Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 15 of 23
Found at i:2298663 original size:92 final size:93
Alignment explanation
Indices: 2298548--2298862 Score: 284
Period size: 93 Copynumber: 3.3 Consensus size: 93
2298538 TTTCTTTTCA
* ** * *
2298548 AAGTTCACAACTCTGTGGCACCCTTTTAAGTTCACAACTCCGTGGCA-CTATTTT-TTT-TAAGC
1 AAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTCCGTGGCATCT-TTTTCTTTGTAAGC
*
2298610 CCACAACTCCATGGCACTCTTTTTCCTTTT
65 CCACAACTCCATGGCA-TCTTGTTCCTTTT
* * * *
2298640 AAGTCCATAACTCCATGGTACCCTTTTAAGTCCACAACTCTGTGGTATCTTTTTCTTTGTAAGTC
1 AAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCTTTGTAAGCC
2298705 CACAACTCCATGGCATCTTGTTCCTTTT
66 CACAACTCCATGGCATCTTGTTCCTTTT
* * * * *
2298733 AAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACTTCGTGGCACCTTTTTCCCTTT
1 AAGTCCACAACTCCATGGTACC----C-TTTTAAGTCCACAACTCCGTGGCATCTTTTT--CTTT
* * * * *
2298798 -TAAGCCCACACCTTCGTGGCATCCCTT-TTTCTTGT
59 GTAAGCCCACAACTCCATGGCAT--CTTGTTCCTTTT
* *
2298833 AAGTCCACAACTCCGTGGCA-CC-TTTAAGTC
1 AAGTCCACAACTCCATGGTACCCTTTTAAGTC
2298863 TAATATCGCT
Statistics
Matches: 187, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
92 43 0.23
93 44 0.24
94 20 0.11
95 1 0.01
97 1 0.01
98 26 0.14
99 19 0.10
100 30 0.16
101 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.36
Consensus pattern (93 bp):
AAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCTTTGTAAGCC
CACAACTCCATGGCATCTTGTTCCTTTT
Found at i:2298708 original size:33 final size:32
Alignment explanation
Indices: 2298298--2298857 Score: 266
Period size: 34 Copynumber: 17.8 Consensus size: 32
2298288 TCTCTTCTCA
** * *
2298298 AAGTCCATGACTCAGTGGCATC-TTTT-TTCT
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
* * * * **
2298328 AAGTCCACGACTCAGGGGCATCATTTTCTTCC
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
** * * **
2298360 AAGTCCATGACTCAGTGGCATTTTTTTCTTCA
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
** * * ***
2298392 AAGTCCATGACTCAGTGGCATC-TCTTC-CCA
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
* * * **
2298422 AAGTCCACGACTCAGTGGTATC-TTTTCTTCA
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
* * *
2298453 AAGTCCACGACTCAGTGGCAATCTCTTTTC---A
1 AAGTCCACAACTCCGTGGC-ATCT-TTTTCTTTT
* * * ***
2298484 AAGTCCACGACTCAGTGGCATC-TCTTC-CCA
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
* * *
2298514 AAGTCCACGACTCTGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
* * *
2298546 CAAAGTTCACAACTCTGTGGCA-C----CCTTTT
1 --AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
*
2298575 AAGTTCACAACTCCGTGGCA-CTATTTT-TTTT
1 AAGTCCACAACTCCGTGGCATCT-TTTTCTTTT
* *
2298606 AAGCCCACAACTCCATGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTT-CTTTT
* * * *
2298640 AAGTCCATAACTCCATGGTA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
* *
2298667 AAGTCCACAACTCTGTGGTATCTTTTTCTTTGT
1 AAGTCCACAACTCCGTGGCATCTTTTTCTTT-T
* *
2298700 AAGTCCACAACTCCATGGCATCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTT-TTTCTTTT
*
2298733 AAGTCCACAACTCCGTGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTC-TTTT
* * *
2298765 AAGTCCACGACTTCGTGGCACCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT--CTTTT
* * * *
2298799 AAGCCCACACCTTCGTGGCATCCCTTTTTCTTGT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCTTTT
*
2298833 AAGTCCACAACTCCGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCATCTTT
2298858 AAGTCTAATA
Statistics
Matches: 438, Mismatches: 58, Indels: 66
0.78 0.10 0.12
Matches are distributed among these distances:
27 42 0.10
28 5 0.01
29 5 0.01
30 70 0.16
31 76 0.17
32 91 0.21
33 50 0.11
34 92 0.21
35 1 0.00
36 6 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.35
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCTTTT
Found at i:2298734 original size:66 final size:67
Alignment explanation
Indices: 2298660--2298856 Score: 240
Period size: 66 Copynumber: 3.0 Consensus size: 67
2298650 CTCCATGGTA
* * *
2298660 CCCTTTTAAGTCCACAACTCTGTGGTATCTTTTTCTTTGTAAGTCCACAACTCCATGGCATCTTG
1 CCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTTGTAAGTCCACAACTCCGTGGCACCTTG
2298725 TT
66 TT
* * * * * *
2298727 -CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTCTTTTTAAGTCCACGACTTCGTGGCACCTTT
1 CCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTTGTAAGTCCACAACTCCGTGGCACCTTG
2298790 TT
66 TT
* *
2298792 CCCTTTTAAGCCCACACCT-TCGTGGCATCCCTTTTTC-TTGTAAGTCCACAACTCCGTGGCACC
1 CCCTTTTAAGTCCACAACTCT-GTGGCAT--CTTTTTCTTTGTAAGTCCACAACTCCGTGGCACC
2298855 TT
63 TT
2298857 TAAGTCTAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
65 32 0.29
66 46 0.42
68 25 0.23
69 6 0.06
ACGTcount: A:0.18, C:0.31, G:0.14, T:0.37
Consensus pattern (67 bp):
CCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTTGTAAGTCCACAACTCCGTGGCACCTTG
TT
Found at i:2298970 original size:48 final size:46
Alignment explanation
Indices: 2298916--2299315 Score: 166
Period size: 49 Copynumber: 8.6 Consensus size: 46
2298906 GAGTCCAAAA
*
2298916 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAGGACTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCTCTA-GAC-AATG
* ** * *
2298964 TTGCTGGTTTTGAATCAGCACATTGGCA--TAAG-C-C----CAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCT-TGTCTCTAGACAATG
* * *
2299003 TCGCTGGCTTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCTCT-AGA-CAATG
* **
2299051 TCGTTGGCCTTGAATCAGCACATTGGCA-CAAG-C-C----CAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCTCTAGACAATG
* * * * *
2299090 TCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTT-GTCTCT-AGA-CAATG
* ** * * *
2299139 TCGTTGGCCTTGAATCAATACATTGGCACCTTAACCATCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTT----GTCTCT-AG-ACAATG
* * * * * * * * *
2299191 TCACCGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCGATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTT-GTCTCT-AG-ACAATG
* * * *
2299240 TTGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCCTTAAGACCCATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCT-C-T-AGA-CAATG
*
2299289 TCGCTGGCCTTGAATCAACACATTGGC
1 TCGCTGGCCTTGAATCAGCACATTGGC
2299316 TTATTCATCT
Statistics
Matches: 270, Mismatches: 54, Indels: 55
0.71 0.14 0.15
Matches are distributed among these distances:
39 58 0.21
40 3 0.01
41 2 0.01
42 1 0.00
45 1 0.00
46 3 0.01
47 5 0.02
48 53 0.20
49 105 0.39
52 39 0.14
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCTCTAGACAATG
Found at i:2299020 original size:39 final size:39
Alignment explanation
Indices: 2298960--2299117 Score: 138
Period size: 39 Copynumber: 3.8 Consensus size: 39
2298950 CTCTAGGACT
* *
2298960 AATGTTGCTGGTTTTGAATCAGCACATTGGCATAAGCCC
1 AATGTCGCTGGCTTTGAATCAGCACATTGGCATAAGCCC
* * *
2298999 AATATCGCTGGCTTTGAATCAGCATATTGGCACCTTGTCTTTAAGACC
1 AATGTCGCTGGCTTTGAATCAGCACATTGGCA---------TAAGCCC
* * *
2299047 AATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGCCC
1 AATGTCGCTGGCTTTGAATCAGCACATTGGCATAAGCCC
*
2299086 AATGTCGCTGGAC-TTGAATCAGCATATTGGCA
1 AATGTCGCTGG-CTTTGAATCAGCACATTGGCA
2299118 CCTTCATCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
39 61 0.64
40 1 0.01
48 34 0.35
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (39 bp):
AATGTCGCTGGCTTTGAATCAGCACATTGGCATAAGCCC
Found at i:2299025 original size:87 final size:86
Alignment explanation
Indices: 2298910--2299167 Score: 336
Period size: 87 Copynumber: 3.0 Consensus size: 86
2298900 CATCTTGAGT
* * * * **
2298910 CCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAGGACTAATGTTGCTGGTTTT
1 CCAATATCGCTGG-CTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
*
2298975 GAATCAGCACATTGGCATAAGC
65 GAATCAGCACATTGGCACAAGC
* *
2298997 CCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGC-TTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
2299062 GAATCAGCACATTGGCACAAGC
65 GAATCAGCACATTGGCACAAGC
* * * * *
2299084 CCAATGTCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGG-CTTGAATCAGCATATTGGCACCTT-GTCTCTAAGACCAATGTCGCTGGCCT
**
2299149 TGAATCAATACATTGGCAC
64 TGAATCAGCACATTGGCAC
2299168 CTTAACCATC
Statistics
Matches: 154, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
86 1 0.01
87 111 0.72
88 42 0.27
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (86 bp):
CCAATATCGCTGGCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTG
AATCAGCACATTGGCACAAGC
Found at i:2299164 original size:49 final size:49
Alignment explanation
Indices: 2299087--2299461 Score: 306
Period size: 49 Copynumber: 7.6 Consensus size: 49
2299077 CACAAGCCCA
* *
2299087 ATGTCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCG
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCG
* ** * *
2299136 ATGTCGTTGGCCTTGAATCAATACATTGGCACCTTAACCATCTTTAAGTCCA
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT---CATCTTTAAGTCCG
* * *
2299188 ATGTCACCGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCG
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCG
* * * * * *
2299237 ATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCCTTAAGACCC
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCG
* * ***
2299286 ATGTCGCTGGCCTTGAATCAACACATTGGCTTATTCATCTTTAAGTCCG
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCG
* * * * * * * * *
2299335 ATATTGTTGGACTTGAATTAGCATATTGGCATCTTTAACATTCCTAAG-CCTA
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGTCC-G
** * * * **
2299387 ATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTA
1 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCG
* * *
2299434 ATGTCGCTGGTCATGAATCAGCACATTG
1 ATGTCGCTGGCCTTGAATCAGCATATTG
2299462 TCATTCTTCG
Statistics
Matches: 254, Mismatches: 64, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
47 28 0.11
48 1 0.00
49 151 0.59
50 5 0.02
51 2 0.01
52 67 0.26
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (49 bp):
ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCG
Found at i:2299332 original size:98 final size:98
Alignment explanation
Indices: 2299084--2299423 Score: 360
Period size: 101 Copynumber: 3.4 Consensus size: 98
2299074 TGGCACAAGC
* * * * *
2299084 CCAATGTCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCGATATTGTTGGCCT
** * * * *
2299149 TGAATCAATACATTGGCACCTTAACCATCTTTAAGT
66 TGAATCAGCATATTGGCACCTT---TATCCTTAAGA
* * *
2299185 CCAATGTCACCGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCGATATTGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCGATATTGTTGGCCT
2299250 TGAATCAGCATATTGGCACCTTTATCCTTAAGA
66 TGAATCAGCATATTGGCACCTTTATCCTTAAGA
* * * * * *
2299283 CCCATGTCGCTGGCCTTGAATCAACACATTGGCTTATTCATCTTTAAGTCCGATATTGTTGGACT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCGATATTGTTGGCCT
* *
2299348 TGAATTAGCATATTGGCATCTTTAACATTCC-TAAG-
66 TGAATCAGCATATTGGCACCTTT---A-TCCTTAAGA
** *
2299383 CCTAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTTC
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCA-TCTTC
2299424 TTCAAGTCTA
Statistics
Matches: 202, Mismatches: 31, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
98 85 0.42
100 2 0.01
101 108 0.53
102 7 0.03
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (98 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCGATATTGTTGGCCT
TGAATCAGCATATTGGCACCTTTATCCTTAAGA
Found at i:2299396 original size:150 final size:148
Alignment explanation
Indices: 2299080--2299417 Score: 390
Period size: 150 Copynumber: 2.3 Consensus size: 148
2299070 ACATTGGCAC
* * * *
2299080 AAGCCCAATGTCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCCTTAAGACCCATGTCGCTG
* * *
2299145 GCCTTGAATCAATACATTGGCACCTTAACCATCTTTAAGTCCAATGTCACCGGCCTTGAATCAGC
66 GCCTTGAATCAACACATTGG--CCTTAACCATCTTTAAGTCCAATATCACCGGACTTGAATCAGC
*
2299210 ATATTGGCATCTTCATCTTT
129 ATATTGGCATCTTCAACTTT
* * * * *
2299230 AAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCCTTAAGACCCATGTCGCTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCCTTAAGACCCATGTCGCTG
** * **** *
2299295 GCCTTGAATCAACACATTGG-CTTATTCATCTTTAAGTCCGATATTGTTGGACTTGAATTAGCAT
66 GCCTTGAATCAACACATTGGCCTTAACCATCTTTAAGTCCAATATCACCGGACTTGAATCAGCAT
*
2299359 ATTGGCATCTTTAACATTCCT
131 ATTGGCATCTTCAAC-TT--T
* ** *
2299380 AAGCCTAATGTCGCTGGCCTTGTCTCAGCACATTGGCA
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
2299418 TTCTTCTTCA
Statistics
Matches: 155, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
147 47 0.30
148 2 0.01
150 106 0.68
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (148 bp):
AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCCTTAAGACCCATGTCGCTG
GCCTTGAATCAACACATTGGCCTTAACCATCTTTAAGTCCAATATCACCGGACTTGAATCAGCAT
ATTGGCATCTTCAACTTT
Found at i:2300271 original size:13 final size:13
Alignment explanation
Indices: 2300253--2300278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2300243 ACATAAGTGT
2300253 TGTATCGATACAA
1 TGTATCGATACAA
2300266 TGTATCGATACAA
1 TGTATCGATACAA
2300279 AGTTACCTTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2309106 original size:32 final size:33
Alignment explanation
Indices: 2309056--2309117 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2309046 CATCCTTTTC
2309056 CATGATTTTTTCAGTTTTTATT-TTATTTTATT
1 CATGATTTTTTCAGTTTTTATTATTATTTTATT
