Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 21 of 21
Found at i:2755943 original size:30 final size:29
Alignment explanation
Indices: 2755596--2755962 Score: 178
Period size: 30 Copynumber: 11.8 Consensus size: 29
2755586 CTTCTCCAAG
* *
2755596 TCCACGATTCAGTGGCATCTTTTTTCCTAAAG
1 TCCACGACTCAGTGGCATC--TTTTCC-AAAA
* * * * * *
2755628 TTCACGAATTAGTGGCATCTCTTTTCTAAG
1 TCCACGACTCAGTGGCATCT-TTTCCAAAA
* * * *
2755658 TCCACAACTTAGTGGCATCCTTTTCTTCCAAG
1 TCCACGACTCAGTGGCAT-CTTTTC--CAAAA
** * *
2755690 TCCATAACTCAGTGGCATCTTTTTCCTTTTAAG
1 TCCACGACTCAGTGGCATC-TTTTCC---AAAA
* * * * *
2755723 TCCATGACTTAGTGGCATCTATTTTCTAAG
1 TCCACGACTCAGTGGCATCT-TTTCCAAAA
*
2755753 TCCACGACTCAGTGGCATCTTTTCTTCAAAG
1 TCCACGACTCAGTGGCATCTTTTC--CAAAA
* * * *
2755784 TTCACGACTCAGTGGCATCTCTTTTCTAAG
1 TCCACGACTCAGTGGCATCT-TTTCCAAAA
* * *
2755814 TCCACGACTTAGTGGCATCATTTTCTTCCAAG
1 TCCACGACTCAGTGGCATC-TTTTC--CAAAA
* *
2755846 TCCACAACTCAGTGGCATCTCTTTCCCAAAG
1 TCCACGACTCAGTGGCATCT-TTT-CCAAAA
* *
2755877 TCCATGACTTAGTGGCATCTTTTTTCTTCAAAAA
1 TCCACGACTCAGTGGCATC--TTTTC--C-AAAA
*
2755911 TCCACGACTCAGTAGCATCTTTTCCAACAA
1 TCCACGACTCAGTGGCATCTTTTCCAA-AA
*
2755941 TCCACGACTCCGTGGCA-CTTTT
1 TCCACGACTCAGTGGCATCTTTT
2755963 TCCTTTTAAG
Statistics
Matches: 273, Mismatches: 39, Indels: 49
0.76 0.11 0.14
Matches are distributed among these distances:
29 10 0.04
30 87 0.32
31 53 0.19
32 77 0.28
33 27 0.10
34 19 0.07
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (29 bp):
TCCACGACTCAGTGGCATCTTTTCCAAAA
Found at i:2755947 original size:188 final size:186
Alignment explanation
Indices: 2755593--2755996 Score: 451
Period size: 188 Copynumber: 2.2 Consensus size: 186
2755583 TCTCTTCTCC
* * * *
2755593 AAGTCCACGATTCAGTGGCATCTTTTTTCCTAAAGTTCACGAATTAGTGGCATCTCTTTTCTAAG
1 AAGTCCACGACTCAGTGGCATCTCTTTTCCTAAAGTCCACGAATTAGTGGCATCTCTTTTCCAAG
* ** *
2755658 TCCACAACTTAGTGGCATCCTTTTCTTCCAAGTCCATAACTCAGTGGCATCTTTTTCCTTTTAAG
66 TCCACAACTCAGTGGCATCCTTTTC-TCCAAGTCCATAACTCAGTGGCATCTTTTTCCTTAAAAA
* * * * * *
2755723 TCCATGACTTAGTGGCATCTATTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCA
130 TCCACGACTCAGTAGCATCTATTTCCAAAATCCACGACTCAGTGGCA-CTTTTCTTCA
* * *
2755781 AAGTTCACGACTCAGTGGCATCTCTTTT-CT-AAGTCCACGACTTAGTGGCATCATTTTCTTCCA
1 AAGTCCACGACTCAGTGGCATCTCTTTTCCTAAAGTCCACGAATTAGTGGCATC-TCTT-TTCCA
* * *
2755844 AGTCCACAACTCAGTGGCAT-CTCTTTC-CCAAAGTCCATGACTTAGTGGCATCTTTTTTCTTCA
64 AGTCCACAACTCAGTGGCATCCT-TTTCTCC-AAGTCCATAACTCAGTGGCATCTTTTTCCTT-A
* **
2755907 AAAATCCACGACTCAGTAGCATCT-TTTCCAACAATCCACGACTCCGTGGCACTTTTTCCTTTT
126 AAAATCCACGACTCAGTAGCATCTATTTCCAA-AATCCACGACTCAGTGGCAC-TTTT-CTTCA
* *
2755970 AAGTCCACAACTCCGTGGCA-CTCTTTT
1 AAGTCCACGACTCAGTGGCATCTCTTTT
2755997 TTCTTTTAAG
Statistics
Matches: 182, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
186 22 0.12
187 41 0.23
188 99 0.54
189 20 0.11
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (186 bp):
AAGTCCACGACTCAGTGGCATCTCTTTTCCTAAAGTCCACGAATTAGTGGCATCTCTTTTCCAAG
TCCACAACTCAGTGGCATCCTTTTCTCCAAGTCCATAACTCAGTGGCATCTTTTTCCTTAAAAAT
CCACGACTCAGTAGCATCTATTTCCAAAATCCACGACTCAGTGGCACTTTTCTTCA
Found at i:2755995 original size:63 final size:62
Alignment explanation
Indices: 2755593--2755996 Score: 322
Period size: 62 Copynumber: 6.4 Consensus size: 62
2755583 TCTCTTCTCC
* * * * *
2755593 AAGTCCACGATTCAGTGGCATCTTTTTTCCTAAAGTTCACGAATTAGTGGCATCTCTTTTC-T--
1 AAGTCCACGACTCAGTGGCA-CTCTTTTCC-AAAGTCCACGACTCAGTGGCATCT-TTTTCTTCA
* * * ** *
2755655 AAGTCCACAACTTAGTGGCA-TCCTTTTCTTCCAAGTCCATAACTCAGTGGCATCTTTTTCCTTT
1 AAGTCCACGACTCAGTGGCACT-CTTTTC--CAAAGTCCACGACTCAGTGGCATCTTTTT-CTTC
*
2755719 T
62 A
* * * *
2755720 AAGTCCATGACTTAGTGGCA-TCTATTTTCTAAGTCCACGACTCAGTGGCATC-TTTTCTTCA
1 AAGTCCACGACTCAGTGGCACTCT-TTTCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCA
* * * * *
2755781 AAGTTCACGACTCAGTGGCATCTCTTTT-CTAAGTCCACGACTTAGTGGCATCATTTTCTTCC
1 AAGTCCACGACTCAGTGGCA-CTCTTTTCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCA
* * * *
2755843 AAGTCCACAACTCAGTGGCATCTCTTTCCCAAAGTCCATGACTTAGTGGCATCTTTTTTCTTCAA
1 AAGTCCACGACTCAGTGGCA-CTCTTTTCCAAAGTCCACGACTCAGTGGCATC-TTTTTCTTC-A
* * * * **
2755908 AAATCCACGACTCAGTAGCA-TCTTTTCCAACAATCCACGACTCCGTGGCA-CTTTTTCCTTTT
1 AAGTCCACGACTCAGTGGCACTCTTTTCCAA-AGTCCACGACTCAGTGGCATCTTTTT-CTTCA
* *
2755970 AAGTCCACAACTCCGTGGCACTCTTTT
1 AAGTCCACGACTCAGTGGCACTCTTTT
2755997 TTCTTTTAAG
Statistics
Matches: 281, Mismatches: 44, Indels: 33
0.78 0.12 0.09
Matches are distributed among these distances:
60 1 0.00
61 52 0.19
62 97 0.35
63 67 0.24
64 25 0.09
65 39 0.14
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (62 bp):
AAGTCCACGACTCAGTGGCACTCTTTTCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCA
Found at i:2756003 original size:34 final size:33
Alignment explanation
Indices: 2755941--2756028 Score: 124
Period size: 34 Copynumber: 2.7 Consensus size: 33
2755931 TTTCCAACAA
*
2755941 TCCACGACTCCGTGGCA-CTTTTTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
*
2755973 TCCACAACTCCGTGGCACTCTTTTTTCTTTTAAG
1 TCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAG
* *
2756007 TCCATAACTCTGTGGCACCTTT
1 TCCACAACTCCGTGGCACCTTT
2756029 AAGTCCAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 16 0.32
33 4 0.08
34 30 0.60
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.39
Consensus pattern (33 bp):
TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
Found at i:2756135 original size:48 final size:48
Alignment explanation
Indices: 2756025--2757689 Score: 1253
Period size: 48 Copynumber: 35.9 Consensus size: 48
2756015 TCTGTGGCAC
* * *
2756025 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGG---C--AT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756068 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756116 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756158 ---TAAG-CCTAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGT
1 CTTTAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * *
2756203 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATT---AGC--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756245 C---AAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * * * * * * *
2756291 CTTTAAGACCGATGTCGTTGGCCTTGGATGAGCACATCGGCACCTCAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT----TAT
* * * * *
2756343 CTTTCAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCATCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * *
2756391 CTTTAAGTCCAATATCGGTGGCCTTGAATCAGCATATTGGCAACTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* * * *
2756440 CTTTGAGACCGATGTCGCTGGCCTTGAATCAGCATATTAGCA-C----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756483 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * *
2756531 CTTTAAGACCAATGTTGCGGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
*
2756573 ---TAAG-CCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTAT
1 CTTTAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756618 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * *
2756660 ---TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * *
2756705 CTTTAAGAGCAATGTCGCTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756747 C---AAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * * * * * *
2756793 CTTTAAGACCAATGTCGTTGGCGTTGAATTAGCACATCGGCACCTCAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT----TAT
* * *
2756845 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756893 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* ** * *
2756942 CTTTGAGACTGATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2756985 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* ** * * *
2757033 CCATCTTGACTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTGT
1 -C-T-TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* ** *
2757084 CTTTAAGACCAATGT-TATGGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTAT
*
2757126 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * * *
2757171 CTTTAAGGCCAATGTCGTTGGCCTTGAATTAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2757213 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * *
2757258 CTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
*
2757300 C---AAG-CCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * * * * *
2757345 CTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATCGGCACCTCAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT----TAT
* * * * *
2757397 CTTTAAGCCCAATATCACTGGCCTTGAATCGGCATATTGGCACATCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * * * * *
2757445 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATCGACACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* * *
2757494 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--T-AT
* * * * *
2757546 CTTTAAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* *
2757595 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TTAT
* * * *
2757647 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 CTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2757690 TTCTTCTCAT
Statistics
Matches: 1281, Mismatches: 218, Indels: 236
0.74 0.13 0.14
Matches are distributed among these distances:
38 32 0.02
39 217 0.17
40 1 0.00
41 1 0.00
42 11 0.01
43 113 0.09
44 5 0.00
45 12 0.01
46 3 0.00
47 1 0.00
48 389 0.30
49 254 0.20
50 4 0.00
51 42 0.03
52 164 0.13
53 32 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
Found at i:2756184 original size:39 final size:38
Alignment explanation
Indices: 2756119--2756283 Score: 132
Period size: 39 Copynumber: 4.0 Consensus size: 38
2756109 ACCTTGTCTT
*
2756119 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAG-CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2756158 TAAGCCTAATATCGCTGGCCTTGAATCAACATATTGGCA
1 TAAGCC-AATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2756197 CCTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTAGCA
1 ---------TAAG-CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2756245 CAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAG-CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2756284 CCTTTATCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
38 2 0.02
39 65 0.65
48 31 0.31
49 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (38 bp):
TAAGCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2756205 original size:87 final size:86
Alignment explanation
Indices: 2756025--2756332 Score: 418
Period size: 87 Copynumber: 3.5 Consensus size: 86
2756015 TCTGTGGCAC
* * *
2756025 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGC
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----TAAG-CCAATATCGCTGGC
2756090 CTTGAATCAGCATATTGGCACCTTGT
61 CTTGAATCAGCATATTGGCACCTTGT
2756116 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCTAATATCGCTGGCCTTG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCC-AATATCGCTGGCCTTG
*
2756181 AATCAACATATTGGCACCTTGT
65 AATCAGCATATTGGCACCTTGT
* * * *
2756203 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTAGCACAAGCCCAGTATCGCTGGCCTTG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCTGGCCTTG
*
2756268 AATCAGCATATTGGCACCTTTAT
65 AATCAGCATATTGGCACC-TTGT
* * * * *
2756291 CTTTAAGACCGATGTCGTTGGCCTTGGATGAGCACATCGGCA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2756333 CCTCAACCAT
Statistics
Matches: 199, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
86 2 0.01
87 116 0.58
88 42 0.21
91 39 0.20
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (86 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCAATATCGCTGGCCTTGA
ATCAGCATATTGGCACCTTGT
Found at i:2756607 original size:87 final size:87
Alignment explanation
Indices: 2756394--2756834 Score: 621
Period size: 87 Copynumber: 5.0 Consensus size: 87
2756384 TCATCATCTT
* * * * *
2756394 TAAGTCCAATATCGGTGGCCTTGAATCAGCATATTGGCAACTTCATCTTTGAGACCGATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
* *
2756459 GGCCTTGAATCAGCATATTAGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
2756482 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTT
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTC
*
2756547 GCGGGCCTTGAATCAGCACATTGGCA
62 GCTGGCCTTGAATCAGCACATTGGCA
* *
2756573 TAAGCCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
2756638 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * *
2756660 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGAGCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
2756725 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
