAATGCCCACCTTCAG--T---
* * ** *
2772271 AGTGAACCCGGTGATAACCTAGGACTCGGTTCT-AAAAAAATAAAAAAATGCCCCTAGGGGATAC
61 A--G-ACCCAGTGATAACCTAAGACTAAGTTCTGAAAAAAATAAAAAAATGCCCCTAGGAGATAC
* *
2772335 TTTCAACGTAGAAGTA-CTCGATACCCCTAAAGGACTGAAAA-AGGATGTGGATGGCGTGAACCT
123 TTTCAACGCAGAAGTACCT-GATA-CCCTAAAGGACT-AAAATAGGATGTGGATAGCGTGAACCT
* * ** *
2772398 TTCCTAAATGCCCAGCTTCAGCATAAAAGCGGACCCGGTGATAACCTAGGACTCGATTCT
185 ATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAATAATAACCTAGGACTCGATTCT
2772458 GAAAAAATAC
Statistics
Matches: 215, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
262 14 0.07
263 39 0.18
264 1 0.00
267 1 0.00
268 2 0.01
269 47 0.22
270 107 0.50
271 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (263 bp):
CCTAAAGGACTAAAAAAGGATGCGGAAGGCATGAACCTATCCTAAATGCCCACCTTCAGTAGACC
CAGTGATAACCTAAGACTAAGTTCTGAAAAAAATAAAAAAATGCCCCTAGGAGATACTTTCAACG
CAGAAGTACCTGATACCCTAAAGGACTAAAATAGGATGTGGATAGCGTGAACCTATCCTAAATGC
CCACCTTCAGCATAAAAGCGGACCCAATAATAACCTAGGACTCGATTCTCGTAAAAGTATTTGAT
ATG
Found at i:2772472 original size:154 final size:154
Alignment explanation
Indices: 2772207--2772683 Score: 650
Period size: 154 Copynumber: 3.1 Consensus size: 154
2772197 ATTTGATATG
* * *
2772207 CCTAAAGGACTAAAAAAGGATGCGGAAGGCATGAACCTATCCT-AATGCCCACCTTCGGCATAAA
1 CCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCAGCATAAA
* * *
2772271 AGTGAACCCGGTGATAACCTAGGACTCGGTTCTAAAAAAATAAAAAAATGCCCCTAGGGGATACT
66 AGTGGACCCGGTGATAACCTAGGACTCGGTTCTGAAAAAATAAAAAAATGCCCTTAGGGGATACT
*
2772336 TTCAACGTAGAAGTACTCGATACC
131 TTCAACGTAGAAGTACCCGATACC
* * * *
2772360 CCTAAAGGACTGAAAAAGGATGTGGATGGCGTGAACCTTTCCTAAATGCCCAGCTTCAGCATAAA
1 CCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCAGCATAAA
* * * *
2772425 AGCGGACCCGGTGATAACCTAGGACTCGATTCTGAAAAAATACAAAAATGCCCTTAGGGAATACT
66 AGTGGACCCGGTGATAACCTAGGACTCGGTTCTGAAAAAATAAAAAAATGCCCTTAGGGGATACT
2772490 TTCAACGTAGAAGTACCCGATACC
131 TTCAACGTAGAAGTACCCGATACC
* *
2772514 CTTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCTACCTTCAGCATAAA
1 CCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCAGCATAAA
** * * * * * *
2772579 AGTGGACCTAGTGATAGCCTAGGACTTGGTTTTGAAAAATTAAAAAAACGCCCTTAGGGGATACC
66 AGTGGACCCGGTGATAACCTAGGACTCGGTTCTGAAAAAATAAAAAAATGCCCTTAGGGGATACT
* ** * **
2772644 TTCCATATAAAAGTACCTAATACC
131 TTCAACGTAGAAGTACCCGATACC
* *
2772668 CCTAAAAGACTTAAAA
1 CCTAAAGGACTAAAAA
2772684 GATTTATAAA
Statistics
Matches: 281, Mismatches: 42, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
153 38 0.14
154 243 0.86
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (154 bp):
CCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCAGCATAAA
AGTGGACCCGGTGATAACCTAGGACTCGGTTCTGAAAAAATAAAAAAATGCCCTTAGGGGATACT
TTCAACGTAGAAGTACCCGATACC
Found at i:2773075 original size:168 final size:168
Alignment explanation
Indices: 2772792--2773569 Score: 1288
Period size: 168 Copynumber: 4.6 Consensus size: 168
2772782 TTGAAAATTC
* *
2772792 CATTTAGTACCTTAATGGAAGCCCGAAAAGATACGAAAAG-TTTTGAAAATCTTTTATACCCCTA
1 CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
* * *
2772856 CGGATGCCCTTAGGAATATAAAAGATTAAAAAAGATAATTAAAATTTATTTTGATTATGAAAATT
66 CGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTGATTATGAAAATG
*
2772921 TTAATTTAATTATTTATTTATGTAATTTCGAAAAATAT
131 TTAATTTAATTATTTATTTATTTAATTTCGAAAAATAT
**
2772959 CATTTCGTACCTTAATAGAAGCTTGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
1 CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
* * *
2773024 CGGATGCCCATAGGAATATAAAAGATTAAAAAATATGATTAAAATTTATTTTTATTATGAAAATT
66 CGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTGATTATGAAAATG
*
2773089 TTAATTTAATTATTTATTTATTTAATTTCAAAAAATAT
131 TTAATTTAATTATTTATTTATTTAATTTCGAAAAATAT
2773127 CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
1 CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
* *
2773192 CGGATGGCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTTATTATGAAAATG
66 CGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTGATTATGAAAATG
*
2773257 TTAATTTAATTAATTATTTATTTAATTTCGAAAAATAT
131 TTAATTTAATTATTTATTTATTTAATTTCGAAAAATAT
* * * *
2773295 CATTTCGTACTTTAATAAAAGCCCAAAAAGATACGAAAAGTTTTTGAAAATCTTTTATTCCCCTA
1 CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
* * *
2773360 CGGATGCTCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTGGTTATGAAAGTG
66 CGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTGATTATGAAAATG
*
2773425 TTAATTTAATTATTTATTTATTTAATTTTGAAAAATAT
131 TTAATTTAATTATTTATTTATTTAATTTCGAAAAATAT
* *
2773463 TATTTCGTACCTTAATGGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
1 CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
* * * *
2773528 CAGATGCCTATAAGAATATAAAAGATTAAAAAAGATAATTAA
66 CGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAA
2773570 TATGGAAATA
Statistics
Matches: 571, Mismatches: 39, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
167 36 0.06
168 535 0.94
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (168 bp):
CATTTCGTACCTTAATAGAAGCCCGAAAAGATACGAAAAGTTTTTGAAAATCTTTTATACCCCTA
CGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATTTATTTTGATTATGAAAATG
TTAATTTAATTATTTATTTATTTAATTTCGAAAAATAT
Found at i:2774536 original size:10 final size:9
Alignment explanation
Indices: 2774517--2774553 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
2774507 GCTAGCTTGG
2774517 TTTTTTCTA
1 TTTTTTCTA
2774526 TTTTTTCCTA
1 TTTTTT-CTA
2774536 TTTTCTTCTA
1 TTTT-TTCTA
2774546 TTTTTTCT
1 TTTTTTCT
2774554 CTTGCTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:2775367 original size:162 final size:164
Alignment explanation
Indices: 2775164--2775471 Score: 469
Period size: 163 Copynumber: 1.9 Consensus size: 164
2775154 AAAAAATGGG
* * *
2775164 AGTTTCAAAGAAAAAAATAAAAAACTTATGAAAATGAATGAATTTTTGAAAAC-TGAATTAATAT
1 AGTTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAAAAACGTAAATTAATAT
*
2775228 GAAATAAATGATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAACCCCCCCG-AAAAA
66 GAAATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAA-CCCCCCGAAAAAA
*
2775292 ATTTACGGAGTAGAAAACATCGTATTTCGAAAAAA
130 ATTTACGGAGAAGAAAACATCGTATTTCGAAAAAA
* * *
2775327 AGTTTC-AAGGAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTAAAAACGTAAATTAATAT
1 AGTTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAAAAACGTAAATTAATAT
* ** * *
2775391 GAGATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCCGAAAAAAA
66 GAAATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAACCCCCCGAAAAAAA
2775456 TTTACGGAGAAGAAAA
131 TTTACGGAGAAGAAAA
2775472 ATGCATAATT
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
162 46 0.35
163 84 0.65
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.26
Consensus pattern (164 bp):
AGTTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTAAAAACGTAAATTAATAT
GAAATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAACCCCCCGAAAAAAA
TTTACGGAGAAGAAAACATCGTATTTCGAAAAAA
Found at i:2777911 original size:12 final size:11
Alignment explanation
Indices: 2777889--2777964 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2777879 AGAGAAAGAA
*
2777889 GAGAGAGGAGG
1 GAGATAGGAGG
2777900 GATGATAGGAGG
1 GA-GATAGGAGG
*
2777912 AGAGACAGGA--
1 -GAGATAGGAGG
*
2777922 GAGATAGTA--
1 GAGATAGGAGG
2777931 GAGATAGGAGG
1 GAGATAGGAGG
2777942 GATGATAGGAGG
1 GA-GATAGGAGG
*
2777954 AGAGACAGGAG
1 -GAGATAGGAG
2777965 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2777921 original size:24 final size:24
Alignment explanation
Indices: 2777888--2777973 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2777878 AAGAGAAAGA
*
2777888 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
2777912 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2777930 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2777954 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
2777974 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2777940 original size:42 final size:42
Alignment explanation
Indices: 2777879--2777997 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2777869 TAGCCCTCAA