* *
2309088 CATGATTTTTTTTA-TTTTTTTTATTATTTT
1 CATGA-TTTTTTCAGTTTTTATTATTATTTT
2309118 GATTTGATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (33 bp):
CATGATTTTTTCAGTTTTTATTATTATTTTATT
Found at i:2313867 original size:21 final size:20
Alignment explanation
Indices: 2313841--2313879 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2313831 GTTGGGACCT
2313841 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
2313862 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
2313880 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:2320929 original size:20 final size:20
Alignment explanation
Indices: 2320898--2320950 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2320888 AAAACCCTTA
2320898 AAAGTA-CGATACACGATT-C
1 AAAGTATCGATACACG-TTGC
*
2320917 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACACGTTGC
*
2320937 AATGTATCGATACA
1 AAAGTATCGATACA
2320951 TGAAAAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
AAAGTATCGATACACGTTGC
Found at i:2321029 original size:13 final size:13
Alignment explanation
Indices: 2321011--2321036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2321001 TACACCAAGT
2321011 ATGTATCGATACA
1 ATGTATCGATACA
2321024 ATGTATCGATACA
1 ATGTATCGATACA
2321037 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2321034 original size:32 final size:33
Alignment explanation
Indices: 2320993--2321056 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2320983 TAGCCAAACT
* **
2320993 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2321025 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2321057 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2323280 original size:21 final size:21
Alignment explanation
Indices: 2323247--2323291 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2323237 TTGCAAGTTG
*
2323247 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2323269 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2323289 AAA
1 AAA
2323292 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2325113 original size:15 final size:15
Alignment explanation
Indices: 2325093--2325123 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2325083 TAAAAATGTC
*
2325093 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2325108 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2325123 C
1 C
2325124 CACAAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2327203 original size:13 final size:13
Alignment explanation
Indices: 2327185--2327210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2327175 ACATTTTTCT
2327185 TTGTATCGATACA
1 TTGTATCGATACA
2327198 TTGTATCGATACA
1 TTGTATCGATACA
2327211 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:2327374 original size:20 final size:20
Alignment explanation
Indices: 2327331--2327376 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2327321 AAATCTTTTG
2327331 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2327352 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2327372 CAAAA
1 CAAAA
2327377 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2329771 original size:13 final size:13
Alignment explanation
Indices: 2329753--2329778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2329743 TACACCAAGT
2329753 ATGTATCGATACA
1 ATGTATCGATACA
2329766 ATGTATCGATACA
1 ATGTATCGATACA
2329779 CAAAAAATTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2330652 original size:20 final size:20
Alignment explanation
Indices: 2330629--2330705 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
2330619 AAGTACCCAG
*
2330629 ATGTATCAATACATTTTTCC
1 ATGTATCAATACATTTTTCA
* * * * *
2330649 ATGTATCGATAAATGTATGA
1 ATGTATCAATACATTTTTCA
*
2330669 ATGTATCAATACATTCTTCA
1 ATGTATCAATACATTTTTCA
2330689 ATGTATCAATACATTTT
1 ATGTATCAATACATTTT
2330706 GTCTTTTTAC
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:2332020 original size:23 final size:23
Alignment explanation
Indices: 2331990--2332035 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2331980 GGCTGTTTCA
2331990 TCGTCCCAAACTACTATGGGACT
1 TCGTCCCAAACTACTATGGGACT
*
2332013 TCGTCCCAAACTACTCTGGGACT
1 TCGTCCCAAACTACTATGGGACT
2332036 ATGTAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (23 bp):
TCGTCCCAAACTACTATGGGACT
Found at i:2336230 original size:83 final size:83
Alignment explanation
Indices: 2336091--2336256 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
2336081 GTTCCCTCAA
2336091 GCAATCATGTATAGATGTGGGGACATTACTTGTATGCAACTCCTTGGACTATGGGGAAGCACTAG
1 GCAATCATGTATAGATGTGGGGACATTACTTGTATGCAACTCCTTGGACTATGGGGAAGCACTAG
2336156 TTTTGCACCATTGTTGAC
66 TTTTGCACCATTGTTGAC
*
2336174 GCAATCATGTATAGATGTGGGGACATTACTTGTATGCCACTCCTTGGACTATGGGGAAGCACTAG
1 GCAATCATGTATAGATGTGGGGACATTACTTGTATGCAACTCCTTGGACTATGGGGAAGCACTAG
2336239 TTTTGCACCATTGTTGAC
66 TTTTGCACCATTGTTGAC
2336257 ATTACGTCAG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
GCAATCATGTATAGATGTGGGGACATTACTTGTATGCAACTCCTTGGACTATGGGGAAGCACTAG
TTTTGCACCATTGTTGAC
Found at i:2344446 original size:28 final size:28
Alignment explanation
Indices: 2344406--2344477 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
2344396 GGAATAAAGC
*
2344406 CGGGGTTGGAGTATCCCCTCA-GAAGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
2344434 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
2344462 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2344478 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:2344535 original size:52 final size:51
Alignment explanation
Indices: 2344465--2344851 Score: 297
Period size: 52 Copynumber: 7.4 Consensus size: 51
2344455 GAAATAACGA
* * *
2344465 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGG
* * * *
2344517 AGTTGGAGTATCCCCGATTAAAG-GGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTGGTGTTTTGGAAATAAAATCGG
* * * *
2344570 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTCGTAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGG
* *** * *
2344622 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGG
** * * * *
2344673 GGTTGGAGTATCCCC---TCAGAAATAA-CGG-G-GTTGGAGTATCCCCGATTAA-CGG
1 GGTTGGAGTATCCCCGATTGTGAAA-AATTGGTGTTTTGGA-AAT-----A-AAATCGG
2344725 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGG
* * * *
2344779 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGGAAATAAAATCGG
* *
2344830 AGTTGGAATATCCCCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
2344852 GAGAATTGAG
Statistics
Matches: 268, Mismatches: 42, Indels: 50
0.74 0.12 0.14
Matches are distributed among these distances:
46 5 0.02
47 2 0.01
48 6 0.02
49 2 0.01
50 1 0.00
51 74 0.28
52 81 0.30
53 45 0.17
54 34 0.13
55 7 0.03
56 3 0.01
57 1 0.00
59 2 0.01
60 5 0.02
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:2344647 original size:157 final size:152
Alignment explanation
Indices: 2344465--2344848 Score: 387
Period size: 157 Copynumber: 2.5 Consensus size: 152
2344455 GAAATAACGA
* * * *
2344465 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAATCGGAGTTGGAGTATCC
* * **
2344530 CCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAA
65 CCGATTAAAGGG---ATTGGAGTATCCAAAAT-AAA-CGGGGTTGGAGTATCCCCGATTGT-GAA
*
2344595 -AAATTAGTG-TTTTCGTAATAAAACCGG
124 GAAATTAGTGTTTTTCGAAATAAAACCGG
* * * *
2344622 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGGAGTTGGAGTAT-CC
* * * *** *
2344687 CTCAGAAATAACGGGGTTGGAGTATCCCCGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAA
65 C-C-G-ATTAAAGGGATTGGAGTATCCAAAATAAACGGGGTTGGAGTATCCCCGATTGTGAAGAA
* * *
2344752 ATTGGTGTTTTTTGGAAATAAAATCGG
127 ATTAGTG-TTTTTCGAAATAAAACCGG
* * * *
2344779 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCC
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTATTTTGGAAATAAAATCGGAGTTGGAGTATCC
2344843 CCGATT
65 CCGATT
2344849 GTGGAGAATT
Statistics
Matches: 187, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
153 2 0.01
154 4 0.02
155 33 0.18
156 32 0.17
157 107 0.57
158 1 0.01
159 1 0.01
160 7 0.04
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (152 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCC
CGATTAAAGGGATTGGAGTATCCAAAATAAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTA
GTGTTTTTCGAAATAAAACCGG
Found at i:2344676 original size:264 final size:260
Alignment explanation
Indices: 2344355--2344853 Score: 804
Period size: 264 Copynumber: 1.9 Consensus size: 260
2344345 TCGAAAATAA
* *
2344355 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* *
2344420 CCCCTCAGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT----TAACGAGGTTGGAGTATCCCCGATTG
2344485 TGAA-AAATTGGT-ATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGGAAAATT
127 TGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAA--GAAAATT
* * *
2344548 GGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTCGTAA
190 AGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTCGTAA
2344613 TAAAAC
255 TAAAAC
* *
2344619 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*
2344684 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTAACGGGGTTGGAGTATCCCCGATTGTGAA
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTAACGAGGTTGGAGTATCCCCGATTGTGAA
* * *
2344749 GAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTT
131 GAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTT
*
2344814 TTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
196 TTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
2344854 GAATTGAGAA
Statistics
Matches: 219, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
260 77 0.35
261 8 0.04
262 39 0.18
264 95 0.43
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (260 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTAACGAGGTTGGAGTATCCCCGATTGTGAA
GAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTT
TTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTCGTAATAAAAC
Found at i:2344727 original size:24 final size:24
Alignment explanation
Indices: 2344670--2344743 Score: 103
Period size: 24 Copynumber: 2.9 Consensus size: 24
2344660 GAAATAAAGT
*
2344670 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTAT-CCC-C-G-ATTAA
2344698 CGGGGTTGGAGTATCCCCGATTAA
1 CGGGGTTGGAGTATCCCCGATTAA
2344722 CGGGGTTGGAGTATCCCCGATT
1 CGGGGTTGGAGTATCCCCGATT
2344744 GTGAAGAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 26 0.58
25 1 0.02
26 1 0.02
27 3 0.07
28 14 0.31
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (24 bp):
CGGGGTTGGAGTATCCCCGATTAA
Found at i:2347222 original size:13 final size:13
Alignment explanation
Indices: 2347204--2347229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2347194 CAAAGAATAG
2347204 ATGTATCGATACA
1 ATGTATCGATACA
2347217 ATGTATCGATACA
1 ATGTATCGATACA
2347230 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2347226 original size:34 final size:33
Alignment explanation
Indices: 2347183--2347249 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
2347173 AACTTCCTAG
*
2347183 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
2347217 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
2347250 TTCCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:2347293 original size:19 final size:17
Alignment explanation
Indices: 2347267--2347337 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 17
2347257 GGCAGTAGCT
2347267 AATTATGTATCGATACA
1 AATTATGTATCGATACA
2347284 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
2347302 -A-T-TGTATCGATACA
1 AATTATGTATCGATACA
2347316 ACATTTATGTATCGATACA
1 A-A-TTATGTATCGATACA
2347335 AAT
1 AAT
2347338 CGCTGAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
17 2 0.04
18 3 0.07
19 27 0.59
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:2347309 original size:13 final size:13
Alignment explanation
Indices: 2347291--2347315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2347281 ACAATACTTA
2347291 TGTATCGATACAT
1 TGTATCGATACAT
2347304 TGTATCGATACA
1 TGTATCGATACA
2347316 ACATTTATGT
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:2347313 original size:32 final size:32
Alignment explanation
Indices: 2347272--2347334 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2347262 TAGCTAATTA
*
2347272 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
2347304 TGTATCGATACAACATTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
2347335 AATCGCTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:2349229 original size:11 final size:11
Alignment explanation
Indices: 2349213--2349264 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
2349203 CCTTTGCACC
2349213 CAAAAAAAAAA
1 CAAAAAAAAAA
2349224 C-AAAAAAAAA
1 CAAAAAAAAAA
*
2349234 CAAAAAAAAAC
1 CAAAAAAAAAA
* *
2349245 CAAGAAAAATAG
1 CAA-AAAAAAAA
2349257 CAAAAAAA
1 CAAAAAAA
2349265 GAAAAGGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 10 0.28
11 17 0.47
12 9 0.25
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.02
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:2349230 original size:10 final size:10
Alignment explanation
Indices: 2349215--2349264 Score: 64
Period size: 10 Copynumber: 4.7 Consensus size: 10
2349205 TTTGCACCCA
2349215 AAAAAAAAAC
1 AAAAAAAAAC
2349225 AAAAAAAAAC
1 AAAAAAAAAC
2349235 AAAAAAAAACC