2756747 CAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
* * *
2756812 GGCGTTGAATTAGCACATCGGCA
65 GGCCTTGAATCAGCACATTGGCA
2756835 CCTCAACCAT
Statistics
Matches: 317, Mismatches: 31, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
87 199 0.63
88 40 0.13
91 37 0.12
92 41 0.13
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:2756609 original size:39 final size:38
Alignment explanation
Indices: 2756550--2756785 Score: 166
Period size: 39 Copynumber: 5.6 Consensus size: 38
2756540 CAATGTTGCG
2756550 GGCCTTGAATCAGCACATTGGCATAAGCCTAATATCGCT
1 GGCCTTGAATCAGCACATTGGCATAAGCC-AATATCGCT
* * *
2756589 GGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGCT
1 GGCCTTGAATCAGCACATTGG---C--A----TAAG-CCAATATCGCT
2756637 GGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCT
1 GGCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCT
* * * * *
2756676 GGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGAGCAATGTCGCT
1 GGCCTTGAAT---C-----AGCACATTGGC-ATAAG-CCAATATCGCT
* *
2756724 GGCCTTGAATCAGCACATTGGCACAAGCCCAGTATCGCT
1 GGCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCT
*
2756763 GGCCTTGAATCAGCATATTGGCA
1 GGCCTTGAATCAGCACATTGGCA
2756786 CCTTTATCTT
Statistics
Matches: 156, Mismatches: 22, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
39 76 0.49
40 9 0.06
42 2 0.01
43 1 0.01
44 1 0.01
45 2 0.01
47 9 0.06
48 54 0.35
49 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (38 bp):
GGCCTTGAATCAGCACATTGGCATAAGCCAATATCGCT
Found at i:2756702 original size:174 final size:175
Alignment explanation
Indices: 2756394--2757690 Score: 1181
Period size: 174 Copynumber: 7.0 Consensus size: 175
2756384 TCATCATCTT
* * * * *
2756394 TAAGTCCAATATCGGTGGCCTTGAATCAGCATATTGGCAACTTCATCTTTGAGACCGATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
* * *
2756459 GGCCTTGAATCAGCATATTAGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
65 GGCCTTGAATCAGCACATTGGCA---TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* *
2756524 ACCTTGTCTTTAAGACCAATGTTGCGGGCCTTGAATCAGCACATTGGCA
127 ACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* *
2756573 TAAGCCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
* *
2756638 GCCTTGAATCAGCACATTGGCA-TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCT
66 GCCTTGAATCAGCACATTGGCATTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
*
2756702 TGTCTTTAAGAGCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
131 TGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2756747 CAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
* * *
2756812 GGCGTTGAATTAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAG
65 GGCCTTGAATCAGCACATTGG---------CA---TTAAGCCCAATATCGCTGGCCTTGAATCAG
* ** * * * *
2756877 CATATTGGCACATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA
118 CATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* ** * * *
2756935 CCTTCATCTTTGAGACTGATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCC
1 ---T-A------AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACC
* * * * *
2756995 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTGACTCCAATATTGCTAGCCT
56 AATGTCGCTGGCCTTGAATCAGCACATTGGCA----TT--A---AG-C-CCAATATCGCTGGCCT
**
2757060 TGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT-TATGGGCCTTGAATCAGCACATTGG
110 TGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGG
2757124 CA
174 CA
* *
2757126 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGGCCAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
2757191 GCCTTGAATTAGCACATTGGCA-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
66 GCCTTGAATCAGCACATTGGCATTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
*
2757255 TGTCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
131 TGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
2757300 CAAG-CCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
* * *
2757364 GGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCACTGGCCTTGAATCGG
65 GGCCTTGAATCAGCACATTGG---------CA---TTAAGCCCAATATCGCTGGCCTTGAATCAG
* ** * * **
2757429 CATATTGGCACATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATCGACACCTTCAT
118 CATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAG-----C-ACA--TT-GG
*
2757494 CTT
174 C-A
* * * *
2757497 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--T-ATCTTTAAGACCAATGTC
* * *
2757562 GTTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
62 GCTGGCCTTGAATCAGCACATTGG------CA---TTAAGCCCAATATCGCTGGCCTTGAATCAG
* * *
2757627 CATATTGGCATCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
118 CATATTGGCACCTT-G---TCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
2757690 T
1 T
2757691 TCTTCTCATC
Statistics
Matches: 926, Mismatches: 120, Indels: 130
0.79 0.10 0.11
Matches are distributed among these distances:
173 35 0.04
174 236 0.25
175 42 0.05
176 1 0.00
178 40 0.04
179 39 0.04
181 33 0.04
182 1 0.00
183 4 0.00
184 5 0.01
186 38 0.04
187 70 0.08
188 78 0.08
189 1 0.00
190 2 0.00
191 69 0.07
192 35 0.04
193 4 0.00
194 1 0.00
195 4 0.00
196 1 0.00
197 7 0.01
198 112 0.12
200 1 0.00
201 38 0.04
202 7 0.01
203 22 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (175 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCATTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
TGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2757001 original size:415 final size:408
Alignment explanation
Indices: 2756025--2757030 Score: 1348
Period size: 415 Copynumber: 2.4 Consensus size: 408
2756015 TCTGTGGCAC
* * *
2756025 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGG--CATCTTTAAGTCCAATATCGCTG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCTTTAAGTCCAATATCGCTG
2756088 GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* *
2756153 TGGCATAAGCCTAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGT
131 TGGCATAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGT
* * * *
2756218 CGTTGGCCTTGAATCAGCACATTAGCACAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGC
196 CGCTGGCCTTGAATCAGCACATTAGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGC
* * * *
2756283 ACCTTTATCTTTAAGACCGATGTCGTTGGCCTTGGATGAGCACATCGGCACCTCAACCATCTTTC