* *
2777879 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2777921 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2777963 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2777998 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2785070 original size:23 final size:22
Alignment explanation
Indices: 2785023--2785092 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 22
2785013 AACTCAAGCA
* * *
2785023 TTTTGTTTCTATTTTTC-CTTA
1 TTTTCTTTCTTTTTTTCTCTTT
2785044 TTTTCTTTCTTTCTTTTCTCTTTT
1 TTTTCTTTCTTT-TTTTCTC-TTT
*
2785068 TTTTCTTTCTTTTTCTCTCTTT
1 TTTTCTTTCTTTTTTTCTCTTT
2785090 TTT
1 TTT
2785093 CATTGAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 10 0.24
22 11 0.26
23 7 0.17
24 14 0.33
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTTCTTTCTTTTTTTCTCTTT
Found at i:2785072 original size:20 final size:21
Alignment explanation
Indices: 2785044--2785093 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2785034 TTTTTCCTTA
*
2785044 TTTTCTTTCTTTC-TTTTCTC
1 TTTTTTTTCTTTCTTTTTCTC
2785064 TTTTTTTTCTTTCTTTTTCTC
1 TTTTTTTTCTTTCTTTTTCTC
*
2785085 TCTTTTTTC
1 TTTTTTTTC
2785094 ATTGAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTCTTTCTTTTTCTC
Found at i:2785076 original size:24 final size:23
Alignment explanation
Indices: 2785044--2785092 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2785034 TTTTTCCTTA
*
2785044 TTTTCTTTCTTTCTTTTCTCTTTT
1 TTTTCTTTCTTT-TTCTCTCTTTT
2785068 TTTTCTTTCTTTTTCTCTCTTTT
1 TTTTCTTTCTTTTTCTCTCTTTT
2785091 TT
1 TT
2785093 CATTGAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTCTTTCTTTTTCTCTCTTTT
Found at i:2785080 original size:10 final size:10
Alignment explanation
Indices: 2785049--2785091 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
2785039 CCTTATTTTC
2785049 TTTCTTTCTT
1 TTTCTTTCTT
2785059 TTCTCTTT-TT
1 TT-TCTTTCTT
2785069 TTTCTTTCTT
1 TTTCTTTCTT
*
2785079 TTTCTCTCTT
1 TTTCTTTCTT
2785089 TTT
1 TTT
2785092 TCATTGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 5 0.17
10 20 0.67
11 5 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:2786331 original size:158 final size:158
Alignment explanation
Indices: 2786040--2786388 Score: 341
Period size: 158 Copynumber: 2.2 Consensus size: 158
2786030 CGATACAATT
* * * *
2786040 CTTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTCTTACAAAACCAAAGCATCAATATCATG
1 CTTTGATACTAAGAAAAATGGTGGAAAGAAAAGCTTTCCTACAAAACCAAAGCATCAAGATCATG
* * * ** * *
2786105 TGTCCTAATGAGGAAGACGTATTTATGGTGCCCAATCAAGAATAGAGTGGTGATTACCATAAGGA
66 TGTCCTAATGAAGAAGACGGATTTATGGTGCCCAATCAAGAAAAGAAAGGAGATTACCATAAGAA
2786170 TCCATGTTTGTCTCGATTGATGGATAAA
131 TCCATGTTTGTCTCGATTGATGGATAAA
* * ** * *
2786198 CTTTGATACTAAGAAAAATGGTGTAAAGAAAGGCTTTTCCTATGAAACCAAAGCAT-TAGATCTT
1 CTTTGATACTAAGAAAAATGGTGGAAAGAAAAGC-TTTCCTACAAAACCAAAGCATCAAGATCAT
* * ** *
2786262 GTTTCCTAATGAAG-AGACCAGGA-TTATGGTGCCCAATCACGAAAAGAAAGGAGATTATTATGA
65 GTGTCCTAATGAAGAAGA-C-GGATTTATGGTGCCCAATCAAGAAAAGAAAGGAGATTACCATAA
* * ** *
2786325 GAATCCAT-ATAGT-TTTATTTGATGGATGAA
128 GAATCCATGTTTGTCTCGA-TTGATGGATAAA
* **
2786355 CATTGACT-CTAAGGTAAATGGTGGAAAGAAAAGC
1 CTTTGA-TACTAAGAAAAATGGTGGAAAGAAAAGC
2786389 ATTCTTGCGC
Statistics
Matches: 154, Mismatches: 32, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
156 2 0.01
157 44 0.29
158 88 0.57
159 20 0.13
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (158 bp):
CTTTGATACTAAGAAAAATGGTGGAAAGAAAAGCTTTCCTACAAAACCAAAGCATCAAGATCATG
TGTCCTAATGAAGAAGACGGATTTATGGTGCCCAATCAAGAAAAGAAAGGAGATTACCATAAGAA
TCCATGTTTGTCTCGATTGATGGATAAA
Found at i:2789180 original size:159 final size:157
Alignment explanation
Indices: 2788823--2789166 Score: 474
Period size: 159 Copynumber: 2.2 Consensus size: 157
2788813 ATTATGGTGC
* * * *
2788823 CCAATCATGAAAAAAAAGGAGATTATTATGAGAATCCATATAGTTTTTTTTATGGATGAGCAATG
1 CCAATCATGAAAAAAATGGAGATTATTATGAGAATCCATATAGTTTTTTTGATAGATGAACAATG
** * *
2788888 ATTCTAAAGAGAATGTGAAAATGATCAAGCTTTTCTTACGAAACCAAAGCATCAATATCGTGTAT
66 ATTCTAAAGAGAATGCCAAAATGATCAAGCTTTTCTTACAAAACCAAAGCATCAATATCCTGTAT
* *
2788953 CCCAATGAGGCATTTTTGTTTTTGTTG
131 CCCAATGAGGAATATTTGTTTTTGTTG
* * *
2788980 CCAAGTCA-CAAAAAGAATGGAGATTATTCTGAGTATCCATATAGTTTTATTTGATAGATGAACA
1 CCAA-TCATGAAAAA-AATGGAGATTATTATGAGAATCCATATAGTTTT-TTTGATAGATGAACA
* * *
2789044 TTGATTCTAAGGAGAATGCCAAAATGATCAAGCTTTTCTTGCAAAACCAAAGCATCAATATCCTG
63 ATGATTCTAAAGAGAATGCCAAAATGATCAAGCTTTTCTTACAAAACCAAAGCATCAATATCCTG
2789109 TATCCCAATGAGGAATATTTGTTTTTGTTG
128 TATCCCAATGAGGAATATTTGTTTTTGTTG
* * *
2789139 TCTAATCATGAAAATAATGGATATTATT
1 -CCAATCATGAAAAAAATGGAGATTATT
2789167 GTGTCAAATC
Statistics
Matches: 162, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
157 9 0.06
158 33 0.20
159 113 0.70
160 7 0.04
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (157 bp):
CCAATCATGAAAAAAATGGAGATTATTATGAGAATCCATATAGTTTTTTTGATAGATGAACAATG
ATTCTAAAGAGAATGCCAAAATGATCAAGCTTTTCTTACAAAACCAAAGCATCAATATCCTGTAT
CCCAATGAGGAATATTTGTTTTTGTTG
Found at i:2789214 original size:159 final size:159
Alignment explanation
Indices: 2788832--2789215 Score: 413
Period size: 159 Copynumber: 2.4 Consensus size: 159
2788822 CCCAATCATG
* * ** * * *
2788832 AAAAA-AAAGGAGATTATTATGAGAATCCATATAGT-TTTTTTTATG-GATGAGCAATGATTCTA
1 AAAAAGAATGGAGATTATTCTGAGAATCCATATAGTCTCATTTGA-GAGATGAACATTGATTCTA
* ** * *
2788894 AAGAGAATGTGAAAATGATCAAGCTTTTCTTACGAAACCAAAGCATCAATATCGTGTATCCCAAT
65 AGGAGAATGCCAAAATGATCAAGCTTTTCTTACAAAACCAAAGCATCAATATCCTGTATCCCAAT
* *
2788959 GAGGCATTTTTGTTTTTGTTGCCAAGTCAC
130 GAGGAATATTTGTTTTTGTTGCCAAGTCAC
* * * *
2788989 AAAAAGAATGGAGATTATTCTGAGTATCCATATAGTTTTATTTGATAGATGAACATTGATTCTAA
1 AAAAAGAATGGAGATTATTCTGAGAATCCATATAGTCTCATTTGAGAGATGAACATTGATTCTAA
*
2789054 GGAGAATGCCAAAATGATCAAGCTTTTCTTGCAAAACCAAAGCATCAATATCCTGTATCCCAATG
66 GGAGAATGCCAAAATGATCAAGCTTTTCTTACAAAACCAAAGCATCAATATCCTGTATCCCAATG
* *
2789119 AGGAATATTTGTTTTTGTTGTCTAA-TCAT
131 AGGAATATTTGTTTTTGTTG-CCAAGTCAC
* * * * * * * *
2789148 GAAAATAATGGATATTATTGTGTCA-AAT-CATATTTGTCTCATTTGAGGGATGAACTTTG-TTT
1 AAAAAGAATGGAGATTATTCTG--AGAATCCATA-TAGTCTCATTTGAGAGATGAACATTGATTC
2789210 TAAGGA
63 TAAGGA
2789216 ATATGGTAGA
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
157 5 0.03
158 27 0.14
159 132 0.69
160 25 0.13
161 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (159 bp):
AAAAAGAATGGAGATTATTCTGAGAATCCATATAGTCTCATTTGAGAGATGAACATTGATTCTAA
GGAGAATGCCAAAATGATCAAGCTTTTCTTACAAAACCAAAGCATCAATATCCTGTATCCCAATG
AGGAATATTTGTTTTTGTTGCCAAGTCAC
Found at i:2790889 original size:156 final size:157
Alignment explanation
Indices: 2790572--2790952 Score: 518
Period size: 156 Copynumber: 2.4 Consensus size: 157
2790562 TTGAGAGACG
* *
2790572 AACTTTGATTCTAGGAAAAATGGGGGAAAGAAAAGCTTCTTACAAAACCAAAGCATCAATATCGT
1 AACTTTGATTCTAAGAAAAATGGTGGAAAGAAAAGCTTCTTACAAAACCAAAGCATCAATATCGT
* *
2790637 GTGTCCCAATGAGGAAAATGTGTTTATGGTGCCCAAACAAGAATAGAGCGGTGATTACCATGACA
66 GTGTCCCAATGAGGAAAAAGTGTTTATGGTGCCCAAACAAGAATAGAGCGGTGATTAACATGACA
* * *
2790702 ATCCATGTTTATCTCGGCTAATGGATA
131 ATCCATGTTTATCTCGACTAACGAATA
* *
2790729 AACTTTGATTCTAAGAAAAATGGTGGAAAGAAAAGCTTCTTAC-AAACATAAAGCATCAATATTG
1 AACTTTGATTCTAAGAAAAATGGTGGAAAGAAAAGCTTCTTACAAAAC-CAAAGCATCAATATCG
* * * *
2790793 TGTGTCCCCATG-GGAAAAAGTGTTTATGGTGCCCAATCAAGAATAGAGTGGTGATTAACATGAG
65 TGTGTCCCAATGAGGAAAAAGTGTTTATGGTGCCCAAACAAGAATAGAGCGGTGATTAACATGAC
* * * *
2790857 GATCCATGTTTGTCTCGATTAACGAATT
130 AATCCATGTTTATCTCGACTAACGAATA
* * *
2790885 AACTTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTT-TTCCTATGAAACCAAAGCATC-AGAT
1 AACTTTGATTCTAAGAAAAATGGTGGAAAGAAAAGCTTCTTAC-A--AAACCAAAGCATCAATAT
2790948 CGTGT
63 CGTGT
2790953 TTACTAATAA
Statistics
Matches: 197, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
155 3 0.02
156 109 0.55
157 73 0.37
158 8 0.04
159 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (157 bp):
AACTTTGATTCTAAGAAAAATGGTGGAAAGAAAAGCTTCTTACAAAACCAAAGCATCAATATCGT
GTGTCCCAATGAGGAAAAAGTGTTTATGGTGCCCAAACAAGAATAGAGCGGTGATTAACATGACA
ATCCATGTTTATCTCGACTAACGAATA