1 AAAAAAAAA-C
*
2349246 AAGAAAAATAGC
1 AA-AAAAA-AAC
2349258 AAAAAAA
1 AAAAAAA
2349265 GAAAAGGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 19 0.53
11 8 0.22
12 8 0.22
13 1 0.03
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:2349237 original size:21 final size:23
Alignment explanation
Indices: 2349213--2349264 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
2349203 CCTTTGCACC
2349213 CAAAAAAAAAACAA-AAAAA-AA
1 CAAAAAAAAAACAAGAAAAATAA
* *
2349234 CAAAAAAAAACCAAGAAAAATAG
1 CAAAAAAAAAACAAGAAAAATAA
2349257 CAAAAAAA
1 CAAAAAAA
2349265 GAAAAGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 13 0.48
22 5 0.19
23 9 0.33
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.02
Consensus pattern (23 bp):
CAAAAAAAAAACAAGAAAAATAA
Found at i:2350523 original size:28 final size:28
Alignment explanation
Indices: 2350483--2350847 Score: 480
Period size: 28 Copynumber: 12.6 Consensus size: 28
2350473 GAACGTTAAA
2350483 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
2350511 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
2350539 ACCCCTTTCAAAGCCCACAAGTCAGTGGC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGC
*
2350568 ACCCTTTCAAAGCCCACAAGTCAATGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2350596 ACTCTTTTCAAAGCCCACACGAGTCGGTGGC
1 AC-CCTTTCAAAGCCCACA--AGTCAGTGGC
*
2350627 AACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 -AC-CCTTTCAAAGCCCACAAGTCAGTGGC
2350657 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2350685 ATCCTTTCAAAGTCCGCAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2350713 ACCCTTTTAAAACCCAC-AGCTCAATGGC
1 ACCCTTTCAAAGCCCACAAG-TCAGTGGC
* * *
2350741 ACTCTTTTCGAAGCCCACAAGTTAGTGGC
1 AC-CCTTTCAAAGCCCACAAGTCAGTGGC
2350770 ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
**
2350798 ACCCTTTCAAAGCCCACACGAGTTGGTGGC
1 ACCCTTTCAAAGCCCACA--AGTCAGTGGC
2350828 AACTCCTTTCAAAGCCCACA
1 -AC-CCTTTCAAAGCCCACA
2350848 GAAGTTGGTG
Statistics
Matches: 299, Mismatches: 26, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
27 2 0.01
28 169 0.57
29 64 0.21
30 19 0.06
31 10 0.03
32 35 0.12
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:2350572 original size:57 final size:56
Alignment explanation
Indices: 2350483--2350847 Score: 480
Period size: 57 Copynumber: 6.3 Consensus size: 56
2350473 GAACGTTAAA
2350483 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
*
2350539 ACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2350596 ACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC
1 AC-CCTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGC
* * *
2350657 ACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCGCAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
* * * * * *
2350713 ACCCTTTTAAAACCCAC-AGCTCAATGGCACTCTTTTCGAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAG-TCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGC
**
2350770 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACGAGTTGGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--AGTCAGTGGC
2350828 AACTCCTTTCAAAGCCCACA
1 -AC-CCTTTCAAAGCCCACA
2350848 GAAGTTGGTG
Statistics
Matches: 270, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
55 2 0.01
56 62 0.23
57 116 0.43
58 20 0.07
59 11 0.04
60 33 0.12
61 26 0.10
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (56 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:2351451 original size:20 final size:20
Alignment explanation
Indices: 2351423--2351589 Score: 100
Period size: 20 Copynumber: 8.8 Consensus size: 20
2351413 TTTTACCCTG
2351423 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2351443 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2351463 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
*
2351483 ATGTATCGATACATTATGTCA
1 ATGTATCGATACATT-TTTCA
** *
2351504 AT-T-T---TAC---CCT-G
1 ATGTATCGATACATTTTTCA
2351515 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2351535 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2351555 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
2351575 ATGTATCGATACATT
1 ATGTATCGATACATT
2351590 ATGTCTTTTT
Statistics
Matches: 104, Mismatches: 33, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
11 2 0.02
12 2 0.02
13 1 0.01
16 6 0.06
19 2 0.02
20 87 0.84
21 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2351490 original size:40 final size:39
Alignment explanation
Indices: 2351423--2351500 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2351413 TTTTACCCTG
* *
2351423 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGA
* *
2351463 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG
2351501 TCAATTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGA
Found at i:2351551 original size:32 final size:32
Alignment explanation
Indices: 2351423--2351552 Score: 87
Period size: 32 Copynumber: 4.2 Consensus size: 32
2351413 TTTTACCCTG
2351423 ATGTATCGATACATTTTTCAATATATCGATAC
1 ATGTATCGATACATTTTTCAATATATCGATAC
* * * *
2351455 ATGTAT-G--A-ATGTATCGATATATTC--TGC
1 ATGTATCGATACATTTTTCAATATA-TCGATAC
* * ** *
2351482 AATGTATCGATACATTATGTCAAT-TTTACCCT-G
1 -ATGTATCGATACATT-TTTCAATATAT-CGATAC
2351515 ATGTATCGATACATTTTTCAATATATCGATAC
1 ATGTATCGATACATTTTTCAATATATCGATAC
2351547 ATGTAT
1 ATGTAT
2351553 GAATGTATCG
Statistics
Matches: 72, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
27 2 0.03
28 16 0.22
29 4 0.06
31 11 0.15
32 33 0.46
33 5 0.07
34 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (32 bp):
ATGTATCGATACATTTTTCAATATATCGATAC
Found at i:2351570 original size:92 final size:91
Alignment explanation
Indices: 2351413--2351620 Score: 382
Period size: 92 Copynumber: 2.3 Consensus size: 91
2351403 AAAGTCACAT
2351413 TTTTACCCTGATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATATATT
1 TTTTACCCTGATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATATATT
2351478 CTGCAATGTATCGATACATTATGTCAA
66 CTGCAATGTATCGATACATTATGTC-A
2351505 TTTTACCCTGATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATATATT
1 TTTTACCCTGATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATATATT
*
2351570 CTGCAATGTATCGATACATTATGTCT
66 CTGCAATGTATCGATACATTATGTCA
2351596 TTTTA-CCTAGATGTATCGATACATT
1 TTTTACCCT-GATGTATCGATACATT
2351621 GAATAATGTA
Statistics
Matches: 114, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
90 3 0.03
91 21 0.18
92 90 0.79
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (91 bp):
TTTTACCCTGATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATATATT
CTGCAATGTATCGATACATTATGTCA
Found at i:2351582 original size:40 final size:39
Alignment explanation
Indices: 2351515--2351592 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2351505 TTTTACCCTG
* *
2351515 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGA
* *
2351555 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG
2351593 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGA
Found at i:2356487 original size:77 final size:77
Alignment explanation
Indices: 2356395--2356548 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
2356385 ATTATGCTCG
*
2356395 AAAATGCCACAGATGCCAAATTTATGCAGATAAGATCCATGTTCCCCCAGCACCACTTCACGTCA
1 AAAATGCCACAGATGCCAAATTTATGCAGATAAGATCCATGTTCCCCCAGCACCACTTCACATCA
2356460 TAACGGCCCTGT
66 TAACGGCCCTGT
2356472 AAAATGCCACAGATGCCAAATTTATGCAGATAAGATCCATGTTCCCCCAGCACCACTTCACATCA
1 AAAATGCCACAGATGCCAAATTTATGCAGATAAGATCCATGTTCCCCCAGCACCACTTCACATCA
2356537 TAACGGCCCTGT
66 TAACGGCCCTGT
2356549 GGCCCTTCTC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (77 bp):
AAAATGCCACAGATGCCAAATTTATGCAGATAAGATCCATGTTCCCCCAGCACCACTTCACATCA
TAACGGCCCTGT
Found at i:2357452 original size:23 final size:24
Alignment explanation
Indices: 2357421--2357465 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2357411 AAGGGCGTCC
*
2357421 TTTATAAAAAAACA-AAAAAAATA
1 TTTAAAAAAAAACAGAAAAAAATA
*
2357444 TTTAAAAAAAACCAGAAAAAAA
1 TTTAAAAAAAAACAGAAAAAAA
2357466 CCCAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (24 bp):
TTTAAAAAAAAACAGAAAAAAATA
Found at i:2357474 original size:40 final size:39
Alignment explanation
Indices: 2357429--2357504 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
2357419 CCTTTATAAA
* *
2357429 AAAACAAAAAAAATATTTAAAAAAAACC-AGAAAAAAACCC
1 AAAACAAAAAAAACA--AAAAAAAAACCAAGAAAAAAACCC
2357469 AAAACAAAAAAAACAAAAAAAAAACCAAGAAAAAAA
1 AAAACAAAAAAAACAAAAAAAAAACCAAGAAAAAAA
2357505 TAGCAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 10 0.30
39 9 0.27
40 14 0.42
ACGTcount: A:0.79, C:0.13, G:0.03, T:0.05
Consensus pattern (39 bp):
AAAACAAAAAAAACAAAAAAAAAACCAAGAAAAAAACCC
Found at i:2357490 original size:11 final size:11
Alignment explanation
Indices: 2357474--2357521 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
2357464 AACCCAAAAC
2357474 AAAAAAAACAA
1 AAAAAAAACAA
2357485 AAAAAAAACCAA
1 AAAAAAAA-CAA
* * *
2357497 GAAAAAAATAG
1 AAAAAAAACAA
*
2357508 CAAAAAAACAA
1 AAAAAAAACAA
2357519 AAA
1 AAA
2357522 GGGGTCCAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.02
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:2357504 original size:27 final size:26
Alignment explanation
Indices: 2357447--2357515 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
2357437 AAAAATATTT
* * *
2357447 AAAAAAAACCAGAAAAAAACCCAAAA
1 AAAAAAAAACAAAAAAAAAACCAAAA
* *
2357473 CAAAAAAAACAAAAAAAAAACCAAGA
1 AAAAAAAAACAAAAAAAAAACCAAAA
* *
2357499 AAAAAATAGCAAAAAAA
1 AAAAAAAAACAAAAAAA
2357516 CAAAAAGGGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.80, C:0.14, G:0.04, T:0.01
Consensus pattern (26 bp):
AAAAAAAAACAAAAAAAAAACCAAAA
Found at i:2357512 original size:40 final size:39
Alignment explanation
Indices: 2357429--2357521 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 39
2357419 CCTTTATAAA
* * *
2357429 AAAACAAAAAAAATATTTAAAAAAAACCAGAAAAAAACCC
1 AAAACAAAAAAAACA-TAAAAAAAAACCAGAAAAAAAACC
*
2357469 AAAACAAAAAAAACA-AAAAAAAAACCAAGAAAAAAATAGC
1 AAAACAAAAAAAACATAAAAAAAAACC-AGAAAAAAA-ACC
2357509 AAAA-AAACAAAAA
1 AAAACAAA-AAAAA
2357522 GGGGTCCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 10 0.22
39 12 0.26
40 24 0.52
ACGTcount: A:0.78, C:0.13, G:0.03, T:0.05
Consensus pattern (39 bp):
AAAACAAAAAAAACATAAAAAAAAACCAGAAAAAAAACC
Found at i:2357515 original size:14 final size:13
Alignment explanation
Indices: 2357447--2357520 Score: 62
Period size: 14 Copynumber: 5.6 Consensus size: 13
2357437 AAAAATATTT
*
2357447 AAAAAAAACC-AG
1 AAAAAAAACCAAA
*
2357459 AAAAAAACCCAAA
1 AAAAAAAACCAAA
*
2357472 ACAAAAAAAAC-AA
1 A-AAAAAAACCAAA
2357485 AAAAAAAACCAAGA
1 AAAAAAAACCAA-A
* *
2357499 AAAAAATAGCAAA
1 AAAAAAAACCAAA
2357512 AAAACAAAA
1 AAAA-AAAA
2357521 AGGGGTCCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
12 17 0.35
13 11 0.22
14 21 0.43
ACGTcount: A:0.80, C:0.15, G:0.04, T:0.01
Consensus pattern (13 bp):
AAAAAAAACCAAA
Found at i:2358780 original size:28 final size:28
Alignment explanation
Indices: 2358737--2359990 Score: 1364
Period size: 28 Copynumber: 44.1 Consensus size: 28
2358727 CGTTCATCTC
*
2358737 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2358765 TTTAAAGCCCAAAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2358793 TTCAAAGCTCACAAGTCAGTGGTA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
2358821 TTCAAAGCCCACGAGTCAATGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2358849 TTCAAAGCCCACGAGTCATTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2358877 TTTAAAGCCCACGAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2358905 TTCAAAGCCCACGAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
2358933 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2358961 TTCAAAGCCCACACGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** * ** *
2358989 TTCAAAGCCCATGAGTCATTAACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359017 TTTAAAGTCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2359045 TTGAAAGCTCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
2359073 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359101 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359129 TTTAAAGCCCACGAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359157 TTCAAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359185 TTCAAAGCCCACAAGTTAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359213 TTCAAAGCTCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2359241 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359269 TTTAAAGCCCACCAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359297 TTCAAAGCCCACCAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* ** * *
2359325 TTTAAAGCCCATGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359353 TTTAAAGCCCACAAGTCAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359381 TTCGAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359409 TTCAAAGCCCACAAGTTAGCGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359437 TTCAAAGCCCACGAGTTATTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359465 TTCAAAGCTCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359493 TTCAAAGCCCACGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