261 ACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGG---C-CAACCA----T-
* *
2756348 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCATCATCTTTAAGTCCAATATCGGTGGC
317 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCCCATCATCTTTAAGACCAATATCGGTGGC
* * *
2756413 CTTGAATCAGCATATTGGCAACTTCAT
382 CTTGAATCAGCACATCGGCAACTCCAT
* * * *
2756440 CTTTGAGACCGATGTCGCTGGCCTTGAATCAGCATATTAGCAC--CTTTAAGTCCAATATCGCTG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCTTTAAGTCCAATATCGCTG
* *
2756503 GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCGGGCCTTGAATCAGCACAT
66 GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
2756568 TGGCATAAGCCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGT
131 TGGCATAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGT
* *
2756633 CGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGC
196 CGCTGGCCTTGAATCAGCACATTAGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGC
* * * *
2756698 ACC-TTGTCTTTAAGAGCAATGTCGCTGGCCTTGAATCAGCACATTGG-C-A-CA-AGCCCAGTA
261 ACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCCAACCATAGCCCAATA
* * * * * *
2756758 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTTGGCGTTGAATT
326 TCGCTGGCCTTGAATCAGCATATTGGC-CCATCATCTTTAAGACCAATATCGGTGGCCTTGAATC
*
2756823 AGCACATCGGCACCTCAACCAT
390 AGCACATCGGCAACT---CCAT
*
2756845 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATATCG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG--CA-CATCTTTAAGTCCAATATCG
* * * **
2756910 CTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTGAGACTGATGTCGCTGGCCTTGAATCAGC
63 CTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGC
2756975 ACATTGGCACCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
127 ACATTGGCA----TAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
2757031 TTCCATCTTG
Statistics
Matches: 523, Mismatches: 51, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
401 35 0.07
402 41 0.08
405 38 0.07
407 4 0.01
408 2 0.00
409 1 0.00
410 45 0.09
411 38 0.07
414 37 0.07
415 279 0.53
416 2 0.00
417 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (408 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCTTTAAGTCCAATATCGCTG
GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
TGGCATAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGT
CGCTGGCCTTGAATCAGCACATTAGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGC
ACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCCAACCATAGCCCAATA
TCGCTGGCCTTGAATCAGCATATTGGCCCATCATCTTTAAGACCAATATCGGTGGCCTTGAATCA
GCACATCGGCAACTCCAT
Found at i:2757020 original size:502 final size:503
Alignment explanation
Indices: 2756025--2757030 Score: 1746
Period size: 502 Copynumber: 2.0 Consensus size: 503
2756015 TCTGTGGCAC
* *
2756025 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGC
1 CTTTAAGACCAATATCGCGGGCCTTAAATCAGCACATTGGCA---TTAAGTCCAATATCGCTGGC
*
2756090 CTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
63 CTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
* *
2756155 GCATAAGCCTAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCG
128 GCATAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGACCAATGTCG
*
2756220 TTGGCCTTGAATCAGCACATTAGCACAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCAC
193 CTGGCCTTGAATCAGCACATTAGCACAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCAC
* * *
2756285 CTTTATCTTTAAGACCGATGTCGTTGGCCTTGGATGAGCACATCGGCACCTCAACCATCTTTCAG
258 CTTTATCTTTAAGACCAATGTCGTTGGCCTTGAATGAGCACATCGGCACCTCAACCATCTTTAAG
* * *
2756350 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCATCATCTTTAAGTCCAATATCGGTGGCCT
323 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATATCGCTAGCCT
*
2756415 TGAATCAGCATATTGGCAACTTCATCTTTGAGACCGATGTCGCTGGCCTTGAATCAGCATATTAG
388 TGAATCAGCATATTGGCAACTTCATCTTTGAGACCGATGTCGCTGGCCTTGAATCAGCACATTAG
2756480 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
453 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * *
2756531 CTTTAAGACCAATGTTGCGGGCCTTGAATCAGCACATTGGCA-TAAG-CCTAATATCGCTGGCCT
1 CTTTAAGACCAATATCGCGGGCCTTAAATCAGCACATTGGCATTAAGTCC-AATATCGCTGGCCT
*
2756594 TGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
65 TGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
*
2756659 ATAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGAGCAATGTCGCT
130 ATAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGACCAATGTCGCT
*
2756724 GGCCTTGAATCAGCACATTGGCACAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCT
195 GGCCTTGAATCAGCACATTAGCACAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCT
* *
2756789 TTATCTTTAAGACCAATGTCGTTGGCGTTGAATTAGCACATCGGCACCTCAACCATCTTTAAGCC
260 TTATCTTTAAGACCAATGTCGTTGGCCTTGAATGAGCACATCGGCACCTCAACCATCTTTAAGCC
2756854 CAATATCGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATATCGCTAGCCTTG
325 CAATATCGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATATCGCTAGCCTTG
* * *
2756919 AATCAGCATATTGGCACCTTCATCTTTGAGACTGATGTCGCTGGCCTTGAATCAGCACATTGGCA
390 AATCAGCATATTGGCAACTTCATCTTTGAGACCGATGTCGCTGGCCTTGAATCAGCACATTAGCA
2756984 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
455 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
2757031 TTCCATCTTG
Statistics
Matches: 475, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
501 2 0.00
502 436 0.92
506 37 0.08
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (503 bp):
CTTTAAGACCAATATCGCGGGCCTTAAATCAGCACATTGGCATTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTAGCACAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTT
TATCTTTAAGACCAATGTCGTTGGCCTTGAATGAGCACATCGGCACCTCAACCATCTTTAAGCCC
AATATCGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATATCGCTAGCCTTGA
ATCAGCATATTGGCAACTTCATCTTTGAGACCGATGTCGCTGGCCTTGAATCAGCACATTAGCAC
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
Found at i:2757194 original size:87 final size:87
Alignment explanation
Indices: 2757044--2757386 Score: 535
Period size: 87 Copynumber: 3.9 Consensus size: 87
2757034 CATCTTGACT
* * * ** *
2757044 CCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTATGGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTT
2757109 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
*