Found at i:2791242 original size:159 final size:156
Alignment explanation
Indices: 2790885--2791244 Score: 336
Period size: 159 Copynumber: 2.3 Consensus size: 156
2790875 TTAACGAATT
* * *
2790885 AACTTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCCTATGAAACCAAAGCATCAGATCG
1 AACTTTGATTCTAAGGAAAATGGT-GAAAGAAAAGCTTTTCTTGTGAAACCAAAGCATCAGATCA
** * *
2790950 TGTTTACTAATAAGGAGAATGGGATTATGGTGCTCGATCACAACAAGAAAGGAGATTACTATGTG
65 TGCATACCAATAAGGAGAATGGGATTATGGTGCTCGATCACAAAAAGAAAGGAGATTACTATGTG
* * * * *
2791015 GACCCCTATAGTCTTATTTGATGGATG
130 AACCCATATAGTCTCATTTAAGGGATG
* * * *
2791042 AACATTGATTCTAAGGAGAAT-GTGAAAATGATCAA-CTTTTCTTGTGAAACCAAAAGCATCAAT
1 AACTTTGATTCTAAGGAAAATGGTG-AAA-GA-AAAGCTTTTCTTGTGAAACC-AAAGCATC-AG
* * ** * *
2791105 ATCATGCATCCCAATGAGGA-ATATTTG-TTATTGTTGC-CGAGTCACAAAAAGAATGGAGATTA
61 ATCATGCATACCAATAAGGAGA-ATGGGATTA-TGGTGCTCGA-TCACAAAAAGAAAGGAGATTA
* * ** *
2791167 CTGTGTTAATTCATATTTGTCTCATTTAAGGGATG
123 CTATGTGAACCCATA-TAGTCTCATTTAAGGGATG
2791202 AACTTTGATTCTAAGGAAAATGGTAGAAAGAAAAGC-TTTCTTG
1 AACTTTGATTCTAAGGAAAATGGT-GAAAGAAAAGCTTTTCTTG
2791245 CAAAATGAAA
Statistics
Matches: 161, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
155 1 0.01
156 5 0.03
157 35 0.22
158 17 0.11
159 60 0.37
160 37 0.23
161 5 0.03
162 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (156 bp):
AACTTTGATTCTAAGGAAAATGGTGAAAGAAAAGCTTTTCTTGTGAAACCAAAGCATCAGATCAT
GCATACCAATAAGGAGAATGGGATTATGGTGCTCGATCACAAAAAGAAAGGAGATTACTATGTGA
ACCCATATAGTCTCATTTAAGGGATG
Found at i:2792002 original size:44 final size:44
Alignment explanation
Indices: 2791953--2792045 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
2791943 TTGTTATTTT
*
2791953 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAACTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
*
2791997 GGTTTAACTAAGAATTGGGCTTGTTAGCACAATAAGTCTATTAG
1 GGTTTAACTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
2792041 GGTTT
1 GGTTT
2792046 GTGTTAATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (44 bp):
GGTTTAACTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
Found at i:2792032 original size:24 final size:24
Alignment explanation
Indices: 2791961--2792032 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
2791951 TTGGTTTAAT
2791961 TAAGAATTGGGCTTGTTAGCACAA
1 TAAGAATTGGGCTTGTTAGCACAA
*
2791985 TAAGTCCATTAGGG--T-TTA--AC--
1 TAAG--AATT-GGGCTTGTTAGCACAA
2792005 TAAGAATTGGGCTTGTTAGCACAA
1 TAAGAATTGGGCTTGTTAGCACAA
2792029 TAAG
1 TAAG
2792033 TCTATTAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
17 3 0.08
18 3 0.08
19 1 0.03
20 7 0.19
22 4 0.11
24 11 0.31
25 1 0.03
26 3 0.08
27 3 0.08
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (24 bp):
TAAGAATTGGGCTTGTTAGCACAA
Found at i:2800099 original size:37 final size:37
Alignment explanation
Indices: 2800046--2800116 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
2800036 TTTAACTCAG
* * *
2800046 ACTAGGTTGCCGCCAGCTTGTGTGGGCTTTGACTCGA
1 ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACTCGA
2800083 ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACT
1 ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACT
2800117 TAGGTGCTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (37 bp):
ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACTCGA
Found at i:2804292 original size:88 final size:87
Alignment explanation
Indices: 2804017--2804358 Score: 502
Period size: 87 Copynumber: 4.0 Consensus size: 87
2804007 AGTTTTGGTT
* *
2804017 TTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGGACTTAGGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
*
2804082 CCAACTCGTGTGGGCTTTGACA
66 CCAACTCATGTGGGCTTTGACA
* * * *
2804104 TTCTAAGGCTTAACCTTCTTAGACAGGTGCTAACTAACGTGGACTTGACTCAAACTTAGGT-CCA
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
2804168 CCAAC-C-TGTGTAGGCTTTGACA
66 CCAACTCATGTG--GGCTTTGACA
*
2804190 ATCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGAACTCGAACTTAGGTGCC
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTG-ACTCGAACTTAGGTGCC
**
2804255 ACCGTCTCATGTGGGCTTTGACA
65 ACCAACTCATGTGGGCTTTGACA
*
2804278 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATTTGGAC-T---T-GAACTTAGGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
2804338 CCAACTCATGTGGGCTTTGAC
66 CCAACTCATGTGGGCTTTGAC
2804359 TCGGGTGTCG
Statistics
Matches: 232, Mismatches: 17, Indels: 17
0.87 0.06 0.06
Matches are distributed among these distances:
82 33 0.14
83 1 0.00
84 4 0.02
85 1 0.00
86 61 0.26
87 69 0.30
88 58 0.25
89 1 0.00
90 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
CCAACTCATGTGGGCTTTGACA
Found at i:2804373 original size:31 final size:31
Alignment explanation
Indices: 2804331--2804420 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
2804321 CTTGAACTTA
** *
2804331 GGTGCCACCAACTCATGTGGGCTTTGACTCG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTAG
* * *
2804362 GGTGTCGCCAACTTGTGCGGGCTTTGACTAG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTAG
2804393 GGTGCCACCAACTTGTGTGGGCTTTGAC
1 GGTGCCACCAACTTGTGTGGGCTTTGAC
2804421 ATTCTAAGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (31 bp):
GGTGCCACCAACTTGTGTGGGCTTTGACTAG
Found at i:2804522 original size:31 final size:31
Alignment explanation
Indices: 2804481--2804631 Score: 180
Period size: 31 Copynumber: 4.9 Consensus size: 31
2804471 TCAAACTTAA
*
2804481 GTGCCACCAACTCATGTG-G-GCTTTTACTCGG
1 GTGCCACCAACT--TGTGCGAGCTTTGACTCGG
* *
2804512 GTGCCGCCAACTTGTGCGAGCTTTGACTTGG
1 GTGCCACCAACTTGTGCGAGCTTTGACTCGG
2804543 GTGCCACCAACTTGTGCGAGCTTTGACTCGG
1 GTGCCACCAACTTGTGCGAGCTTTGACTCGG
* * * *
2804574 GTACCACCAATTTGTGCGGGCTTTGACTAGG
1 GTGCCACCAACTTGTGCGAGCTTTGACTCGG
* * *
2804605 GTGCCACTAACTTGTGTGGGCTTTGAC
1 GTGCCACCAACTTGTGCGAGCTTTGAC
2804632 ATTCTAAGGC
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.04
30 1 0.01
31 100 0.95
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (31 bp):
GTGCCACCAACTTGTGCGAGCTTTGACTCGG
Found at i:2804545 original size:149 final size:144
Alignment explanation
Indices: 2804264--2804569 Score: 459
Period size: 149 Copynumber: 2.1 Consensus size: 144
2804254 CACCGTCTCA
* * **
2804264 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGAACT
1 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAACTAACGTGGACTTGAACT
* * *
2804329 TAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGTCGCCAACTTGTGCGGGCTTTGACTAGG
66 TAAGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGCGAGCTTTGACTAGG
2804394 GTGCCACCAACTTG
131 GTGCCACCAACTTG
*
2804408 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAACTAGCGTGGACTTGACTC
1 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAACTAACGTGGACTTG----
*
2804473 AAACTTAAGTGCCACCAACTCATGTGGGCTTTTACTCGGGTGCCGCCAACTTGTGCGAGCTTTGA
62 -AACTTAAGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGCGAGCTTTGA
*
2804538 CTTGGGTGCCACCAACTTG
126 CTAGGGTGCCACCAACTTG
* *
2804557 TGCGAGCTTTGAC
1 TGTGGGCTTTGAC
2804570 TCGGGTACCA
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
144 56 0.39
149 89 0.61
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (144 bp):
TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAACTAACGTGGACTTGAACT
TAAGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACTTGTGCGAGCTTTGACTAGG
GTGCCACCAACTTG
Found at i:2804678 original size:211 final size:209
Alignment explanation
Indices: 2804326--2804780 Score: 633
Period size: 211 Copynumber: 2.1 Consensus size: 209
2804316 TTGGACTTGA
* ** *
2804326 ACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGTCGCCAACTTGTGCGGGCTTTGACT
1 ACTTGGGTGCCACCAACT--TGTGGGCTTTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACT
2804391 AGGGTGCCACCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAAC
64 AGGGTGCCACCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAAC
* * * * *
2804456 TAGCGTGGACTTGAC-TCAAACTTAAGTGCCACCAACTCATGTGGGCTTTTACTCGGGTGCCGCC
129 TAACGTGGACTTGACTTC-AACTTAAGTGCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACC
2804520 AACTTGTGCGAGCTTTG