2359521 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2359549 TTCAAAGCCCCCCACAAGTAAGTGGCATCCT
1 TTCAAAG---CCCACAAGTCAGTGGCATCCT
*
2359580 TTCAAAGCCCCCCACAAGTTAGTGGCATCCT
1 TTCAAAG---CCCACAAGTCAGTGGCATCCT
2359611 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2359639 TTCAAAGCCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* * *
2359669 TTCAAAGCCCACACAAGTCGGTGGTAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGG-CA-TCCT
* *
2359701 TTCAAAGCCCACAGGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359729 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
2359758 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359786 TTCAAAGCCCACAAGTTAGT-GCAATCTT
1 TTCAAAGCCCACAAGTCAGTGGC-ATCCT
*
2359814 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359842 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2359870 TTCAAAG-CCAGAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* ** * * *
2359898 TTTAAAGTTCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* * *
2359928 TTTAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* *
2359960 TTCGAAGCCCACACAAGTTAGTGGCA-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
2359989 TT
1 TT
2359991 TTTTTAAAAA
Statistics
Matches: 1058, Mismatches: 150, Indels: 35
0.85 0.12 0.03
Matches are distributed among these distances:
27 19 0.02
28 834 0.79
29 46 0.04
30 33 0.03
31 62 0.06
32 64 0.06
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2360898 original size:20 final size:20
Alignment explanation
Indices: 2360870--2360944 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
2360860 AAGTACCCAG
2360870 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2360890 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2360910 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2360930 ATGTATCGATACATT
1 ATGTATCGATACATT
2360945 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2367573 original size:3 final size:3
Alignment explanation
Indices: 2367567--2367596 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2367557 CATCATCATC
*
2367567 ATT ATT ATT ATT ATT ATG ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2367597 GTTGTAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:2369285 original size:20 final size:20
Alignment explanation
Indices: 2369256--2369328 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
2369246 GGAAGGAAAT
*
2369256 TGTATTGATACATTTTTCAA
1 TGTATCGATACATTTTTCAA
****
2369276 TGTATCGATACA-TAAGAAA
1 TGTATCGATACATTTTTCAA
* *
2369295 TTGTATCGATATATTTTTCAT
1 -TGTATCGATACATTTTTCAA
*
2369316 TGTATCAATACAT
1 TGTATCGATACAT
2369329 CCAGTTAAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 3 0.08
20 33 0.87
21 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAA
Found at i:2369299 original size:40 final size:40
Alignment explanation
Indices: 2369251--2369328 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
2369241 ATTCTGGAAG
* *
2369251 GAAATTGTATTGATACATTTTTCAATGTATCGATACATAA
1 GAAATTGTATCGATACATTTTTCAATGTATCAATACATAA
* *
2369291 GAAATTGTATCGATATATTTTTCATTGTATCAATACAT
1 GAAATTGTATCGATACATTTTTCAATGTATCAATACAT
2369329 CCAGTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (40 bp):
GAAATTGTATCGATACATTTTTCAATGTATCAATACATAA
Found at i:2369419 original size:65 final size:65
Alignment explanation
Indices: 2369343--2369473 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
2369333 TTAAATTTAA
* *
2369343 ATATTTCGAACCATTTTCAACCTTTGCTTTTTTGGACCCAATGTCTAATTTGAACACATTTTCTC
1 ATATTTCGAACCATTTTCAACCTTTGCTCTTTTGGACCCAATATCTAATTTGAACACATTTTCTC
*
2369408 ATATTTCGAACCATTTTCAACCTTTGCTCTTTTGGACCCAATATCTAATTTGAACACGTTTTCTC
1 ATATTTCGAACCATTTTCAACCTTTGCTCTTTTGGACCCAATATCTAATTTGAACACATTTTCTC
2369473 A
1 A
2369474 CATCTTGAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (65 bp):
ATATTTCGAACCATTTTCAACCTTTGCTCTTTTGGACCCAATATCTAATTTGAACACATTTTCTC
Found at i:2371745 original size:493 final size:491
Alignment explanation
Indices: 2370792--2371778 Score: 1902
Period size: 493 Copynumber: 2.0 Consensus size: 491
2370782 AAAATTAATT
*
2370792 AATATTAATTAAAAATATTAAAATTATAAAAAAAGTAAAATTACTCAATATTTTAATTTTAATAA
1 AATATTAATTAAAAATATTAAAATTATAAAAAAAATAAAATTACTCAATATTTTAATTTTAATAA
2370857 AATATTATTGATTAATTAAGGACAATAATTAATATTATAAATTATTAAAGACAAATATGTCGATT
66 AATATTATTGATTAATTAAGGACAATAATTAATATTATAAATTATTAAAGACAAATATGTCGATT
2370922 GTTATTTTGAATTTTTGAGTTTACGTTTTTATATATATTATTATATTATACAGATTATAGATATG
131 GTTATTTTGAATTTTTGAGTTTACGTTTTTATATATATTATTATATTATACAGATTATAGATATG
2370987 CATGTAAAAATTTTCCGCGGCTTAAACAAGGCTGCAATGGGCTTGCTGACACTCTCATTCCACTT
196 CATGTAAAAATTTTCCGCGGCTTAAACAAGGCTGCAATGGGCTTGCTGACACTCTCATTCCACTT
*
2371052 GTCTTGGCCTACACTCCGTGTTTGCATATTCAGAAGCAGCTGCAAAAAGACGGGGCATTGCCAAA
261 GTCTTGGCCTACACTCCGGGTTTGCATATTCAGAAGCAGCTGCAAAAAGACGGGGCATTGCCAAA
2371117 TCCGATTTGGAACACTAAAACAGCTTTCCATCAAATATTTTACAACTGGCTTTGCTTCCTCATCG
326 TCCGATTTGGAACACTAAAACAGCTTTCCATCAAATATTTTACAACTGGCTTTGCTTCCTCATCG
2371182 TATATGCAATGTTAAAATGAACTGAGATATTAAAAGGTTCAAACTATTATAGAGAGTTGCAGAAT
391 TATATGCAATGTTAAAATGAACTGAGATATTAAAAGGTTCAAACTATTATAGAGAGTTGCAGAAT
2371247 ACATATATATCACTAATTTGACAACGAAGTTACTGG
456 ACATATATATCACTAATTTGACAACGAAGTTACTGG
2371283 AATATTAATTAAAAATATTAAAATTATAAAAAAAAAATAAAATTACTCAATATTTTAATTTTAAT
1 AATATTAATTAAAAATATTAAAATTAT--AAAAAAAATAAAATTACTCAATATTTTAATTTTAAT
*
2371348 AAAATATTATTGATTAATTAAGGTCAATAATTAATATTATAAATTATTAAAGACAAATATGTCGA
64 AAAATATTATTGATTAATTAAGGACAATAATTAATATTATAAATTATTAAAGACAAATATGTCGA
*
2371413 TTGTTATTTTGAATTTTTGAGTTTACGTTTTTATATATTTTATTATATTATACAGATTATAGATA
129 TTGTTATTTTGAATTTTTGAGTTTACGTTTTTATATATATTATTATATTATACAGATTATAGATA
2371478 TGCATGTAAAAATTTTCCGCGGCTTAAACAAGGCTGCAATGGGCTTGCTGACACTCTCATTCCAC
194 TGCATGTAAAAATTTTCCGCGGCTTAAACAAGGCTGCAATGGGCTTGCTGACACTCTCATTCCAC
*
2371543 TTGTCTTGGCCTACACTCCGGGTTTGCATATTCAGAAGCAGCTGCAAAACGACGGGGCATTGCCA
259 TTGTCTTGGCCTACACTCCGGGTTTGCATATTCAGAAGCAGCTGCAAAAAGACGGGGCATTGCCA
2371608 AATCCGATTTGGAACACTAAAACAGCTTTCCATCAAATATTTTACAACTGGCTTTGCTTCCTCAT
324 AATCCGATTTGGAACACTAAAACAGCTTTCCATCAAATATTTTACAACTGGCTTTGCTTCCTCAT
*
2371673 CGTTTATGCAATGTTAAAATGAACTGAGATATTAAAAGGTTCAAACTATTATAGAGAGTTGCAGA
389 CGTATATGCAATGTTAAAATGAACTGAGATATTAAAAGGTTCAAACTATTATAGAGAGTTGCAGA
2371738 ATACATATATATCACTAATTTGACAACGAAGTTACTGG
454 ATACATATATATCACTAATTTGACAACGAAGTTACTGG
2371776 AAT
1 AAT
2371779 TTAGAGACGC
Statistics
Matches: 488, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
491 27 0.06
493 461 0.94
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (491 bp):
AATATTAATTAAAAATATTAAAATTATAAAAAAAATAAAATTACTCAATATTTTAATTTTAATAA
AATATTATTGATTAATTAAGGACAATAATTAATATTATAAATTATTAAAGACAAATATGTCGATT
GTTATTTTGAATTTTTGAGTTTACGTTTTTATATATATTATTATATTATACAGATTATAGATATG
CATGTAAAAATTTTCCGCGGCTTAAACAAGGCTGCAATGGGCTTGCTGACACTCTCATTCCACTT
GTCTTGGCCTACACTCCGGGTTTGCATATTCAGAAGCAGCTGCAAAAAGACGGGGCATTGCCAAA
TCCGATTTGGAACACTAAAACAGCTTTCCATCAAATATTTTACAACTGGCTTTGCTTCCTCATCG
TATATGCAATGTTAAAATGAACTGAGATATTAAAAGGTTCAAACTATTATAGAGAGTTGCAGAAT
ACATATATATCACTAATTTGACAACGAAGTTACTGG
Found at i:2376361 original size:16 final size:16
Alignment explanation
Indices: 2376335--2376379 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
2376325 TCACCTGAGT
2376335 TAAAAATTAAATTTAAG
1 TAAAAA-TAAATTTAAG
***
2376352 TAAAAATAAATTTGTT
1 TAAAAATAAATTTAAG
2376368 TAAAAATAAATT
1 TAAAAATAAATT
2376380 AATTTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
TAAAAATAAATTTAAG
Found at i:2376569 original size:36 final size:34
Alignment explanation
Indices: 2376506--2376605 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 34
2376496 ATATAATATC
* * *
2376506 AATAAAAATATATTAAATTATGTATATTTTAAATTTT
1 AATAAAAA-ATATT-AATT-TTTAAATATTAAATTTT
2376543 AATAAAAAATATTAATTTTTAAATATTAAATTTT
1 AATAAAAAATATTAATTTTTAAATATTAAATTTT
*
2376577 AAAAAATATAATATTAATTGATTTAAATA
1 AATAAA-A-AATATTAATT--TTTAAATA
2376606 AATTTAAACT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
34 19 0.35
35 5 0.09
36 15 0.27
37 8 0.15
38 8 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (34 bp):
AATAAAAAATATTAATTTTTAAATATTAAATTTT
Found at i:2376576 original size:15 final size:14
Alignment explanation
Indices: 2376549--2376579 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2376539 TTTTAATAAA
2376549 AAATATTAATTTTT
1 AAATATTAATTTTT
*
2376563 AAATATTAAATTTT
1 AAATATTAATTTTT
2376577 AAA
1 AAA
2376580 AAATATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATTAATTTTT
Found at i:2376851 original size:11 final size:11
Alignment explanation
Indices: 2376837--2376875 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2376827 AAAAGTGTCA
*
2376837 AAAAAAATTAT
1 AAAAATATTAT
*
2376848 AAAAATATAAT
1 AAAAATATTAT
*
2376859 AAAAATATTCT
1 AAAAATATTAT
2376870 AAAAAT
1 AAAAAT
2376876 GACTCGATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATATTAT
Found at i:2379042 original size:20 final size:20
Alignment explanation
Indices: 2378995--2379065 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
2378985 AAAATGCCTG
* * *
2378995 AATGTATCGATACATTGTAA
1 AATGTATCGATATAATGCAA
* *
2379015 AATATATCGATATAATG-AGC
1 AATGTATCGATATAATGCA-A
2379035 AATGTATCGATATAATGCAA
1 AATGTATCGATATAATGCAA
2379055 AATGTATCGAT
1 AATGTATCGAT
2379066 TCATCTGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATATAATGCAA
Found at i:2379104 original size:13 final size:13
Alignment explanation
Indices: 2379086--2379110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2379076 AAACCCAGAA
2379086 TGTATCGATACAT
1 TGTATCGATACAT
2379099 TGTATCGATACA
1 TGTATCGATACA
2379111 ATAAACAATG
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:2379805 original size:43 final size:42
Alignment explanation
Indices: 2379713--2380452 Score: 342
Period size: 43 Copynumber: 17.2 Consensus size: 42
2379703 TGTCCCACTT
* * *
2379713 TTTGAGGACAAAGG-AAAAGAGAATGAAA-TGGGTCTTGCTC
1 TTTGAGGACAAAGGAAAAAGAAAAAGAAAGTGCGTCTTGCTC
* *
2379753 CTTGAGGACAAAGGAAGAAAGAAAAAGAAAGTGTGTCTTGCT-
1 TTTGAGGACAAAGGAA-AAAGAAAAAGAAAGTGCGTCTTGCTC
* * * * * *
2379795 TTTCGAGGACAATGGAAAAAAGGAAAACAAAATGCATCCTGCTC
1 TTT-GAGGACAAAGG-AAAAAGAAAAAGAAAGTGCGTCTTGCTC
* * *
2379839 TTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCTTGCTC
1 TTTGAGGACAAAGGAAAAAGAAAAAGAAAGTGCGTCTTGCTC
* * * * * * *
2379881 TTTGAGGACAAAAGGGGAAAATAAGGAAATGGAA-TGTGTCCTACTT
1 TTTGAGGAC-AAA--GG-AAA-AAGAAAAAGAAAGTGCGTCTTGCTC
* * * *
2379927 TTTGAGGACAAAGGAGAAAAGGAAAATAAAATGCGTCCTGCTC
1 TTTGAGGACAAAGGA-AAAAGAAAAAGAAAGTGCGTCTTGCTC
* * * *
2379970 TTTGAGGACAAGGGAGAAAA-AAGGGAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAAAGGA-AAAAGAA---AA-AGAAAGTGCGTCTTGCTC
* ** * *
2380014 TTTGAGGATAAAGGAGAAAAGGAAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAAAGGA-AAAA-GAAAAAGAAAGTGCGTCTTGCTC
* * *
2380056 TTTGAGGACAAAGGAGAAAAG-GAAAGAAAAGTGTGTCCTGCTC
1 TTTGAGGACAAAGGA-AAAAGAAAAAG-AAAGTGCGTCTTGCTC
* * ** * *
2380099 TTTGAGGACAAGGGGGAAAAAGGAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAA--AGGAAAAAGAAAAAGAAAGTGCGTCTTGCTC
** * *
2380141 TTTGAGGACAAAGGAGAAAAGGAAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAAAGGA-AAAA-GAAAAAGAAAGTGCGTCTTGCTC
* * *
2380183 TTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
1 TTTGAGGACAAAGGA-AAAAGAAAAAGAAAGTGCGTCTTGCTC
* *
2380226 TTTGAGGACAAAAGGGAAAAGAAAGAA-ATGCAGTGCGTCTTGCTC
1 TTTGAGGAC-AAAGGAAAAAGAAA-AAGA--AAGTGCGTCTTGCTC
* * * * *
2380271 TTTGAGCACAAAAAGAGAAAA-AAAAGGGAA-TGGAACATGTCCTGCTC
1 TTTGAGGAC-AAAGGA-AAAAGAAAAAGAAAGT-G--C--GTCTTGCTC
* * * * *
2380318 TTTGAGG-CAAAGGAGAAAAAGGAAAATAGAGTGCGTCCTACTC
1 TTTGAGGACAAA-G-GAAAAAGAAAAAGAAAGTGCGTCTTGCTC
* * *
2380361 TTTGAGGACAAAAGGGAAAAGAAGGAAATG-AAGTGTGTCCTGCTC
1 TTTGAGGAC-AAAGGAAAAAGAA--AAA-GAAAGTGCGTCTTGCTC
2380406 TTTGAGGACAAAGG----AGAAAAAGAAAAG-GCGT-TCTGCTC
1 TTTGAGGACAAAGGAAAAAGAAAAAG-AAAGTGCGTCT-TGCTC
2380444 TTTGAGGAC
1 TTTGAGGAC
2380453 TAAAAAGTGC
Statistics
Matches: 563, Mismatches: 85, Indels: 106
0.75 0.11 0.14
Matches are distributed among these distances:
37 1 0.00
38 20 0.04
39 3 0.01
40 22 0.04
41 17 0.03
42 153 0.27
43 154 0.27
44 56 0.10
45 72 0.13
46 34 0.06
47 30 0.05
48 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.20
Consensus pattern (42 bp):
TTTGAGGACAAAGGAAAAAGAAAAAGAAAGTGCGTCTTGCTC
Found at i:2379880 original size:42 final size:42
Alignment explanation
Indices: 2379713--2380457 Score: 401
Period size: 42 Copynumber: 17.3 Consensus size: 42
2379703 TGTCCCACTT
* * * *
2379713 TTTGAGGAC-AAAGGAAAA-GAGAATGAAA-TGGGTCTTGCTC
1 TTTGAGGACAAAAGAAAAAGGAAAAT-AAAGTGCGTCCTGCTC
* * * * * *
2379753 CTTGAGGACAAAGGAAGAAAGAAAAAGAAAGTGTGTCTTGCT-
1 TTTGAGGACAAAAGAA-AAAGGAAAATAAAGTGCGTCCTGCTC
** * * *
2379795 TTTCGAGGACAATGGAAAAAAGGAAAACAAAATGCATCCTGCTC
1 TTT-GAGGACAAAAG-AAAAAGGAAAATAAAGTGCGTCCTGCTC
*
2379839 TTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCTTGCTC
1 TTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTC
* * * *
2379881 TTTGAGGACAAAAGGGGAAAATAAGG-AAATGGAA-TGTGTCCTACTT
1 TTTGAGGACAAAA---G-AAA-AAGGAAAAT-AAAGTGCGTCCTGCTC
* *
2379927 TTTGAGGACAAAGGAGAAAAGGAAAATAAAATGCGTCCTGCTC
1 TTTGAGGACAAAAGA-AAAAGGAAAATAAAGTGCGTCCTGCTC
* * *