2757131 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGGCCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTT
*
2757196 GAATTAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
2757218 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTT
*
2757283 GAATCAGCACATTGGCACAAG-
66 GAATCAGCACATTGGCATAAGC
* *
2757304 CCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGTTGGCCT
*
2757369 TGAATCAGCACATCGGCA
65 TGAATCAGCACATTGGCA
2757387 CCTCAACCAT
Statistics
Matches: 235, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 35 0.15
87 200 0.85
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:2757421 original size:52 final size:50
Alignment explanation
Indices: 2757308--2757738 Score: 404
Period size: 52 Copynumber: 8.5 Consensus size: 50
2757298 CACAAGCCAG
* * * *
2757308 TATCGCTGGCCTTGAATCAGCATATTGGCACCT-TTATCTTTAAGACCGA
1 TATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAA
* * * * *
2757357 TGTCGTTGGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCACCTC--TCATCTTTAAGTCCAA
* * * *
2757409 TATCACTGGCCTTGAATCGGCATATTGGCA-C-ATCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAA
* * * * * *
2757457 TGTTGCTGGCCTTGAATCAGTACATCGACACCT-TCATCTTTAAGTCTAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAA
* *
2757506 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCACC-TC-TCATCTTTAAGTCCAA
* * *
2757558 TGTCGTTGGCCTTGAATTAGCACATTGGCACCT-TCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAA
* * **
2757607 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCGTCATCTTTAAAACCCAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCA-CCTC-TCATCTTT-AAGTCCAA
* * * * * *
2757660 TGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGACTAA
1 TATCGCTGGCCTTGAATCAGCACATTGGCA--CCTCTCATCTTTAAGTCCAA
* * * *
2757712 TGTCGTTGACCGTGAATCAGCACATTG
1 TATCGCTGGCCTTGAATCAGCACATTG
2757739 ACATTCTTTA
Statistics
Matches: 314, Mismatches: 55, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
48 36 0.11
49 112 0.36
50 3 0.01
51 2 0.01
52 116 0.37
53 40 0.13
54 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (50 bp):
TATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAA
Found at i:2757569 original size:101 final size:101
Alignment explanation
Indices: 2757308--2757689 Score: 508
Period size: 101 Copynumber: 3.8 Consensus size: 101
2757298 CACAAGCCAG
* *
2757308 TATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTTAAGACCGATGTCGTTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGTCCAATGTCGTTGGCCTT
* *
2757370 GAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAA
66 GAATCAGCACATCGGCACCT---TCATCTTTAAGTCCAA
* * * * *
2757409 TATCACTGGCCTTGAATCGGCATATTGGCA----CATCATCTTTAAGTCCAATGTTGCTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGTCCAATGTCGTTGGCCTT
* * *
2757470 GAATCAGTACATCGACACCTTCATCTTTAAGTCTAA
66 GAATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
*
2757506 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGTTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGTCCAATGTCGTTGGCCTT
* *
2757571 GAATTAGCACATTGGCACCTTCATCTTTAAGTCCAA
66 GAATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
* **
2757607 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT-AAGTCCAATGTCGTTGGCCT
*
2757672 TGAATCAGCACATTGGCA
65 TGAATCAGCACATCGGCA
2757690 TTCTTCTCAT
Statistics
Matches: 246, Mismatches: 27, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
97 40 0.16
99 1 0.00
100 41 0.17
101 129 0.52
102 35 0.14
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGTCCAATGTCGTTGGCCTT
GAATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
Found at i:2757744 original size:52 final size:53
Alignment explanation
Indices: 2757554--2757784 Score: 197
Period size: 53 Copynumber: 4.5 Consensus size: 53
2757544 ATCTTTAAGT
* * * * * **
2757554 CCAATGTCGTTGGCCTTGAATTAGCACATTGGCA--CCT-TCATCTT-TAAGT
1 CCAATGTCGTTGACCGTGAATCAGCACATTGGCATTCTTCTCATCTTCAAAAC
* * * * * *
2757603 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCGTCATCTTTAAAAC
1 CCAATGTCGTTGACCGTGAATCAGCACATTGGCATTCTTC-TCATCTTCAAAAC
* * *
2757656 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGA-
1 CCAATGTCGTTGACCGTGAATCAGCACATTGGCATTCTTCTCATCTTCAAAAC
* * *
2757708 CTAATGTCGTTGACCGTGAATCAGCACATTGACATTCTT-TACATCTTTAAAAC
1 CCAATGTCGTTGACCGTGAATCAGCACATTGGCATTCTTCT-CATCTTCAAAAC
* * *
2757761 CCAATATCATTGGCCGTGAATCAG
1 CCAATGTCGTTGACCGTGAATCAG
2757785 TGTGTTGGTC
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
49 30 0.20
50 2 0.01
51 1 0.01
52 51 0.34
53 63 0.41
54 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (53 bp):
CCAATGTCGTTGACCGTGAATCAGCACATTGGCATTCTTCTCATCTTCAAAAC
Found at i:2757764 original size:105 final size:101
Alignment explanation
Indices: 2757300--2757784 Score: 351
Period size: 101 Copynumber: 4.8 Consensus size: 101
2757290 CACATTGGCA
* * * * * * * *
2757300 CAAG-CCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTT-T-ATCTTTAAGA-CCGATGTC
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTCTCATCTTTAAAACCCAATGTC
* *
2757361 GTTGGCCTTGAATCAGCACATCGGCACCTCAACCATCTT
66 GTTGGCCTTGAATCAGCACATTGGCACCT---TCATCTT
* * * * * * * * * ** *
2757400 TAAGCCCAATATCACTGGCCTTGAATCGGCATATTGGCA-C--ATCATCTTT-AAGTCCAATGTT
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTCTCATCTTTAAAACCCAATGTC
* * * *
2757461 GCTGGCCTTGAATCAGTACATCGACACCTTCATCTT
66 GTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * * * ** **
2757497 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT-AAGTCCAATGT
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTC-TCATCTTTAAAACCCAATGT
*
2757561 CGTTGGCCTTGAATTAGCACATTGGCACCTTCATCTT
65 CGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
2757598 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCGTCATCTTTAAAACCCAATGT
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTC-TCATCTTTAAAACCCAATGT
*
2757663 CGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTT
65 CGTTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTT
* * * *
2757703 CAAGACTAATGTCGTTGACCGTGAATCAGCACATTGACATTCTT-TACATCTTTAAAACCCAATA
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACA-TCTTCT-CATCTTTAAAACCCAATG
* *
2757767 TCATTGGCCGTGAATCAG
64 TCGTTGGCCTTGAATCAG
2757785 TGTGTTGGTC
Statistics