193 AACTTGTGCGAGCTTTG
*
2804537 ACTTGGGTGCCACCAACTTGTGCGAGCTTTGACTCGGGTACCACCAATTTGTGCGGGCTTTGACT
1 ACTTGGGTGCCACCAACTTGTG-G-GCTTTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACT
* * * *
2804602 AGGGTGCCACTAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATAGGTGGCAAC
64 AGGGTGCCACCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAAC
** * * *
2804667 TAATTTGGACTTGACTTCAACTTAGGTGCCACTAACTTATGTAGGCTTTGACTCGGGAGCCACCA
129 TAACGTGGACTTGACTTCAACTTAAGTGCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCA
* * *
2804732 ACTTGTGTGGGTTTTG
194 ACTTGTGCGAGCTTTG
*
2804748 ACTAGGGTGCCACCAACTCGTGTGGGCTTTGAC
1 ACTTGGGTGCCACCAACT--TGTGGGCTTTGAC
2804781 ATTCTAAGGA
Statistics
Matches: 216, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
209 4 0.02
210 1 0.00
211 204 0.94
212 3 0.01
213 4 0.02
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.29
Consensus pattern (209 bp):
ACTTGGGTGCCACCAACTTGTGGGCTTTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAG
GGTGCCACCAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGAAAAGTGCCAACTA
ACGTGGACTTGACTTCAACTTAAGTGCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAAC
TTGTGCGAGCTTTG
Found at i:2804729 original size:31 final size:31
Alignment explanation
Indices: 2804694--2804780 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
2804684 CAACTTAGGT
* * * *
2804694 GCCACTAACTTATGTAGGCTTTGACTCGGGA
1 GCCACCAACTTGTGTGGGCTTTGACTAGGGA
* *
2804725 GCCACCAACTTGTGTGGGTTTTGACTAGGGT
1 GCCACCAACTTGTGTGGGCTTTGACTAGGGA
*
2804756 GCCACCAACTCGTGTGGGCTTTGAC
1 GCCACCAACTTGTGTGGGCTTTGAC
2804781 ATTCTAAGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (31 bp):
GCCACCAACTTGTGTGGGCTTTGACTAGGGA
Found at i:2804816 original size:149 final size:149
Alignment explanation
Indices: 2804537--2804896 Score: 451
Period size: 149 Copynumber: 2.4 Consensus size: 149
2804527 GCGAGCTTTG
* * *
2804537 ACTTGGGTGCCACCAACT--TGTGCGAGCTTTGACTCGGGTA-CCACCAATTTGTGCGGGCTTTG
1 ACTTAGGTGCCACCAACTCATGT-AG-GCTTTGACTCGGG-AGCCACCAACTTGTGCGGGCTTTG
* * * * * *
2804599 ACTAGGGTGCCACTAACTTGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATAGGTGGC
63 ACTAGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGATTAACCTCCTTAGACAAGTGCC
*
2804664 AACTAATTTGGACTTGACTTC-A
128 AACTAATGTGGACTTGAC-TCAA
* * * *
2804686 ACTTAGGTGCCACTAACTTATGTAGGCTTTGACTCGGGAGCCACCAACTTGTGTGGGTTTTGACT
1 ACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAACTTGTGCGGGCTTTGACT
2804751 AGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGATTAACCT-CTTCAGACAAGTGCCAA
66 AGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGATTAACCTCCTT-AGACAAGTGCCAA
*
2804815 CTAATGTGGCCTTGACTCAA
130 CTAATGTGGACTTGACTCAA
* * * ** *
2804835 ACTTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGGGTGCTGCCAACTTGTGCCGGCTTTG
1 ACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAACTTGTGCGGGCTTTG
2804897 GAAAGGTTAG
Statistics
Matches: 182, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
148 6 0.03
149 172 0.95
150 1 0.01
151 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.30
Consensus pattern (149 bp):
ACTTAGGTGCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAACTTGTGCGGGCTTTGACT
AGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGATTAACCTCCTTAGACAAGTGCCAAC
TAATGTGGACTTGACTCAA
Found at i:2805088 original size:14 final size:15
Alignment explanation
Indices: 2805063--2805091 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2805053 CCTGCTCCTT
2805063 AAGGACAAAAGAAAA
1 AAGGACAAAAGAAAA
2805078 AAGGA-AAAAGAAAA
1 AAGGACAAAAGAAAA
2805092 GCGTCCTGCT
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:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGGACAAAAGAAAA
Found at i:2805098 original size:43 final size:43
Alignment explanation
Indices: 2805033--2805114 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
2805023 AAGATAAAGG
* * * *
2805033 AAAAGGAGAATGAAATGGGTCCTGCTCCTTAAGGACAAAAGAA
1 AAAAGGAAAAAGAAAAGCGTCCTGCTCCTTAAGGACAAAAGAA
* *
2805076 AAAAGGAAAAAGAAAAGCGTCCTGCTTCTTGAGGACAAA
1 AAAAGGAAAAAGAAAAGCGTCCTGCTCCTTAAGGACAAA
2805115 GGGAAAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (43 bp):
AAAAGGAAAAAGAAAAGCGTCCTGCTCCTTAAGGACAAAAGAA
Found at i:2805121 original size:120 final size:120
Alignment explanation
Indices: 2804985--2805204 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 120
2804975 TCCTATTCCC
* * * *
2804985 TGAGGAAAAAGGGAAAAAAGAGTATGTCCTACTCTTCGAAGATAAAGG-AAAAGGAGAATGAAAT
1 TGAGGAAAAAGGG-AAAAACAGTATGTCCTACTCTTCGAAGACAAAGGAAAAAAGAGAATAAAAT
*
2805049 GGGTCCTGCTCCTTAAGGACAAAAGAAAAAAGGAAAAAGAAAAGCGTCCTGCTTCT
65 GCGTCCTGCTCCTTAAGGACAAAAGAAAAAAGGAAAAAGAAAAGCGTCCTGCTTCT
* * * * *
2805105 TGAGGACAAAGGGAAAATCAGTATGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAATAAAATG
1 TGAGGAAAAAGGGAAAAACAGTATGTCCTACTCTTCGAAGACAAAGGAAAAAAGAGAATAAAATG
* ** *
2805170 CGTCCTGCTCTTTGTGGACAAAGGAAAAAAGGAAA
66 CGTCCTGCTCCTTAAGGACAAAAGAAAAAAGGAAA
2805205 TGAAGTGCGT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 28 0.33
120 57 0.67
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.18
Consensus pattern (120 bp):
TGAGGAAAAAGGGAAAAACAGTATGTCCTACTCTTCGAAGACAAAGGAAAAAAGAGAATAAAATG
CGTCCTGCTCCTTAAGGACAAAAGAAAAAAGGAAAAAGAAAAGCGTCCTGCTTCT
Found at i:2805181 original size:42 final size:41
Alignment explanation
Indices: 2805129--2805643 Score: 321
Period size: 42 Copynumber: 12.4 Consensus size: 41
2805119 AAATCAGTAT
*
2805129 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAATAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAG-GAATAAAGTGC
* *
2805171 GTCCTGCTCTTTGTGGACAAAGGAAAAAAGGAAATGAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGG-AATAAAGTGC
* * *
2805213 GTCCTACGCTTTGATGG-CAAAGGAGAAAAAGAAATAAAGTGC
1 GTCCTGCTCTTTGA-GGACAAAGGA-AAAAAGGAATAAAGTGC
* * * * * *
2805255 ATCTTGCTCTTTAAGGATAAAAGAGAAAAGGAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGG-AATAAAGTGC
* * *
2805297 ATCCTACTCTTTAAGGACAAAGGAAAAAAGGAGAATGAAA-TG-
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAA-G-GAAT-AAAGTGC
* * ** *
2805339 GATCCTGCTCCTTAAGG--AAAGG-AAAAA-GAAGGAATTGC
1 G-TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAATAAAGTGC
**
2805377 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGC
1 GTCCTGCTCTTTGAGGAC--AAAGGAAAAAAGG-AATAAAGTGC
* * *
2805421 ATCTTGCTCTTTGAGGACAAAGGGAATAGAAGG---AAA-TGC
1 GTCCTGCTCTTTGAGGACAAA-GGAA-AAAAGGAATAAAGTGC
* * * **
2805460 ATCTTCCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGC
1 GTCCTGCTCTTTGAGGAC--AAAGGAAAAAAGG-AATAAAGTGC
*
2805504 GTCTTGCTCTTTGAGGACAAAAGGAAAAGAAGG---AAA-TGC
1 GTCCTGCTCTTTGAGGAC-AAAGGAAAA-AAGGAATAAAGTGC
* ** * * * * *
2805543 ATTTTGCTTTTTGAGGGCTAAAAGATGAAAAGGAAATAAAGTGT
1 GTCCTGCTCTTTGAGGAC-AAAGGA-AAAAAGG-AATAAAGTGC
*
2805587 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAA-ATA-T--
1 GTCCTGCTCTTTGAGGACAAA-GGAAAA-AAGGAATAAAGTGC
2805626 GTCCTGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
2805644 TAAAAGGTGT
Statistics
Matches: 375, Mismatches: 62, Indels: 75
0.73 0.12 0.15
Matches are distributed among these distances:
36 2 0.01
37 18 0.05
38 1 0.00
39 69 0.18
40 15 0.04
41 22 0.06
42 121 0.32
43 51 0.14
44 76 0.20
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.23
Consensus pattern (41 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAATAAAGTGC
Found at i:2805454 original size:83 final size:83
Alignment explanation
Indices: 2805129--2805652 Score: 467
Period size: 83 Copynumber: 6.3 Consensus size: 83
2805119 AAATCAGTAT
* * * * *
2805129 GTCCTGCTCTTTGAGGAC--AAAGG-AAAAAAGAGAATAAAATGCGTCCTGCTCTTTGTGGACAA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGA-AATAAAGTGCATCCTGCTCTTTGAGGACAA
* * *
2805191 AGGAAAAAAGGAAATGAAGTGC
65 AGG-GAAAA-G-AAGGAAATGC
* * * * * * *
2805213 GTCCTACGCTTTGATGG-C--AAAGGAGAAAAAGAAATAAAGTGCATCTTGCTCTTTAAGGATAA
1 GTCCTGCTCTTTGA-GGACTAAAAGGTGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGA-CA
* **
2805275 AAGAGAAAAGGAAATAAAGTGC
64 AAGGGAAAA-GAAGGAAA-TGC
* * * ** * * *