2379970 TTTGAGGACAAGGGAGAAAAAAGG-GAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAA--AAG-AAAAAGGAAAAT--AAAGTGCGTCCTGCTC
* * *
2380014 TTTGAGGATAAAGGAGAAAAGG-AAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAAAAGA-AAAAGGAAAAT--AAAGTGCGTCCTGCTC
* *
2380056 TTTGAGGACAAAGGAGAAAAGGAAAGA-AAAGTGTGTCCTGCTC
1 TTTGAGGACAAAAGA-AAAAGGAAA-ATAAAGTGCGTCCTGCTC
** *** *
2380099 TTTGAGGACAAGGGGGAAAAAGGAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAA--AAGAAAAAGGAAAATAAAGTGCGTCCTGCTC
* *
2380141 TTTGAGGACAAAGGAGAAAAGG-AAATGGAACGT--GTCCTGCTC
1 TTTGAGGACAAAAGA-AAAAGGAAAAT--AAAGTGCGTCCTGCTC
*
2380183 TTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
1 TTTGAGGACAAAAGA-AAAAGGAAAATAAAGTGCGTCCTGCTC
* * ** *
2380226 TTTGAGGACAAAAGGGAAAAGAAAGAAATGCAGTGCGTCTTGCTC
1 TTTGAGGACAAAA-GAAAAAG-GA-AAATAAAGTGCGTCCTGCTC
* **
2380271 TTTGAGCACAAAAAGAGAAAA--AAAAGGGAA-TGGAACATGTCCTGCTC
1 TTTGAGGAC-AAAAGA-AAAAGGAAAA-TAAAGT-G--C--GTCCTGCTC
* *
2380318 TTTGAGG-CAAAGGAGAAAAAGGAAAATAGAGTGCGTCCTACTC
1 TTTGAGGACAAA--AGAAAAAGGAAAATAAAGTGCGTCCTGCTC
* *
2380361 TTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAGTGTGTCCTGCTC
1 TTTGAGGACAAAA--G-AAA-AAGGAAAATAAAGTGCGTCCTGCTC
* * * *
2380406 TTTGAGGACAAAGGAGAAA--AAGA-AAAG-GCGTTCTGCTC
1 TTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTC
2380444 TTTGAGGACTAAAA
1 TTTGAGGAC-AAAA
2380458 AGTGCTACTA
Statistics
Matches: 569, Mismatches: 78, Indels: 117
0.74 0.10 0.15
Matches are distributed among these distances:
38 18 0.03
39 6 0.01
40 14 0.02
41 21 0.04
42 162 0.28
43 150 0.26
44 47 0.08
45 73 0.13
46 48 0.08
47 25 0.04
48 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (42 bp):
TTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTC
Found at i:2379890 original size:85 final size:84
Alignment explanation
Indices: 2379713--2380452 Score: 523
Period size: 85 Copynumber: 8.6 Consensus size: 84
2379703 TGTCCCACTT
* * * * * *
2379713 TTTGAGGACAAAGGAAAAGA-G-AATGAAATGGGTCTTGCTCCTTGAGGACAAAGGA-AGAAAGA
1 TTTGAGGACAAAGGAAAAAAGGAAAAGAAA-GTGTCCTGCTCTTTGAGGACAAAGGAGA-AAAGG
* * *
2379775 AAAAGAAAGTGTGTCTTGCT-
64 AAAATAAAGTGCGTCCTGCTC
* * * *
2379795 TTTCGAGGACAATGGAAAAAAGGAAAACAAAATGCATCCTGCTCTTTGAGGACAAAAGA-AAAAG
1 TTT-GAGGACAAAGGAAAAAAGGAAAAGAAAGTG--TCCTGCTCTTTGAGGACAAAGGAGAAAAG
*
2379859 GAAAATAAAGTGCGTCTTGCTC
63 GAAAATAAAGTGCGTCCTGCTC
* * * *
2379881 TTTGAGGACAAAAGGGGAAAATAAGGAAATGGAATGTGTCCTACTTTTTGAGGACAAAGGAGAAA
1 TTTGAGGAC-AAA--GGAAAA-AAGGAAA-AGAAAGTGTCCTGCTCTTTGAGGACAAAGGAGAAA
*
2379946 AGGAAAATAAAATGCGTCCTGCTC
61 AGGAAAATAAAGTGCGTCCTGCTC
* ** * *
2379970 TTTGAGGACAAGGGAGAAAAAAGGGAATGGAACGTGTCCTGCTCTTTGAGGATAAAGGAGAAAAG
1 TTTGAGGACAA-AG-GAAAAAA-GGAAAAGAAAGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAG
*
2380035 G-AAATGGAACGT--GTCCTGCTC
63 GAAAAT--AAAGTGCGTCCTGCTC
* * *
2380056 TTTGAGGACAAAGGAGAAAAGG-AAAGAAAAGTGTGTCCTGCTCTTTGAGGACAAGGGGGAAAAA
1 TTTGAGGACAAAGGAAAAAAGGAAAAG-AAA--GTGTCCTGCTCTTTGAGGACAAAGGAG-AAAA
*** *
2380120 GGAATGGAACGT--GTCCTGCTC
62 GGAAAATAAAGTGCGTCCTGCTC
* * *
2380141 TTTGAGGACAAAGGAGAAAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
1 TTTGAGGACAAAGGAAAAAAGGAAA-AGAAAGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
2380206 AAATAAAGTGCGTCCTGCTC
65 AAATAAAGTGCGTCCTGCTC
* * * * * *
2380226 TTTGAGGACAAAAGGGAAAAGAAAGAAATG-CAGTGCGTCTTGCTCTTTGAGCACAAAAAGAGAA
1 TTTGAGGAC-AAA-GGAAAA-AAGGAAAAGAAAGT--GTCCTGCTCTTTGAGGAC-AAAGGAGAA
**
2380290 AA--AAAAGGGAA-TGGAACATGTCCTGCTC
60 AAGGAAAA-TAAAGT-G--C--GTCCTGCTC
* * *
2380318 TTTGAGG-CAAAGGAGAAAAAGGAAAATAGAGTGCGTCCTACTCTTTGAGGACAAAAGG-GAAAA
1 TTTGAGGACAAAGGA-AAAAAGGAAAAGAAAGT--GTCCTGCTCTTTGAGGAC-AAAGGAGAAAA
* * *
2380381 GAAGGAAATGAAGTGTGTCCTGCTC
62 G--GAAAATAAAGTGCGTCCTGCTC
* *
2380406 TTTGAGGACAAAGGAGAAAAA-GAAAAG---GCGTTCTGCTCTTTGAGGAC
1 TTTGAGGACAAAGGA-AAAAAGGAAAAGAAAGTGTCCTGCTCTTTGAGGAC
2380453 TAAAAAGTGC
Statistics
Matches: 538, Mismatches: 74, Indels: 91
0.77 0.11 0.13
Matches are distributed among these distances:
82 5 0.01
83 47 0.09
84 33 0.06
85 113 0.21
86 65 0.12
87 50 0.09
88 86 0.16
89 78 0.14
90 36 0.07
91 1 0.00
92 20 0.04
93 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.20
Consensus pattern (84 bp):
TTTGAGGACAAAGGAAAAAAGGAAAAGAAAGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAA
AATAAAGTGCGTCCTGCTC
Found at i:2380180 original size:127 final size:127
Alignment explanation
Indices: 2379713--2380452 Score: 723
Period size: 127 Copynumber: 5.7 Consensus size: 127
2379703 TGTCCCACTT
* * * * * * * *
2379713 TTTGAGGACAA-AGGAAAAGA-GAATGAAATGGGTCTTGCTCCTTGAGGACAAAGGA-AGAAAGA
1 TTTGAGGACAAGGGGAAAAAAGGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGA-AAAGG
* * * * * * * * *
2379775 AAAAGAAAGTGTGTCTTGCT-TTTCGAGGACAATGGAAAAAAGGAAAACAAAATGCATCCTGCTC
65 AAATGGAA-CGTGTCCTGCTCTTT-GAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
** *** * * *
2379839 TTTGAGGACAA-AAG-AAAAAGGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGGGGAAAA
1 TTTGAGGACAAGGGGAAAAAAGGAATGGAACGT--GTCCTGCTCTTTGAGGAC-AAA--GGAGAA
* * * *
2379902 TAAGGAAATGGAATGTGTCCTACTTTTTGAGGACAAAGGAGAAAAGGAAAATAAAATGCGTCCTG
61 -AAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTG
2379967 CTC
125 CTC
*
2379970 TTTGAGGACAAGGGAGAAAAAAGGGAATGGAACGTGTCCTGCTCTTTGAGGATAAAGGAGAAAAG
1 TTTGAGGACAAGGG-GAAAAAA-GGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAG
*
2380035 GAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAGA-AAAGTGTGTCCTGCTC
64 GAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAA-ATAAAGTGCGTCCTGCTC
*
2380099 TTTGAGGACAAGGGGGAAAAAGGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
1 TTTGAGGACAAGGGGAAAAAAGGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
2380164 AATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
66 AATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
* * * ** * * *
2380226 TTTGAGGACAAAAGGGAAAAGAAAGAAATGCAGTGCGTCTTGCTCTTTGAGCACAAAAAGAGAAA
1 TTTGAGGAC--AAGGGGAAA-AAAGGAATGGAACGTGTCCTGCTCTTTGAGGAC--AAAG-G--A
* * * *
2380291 AAAAAGGGAATGGAACATGTCCTGCTCTTTGAGG-CAAAGGAGAAAAAGGAAAATAGAGTGCGTC
58 GAAAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAG-AAAAGGAAAATAAAGTGCGTC
*
2380355 CTACTC
122 CTGCTC
* *
2380361 TTTGAGGACAAAAGGGAAAAGAAGGAAAT-GAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGAAA
1 TTTGAGGAC-AAGGGGAAAA-AAGG-AATGGAA-CGTGTCCTGCTCTTTGAGGACAAAGGAGAAA
* *
2380425 AAGAAAAGG--CGT-T-CTGCTCTTTGAGGAC
62 AGGAAATGGAACGTGTCCTGCTCTTTGAGGAC
2380453 TAAAAAGTGC
Statistics
Matches: 525, Mismatches: 61, Indels: 55
0.82 0.10 0.09
Matches are distributed among these distances:
125 4 0.01
126 33 0.06
127 113 0.22
128 25 0.05
129 84 0.16
130 42 0.08
131 60 0.11
132 21 0.04
133 23 0.04
134 25 0.05
135 95 0.18
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.20
Consensus pattern (127 bp):
TTTGAGGACAAGGGGAAAAAAGGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
AATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTC
Found at i:2380493 original size:61 final size:60
Alignment explanation
Indices: 2380423--2380689 Score: 241
Period size: 61 Copynumber: 4.5 Consensus size: 60
2380413 ACAAAGGAGA
* * * *
2380423 AAAAGAAAAGGCGTTCTGCTCTTTGAGGACTAAAAAGTGCTACTAACTCGTGTGGGCTTTG
1 AAAAGAAAA-GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* ** *
2380484 AAAAGAAAAGACGTCCTTCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGAAAAG-CGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * * * * * *
2380545 CAAGGAGAAAGCATCCTGCTATTTGAAGACTGGAAAA-TGCCACCGACTTGTGTGGGCTTT-
1 AAAAGA-AAAGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
2380605 ----GAAAAGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTTTGTGTGCTTT-
1 AAAAGAAAAGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
2380661 AAAAG----GCATCTTGCTCTTTGAGGACTAAA
1 AAAAGAAAAGCGTCCTGCTCTTTGAGGACTAAA
2380690 GGGCGAAAGG
Statistics
Matches: 171, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
55 27 0.16
56 42 0.25
60 2 0.01
61 93 0.54
62 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (60 bp):
AAAAGAAAAGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:2380779 original size:94 final size:95
Alignment explanation
Indices: 2380612--2380783 Score: 283
Period size: 94 Copynumber: 1.8 Consensus size: 95
2380602 TTTGAAAAGC
* * *
2380612 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTTTGTGTGCTTTAAAAGGCATCTTGCTC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTC
*
2380677 TTTGAGGACTAAAGGGCGAAAGGAGAGAGT
66 TTTAAGGACTAAAGGGCGAAAGGAGAGAGT
* *
2380707 GTCCTACTCTTTGAGGACTA-AGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTC
2380771 TTTAAGGACTAAA
66 TTTAAGGACTAAA
2380784 AAATGCCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 52 0.73
95 19 0.27
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (95 bp):
GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTC
TTTAAGGACTAAAGGGCGAAAGGAGAGAGT
Found at i:2380875 original size:61 final size:60
Alignment explanation
Indices: 2380709--2380934 Score: 284
Period size: 61 Copynumber: 3.8 Consensus size: 60
2380699 GAGAGAGTGT
* *
2380709 CCTACTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGT
1 CCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGC
* * * * * *
2380764 CTTGCTCTTTAAGGACTAAAAAATGCCATCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGC
1 CCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAA-AAAAGGCGC
* * *
2380825 CCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAGGCGT
1 CCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGC
*
2380884 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 CCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
2380935 GGTGTCATGC
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
55 40 0.28
59 23 0.16
60 29 0.20
61 51 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (60 bp):
CCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCGC
Found at i:2380905 original size:270 final size:262
Alignment explanation
Indices: 2380433--2381501 Score: 1024
Period size: 270 Copynumber: 4.0 Consensus size: 262
2380423 AAAAGAAAAG
* * * * * *
2380433 GCGTTCTGCTCTTTGAGGACTAAAAAGTGCTACTAACTCGTGTGGGCTTTGAAAAGAAAAGACGT
1 GCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG----G-CGT
* ** ** * ** *
2380498 CCTTCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCATCCTG
60 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGCCTTTG-AA--AG---GTGTCCTA
* * * *
2380563 CTATTTGAAGACTGGAAAA--TGCCACCGACTTGTGTGGGCTTT--GAAAAGCGTCCTGCTCTTT
119 CTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGCGTCCTGCTCTTT
* * * * *
2380624 GAGGACTAGAAAAGTGCCACCAACTTTTGTGTGCTTTAAAAGGCATCTTGCTCTTTGAGGACT-A
182 GAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGA
2380688 AAGGGCGAAAGGAGAGA
246 AAGGGCGAAAGGAGAGA
* * * *
2380705 GTGTCCTACTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCT
1 GCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* * * *
2380770 CTTTAAGGACTAAAAAATGCCATCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGCCCTACTCTTT
66 CTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGCCTTT-----G-AAAGGTGTCCTACTCTTT
*
2380835 GAGGACT-AAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTTGAGGA
125 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAAA-GCGTCCTGCTCTTTGAGGA
* *
2380899 CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCATGCTCTTTAAGGACT-AAAGGG
187 CT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGAAAGGG
2380963 CGAAAGGAGAGA
251 CGAAAGGAGAGA
* ** *
2380975 ACGTCCTGCTCTTTGAGGACTGGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
2381040 CTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGCCTTTGAAAGGTGTCCTACTCTTTGAGGA
66 CTTTGAGGACT-AAAAAATGCCACCAACTTGTGTGGCCTTTGAAAGGTGTCCTACTCTTTGAGGA
** * * * *
2381105 CTAAAAAAATGCCACCAACTTGTGTGGGCTTT--GAAAAGCGTCCTACTCTTTGAGAACTGAAAG
130 CT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGCGTCCTGCTCTTTGAGGACTGAAAA
* ** * * *
2381168 GTGCCCCCAACTTGTGTGGGCTTCGAAAGGCGTCCTGCTCTTTGATGACTGAAAGGTGCCACCAA
194 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGAAAGG-GCGA--AA
* *
2381233 CTTGTGTGGGCTTTGAAA
256 --------GG---AGAGA
* * ** *
2381251 GGCGTCCTGCTCTTTGAGAACTGAA-AGGTGCCTCCAACTTGTGTGGGCTTGGAAAGGCGTCCTA
1 -GCGTCCTGCTCTTTGAGGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
* ** * * * * *
2381315 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGTCTTGGAAAGGCGTCCTGCTTTTTGAGG
64 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGCCTTTGAAAGGTGTCCTACTCTTTGAGG
* * * **
2381380 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGGCATCCTGCTCTTTAAGGACTGGGA
129 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAA-GCGTCCTGCTCTTTGAGGACTGAAA
*
2381445 AGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTGAAAGG
193 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGAAAGG
2381502 TGCCACCAAC
Statistics
Matches: 670, Mismatches: 92, Indels: 64
0.81 0.11 0.08
Matches are distributed among these distances:
261 47 0.07
262 24 0.04
263 10 0.01
265 47 0.07
266 57 0.09
267 26 0.04
269 6 0.01
270 156 0.23
271 35 0.05
272 43 0.06
273 2 0.00
275 26 0.04
276 50 0.07
277 70 0.10