Matches: 328, Mismatches: 43, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
97 40 0.12
98 1 0.00
99 2 0.01
100 42 0.13
101 131 0.40
102 35 0.11
104 3 0.01
105 70 0.21
106 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (101 bp):
CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTCTCATCTTTAAAACCCAATGTC
GTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2766399 original size:13 final size:13
Alignment explanation
Indices: 2766381--2766406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2766371 GATAAAGTGT
2766381 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
2766394 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
2766407 AAAATTCCAA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:2766489 original size:19 final size:19
Alignment explanation
Indices: 2766465--2766532 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2766455 AATTCAACAA
2766465 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2766484 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2766499 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2766516 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2766533 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2766504 original size:13 final size:13
Alignment explanation
Indices: 2766486--2766510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2766476 ACATAAGTTT
2766486 TGTATCGATACAA
1 TGTATCGATACAA
2766499 TGTATCGATACA
1 TGTATCGATACA
2766511 TAAGTATTGT
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:2766508 original size:32 final size:32
Alignment explanation
Indices: 2766467--2766529 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2766457 TTCAACAATT
*
2766467 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2766499 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2766530 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2766590 original size:13 final size:13
Alignment explanation
Indices: 2766572--2766597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2766562 CATTTTTCTG
2766572 TGTATCGATACAT
1 TGTATCGATACAT
2766585 TGTATCGATACAT
1 TGTATCGATACAT
2766598 GGATCTTTGT
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:2766594 original size:33 final size:33
Alignment explanation
Indices: 2766552--2766618 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2766542 GCCAAGGAAA
***
2766552 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2766585 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2766618 T
1 T
2766619 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2769101 original size:28 final size:28
Alignment explanation
Indices: 2769065--2769141 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2769055 ATTTTTCACA
* * *
2769065 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2769093 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2769121 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2769142 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2769208 original size:107 final size:107
Alignment explanation
Indices: 2769016--2769220 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 107
2769006 TCCTTTAATC
* * *
2769016 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
* *
2769081 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGCTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
2769124 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
2769188 CCCCGCTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGCTATTTATCG--GGGATACTCCAACCCCG
2769221 ATTTTTTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
105 3 0.04
107 57 0.70
108 21 0.26
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGCTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:2769244 original size:79 final size:79
Alignment explanation
Indices: 2769095--2769299 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 79
2769085 GTTATTTCAT
* * * *
2769095 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
2769160 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
2769174 TGGGGATACTCCAACCCCGCTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
2769238 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * *
2769253 CGAGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
2769300 TTATTATCTC
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
78 8 0.08
79 95 0.92
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:2781719 original size:14 final size:12
Alignment explanation
Indices: 2781700--2781752 Score: 72
Period size: 12 Copynumber: 4.3 Consensus size: 12
2781690 CTTCTCTTCA
2781700 AAAAAAAAAAGAGC
1 AAAAAAAAAA-A-C
2781714 AAAAAAAAAAA-
1 AAAAAAAAAAAC
2781725 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
2781737 AAACAAAAAAAC
1 AAAAAAAAAAAC
2781749 AAAA
1 AAAA
2781753 CAAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 11 0.31
12 14 0.39
13 1 0.03
14 10 0.28
ACGTcount: A:0.89, C:0.08, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:2781721 original size:17 final size:17
Alignment explanation
Indices: 2781699--2781779 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 17
2781689 CCTTCTCTTC
*
2781699 AAAAAAAAAAAGAGCAA
1 AAAAAAAAAAAGAACAA
*
2781716 AAAAAAAAAAA-AAAAA
1 AAAAAAAAAAAGAACAA
*
2781732 AAAACAAACAAAAAAACAA
1 AAAA-AAA-AAAAGAACAA
* *
2781751 AACAAAGAAAAAGAGAGAA
1 AA-AAAAAAAAAGA-ACAA
2781770 AAGAAAAAAA
1 AA-AAAAAAA
2781780 CCTACTTAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.14
17 14 0.27
18 9 0.18
19 19 0.37
20 2 0.04
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAACAA
Found at i:2781729 original size:23 final size:24
Alignment explanation
Indices: 2781699--2781759 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
2781689 CCTTCTCTTC
*
2781699 AAAAAAAAAAAGAGCAAA-AAAAA
1 AAAAAAAAAAAGAACAAACAAAAA
*
2781722 AAAAAAAAAAAAAACAAACAAAAA
1 AAAAAAAAAAAGAACAAACAAAAA
* *
2781746 AACAAAACAAAGAA
1 AAAAAAAAAAAGAA
2781760 AAAGAGAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAGAACAAACAAAAA
Found at i:2781729 original size:27 final size:27
Alignment explanation
Indices: 2781699--2781779 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
2781689 CCTTCTCTTC
2781699 AAAAAAAAAAAGAGCAAAAAAAAAAAA
1 AAAAAAAAAAAGAGCAAAAAAAAAAAA
* *
2781726 AAAAAAAAAACA-AACAAAAAAACAAAAC