2805297 ATCCTACTCTTTAAGGAC--AAAGGAAAAAAGGAGAATGAAA-TGGATCCTGCTCCTTAAGG--A
1 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGA-AAT-AAAGTGCATCCTGCTCTTTGAGGACA
* *
2805357 AAGGAAAAAGAAGGAATTGC
64 AAGGGAAAAGAAGGAAATGC
*
2805377 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCATCTTGCTCTTTGAGGACAAA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
*
2805442 GGGAATAGAAGGAAATGC
66 GGGAAAAGAAGGAAATGC
* * * * *
2805460 ATCTTCCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGACAAA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
*
2805525 AGGAAAAGAAGGAAATGC
66 GGGAAAAGAAGGAAATGC
* ** * * * **
2805543 ATTTTGCTTTTTGAGGGCTAAAAGATGAAAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
**
2805608 GGGAAAAGAAGGAAATAT
66 GGGAAAAGAAGGAAATGC
2805626 GTCCTGCTCTTTGAGGACTAAAAGGTG
1 GTCCTGCTCTTTGAGGACTAAAAGGTG
2805653 TCATGGAGTT
Statistics
Matches: 367, Mismatches: 61, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
80 21 0.06
81 23 0.06
82 20 0.05
83 195 0.53
84 73 0.20
85 32 0.09
86 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.23
Consensus pattern (83 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
GGGAAAAGAAGGAAATGC
Found at i:2814028 original size:52 final size:52
Alignment explanation
Indices: 2813950--2814099 Score: 207
Period size: 52 Copynumber: 2.9 Consensus size: 52
2813940 CGAAATATGA
* *
2813950 AAATTTACCTGCATGTATTGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
2814002 AAATTTGCCTGTATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGC
*
2814054 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
2814100 TTTTTGGCAG
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
52 82 0.94
53 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2814158 original size:13 final size:13
Alignment explanation
Indices: 2814140--2814164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2814130 CAAAAAAATA
2814140 TGTATCGATACAT
1 TGTATCGATACAT
2814153 TGTATCGATACA
1 TGTATCGATACA
2814165 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2814159 original size:33 final size:33
Alignment explanation
Indices: 2814122--2814184 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2814112 GCTTAAATTT
2814122 TATCGATACAAAAAAATATGTATCGATACATTG
1 TATCGATACAAAAAAATATGTATCGATACATTG
* ***
2814155 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAAAAAAATATGTATCGATACA
2814185 AATCGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAAAAATATGTATCGATACATTG
Found at i:2815186 original size:43 final size:43
Alignment explanation
Indices: 2815125--2815361 Score: 321
Period size: 43 Copynumber: 5.3 Consensus size: 43
2815115 TAAAGATGGC
* *
2815125 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2815168 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2815211 AAAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 --A-A--AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2815259 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2815302 AAAGATGAGGTGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 --A-A--AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2815350 AAAGGTGCCAAT
1 AAAGGTGCCAAT
2815362 GATGAAAACC
Statistics
Matches: 172, Mismatches: 12, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
43 87 0.51
45 4 0.02
46 4 0.02
48 77 0.45
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2815241 original size:48 final size:48
Alignment explanation
Indices: 2815015--2815353 Score: 392
Period size: 48 Copynumber: 7.1 Consensus size: 48
2815005 AGGAATGTTG
* * * *
2815015 AAGATGAAGGTGCCAATGTGCTTATTCAAGGCCAGCGACATTGGACTTAA
1 AAGATG-AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-A
* * *
2815065 AAGATGACAAAGGCGCCAATATGCGGATTCAAGGCCAGCGATATTGGACTTA
1 AAGATG----AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
* *
2815117 AAGATGGCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 AAGAT-G---AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
* *
2815168 -A-A--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2815212 AAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-
1 AAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
* *
2815259 -A-A--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
*
2815303 AAGATGAGGTGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1 AAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2815351 AAG
1 AAG
2815354 GTGCCAATGA
Statistics
Matches: 258, Mismatches: 17, Indels: 30
0.85 0.06 0.10
Matches are distributed among these distances:
43 76 0.29
45 3 0.01
46 3 0.01
48 81 0.31
49 1 0.00
50 7 0.03
52 49 0.19
53 38 0.15
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
AAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
Found at i:2815375 original size:91 final size:91
Alignment explanation
Indices: 2815073--2815362 Score: 472
Period size: 91 Copynumber: 3.1 Consensus size: 91
2815063 AAAAGATGAC
* * * * * *
2815073 AAAGGCGCCAATATGCGGATTCAAGGCCAGCGATATTGGACTTAAAGATGGCAAAGGCGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGCCAATA
*
2815138 TGCTGATTCAAGGCCAGCGATATTGGACTT
62 TGCTGATTCAAGGCCAGCTATATTGGACTT
2815168 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCT
2815233 GATTCAAGGCCAGCTATATTGGACTT
66 GATTCAAGGCCAGCTATATTGGACTT
*
2815259 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGTCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCT
2815324 GATTCAAGGCCAGCTATATTGGACTT
66 GATTCAAGGCCAGCTATATTGGACTT
2815350 AAAGGTGCCAATG
1 AAAGGTGCCAATG
2815363 ATGAAAACCA
Statistics
Matches: 187, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
91 142 0.76
94 1 0.01
95 44 0.24
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (91 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCT
GATTCAAGGCCAGCTATATTGGACTT
Found at i:2817037 original size:42 final size:42
Alignment explanation
Indices: 2816973--2817104 Score: 176
Period size: 42 Copynumber: 3.1 Consensus size: 42
2816963 TAGCCCCCAA
* * *
2816973 AGAGAAAGAAGAGAGAGAAGGGATGATAGGAGGAGAGACAAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
* *
2817015 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
* * *
2817057 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAGGAGAGAAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGA-GAGACAAG
2817100 A-AGAT
1 AGAGAT
2817105 GGAAGAGTGA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 72 0.91
43 7 0.09
ACGTcount: A:0.45, C:0.02, G:0.44, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
Found at i:2822085 original size:22 final size:22
Alignment explanation
Indices: 2822060--2822127 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
2822050 GTGCTGATTC
2822060 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
2822082 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
2822103 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
2822125 AAG
1 AAG
2822128 ATGAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:2822105 original size:43 final size:44
Alignment explanation
Indices: 2822044--2822270 Score: 287
Period size: 49 Copynumber: 5.0 Consensus size: 44
2822034 GTTGTCATCA
2822044 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAGAAGGT
2822087 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-GAAGGT
* * *
2822136 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAGAAGGT
2822179 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-GAAGGT
* * * *
2822228 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGAAGG
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAGAAGG
2822271 GTTGCCACCG
Statistics
Matches: 162, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
43 76 0.47
44 5 0.03
45 2 0.01
47 2 0.01
49 77 0.48
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (44 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAGAAGGT
Found at i:2822201 original size:92 final size:92
Alignment explanation
Indices: 2822044--2822270 Score: 409
Period size: 92 Copynumber: 2.5 Consensus size: 92
2822034 GTTGTCATCA
* * *
2822044 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