278 71 0.11
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (262 bp):
GCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGCCTTTGAAAGGTGTCCTACTCTTTGAGGAC
TAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGT
GCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGAAAGGGCGAAAGGAGA
GA
Found at i:2380935 original size:115 final size:110
Alignment explanation
Indices: 2380709--2380961 Score: 301
Period size: 115 Copynumber: 2.2 Consensus size: 110
2380699 GAGAGAGTGT
* * *
2380709 CCTACTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTT
1 CCTACTCTTTGAGGACTAA-AGGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTT
*
2380774 AAGGACTAAAAAATGCCATCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGC
65 AAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT----A-AAAAGGTGC
2380825 CCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAGGCGTCCTGCT
1 CCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTT-----AAAAGGCGTCCTGCT
* * *
2380890 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGTGT
61 CTTTAAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGTGC
* * *
2380940 CATGCTCTTTAAGGACTAAAGG
1 CCTACTCTTTGAGGACTAAAGG
2380962 GCGAAAGGAG
Statistics
Matches: 121, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
115 51 0.42
116 19 0.16
120 25 0.21
121 26 0.21
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (110 bp):
CCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTA
AGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGTGC
Found at i:2381020 original size:94 final size:95
Alignment explanation
Indices: 2380881--2381053 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 95
2380871 AAAAAAAAGG
**
2380881 CGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCATGCT
1 CGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCATGCT
2380946 CTTTAAGGACTAAAGGGCGAAAGGAGAGAA
66 CTTTAAGGACTAAAGGGCGAAAGGAGAGAA
** * *
2380976 CGTCCTGCTCTTTGAGGACT-GGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 CGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCATGCT
*
2381040 CTTTGAGGACTAAA
66 CTTTAAGGACTAAA
2381054 AAAATGCCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 51 0.72
95 20 0.28
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (95 bp):
CGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCATGCT
CTTTAAGGACTAAAGGGCGAAAGGAGAGAA
Found at i:2381049 original size:150 final size:150
Alignment explanation
Indices: 2380829--2381109 Score: 411
Period size: 150 Copynumber: 1.8 Consensus size: 150
2380819 AGGTGCCCTA
*
2380829 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAAAAAGGCGTCCTGCTCTTT
1 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTT----AAAAAGGCATCCTGCTCTTT
* * * *
2380894 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCATGCTCTTTAAGGACTAA
62 GAGGACTAAAAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGTGTCATACTCTTTAAGGACTAA
2380959 AGGGCGAAAGGAGAGAACGTCCTG
127 AGGGCGAAAGGAGAGAACGTCCTG
** *
2380983 CTCTTTGAGGACTGGGAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGCTCTTTGAG
1 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTATGGGCTTTAAAAAGGCATCCTGCTCTTTGAG
* * *
2381047 GACTAAAAAAATGCCACCAACTTGTGTGGCCTTTGAAAGGTGTCCTACTCTTTGAGGACTAAA
65 GACTAAAAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGTGTCATACTCTTTAAGGACTAAA
2381110 AAAATGCCAC
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
150 77 0.67
154 13 0.11
155 25 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (150 bp):
CTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTAAAAAGGCATCCTGCTCTTTGAGG
ACTAAAAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGTGTCATACTCTTTAAGGACTAAAGGG
CGAAAGGAGAGAACGTCCTG
Found at i:2381201 original size:55 final size:55
Alignment explanation
Indices: 2380976--2381584 Score: 763
Period size: 55 Copynumber: 10.9 Consensus size: 55
2380966 AAGGAGAGAA
** *
2380976 CGTCCTGCTCTTTGAGGACTGGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * ** *
2381031 CATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGCCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * ** *
2381087 TGTCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG
1 CGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * *
2381143 CGTCCTACTCTTTGAGAACTGAAAGGTGCCCCCAACTTGTGTGGGCTTCGAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
*
2381198 CGTCCTGCTCTTTGATGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * *
2381253 CGTCCTGCTCTTTGAGAACTGAAAGGTGCCTCCAACTTGTGTGGGCTTGGAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * *
2381308 CGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGTCTTGGAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* *
2381363 CGTCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---GAAAGG
* * *
2381421 CATCCTGCTCTTTAAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * *
2381476 CGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTCTAGGCTTTAAAAAGAAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGG
* * * *
2381537 TGTCCTGCTCTTTGAAGACT-AAATGTGCCACCAACTTGTGCGGGCTTT
1 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
2381585 AAAAAGGAAA
Statistics
Matches: 487, Mismatches: 55, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
54 3 0.01
55 291 0.60
56 97 0.20
58 46 0.09
59 3 0.01
60 25 0.05
61 22 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (55 bp):
CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:2381333 original size:26 final size:26
Alignment explanation
Indices: 2381246--2381333 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 26
2381236 GTGTGGGCTT
* *
2381246 TGAAAGGCGTCCTGCTCTTTGAGAAC
1 TGAAAGGCGTCCTACTCTTTGAGGAC
* * * * *
2381272 TGAAAGGTGCCTCCAACT-TGTGTGGGC
1 TGAAA-G-GCGTCCTACTCTTTGAGGAC
2381299 TTGGAAAGGCGTCCTACTCTTTGAGGAC
1 -T-GAAAGGCGTCCTACTCTTTGAGGAC
2381327 TGAAAGG
1 TGAAAGG
2381334 TGCCACCAAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
26 11 0.24
27 15 0.33
28 15 0.33
29 4 0.09
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (26 bp):
TGAAAGGCGTCCTACTCTTTGAGGAC
Found at i:2381595 original size:61 final size:62
Alignment explanation
Indices: 2381471--2381624 Score: 190
Period size: 60 Copynumber: 2.5 Consensus size: 62
2381461 GTGGGCTTTG
*
2381471 AAAGGCGTCCTGCTCTTT-AAGGACTGAAAGGTGCCACCAACTTGTCTAGGCTTTAAAAAG-A
1 AAAGGTGTCCTGCTCTTTGAA-GACTGAAAGGTGCCACCAACTTGTCTAGGCTTTAAAAAGAA
* *
2381532 AAAGGTGTCCTGCTCTTTGAAGACT-AAATGTGCCACCAACTTGTGC-GGGCTTTAAAAAGGAA
1 AAAGGTGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGT-CTAGGCTTTAAAAA-GAA
* * * *
2381594 AAAAGTGTCTTGCTCTTTGAGGACTGGAAGG
1 AAAGGTGTCCTGCTCTTTGAAGACTGAAAGG
2381625 GCTAAAAGAG
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
60 29 0.36
61 23 0.29
62 25 0.31
63 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (62 bp):
AAAGGTGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTCTAGGCTTTAAAAAGAA
Found at i:2386761 original size:52 final size:52
Alignment explanation
Indices: 2386614--2386742 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
2386604 CGAAATATGA
2386614 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATATGGGC
* * * *
2386666 AAATTTGCCTGCATGTATCAATACATTTTATAATGTATCGATACTTCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATATGGGC
*
2386718 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2386743 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATATGGGC
Found at i:2386820 original size:13 final size:13
Alignment explanation
Indices: 2386802--2386828 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2386792 TACAAAACTT
2386802 ATGTATCGATACA
1 ATGTATCGATACA
2386815 ATGTATCGATACA
1 ATGTATCGATACA
2386828 A
1 A
2386829 CACTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2386825 original size:32 final size:33
Alignment explanation
Indices: 2386784--2386848 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2386774 TAGCTTAAAT
2386784 TGTATCGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
2386816 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
2386849 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:2387613 original size:52 final size:49
Alignment explanation
Indices: 2387534--2387929 Score: 395
Period size: 52 Copynumber: 8.1 Consensus size: 49
2387524 CTTAGGAATG
* * * * *
2387534 TTAAAGATGAAAGTGCCAATGTACTGATTCAAGGCCAGTGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*** *
2387583 TTAAAGATGACAAAAACGCCAATATGCTGATTCAAGGCCAGCGATATAGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2387635 TTAAGGATGACAAAGGCGCCAATATGTTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2387687 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2387730 TTAAAGATGAAGGTGCCAGTATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2387779 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2387822 TTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2387870 TTAGAGGTGCCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2387922 TTAGAAGA
1 TTA-AAGA
2387930 AGACGCCACC
Statistics
Matches: 291, Mismatches: 36, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
43 72 0.25
44 1 0.00
46 3 0.01
47 1 0.00
48 43 0.15
49 48 0.16
51 2 0.01
52 119 0.41
53 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2387713 original size:43 final size:42
Alignment explanation
Indices: 2387652--2387882 Score: 228
Period size: 43 Copynumber: 5.1 Consensus size: 42
2387642 TGACAAAGGC
*
2387652 GCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGT-ATATTGGACTTGGAGGT
* *
2387695 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAG-TATATTGGACTT---G--G-AGGT
* *
2387744 GCCAGTATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAG-TATATTGGACTTGGAGGT
* * *
2387787 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGT
1 GCCAATATGCTGATTCAAGGCCAG-TATATTGGACTT---G--GAGGT
* *
2387835 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAGGT
1 GCCAATATGCTGATTCAAGGCCAG-TATATTGGACTTGGAGGT
2387878 GCCAA
1 GCCAA
2387883 AGGCGCCAAT
Statistics
Matches: 159, Mismatches: 17, Indels: 24
0.80 0.09 0.12
Matches are distributed among these distances:
43 78 0.49
44 2 0.01
46 3 0.02
48 39 0.25
49 37 0.23
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (42 bp):
GCCAATATGCTGATTCAAGGCCAGTATATTGGACTTGGAGGT
Found at i:2387791 original size:92 final size:92
Alignment explanation
Indices: 2387600--2387882 Score: 433
Period size: 92 Copynumber: 3.1 Consensus size: 92
2387590 TGACAAAAAC
* * * * * * *
2387600 GCCAATATGCTGATTCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATGTTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA
*
2387665 TTCAAGGCCAGTGATATTGGACTTGGAGGT
63 TTCAAGGCCAGCGATATTGGACTTGGAGGT
*
2387695 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAGTATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
2387760 AAGGCCAGCGATATTGGACTTGGAGGT
66 AAGGCCAGCGATATTGGACTTGGAGGT
2387787 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA-GTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
2387851 AAGGCCAGCAATATTGGACTTAGAGGT
66 AAGGCCAGCGATATTGGACTTGGAGGT
2387878 GCCAA
1 GCCAA
2387883 AGGCGCCAAT
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
91 47 0.27
92 90 0.51
95 39 0.22
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTGGAGGT
Found at i:2388040 original size:56 final size:57
Alignment explanation
Indices: 2387971--2388097 Score: 186
Period size: 56 Copynumber: 2.2 Consensus size: 57
2387961 GGTTTGCATC
* *
2387971 AACTTGTGTGCTTTTGAAA-GTTGCCACTGACTTGTGGGCTTTT-AAAGATTGCCACT
1 AACTTGTGGGCTTTT-AAAGGTTGCCACTGACTTGTGGGCTTTTCAAAGAGTGCCACT
* *
2388027 GACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGCAAAGGGTGCCACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTT-CAAAGAGTGCCACT
2388085 AACTTGTGGGCTT
1 AACTTGTGGGCTT
2388098 AAAAGGAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
55 3 0.05
56 37 0.59
58 23 0.37
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (57 bp):
AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTCAAAGAGTGCCACT
Found at i:2388082 original size:30 final size:30
Alignment explanation
Indices: 2387972--2388375 Score: 226
Period size: 30 Copynumber: 13.6 Consensus size: 30
2387962 GTTTGCATCA
* *
2387972 ACTTGTGTGCTTTTG-AAA-GTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
2388000 ACTTGTGGGCTTTT--AAAGATTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
2388028 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
2388056 ACTTGTGGGCTTTTGCAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** ** *
2388086 ACTTGTGGGCTTAAAAGGAAAAATAGTGCTA-TGG
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACT-G
* * ** * *
2388120 ATTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT----TTG-AAAAGGGTGCCACTG
* * * * * *
2388155 AGTTGTGGACTTTGGAAAA-GATACCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
2388184 ACTTGTGGGCTTTGGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * * *
2388214 ATTTGTGGGC-TTTGAAAAAGATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
2388243 ACTTGTGGGC-TTCGAAAAAGGGTGCCATTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* *
2388273 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * *
2388300 ACTTGTGGAC-TTTGAAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* * * *
2388330 GCTTGTGGGC-TTTGAAAAAGATGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
2388359 ACTTGTGGGCTTTTGAA
1 ACTTGTGGGCTTTTGAA
2388376 GGGCGAGGAA
Statistics
Matches: 302, Mismatches: 58, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
27 26 0.09
28 63 0.21
29 72 0.24
30 95 0.31
31 1 0.00
33 2 0.01
34 18 0.06
35 25 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:2388100 original size:84 final size:84
Alignment explanation
Indices: 2387946--2388102 Score: 203
Period size: 84 Copynumber: 1.8 Consensus size: 84
2387936 CACCAACTTG
* * *
2387946 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGTGCTTTTGAAAGTTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAAGGTGCCACTAACTTGTGGGC-
2388011 TTTAAAGATTGCCACTGACT
65 TTTAAAGATTGCCACTGACT
*
2388031 TGTGGGCTTTT-AAAGG-TTGCCA-CTGACTTGTGGGCTTTTGCAAAGGGTGCCACTAACTTGTG
1 TGTGGGCTTTTGAAAGGTTTG-CATC-AACTTGTGGGCTTTTG-AAA-GGTGCCACTAACTTGTG
*
2388093 GGCTTAAAAG
62 GGCTTTAAAG
2388103 GAAAAATAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
83 4 0.06
84 21 0.33
85 20 0.32
86 18 0.29
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (84 bp):
TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAAGGTGCCACTAACTTGTGGGCT
TTAAAGATTGCCACTGACT
Found at i:2388161 original size:35 final size:34
Alignment explanation
Indices: 2388088--2388161 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
2388078 TGCCACTAAC
* * * * * *
2388088 TTGTGGGCTTAAAAGGAAAAATAGTGCTATGGAT
1 TTGTGAGCTTAAAAAGAAAAAGAGTGCCACGGAG
2388122 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGAGCTTA-AAAAGAAAAAGAGTGCCACGGAG
2388157 TTGTG
1 TTGTG
2388162 GACTTTGGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 10 0.30
35 23 0.70
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (34 bp):
TTGTGAGCTTAAAAAGAAAAAGAGTGCCACGGAG
Found at i:2388189 original size:29 final size:29
Alignment explanation
Indices: 2388138--2388371 Score: 238
Period size: 29 Copynumber: 8.0 Consensus size: 29
2388128 GCTTACAAAA
* * *
2388138 GAAAAAGAGTGCCACGGAGTTGTGGACTTT
1 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
* * *
2388168 GGAAAAGATACCACCGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * * *
2388197 GGAAAAGGGTGCCACTAATTTGTGGGCTTT
1 -GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
2388227 GAAAAAGATGCCACCGACTTGTGGGCTTC
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
2388256 GAAAAAGGGTGCCATTGATTTGTGGGCTTT
1 GAAAAA-GATGCCACTGACTTGTGGGCTTT
* * *
2388286 G--AAGGTTGCCACTGACTTGTGGACTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
*
2388313 GAAAAAAGATGCCACTGGCTTGTGGGCTTT
1 G-AAAAAGATGCCACTGACTTGTGGGCTTT
*
2388343 GAAAAAGATGCCACTAACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
2388372 TGAAGGGCGA
Statistics
Matches: 165, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
27 20 0.12
28 2 0.01
29 72 0.44
30 71 0.43
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:2388220 original size:59 final size:59
Alignment explanation
Indices: 2388138--2388371 Score: 274
Period size: 59 Copynumber: 4.0 Consensus size: 59
2388128 GCTTACAAAA
* * * * * *
2388138 GAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATACCACCGACTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGATGCCACCGACTTGTGGGCTTT
* * *
2388197 GGAAAAGGGTGCCACTAATTTGTGGGCTTTGAAAAAGATGCCACCGACTTGTGGGCTTC
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGATGCCACCGACTTGTGGGCTTT
* * * * *
2388256 GAAAAAGGGTGCCATTGATTTGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGACTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGATGCCACCGACTTGTGGGCTTT
* * ** **
2388313 GAAAAAAGATGCCACTGGCTTGTGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTT
1 GAAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGATGCCACCGACTTGTGGGCTTT
2388372 TGAAGGGCGA
Statistics
Matches: 147, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
57 47 0.32
59 100 0.68
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (59 bp):
GAAAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGATGCCACCGACTTGTGGGCTTT
Found at i:2389837 original size:12 final size:11
Alignment explanation
Indices: 2389822--2389863 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
2389812 TGTTGTTGTT
2389822 TTTTTTTATTTG
1 TTTTTTT-TTTG
2389834 TTTTTTTTTCTG
1 TTTTTTTTT-TG
2389846 TTTTTTTTCTT-
1 TTTTTTTT-TTG
2389857 TTTTTTT
1 TTTTTTT
2389864 ACGGAGGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.32
12 18 0.64
13 1 0.04
ACGTcount: A:0.02, C:0.05, G:0.05, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:2389849 original size:10 final size:10
Alignment explanation
Indices: 2389823--2389863 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
2389813 GTTGTTGTTT
*
2389823 TTTTTTATTTG
1 TTTTTT-TTTC
2389834 TTTTTTTTTC
1 TTTTTTTTTC
2389844 TGTTTTTTTTC
1 T-TTTTTTTTC
2389855 TTTTTTTTT
1 TTTTTTTTT
2389864 ACGGAGGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 12 0.43
11 16 0.57
ACGTcount: A:0.02, C:0.05, G:0.05, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:2389851 original size:14 final size:15
Alignment explanation
Indices: 2389815--2389853 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
2389805 CCCTTTTTGT
2389815 TGTTGTTTTTTTTTA
1 TGTTGTTTTTTTTTA
*
2389830 T-TTGTTTTTTTTTC
1 TGTTGTTTTTTTTTA
2389844 TGTT-TTTTTT
1 TGTTGTTTTTT
2389854 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (15 bp):
TGTTGTTTTTTTTTA
Found at i:2403831 original size:52 final size:52
Alignment explanation
Indices: 2403685--2403813 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2403675 CGAAATATGA
* *
2403685 AAATTTGCTTGCTTGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
2403737 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
2403789 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2403814 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:2403891 original size:13 final size:13
Alignment explanation
Indices: 2403873--2403899 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2403863 TACAAAACTT
2403873 ATGTATCGATACA
1 ATGTATCGATACA
2403886 ATGTATCGATACA
1 ATGTATCGATACA
2403899 A
1 A
2403900 CACTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2403896 original size:32 final size:33
Alignment explanation
Indices: 2403855--2403919 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2403845 TAGCTTAAAT
2403855 TGTATCGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
2403887 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
2403920 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:2409394 original size:52 final size:52
Alignment explanation
Indices: 2409316--2409444 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2409306 CGAAATATGA
*
2409316 AAATTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
2409368 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
2409420 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2409445 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2409455 original size:52 final size:51
Alignment explanation
Indices: 2409316--2409464 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
2409306 CGAAATATGA
*
2409316 AAATTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
2409368 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
2409420 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2409465 ATGTATCGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:2409471 original size:13 final size:13
Alignment explanation
Indices: 2409453--2409477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2409443 CAAAGATCAG
2409453 TGTATCGATACAA
1 TGTATCGATACAA
2409466 TGTATCGATACA
1 TGTATCGATACA
2409478 TTTAAGTAAT
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:2409544 original size:19 final size:18
Alignment explanation
Indices: 2409520--2409617 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
2409510 TAGCTTAAAT
2409520 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2409539 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2409552 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2409571 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2409584 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
2409604 TGTATCGATACAAA
1 TGTATCGATACAAA
2409618 TCATTGAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2409557 original size:13 final size:13
Alignment explanation
Indices: 2409539--2409595 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2409529 ACAAAACTTA
2409539 TGTATCGATACAT
1 TGTATCGATACAT
2409552 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2409570 ATGTATCGATACAT
1 -TGTATCGATACAT
2409584 TGTATCGATACA
1 TGTATCGATACA
2409596 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2409559 original size:32 final size:32
Alignment explanation
Indices: 2409518--2409615 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
2409508 AGTAGCTTAA
*
2409518 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
2409550 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
2409582 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
2409615 A
1 A
2409616 AATCATTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:2410616 original size:49 final size:49
Alignment explanation
Indices: 2410489--2411000 Score: 576
Period size: 49 Copynumber: 10.7 Consensus size: 49
2410479 GTGATAAAGA
* * * * * *
2410489 TGCCAATATGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* *
2410543 ATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2410593 TGCCAATATGCTGATTCAAGGCCAGCGATAGTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2410642 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
2410685 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2410734 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
2410777 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
2410826 TGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAA-GATGAAGG
**
2410876 TGCCAATATGCTGATTCAAGGCCAGGGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * * *
2410919 TGCCAATGTGGTGATTCAAGGCTAGCTACATTGGGCTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
2410968 TGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTG
2411001 CGCTTAGAAG
Statistics
Matches: 394, Mismatches: 42, Indels: 48
0.81 0.09 0.10
Matches are distributed among these distances:
43 111 0.28
45 3 0.01
47 3 0.01
48 1 0.00
49 192 0.49
50 47 0.12
53 1 0.00
55 36 0.09
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:2410705 original size:21 final size:20
Alignment explanation
Indices: 2410638--2410705 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
2410628 CTTAAAGATG
2410638 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
2410659 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
2410681 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
2410702 AAGG
1 AAGG
2410706 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:2410720 original size:92 final size:94
Alignment explanation
Indices: 2410489--2411000 Score: 540
Period size: 92 Copynumber: 5.4 Consensus size: 94
2410479 GTGATAAAGA
* * * * * * *
2410489 TGCCAATATGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGCCAATGTG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG-TGCCAATATG
* *
2410554 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
60 CTGATTCAAGGCCAGCGATATTGGACTT--A-A-GAAGG
* *
2410593 TGCCAATATGCTGATTCAAGGCCAGCGATAGTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
*
2410658 CAAGGCTAGCGATATTGGACTT-A-AAGG
66 CAAGGCCAGCGATATTGGACTTAAGAAGG
* * *
2410685 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
2410750 CAAGGCCAGCGATATTGGACTT-A-AAGG
66 CAAGGCCAGCGATATTGGACTTAAGAAGG
* * *
2410777 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
*
2410842 CAAGGCCAGTGATATTGGACTTAAAGGATGAAGG
66 CAAGGCCAGCGATATTGGACTT--A--A-GAAGG
** * *
2410876 TGCCAATATGCTGATTCAAGGCCAGGGATATTGGACTT----A--AAGGTGCCAATGTGGTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
2410935 CAAGGCTAGCTACATTGGGCTTAAAGAAGAAGG
66 CAAGGCCAGCGATATTGGACTT----AAGAAGG
2410968 TGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTG
2411001 CGCTTAGAAG
Statistics
Matches: 367, Mismatches: 32, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
92 212 0.58
93 35 0.10
94 1 0.00
95 3 0.01
97 1 0.00
98 34 0.09
99 42 0.11
102 1 0.00
104 38 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (94 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAGAAGG
Found at i:2411050 original size:33 final size:33
Alignment explanation
Indices: 2411006--2411111 Score: 169
Period size: 34 Copynumber: 3.2 Consensus size: 33
2410996 TATTGCGCTT
2411006 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGA
*
2411040 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGA
*
2411074 AAAAGGTTGCCACCGACTTGTGTGGGCTTTAG-
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
2411106 AGAAGG
1 AGAAGG
2411112 AAAAAGATGC
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
32 5 0.07
33 27 0.40
34 35 0.52