1 AAAAAAAAAA-AGAGCAAAAAAA-AAAAA
* * *
2781754 AAAGAAAAAGAGAG-AAAAGAAAAAAA
1 AAAAAAAAAAAGAGCAAAAAAAAAAAA
2781780 CCTACTTAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.09
27 26 0.59
28 14 0.32
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAAAGAGCAAAAAAAAAAAA
Found at i:2781779 original size:1 final size:1
Alignment explanation
Indices: 2781699--2781762 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
2781689 CCTTCTCTTC
* ** * * * * *
2781699 AAAAAAAAAAAGAGCAAAAAAAAAAAAAAAAAAAAAACAAACAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2781763 GAGAGAAAAG
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.88, C:0.08, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:2782873 original size:55 final size:55
Alignment explanation
Indices: 2782789--2784124 Score: 2058
Period size: 55 Copynumber: 24.3 Consensus size: 55
2782779 GGTGGCACCT
*
2782789 CTCAAAGAGCAGGACACC-CTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
*
2782844 CTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
*
2782899 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
* *
2782954 CTCAAAGAGTAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
*
2783009 CTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
*
2783064 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
*
2783119 CTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
* * *
2783174 CTCAAAGAACAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
2783229 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
*
2783285 CTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
* *
2783340 CCCAAAGAGCAGGACACCTATTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
* *
2783395 CTCAAAGAGCAGGACACCT-TTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
2783450 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
*
2783505 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
* *
2783560 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
*
2783615 CTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
2783670 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
* *
2783725 CCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TCTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACT-TTCCAGTC
* *
2783780 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
2783835 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
* * *
2783891 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCTAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
*
2783946 CTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTC
* * * *
2784001 CCCGAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTC
1 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
* * * *
2784056 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
1 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
2784111 CTCAAAGAGCAGGA
1 CTCAAAGAGCAGGA
2784125 TGCTTTTTAT
Statistics
Matches: 1203, Mismatches: 51, Indels: 54
0.92 0.04 0.04
Matches are distributed among these distances:
53 1 0.00
54 25 0.02
55 1040 0.86
56 137 0.11
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTC
Found at i:2783137 original size:26 final size:26
Alignment explanation
Indices: 2783052--2783747 Score: 85
Period size: 28 Copynumber: 25.3 Consensus size: 26
2783042 AAGTTGGTGG
*
2783052 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
2783078 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
2783107 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * **
2783133 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCACA-AAG-AGCAGGA
* * *
2783162 CA-TTTTCCAGTCCTCAAAGAACAGGA
1 CACCTTT-CAGTCCACAAAGAGCAGGA
* * * **
2783188 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
* * *
2783217 CGCCTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
2783243 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
* *
2783272 CACCTTTCCAGTCCTCAACGAGCAGGA
1 CACCTTT-CAGTCCACAAAGAGCAGGA
* * * **
2783299 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
2783328 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
2783354 CACCTATTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
2783383 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* **
2783409 CACCTTTCAAAG-CCTACACAAGTTGGTGG-
1 CACCTTTC--AGTCC-ACA-AAG-AGCAGGA
* *
2783438 CA-TTTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTT-CAGTCCACAAAGAGCAGGA
* * * **
2783464 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
* *
2783493 CATCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
2783519 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
2783548 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
2783574 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
* *
2783603 CA-TTTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTT-CAGTCCACAAAGAGCAGGA
* * **
2783629 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCACA-AAG-AGCAGGA
* *
2783658 CA-TTTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTT-CAGTCCACAAAGAGCAGGA
* * * **
2783684 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
2783713 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
2783739 CACCTTTCA
1 CACCTTTCA
2783748 AAGCCCACCC
Statistics
Matches: 445, Mismatches: 160, Indels: 130
0.61 0.22 0.18
Matches are distributed among these distances:
25 32 0.07
26 93 0.21
27 90 0.20
28 111 0.25
29 84 0.19
30 35 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:2784585 original size:12 final size:11
Alignment explanation
Indices: 2784556--2784584 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2784546 AGAGTGTTTG
2784556 AAAAAAACAAA
1 AAAAAAACAAA
2784567 AAAAAAACAAA
1 AAAAAAACAAA
2784578 AAAAAAA
1 AAAAAAA
2784585 AAATTCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:2784619 original size:21 final size:20
Alignment explanation
Indices: 2784587--2784647 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
2784577 AAAAAAAAAA
2784587 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
2784606 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
2784627 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
2784647 A
1 A
2784648 GGGTCCCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 15 0.43
21 17 0.49