2822109 AGCTACATTGGACTTAAAGATGAAGGT
66 AGCTACATTGGACTTAAAGATGAAGGT
2822136 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
2822201 AGCTACATTGGACTTAAAGATGAAGGT
66 AGCTACATTGGACTTAAAGATGAAGGT
*
2822228 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGAAGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
2822271 GTTGCCACCG
Statistics
Matches: 130, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 126 0.97
93 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (92 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
AGCTACATTGGACTTAAAGATGAAGGT
Found at i:2822307 original size:32 final size:32
Alignment explanation
Indices: 2822258--2822520 Score: 358
Period size: 32 Copynumber: 8.2 Consensus size: 32
2822248 CCAGCGATAT
2822258 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* *
2822288 CGAGCTTTAGAGAA-GGTTGCCACCGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
2822320 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* *
2822352 TGGGCTTT-AGAGGGGATTGCCACCAACTTGTG
1 TGGGCTTTGAGAAGGG-TTGCCACCGACTTGTG
*
2822384 TGGGCTTT-AGAAGAAGGTTGCCACCGACTTATG
1 TGGGCTTTGAGAAG--GGTTGCCACCGACTTGTG
*
2822417 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* *
2822449 TGGGCTTTGAAAAGGGTTGCCACTGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
*
2822481 TGGGCTTTGA-AGAGGGTTGCCACTGACTTGTG
1 TGGGCTTTGAGA-AGGGTTGCCACCGACTTGTG
2822513 TGGGCTTT
1 TGGGCTTT
2822521 TGAAAAGGAG
Statistics
Matches: 212, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
30 3 0.01
31 14 0.07
32 163 0.77
33 26 0.12
34 6 0.03
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:2822424 original size:129 final size:129
Alignment explanation
Indices: 2822258--2822528 Score: 385
Period size: 129 Copynumber: 2.1 Consensus size: 129
2822248 CCAGCGATAT
* *
2822258 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTGCGAGCTTTAGAGAA-GGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTATGCGAGCTTT-GAAAAGGGTTGCCACCGACTTGT
*
2822319 GTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAGGGGATTGCCACCAACTTG
65 GTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAGA-GGG-TTGCCACCAACTTG
2822382 TG
128 TG
* *
2822384 TGGGCTTTAGAAGAAGGTTGCCACCGACTTATGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTATGCGAGCTTTGAAAAGGGTTGCCACCGACTTGTG
* **
2822449 TGGGCTTTGAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAGAGGGTTGCCACTGACTTGTG
66 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAGAGGGTTGCCACCAACTTGTG
*
2822513 TGGGCTTTTGAA-AAGG
1 TGGGCTTTAGAAGAAGG
2822529 AGAAAGATGC
Statistics
Matches: 130, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
126 5 0.04
127 7 0.05
128 8 0.06
129 104 0.80
130 3 0.02
131 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (129 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTATGCGAGCTTTGAAAAGGGTTGCCACCGACTTGTG
TGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAGAGGGTTGCCACCAACTTGTG
Found at i:2822567 original size:129 final size:128
Alignment explanation
Indices: 2822300--2822577 Score: 316
Period size: 129 Copynumber: 2.2 Consensus size: 128
2822290 AGCTTTAGAG
* *
2822300 AAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGG
1 AAGGGTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGG
* * * * *
2822365 GGATTGCCACCAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTATGTGGGCTTTGAA
66 GGATTGCCACCAACTTGTGTGGGCTTTAGAAGAAAGATGCCACCGACGTATGTAGACTTTGAA
*
2822428 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACTGACTTGTGTGGGCTTT-GAA
1 AAGGG-TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-A
** * *
2822492 GAGGG-TTGCCACTGACTTGTGTGGGCTTTTGAAAAGGAGAAAGATGCCACGGA-GT-TGTAGAC
64 G-GGGATTGCCACCAACTTGTGTGGGC-TTT----AGAAGAAAGATGCCACCGACGTATGTAGAC
2822554 -TT-AA
123 TTTGAA
* *
2822558 AAGGGTGCCACGGAATTGTG
1 AAGGGTGCCACCGACTTGTG
2822578 GACTTAAAAG
Statistics
Matches: 128, Mismatches: 14, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
128 5 0.04
129 87 0.68
130 13 0.10
131 2 0.02
132 5 0.04
133 1 0.01
134 15 0.12
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (128 bp):
AAGGGTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGG
GGATTGCCACCAACTTGTGTGGGCTTTAGAAGAAAGATGCCACCGACGTATGTAGACTTTGAA
Found at i:2822568 original size:27 final size:27
Alignment explanation
Indices: 2822536--2822589 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
2822526 AGGAGAAAGA
*
2822536 TGCCACGGAGTTGTAGACTTAAAAGGG
1 TGCCACGGAATTGTAGACTTAAAAGGG
*
2822563 TGCCACGGAATTGTGGACTTAAAAGGG
1 TGCCACGGAATTGTAGACTTAAAAGGG
2822590 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
TGCCACGGAATTGTAGACTTAAAAGGG
Found at i:2822631 original size:36 final size:35
Alignment explanation
Indices: 2822556--2823221 Score: 545
Period size: 34 Copynumber: 20.0 Consensus size: 35
2822546 TTGTAGACTT
* *
2822556 AAAAGGGTGCCACGGAATTGTGGAC-TT-AAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-GG
* * *
2822590 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2822626 AAAAAGAGTGTCACGGAGTTGTGGGCTTTG--AA--
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
*
2822658 AAAAAGGTGCCACGGAGTCGTGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2822691 AACAAGGTGCCACGGGGTTGTGGACTTT-AAAAGGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA--GG
* * *
2822727 AAAAAAGTGCCATGGAGTTGTGGAC-TT-AGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * * *
2822760 AAAAAGAGTGCCACAGAGTTGTGGGCTTTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTTGAAAAGG
*
2822797 AAAAAGGTGCCACGGAGTTGTGGACTTTG-AATGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * * *
2822831 AACAAGGTGCCACGGGGTCGTGGAC-TT-AAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2822864 -AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * *
2822897 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * *
2822932 AAAAAGGTGCCATGGAGTTGTGGGCTTT-AAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2822966 AAAAAGGTGCCATGGAATTGTGGAC-TT-AAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
*
2822998 -----GGTGCCACGGAATTGTGGAC-TT-AAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-GG
* * *
2823027 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2823063 AAAAAGAGTGCCACGGAGTTGTGGGC-TT--AAACG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
*
2823096 -----GGTGCCACGGAGTTGTGGGCTTT---AA--
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2823121 AAAGA-GTGCCACGGAGTTGTGGACTTTGGAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
*
2823154 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
2823188 AAAAAGGTGCCACGGAGTCGTGGACTTTGGAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
2823222 AGATGCCACT
Statistics
Matches: 531, Mismatches: 60, Indels: 81
0.79 0.09 0.12
Matches are distributed among these distances:
27 46 0.09
28 3 0.01
29 22 0.04
30 2 0.00
31 18 0.03
32 29 0.05
33 50 0.09
34 173 0.33
35 69 0.13
36 103 0.19
37 16 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (35 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
Found at i:2822744 original size:69 final size:68
Alignment explanation
Indices: 2822556--2823215 Score: 543
Period size: 69 Copynumber: 9.9 Consensus size: 68
2822546 TTGTAGACTT
* * * * *
2822556 AAAAGGGTGCCACGGAATTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-AGAAAAA-AGTGCCACGGAGTTGTGGACTTT-
*
2822620 AAAGGG
63 AAAAGG
* * * * *
2822626 AAAAAGAGTGTCACGGAGTTGTGGGCTTT--GAA-AAAAAGGTGCCACGGAGTCGTGGAC-TTAA
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTTAA
2822687 AAGG
65 AAGG
* * * *
2822691 AACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAAAGTGCCATGGAGTTGTGGAC-TTA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA--AGAAAAAAGTGCCACGGAGTTGTGGACTTTA
*
2822755 GAAGG
64 AAAGG
* * *
2822760 AAAAAGAGTGCCACAGAGTTGTGGGCTTTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT
1 AAAAAG-GTGCCACGGAGTTGTGGAC--TTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTT
* *
2822825 GAATGG
63 AAAAGG
* * * * * *