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (33 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
Found at i:2411145 original size:33 final size:34
Alignment explanation
Indices: 2411108--2411192 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 34
2411098 GGCTTTAGAG
** *
2411108 AAGGAAAAAGATGCTGCGGAGTTGTGGA-CTTAA
1 AAGGAAAAAGATGCCACGAAGTTGTGGATCTTAA
* * *
2411141 AAGGAACAAGGTGCCACGAAGTTGTGGATTTTAA
1 AAGGAAAAAGATGCCACGAAGTTGTGGATCTTAA
2411175 AAGGGAAAAAGAGTGCCA
1 AA-GGAAAAAGA-TGCCA
2411193 AGCTTTGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 23 0.56
34 6 0.15
35 7 0.17
36 5 0.12
ACGTcount: A:0.39, C:0.11, G:0.32, T:0.19
Consensus pattern (34 bp):
AAGGAAAAAGATGCCACGAAGTTGTGGATCTTAA
Found at i:2411245 original size:34 final size:31
Alignment explanation
Indices: 2411200--2411632 Score: 277
Period size: 34 Copynumber: 13.9 Consensus size: 31
2411190 CCAAGCTTTG
* * *
2411200 AAAAGAAGGTGCCACGGAGTCGTGGACTTAA
1 AAAAAAAGGTGCCACGGAGTTGTGGGCTTAA
**
2411231 AAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTG
1 AA--AAAAA-GGTGCCACGGAGTTGTGGGCTTAA
* *
2411265 AAAAGAAGGTGCCACGGAGTTGTGGACTTTGAA
1 AAAAAAAGGTGCCACGGAGTTGTGGGC-TT-AA
*
2411298 AGAAAAAGAGTGCCACGGAGTTGTGGGCTT--
1 AAAAAAAG-GTGCCACGGAGTTGTGGGCTTAA
* * *
2411328 --AAACAGGTGCCACAGAGTTGTGGACTTAGA
1 AAAAAAAGGTGCCACGGAGTTGTGGGCTTA-A
* * *
2411358 AGGAAAAAGAGTGCCACGGTGTTGTGGGCTTTA
1 A-AAAAAAG-GTGCCACGGAGTTGTGGGCTTAA
*
2411391 AAAAGAAGGTGCCACGGAGTTGTGGGCTT--
1 AAAAAAAGGTGCCACGGAGTTGTGGGCTTAA
* ** *
2411420 --AAAATGGTGCCATAGAGTTGTGGACTTTGAA
1 AAAAAAAGGTGCCACGGAGTTGTGGGC-TT-AA
* *
2411451 AGAAAAAGAGTGCCACGGATTTGTGGGCTT--
1 AAAAAAAG-GTGCCACGGAGTTGTGGGCTTAA
** * *
2411481 --AAACGGGTGCCACAGAGTTGTGGACTTAGA
1 AAAAAAAGGTGCCACGGAGTTGTGGGCTTA-A
* * * **
2411511 AGGAAAAAGAGTGCCATGGTGTTGTGGGCTTTG
1 A-AAAAAAG-GTGCCACGGAGTTGTGGGCTTAA
*
2411544 AAAAGAAGGTGCCACGGAGTTGTGGGCTT--
1 AAAAAAAGGTGCCACGGAGTTGTGGGCTTAA
* * *
2411573 --AAAATGGTGCCACAGAGTTGTGGACTTAA
1 AAAAAAAGGTGCCACGGAGTTGTGGGCTTAA
* *
2411602 AAGGAAAAGAGTGCCACGTAGTTGTGGGCTT
1 AA-AAAAAG-GTGCCACGGAGTTGTGGGCTT
2411633 TGCAAAAAAG
Statistics
Matches: 310, Mismatches: 59, Indels: 64
0.72 0.14 0.15
Matches are distributed among these distances:
27 80 0.26
28 11 0.04
31 60 0.19
32 20 0.06
33 49 0.16
34 90 0.29
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (31 bp):
AAAAAAAGGTGCCACGGAGTTGTGGGCTTAA
Found at i:2411275 original size:65 final size:65
Alignment explanation
Indices: 2411194--2411643 Score: 362
Period size: 61 Copynumber: 7.2 Consensus size: 65
2411184 AGAGTGCCAA
* *
2411194 GCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGG
1 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
*
2411259 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAA-GAAAAAGAGTGCCACGGAGTTGTG
1 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTG
2411323 G
65 G
* * * *
2411324 GC-TT--AAA-CAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGTGTTGTGG
1 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
* * * **
2411385 GCTTTAAAAAGAAGGTGCCACGGAGTTGTGGGCTT------AAAATG-GTGCCATAGAGTTGTGG
1 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
* * * * * *
2411443 ACTTTGAAAGAAAAAGAGTGCCACGGATTTGTGGGCTT-AAACG-----G-GTGCCACAGAGTTG
1 GCTTTG-AA-AAGAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
2411501 TGG
63 TGG
* * * * * * ** *
2411504 ACTTAGAAGGAAAAAGAGTGCCATGGTGTTGTGGGCTTTGAA--AAGAAG-GTGCCACGGAGTTG
1 GCTTTGAA--AAGAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
2411566 TGG
63 TGG
* * *
2411569 GC-TT--AAA-ATGGTGCCACAGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGTAGTTGTGG
1 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
2411629 GCTTTGCAAAA-AAGG
1 GCTTTG-AAAAGAAGG
2411644 ATGTCACTAA
Statistics
Matches: 319, Mismatches: 38, Indels: 57
0.77 0.09 0.14
Matches are distributed among these distances:
58 37 0.12
59 13 0.04
60 31 0.10
61 116 0.36
62 8 0.03
64 12 0.04
65 97 0.30
66 5 0.02
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.22
Consensus pattern (65 bp):
GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
Found at i:2411340 original size:92 final size:90
Alignment explanation
Indices: 2411236--2411605 Score: 318
Period size: 92 Copynumber: 4.1 Consensus size: 90
2411226 CTTAAAAGGA
* * * *
2411236 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAG-GTGCCACGGAGTTGTGGACTTTGAAA
1 AAAA-GGTGCCACAGAGTTGTGGACTTTGAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA
2411299 GAAAAAGAGTGCCACGGAGTTGTGGGCTT
64 G-AAAAG-GTGCCACGGAGTTGTGGGCTT
* *
2411328 AAACAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGTGTTGTGGGCTTTAAA
1 AAA-AGGTGCCACAGAGTTGTGGACTTTGAA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2411393 -AAGAAGGTGCCACGGAGTTGTGGGCTT
64 GAA-AAGGTGCCACGGAGTTGTGGGCTT
* *
2411420 AAAATGGTGCCATAGAGTTGTGGACTTTGAAAGAAAAAGAGTGCCACGGATTTGTGGGC-TTAAA
1 AAAA-GGTGCCACAGAGTTGTGGACTTTG-AAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* *
2411484 CG----GGTGCCACAGAGTTGTGGACTT
64 -GAAAAGGTGCCACGGAGTTGTGGGCTT
** * * *
2411508 AGAAGGAAAAAGAGTGCCATGGTGTTGTGGGCTTTGAA-AAGAAG-GTGCCACGGAGTTGTGGGC
1 -------AAAAG-GTGCCACAGAGTTGTGGACTTTGAAGAAAAAGAGTGCCACGGAGTTGTGGGC
* * *
2411571 -TT--A-AAATGGTGCCACAGAGTTGTGGACTT
58 TTTAAAGAAAAGGTGCCACGGAGTTGTGGGCTT
2411600 AAAAGG
1 AAAAGG
2411606 AAAAGAGTGC
Statistics
Matches: 240, Mismatches: 17, Indels: 50
0.78 0.06 0.16
Matches are distributed among these distances:
84 1 0.00
85 5 0.02
88 20 0.08
90 1 0.00
91 6 0.03
92 141 0.59
93 11 0.05
94 11 0.05
95 44 0.18
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (90 bp):
AAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGA
AAAGGTGCCACGGAGTTGTGGGCTT
Found at i:2411453 original size:153 final size:153
Alignment explanation
Indices: 2411241--2411632 Score: 651
Period size: 153 Copynumber: 2.5 Consensus size: 153
2411231 AAGGAAAAAG
* *
2411241 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAGAAAAAG
1 GGTGCCACGGAGTTGTGGGC-TT--AAA-ATGGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAG
2411306 AGTGCCACGGAGTTGTGGGCTTAAACAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTG
62 AGTGCCACGGAGTTGTGGGCTTAAACAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTG
2411371 CCACGGTGTTGTGGGCTTTAAAAAGAA
127 CCACGGTGTTGTGGGCTTTAAAAAGAA
*
2411398 GGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCATAGAGTTGTGGACTTTGAAAGAAAAAGAGTG
1 GGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAGAGTG
* * *
2411463 CCACGGATTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAT
66 CCACGGAGTTGTGGGCTTAAACAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC
*
2411528 GGTGTTGTGGGCTTTGAAAAGAA
131 GGTGTTGTGGGCTTTAAAAAGAA
* *
2411551 GGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAGAGTG
1 GGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAGAGTG
*
2411615 CCACGTAGTTGTGGGCTT
66 CCACGGAGTTGTGGGCTT
2411633 TGCAAAAAAG
Statistics
Matches: 223, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
152 31 0.14
153 167 0.75
154 3 0.01
156 2 0.01
157 20 0.09
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (153 bp):
GGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGTGGACTTTGAAAGAAAAAGAGTG
CCACGGAGTTGTGGGCTTAAACAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC
GGTGTTGTGGGCTTTAAAAAGAA
Found at i:2411606 original size:92 final size:91
Alignment explanation
Indices: 2411334--2411643 Score: 301
Period size: 92 Copynumber: 3.4 Consensus size: 91
2411324 GCTTAAACAG
* * * * *
2411334 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGTGTTGTGGGCTTTAAAAAGAAG
1 GTGCCATAGTGTTGTGGGCTTTGAA--AAAAAG-GTGCCACGGAGTTGTGGGC-TT-AAAAG--G
* * *
2411399 GTGCCACGGAGTTGTGGGCTT---A--AAATG-
59 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAGA
* * * *
2411426 GTGCCATAGAGTTGTGGACTTTGAAAGAAAAAGAGTGCCACGGATTTGTGGGCTTAAACGGGTGC
1 GTGCCATAGTGTTGTGGGCTTTG-AA-AAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
*
2411491 CACAGAGTTGTGGACTTAGAAGGAAAAAGA
63 CACAGAGTTGTGGACTTAAAAGG-AAAAGA
* * *
2411521 GTGCCATGGTGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCAC
1 GTGCCATAGTGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
2411586 AGAGTTGTGGACTTAAAAGGAAAAGA
66 AGAGTTGTGGACTTAAAAGGAAAAGA
* *
2411612 GTGCCA-CGTAGTTGTGGGCTTTGCAAAAAAGG
1 GTGCCATAGT-GTTGTGGGCTTTGAAAAAAAGG
2411644 ATGTCACTAA
Statistics
Matches: 190, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
88 20 0.11
90 6 0.03
91 35 0.18
92 96 0.51
93 7 0.04
94 6 0.03
95 20 0.11
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (91 bp):
GTGCCATAGTGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
AGAGTTGTGGACTTAAAAGGAAAAGA
Found at i:2414964 original size:84 final size:84
Alignment explanation
Indices: 2414872--2415036 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
2414862 TATTTTCCAC
* * * *
2414872 TTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAAT-T-ATTTTCTA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTT-TTTTT-AAAGAATATCATTCTCTA
2414934 AACTCATTGATTTACTTTCATT
63 AACTCATTGATTTACTTTCATT
* * *
2414956 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTTTTTTCAAGAATATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTTTTTTAAAGAATATCATTCTCTAAAC
* *
2415021 TTATTGATTTATTTTC
66 TCATTGATTTACTTTC
2415037 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 10 0.14
84 53 0.77
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.53
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTTTTTTAAAGAATATCATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:2417204 original size:10 final size:10
Alignment explanation
Indices: 2417180--2417218 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
2417170 TAGTGATACG
2417180 TGAACAGTG-
1 TGAACAGTGA
2417189 TGAACAGTGA
1 TGAACAGTGA
2417199 TGAACAGTGA
1 TGAACAGTGA
*
2417209 TGAATAGTGA
1 TGAACAGTGA
2417219 AAATGAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (10 bp):
TGAACAGTGA
Found at i:2417204 original size:19 final size:20
Alignment explanation
Indices: 2417180--2417218 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2417170 TAGTGATACG
2417180 TGAACAGTG-TGAACAGTGA
1 TGAACAGTGATGAACAGTGA
*
2417199 TGAACAGTGATGAATAGTGA
1 TGAACAGTGATGAACAGTGA
2417219 AAATGAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (20 bp):
TGAACAGTGATGAACAGTGA
Found at i:2417306 original size:53 final size:53
Alignment explanation
Indices: 2417242--2417378 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
2417232 CTACTACCAA
*
2417242 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
2417295 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
2417348 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
2417379 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:2417414 original size:21 final size:20
Alignment explanation
Indices: 2417366--2417420 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2417356 TACATATTTG
**
2417366 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
2417386 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
2417407 TGTGTATCGATACT
1 TGTGTATCGATACT
2417421 TTTTAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:2417485 original size:21 final size:21
Alignment explanation
Indices: 2417459--2417499 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2417449 GTCAACCTTG
2417459 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2417480 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2417500 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2418586 original size:52 final size:52
Alignment explanation
Indices: 2418516--2418665 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
2418506 CAAAATATGA
2418516 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATATGGGC
* *
2418568 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATATGGGC
**
2418620 AAATTTGCCTGCATGTATCGATACA-AAAATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTAAT-AGTGTATCGATACAT
2418666 TTGAGTAATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 2 0.02
52 90 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATATGGGC
Found at i:2418731 original size:19 final size:19
Alignment explanation
Indices: 2418707--2418804 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
2418697 TAGCTTAAAT
2418707 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2418726 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
2418739 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2418758 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2418771 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
2418791 TGTATCGATACAAA
1 TGTATCGATACAAA
2418805 TCGTTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.35
20 13 0.20
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2418744 original size:13 final size:13
Alignment explanation
Indices: 2418726--2418782 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2418716 ACAAAACTTA
2418726 TGTATCGATACAT
1 TGTATCGATACAT
2418739 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
2418757 ATGTATCGATACAT
1 -TGTATCGATACAT
2418771 TGTATCGATACA
1 TGTATCGATACA
2418783 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Done.