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:2784639 original size:20 final size:19
Alignment explanation
Indices: 2784587--2784647 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
2784577 AAAAAAAAAA
2784587 ATTCCAAATGTATCGATAC
1 ATTCCAAATGTATCGATAC
**
2784606 ATTTGTAGAATGTATCGATAC
1 A-TTCCA-AATGTATCGATAC
2784627 ATTCACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATAC
2784647 A
1 A
2784648 GGGTCCCAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.03
20 19 0.54
21 15 0.43
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (19 bp):
ATTCCAAATGTATCGATAC
Found at i:2784707 original size:19 final size:19
Alignment explanation
Indices: 2784683--2784750 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2784673 AATTCAACGA
2784683 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2784702 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2784717 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2784734 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2784751 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2784721 original size:32 final size:32
Alignment explanation
Indices: 2784685--2784747 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2784675 TTCAACGATT
*
2784685 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2784717 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2784748 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2784722 original size:13 final size:13
Alignment explanation
Indices: 2784704--2784728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2784694 ACATAAGTTT
2784704 TGTATCGATACAA
1 TGTATCGATACAA
2784717 TGTATCGATACA
1 TGTATCGATACA
2784729 TAAGTATTGT
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:2784808 original size:13 final size:13
Alignment explanation
Indices: 2784790--2784815 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2784780 CATTTTTCTG
2784790 TGTATCGATACAT
1 TGTATCGATACAT
2784803 TGTATCGATACAT
1 TGTATCGATACAT
2784816 GGATCTTTGT
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:2784812 original size:33 final size:33
Alignment explanation
Indices: 2784770--2784836 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2784760 GCCAAGGAAA
***
2784770 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2784803 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2784836 T
1 T
2784837 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2787319 original size:52 final size:52
Alignment explanation
Indices: 2787200--2787332 Score: 144
Period size: 52 Copynumber: 2.6 Consensus size: 52
2787190 TTGAGTTTCT
* * * * *
2787200 CAATTCTCCACAATCGGGGATATTCCAA-TCCCGGTTTTATTTTCAAAACGC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCCGATTTTATTTCCAAAACAC
** *
2787251 CAATTTTCCTTTAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTCCCGATTTTATTTCC-AAAACAC
* *
2787304 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
2787333 CTCGTTATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
51 8 0.12
52 45 0.67
53 14 0.21
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCCGATTTTATTTCCAAAACAC
Found at i:2787352 original size:28 final size:28
Alignment explanation
Indices: 2787316--2787392 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2787306 ATTTTTCACA
* * *
2787316 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2787344 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2787372 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2787393 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2797565 original size:28 final size:28
Alignment explanation
Indices: 2797533--2797632 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
2797523 AAAAAAAAAT
2797533 CGGGATTGGAGTATCCCCTCGAAAATAA
1 CGGGATTGGAGTATCCCCTCGAAAATAA
* *
2797561 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGATTGGAGTATCCCCTCGAAAATAA
*
2797589 CGGGGTTGGAGTAT-CCC-CGATGAAATAA
1 CGGGATTGGAGTATCCCCTCGA--AAATAA
2797617 CGAGG-TTGGAGTATCC
1 CG-GGATTGGAGTATCC
2797633 TCGATTGTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.03
27 3 0.05
28 55 0.87
29 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGATTGGAGTATCCCCTCGAAAATAA
Found at i:2797730 original size:53 final size:52
Alignment explanation
Indices: 2797620--2797842 Score: 227
Period size: 52 Copynumber: 4.3 Consensus size: 52
2797610 GAAATAACGA
* * * * * * *
2797620 GGTTGGAGTATCCTCGATTGT-CAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGT-GTTTTGAAAATAAAACCGG
* * * *
2797672 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
* *
2797725 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACC-G
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * **
2797776 GGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
2797828 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2797843 TCGGAAATAA
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
51 42 0.29
52 58 0.41
53 34 0.24
54 9 0.06
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:2797888 original size:27 final size:28
Alignment explanation
Indices: 2797825--2797897 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
2797815 AAAATAAAGT
**
2797825 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
* *
2797853 CGGGGTTGGAGTATCCCCAATG-ATTAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
*
2797880 CGGGGTTGGAATATCCCC
1 CGGGGTTGGAGTATCCCC
2797898 GATTGTGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAAGGAAATAA
Found at i:2797951 original size:56 final size:52
Alignment explanation
Indices: 2797884--2798016 Score: 142
Period size: 51 Copynumber: 2.5 Consensus size: 52
2797874 GATTAACGGG
* * * *
2797884 GTTGGAATATCCCCGATTGTGAAGAAATTGGTATTTTTTTTGGAAATAAAATCGGA
1 GTTGGAATATCCCCGATTGTG-AGAAAAT--TA-GTGTTTTGAAAATAAAATCGGA
* * *
2797940 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATTGGA
1 GTTGGAATATCCCCGATTGTGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
*
2797991 GTTAGAATATCCCCGATTGTGGAGAA
1 GTTGGAATATCCCCGATTGT-GAGAA
2798017 TTGAGAAACT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
51 35 0.54
52 2 0.03
53 4 0.06
54 6 0.09
56 18 0.28
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (52 bp):
GTTGGAATATCCCCGATTGTGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Done.