2822831 AACAAGGTGCCACGGGGTCGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGTGGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTT-AA
2822894 AA-G
65 AAGG
* * *
2822897 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGGTGCCATGGAGTTGTGGGCTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAA-GTGCCACGGAGTTGTGGACTTTAA
*
2822962 AAAG
65 AAGG
* * * *
2822966 AAAAAGGTGCCATGGAATTGTGGAC-TT-AAAAG-----GGTGCCACGGAATTGTGGAC-TTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTTAAA
2823023 AGGG
66 A-GG
* * ** *
2823027 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
1 AAAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAAGAAAAA-AGTGCCACGGAGTTGTGGACTTT
*
2823091 -AAACG
63 AAAAGG
* *
2823096 -----GGTGCCACGGAGTTGTGGGCTTTAAAAAG-----AGTGCCACGGAGTTGTGGACTTTGGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTT-AA
2823151 AA-G
65 AAGG
* * * *
2823154 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTT
2823216 GGAAAGAGAT
Statistics
Matches: 476, Mismatches: 74, Indels: 82
0.75 0.12 0.13
Matches are distributed among these distances:
56 19 0.04
57 2 0.00
58 1 0.00
59 3 0.01
60 6 0.01
61 23 0.05
62 19 0.04
63 49 0.10
64 20 0.04
65 13 0.03
66 50 0.11
67 39 0.08
68 36 0.08
69 78 0.16
70 64 0.13
71 45 0.09
72 9 0.02
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (68 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTTAAA
AGG
Found at i:2823004 original size:27 final size:27
Alignment explanation
Indices: 2822966--2823026 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
2822956 CTTTAAAAAG
* *
2822966 AAAAAGGTGCCATGGAATTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
2822993 AAAAGGGTGCCACGGAATTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
2823020 AAAAGGG
1 AAAAGGG
2823027 AAAAAGAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAATTGTGGACTT
Found at i:2823108 original size:27 final size:29
Alignment explanation
Indices: 2823063--2823188 Score: 130
Period size: 29 Copynumber: 4.2 Consensus size: 29
2823053 TTTGAAAGGG
2823063 AAAAAGAGTGCCACGGAGTTGTGGGC-TT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
2823091 -AAACGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
2823119 AAAAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
2823148 GGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTT
1 ---AA-AAAGA-GTGCCACGGAGTTGTGGGCTTT
*
2823182 GAAAAGA
1 AAAAAGA
2823189 AAAAGGTGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
27 23 0.28
28 2 0.02
29 25 0.30
30 4 0.05
31 1 0.01
32 2 0.02
33 4 0.05
34 21 0.26
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (29 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:2823139 original size:29 final size:29
Alignment explanation
Indices: 2823063--2823247 Score: 140
Period size: 34 Copynumber: 6.1 Consensus size: 29
2823053 TTTGAAAGGG
*
2823063 AAAAAGAGTGCCACGGAGTTGTGGGC-TT
1 AAAAAGAGTGCCACGGAGTTGTGGACTTT
* * *
2823091 -AAACGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGACTTT
2823119 AAAAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAAAGAGTGCCACGGAGTTGTGGACTTT
* *
2823148 GGAAAGAAAAAGGTGCCACGGAGTCGTGGACTTT
1 ---AA-AAAGA-GTGCCACGGAGTTGTGGACTTT
* *
2823182 GAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTT
1 ---AA-AAAGA-GTGCCACGGAGTTGTGGACTTT
** ** *
2823216 GGAAAGAGATGCCACTAAATTGTGGACTTT
1 AAAAAGAG-TGCCACGGAGTTGTGGACTTT
2823246 AA
1 AA
2823248 GAAGGAAAGA
Statistics
Matches: 132, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
27 23 0.17
28 2 0.02
29 26 0.20
30 21 0.16
32 2 0.02
33 4 0.03
34 54 0.41
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.22
Consensus pattern (29 bp):
AAAAAGAGTGCCACGGAGTTGTGGACTTT
Found at i:2823262 original size:97 final size:95
Alignment explanation
Indices: 2823096--2823285 Score: 220
Period size: 97 Copynumber: 2.0 Consensus size: 95
2823086 GGCTTAAACG
* * * * *
2823096 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAGAAAAAGG
1 GGTGCCACGGAGTCGTGGACTTTAAAAAGAGTGCCACGAAATTGTGGACTTT-G-AAGAAAAAGA
*
2823161 TGCCACGGAGTCGTGGACTTTGAAAAGAAAAA
64 TGCCACGGAGCCGTGGACTTTGAAAAGAAAAA
** *
2823193 GGTGCCACGGAGTCGTGGACTTTGGAAAGAGATGCCACTAAATTGTGGACTTT-AAGAAGGAAAG
1 GGTGCCACGGAGTCGTGGACTTTAAAAAGAG-TGCCACGAAATTGTGGACTTTGAAGAA--AAAG
* * *
2823257 ATGCCACTGAGCCGTGGGCTTTGAGAAGA
63 ATGCCACGGAGCCGTGGACTTTGAAAAGA
2823286 GATTTGAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
95 5 0.06
97 55 0.71
98 18 0.23
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.21
Consensus pattern (95 bp):
GGTGCCACGGAGTCGTGGACTTTAAAAAGAGTGCCACGAAATTGTGGACTTTGAAGAAAAAGATG
CCACGGAGCCGTGGACTTTGAAAAGAAAAA
Found at i:2824264 original size:15 final size:15
Alignment explanation
Indices: 2824240--2824284 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2824230 CTTCTTCTTC
*
2824240 TTCTTTTTTTTTTGT
1 TTCTTCTTTTTTTGT
2824255 TTCTTCTTTTTTT-T
1 TTCTTCTTTTTTTGT
2824269 TTC--CTTTTTTGTGT
1 TTCTTCTTTTTT-TGT
2824283 TT
1 TT
2824285 GGAAAAGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.26
13 1 0.04
14 7 0.26
15 12 0.44
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (15 bp):
TTCTTCTTTTTTTGT
Found at i:2824538 original size:1 final size:1
Alignment explanation
Indices: 2824534--2824591 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2824524 TTTTTCTGTG
* ** * * * *
2824534 TTTTTTTTTTGTTTTTTTTCGTTTTTTGTTTTTTTTTGTTTTTTTGTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2824592 CTCATCACTT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:2824540 original size:13 final size:12
Alignment explanation
Indices: 2824522--2824591 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 12
2824512 GCCTTTGCAC
2824522 TTTTTTTCTGTGT
1 TTTTTTTCT-TGT
2824535 TTTTTTT-TTGT
1 TTTTTTTCTTGT
*
2824546 TTTTTTTCGTTTTT
1 TTTTTTTC--TTGT
*
2824560 TGTTTTTTTTTGT
1 T-TTTTTTCTTGT
*
2824573 TTTTTTGTTTTGT
1 TTTTTT-TCTTGT
2824586 TTTTTT
1 TTTTTT
2824592 CTCATCACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 10 0.20
12 6 0.12
13 23 0.47
14 4 0.08
15 6 0.12
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (12 bp):
TTTTTTTCTTGT
Found at i:2824548 original size:10 final size:10
Alignment explanation
Indices: 2824535--2824591 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
2824525 TTTTCTGTGT
2824535 TTTTTTTTTG
1 TTTTTTTTTG
*
2824545 TTTTTTTTCG
1 TTTTTTTTTG
2824555 TTTTTTGTTT-
1 TTTTTT-TTTG
2824565 TTTTTTGTTT-
1 TTTTTT-TTTG
*
2824575 TTTTGTTTTG
1 TTTTTTTTTG
2824585 TTTTTTT
1 TTTTTTT
2824592 CTCATCACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 3 0.07
10 36 0.88
11 2 0.05
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:2824558 original size:18 final size:18
Alignment explanation
Indices: 2824537--2824588 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
2824527 TTCTGTGTTT
2824537 TTTTTTTGTTTTTTTTCG
1 TTTTTTTGTTTTTTTTCG
*
2824555 -TTTTTTGTTTTTTTTTG
1 TTTTTTTGTTTTTTTTCG
2824572 TTTTTTTGTTTTGTTTT
1 TTTTTTTGTTTT-TTTT
2824589 TTTCTCATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 16 0.52
18 11 0.35
19 4 0.13
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTCG
Found at i:2825594 original size:50 final size:50
Alignment explanation
Indices: 2825519--2825618 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
2825509 TTGCCCCGGC
2825519 ATGATAATCACAATGGGCATTGGGGTTATGCCAGTGAGGGTATGGAGGCT
1 ATGATAATCACAATGGGCATTGGGGTTATGCCAGTGAGGGTATGGAGGCT
2825569 ATGATAATCACAATGGGCATTGGGGTTATGCCAGTGAGGGTATGGAGGCT
1 ATGATAATCACAATGGGCATTGGGGTTATGCCAGTGAGGGTATGGAGGCT
2825619 TCCTCTCTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.12, G:0.36, T:0.26
Consensus pattern (50 bp):
ATGATAATCACAATGGGCATTGGGGTTATGCCAGTGAGGGTATGGAGGCT
Found at i:2828875 original size:16 final size:18
Alignment explanation
Indices: 2828849--2828883 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2828839 ATATTGGTTA
2828849 CATTGATTTCGAT-TTAT
1 CATTGATTTCGATATTAT
2828866 CATT-ATTTCGATATTAT
1 CATTGATTTCGATATTAT
2828883 C
1 C
2828884 CCCTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (18 bp):
CATTGATTTCGATATTAT
Found at i:2831601 original size:52 final size:52
Alignment explanation
Indices: 2831523--2831671 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 52
2831513 CGAAATATGA
*
2831523 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* * * *
2831575 AAATTTGCCTGTATGTATCAATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*** *
2831627 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
2831672 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2831678 original size:13 final size:13
Alignment explanation
Indices: 2831660--2831684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2831650 CAAAGATTAG
2831660 TGTATCGATACAA
1 TGTATCGATACAA
2831673 TGTATCGATACA
1 TGTATCGATACA
2831685 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2831762 original size:33 final size:33
Alignment explanation
Indices: 2831725--2831791 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2831715 AGTAGCTTAA
2831725 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2831758 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2831791 A
1 A
2831792 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2831765 original size:13 final size:13
Alignment explanation
Indices: 2831747--2831771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2831737 CAAAAAAATA
2831747 TGTATCGATACAT
1 TGTATCGATACAT
2831760 TGTATCGATACA
1 TGTATCGATACA
2831772 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2836339 original size:20 final size:21
Alignment explanation
Indices: 2836314--2836366 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2836304 ATTTTAGGCC
2836314 TGTATCGATACATTCACT-TA
1 TGTATCGATACATTCACTATA
* *
2836334 TGTATCGATACATTTACTATT
1 TGTATCGATACATTCACTATA
*
2836355 TATATCGATACA
1 TGTATCGATACA
2836367 AATTGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCACTATA
Found at i:2837768 original size:168 final size:166
Alignment explanation
Indices: 2837496--2837943 Score: 499
Period size: 168 Copynumber: 2.7 Consensus size: 166
2837486 TTCGAAAGGA
* * * * * * *
2837496 TTTTCATCGGTTTAAATTTTTTAAAATTCATCAAATATTATTATCTAA-TCACCATTAAATTAGT
1 TTTTC-TCGGTTCAAAATTTTTAATATTCATCAAATATTATCATTTAATTCA-TAATAAATTAGT
* * * * * * * * * ** *
2837560 GTTGAAAAATTCCTTT-TATTTCATCAAATTTTCTTTTTTTTCCTTGACATT-TTCTGTTTTTGA
64 TTTGAAAAATTCATTTAT-TTTCAT-GAGTTTTCATTTTTTTCCTTGAAATTCTCCCGCTACTAA
* * *
2837623 AAAACTGAGTTTTTTCATTCCATAAAGGTTTTTTGGGGGGGT
127 AAAACTGAGTTTTCT-ATTCCATAAAGG-TTTTCGGGAGGGT
2837665 TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATTATCATTTAATTCATAATAAATTAGTTT
1 TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATTATCATTTAATTCATAATAAATTAGTTT
2837730 TGAAAAATTCATTTATTTTCATGAGTTTTGCATTTTTTTCCTTGAAATTCTCCCGCTACTAAAAA
66 TGAAAAATTCATTTATTTTCATGAGTTTT-CATTTTTTTCCTTGAAATTCTCCCGCTACTAAAAA
2837795 ACTGAGTTTTCTATTCCATAAAGGTTTTCGGGAGGGT
130 ACTGAGTTTTCTATTCCATAAAGGTTTTCGGGAGGGT
* * * * * * * * *
2837832 TTTTCTCTGTTCTAAATTTTTGATATTTATTAAATATCATCA-TTAATTCATAGTAAATCAATTT
1 TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATTATCATTTAATTCATAATAAATTAGTTT
* *
2837896 TGAAAAATTTATTTATTTTCATGAGTTTTTCATTTTCTTCCTTGAAAT
66 TGAAAAATTCATTTATTTTCATGAG-TTTTCATTTTTTTCCTTGAAAT
2837944 ACCTATGTTT
Statistics
Matches: 241, Mismatches: 33, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
166 60 0.25
167 56 0.23
168 96 0.40
169 29 0.12
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (166 bp):
TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATTATCATTTAATTCATAATAAATTAGTTT
TGAAAAATTCATTTATTTTCATGAGTTTTCATTTTTTTCCTTGAAATTCTCCCGCTACTAAAAAA
CTGAGTTTTCTATTCCATAAAGGTTTTCGGGAGGGT
Found at i:2837912 original size:166 final size:169
Alignment explanation
Indices: 2837622--2837943 Score: 488
Period size: 166 Copynumber: 1.9 Consensus size: 169
2837612 TCTGTTTTTG
* * *
2837622 AAAAACTGAGTTTTTTCATTCCATAAAGGTTTTTTGGGGGGGTTTTTCTCGGTTCAAAATTTTTA
1 AAAAACTGAGTTTTCTCATTCCATAAAGGTTTTTCGGGAGGGTTTTTCTCGGTTCAAAATTTTTA
* * *
2837687 ATATTCATCAAATATTATCATTTAATTCATAATAAATTAGTTTTGAAAAATTCATTTATTTTCAT
66 ATATTCATCAAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCAT
*
2837752 GAGTTTTGCATTTTTTTCCTTGAAATTCTCCCGCTACTA
131 GAGTTTTGCATTTTCTTCCTTGAAATTCTCCCGCTACTA
* * *
2837791 AAAAACTGAGTTTTCT-ATTCCATAAAGG-TTTTCGGGAGGGTTTTTCTCTGTTCTAAATTTTTG
1 AAAAACTGAGTTTTCTCATTCCATAAAGGTTTTTCGGGAGGGTTTTTCTCGGTTCAAAATTTTTA
* * * *
2837854 ATATTTATTAAATATCATCA-TTAATTCATAGTAAATCAATTTTGAAAAATTTATTTATTTTCAT
66 ATATTCATCAAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCAT
*
2837918 GAGTTTTTCATTTTCTTCCTTGAAAT
131 GAGTTTTGCATTTTCTTCCTTGAAAT
2837944 ACCTATGTTT
Statistics
Matches: 138, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
166 64 0.46
167 47 0.34
168 12 0.09
169 15 0.11
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (169 bp):
AAAAACTGAGTTTTCTCATTCCATAAAGGTTTTTCGGGAGGGTTTTTCTCGGTTCAAAATTTTTA
ATATTCATCAAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCAT
GAGTTTTGCATTTTCTTCCTTGAAATTCTCCCGCTACTA
Found at i:2837982 original size:166 final size:168
Alignment explanation
Indices: 2837642--2838091 Score: 414
Period size: 166 Copynumber: 2.7 Consensus size: 168
2837632 TTTTTTCATT
* * *
2837642 CCATAAAGGTTTTTTGGGGGGGTTTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATTATCA
1 CCATAAAGGTTTTTCGGGAGGGTTTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATCATCA
* * *
2837707 TTTAATTCATAATAAATTAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTGCATTTTTTTCCT
66 TTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCATGAGTTTTGCATTTTCTTCCT
* * ** * *
2837772 TGAAATTCTCCCGCTACTAAAAAACTGAGTTTTCTATT
131 TGAAATCCTCACGCTACTAAAAAACTGAACTTTCCATC
* * * * *
2837810 CCATAAAGG-TTTTCGGGAGGGTTTTTCTCTGTTCTAAATTTTTGATATTTATTAAATATCATCA
1 CCATAAAGGTTTTTCGGGAGGGTTTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATCATCA
* * *
2837874 -TTAATTCATAGTAAATCAATTTTGAAAAATTTATTTATTTTCATGAGTTTTTCATTTTCTTCCT
66 TTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCATGAGTTTTGCATTTTCTTCCT
* * ** *
2837938 TGAAATACCT-ATGTTTTTGAAAAA-TCGAACTTTCCATC
131 TGAAAT-CCTCACGCTACTAAAAAACT-GAACTTTCCATC
** * * * * **
2837976 CCATAAA--TATTTTC-AAAGGGATTTTCTTCGGTTTAAAATTTTTAGA-ACTCATCTAATATTG
1 CCATAAAGGT-TTTTCGGGAGGGTTTTTC-TCGGTTCAAAATTTTTA-ATATTCATCAAATATCA
* ** ** * * *
2838037 TCATTAAACCCCCATTAAATCAGTTTTGAAAAATTCAATTTATTTT-ATGAATTTT
63 TCATTTAATTCATAATAAATCAATTTTGAAAAATTC-ATTTATTTTCATGAGTTTT
2838092 ATTTTTTTTG
Statistics
Matches: 227, Mismatches: 47, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
165 10 0.04
166 117 0.52
167 82 0.36
168 18 0.08
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (168 bp):
CCATAAAGGTTTTTCGGGAGGGTTTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATCATCA
TTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCATGAGTTTTGCATTTTCTTCCT
TGAAATCCTCACGCTACTAAAAAACTGAACTTTCCATC
Found at i:2838603 original size:10 final size:10
Alignment explanation
Indices: 2838590--2838628 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
2838580 AGAAGTCAAG
*
2838590 AGAAAAAGGA
1 AGAAAAAGAA
2838600 AGAAGAAAAGAA
1 AG-A-AAAAGAA
2838612 AGAAAAAGAA
1 AGAAAAAGAA
2838622 AGAAAAA
1 AGAAAAA
2838629 AAGGGAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:2838608 original size:12 final size:11
Alignment explanation
Indices: 2838587--2838629 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
2838577 GGAAGAAGTC
*
2838587 AAGAGAAAAAGG
1 AAGA-AAAAAGA
2838599 AAGAAGAAAAGA
1 AAGAA-AAAAGA
2838611 AAG-AAAAAGA
1 AAGAAAAAAGA
2838621 AAGAAAAAA
1 AAGAAAAAA
2838630 AGGGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.32
11 7 0.25
12 12 0.43
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:2838610 original size:20 final size:21
Alignment explanation
Indices: 2838576--2838631 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
2838566 TTTGGCTGAT
**
2838576 AGGAAGAAGTCAAG-AGAAAA
1 AGGAAGAAGAAAAGAAGAAAA
2838596 AGGAAGAAGAAAAGAAAGAAAA
1 AGGAAGAAGAAAAG-AAGAAAA
* *
2838618 AGAAAGAAAAAAAG
1 AGGAAGAAGAAAAG
2838632 GGAGAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (21 bp):
AGGAAGAAGAAAAGAAGAAAA
Done.