Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002755.1 Hibiscus syriacus cultivar Beakdansim tig00005678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 722678
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 4
Found at i:358 original size:112 final size:110
Alignment explanation
Indices: 1--365 Score: 572
Period size: 112 Copynumber: 3.2 Consensus size: 110
1 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAATAATT
1 TATGAACCTTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTCAGGT-AAAGGTTGAA-AATT
*
66 ATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
63 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
114 TATG-ACCTTCTTTGGAAAAGATAATCC-TCAATTGATGAATTCAGGTAAAGGTTGAATAAATTC
1 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAGGTTG-A-AAATTC
177 TTCTCATTATGAACTTCTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
64 TTCTCATTATGAA---CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
227 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAGGTTGACCAAATTC
1 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAGGTTGA--AAATTC
*
292 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCAT
64 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
339 TATGAACCTTCTCTGGAAAAGATAATC
1 TATGAACCTTCTCTGGAAAAGATAATC
366 TTTCAATGAT
Statistics
Matches: 234, Mismatches: 10, Indels: 17
0.90 0.04 0.07
Matches are distributed among these distances:
109 8 0.03
110 33 0.14
111 5 0.02
112 80 0.34
113 42 0.18
114 21 0.09
115 45 0.19
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (110 bp):
TATGAACCTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAGGTTGAAAATTCTT
CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
Found at i:1137 original size:50 final size:50
Alignment explanation
Indices: 1074--1176 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
1064 TTCAATGATG
*
1074 ATTCTGTCCAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
*
1124 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1174 ATT
1 ATT
1177 AGCAAATTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (50 bp):
ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
Found at i:1253 original size:133 final size:131
Alignment explanation
Indices: 1005--1259 Score: 458
Period size: 133 Copynumber: 1.9 Consensus size: 131
995 CTTACCAAAA
1005 CAGATCAGATAACTCAAAGAACACTTCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAAT
*
1070 GATGATTCTGTCCAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAA
66 GATGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAA
1135 C
131 C
1136 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTT-CAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
*
1201 TGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
65 TGA-TGATTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1260 AGCAAATTAT
Statistics
Matches: 119, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
131 26 0.22
132 43 0.36
133 50 0.42
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (131 bp):
CAGATCAGATAACTCAAAGAACACTTCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAAT
GATGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAA
C
Found at i:1264 original size:83 final size:82
Alignment explanation
Indices: 1133--1948 Score: 1261
Period size: 82 Copynumber: 10.0 Consensus size: 82
1123 TATTCTGTCT
1133 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1198 CAATGATTGGTTCTGCCA
66 CAATGATT-GTTCTGCCA
1216 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATT-ATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1280 CAATGATTGATTCTGTCC-
66 CAATGATTG-TTCTG-CCA
*
1298 AACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1363 CAATGATTGATTCTGTCC-
66 CAATGATTG-TTCTG-CCA
*
1381 AACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1446 CAATGATTGATTCTGTCC-
66 CAATGATTG-TTCTG-CCA
*
1464 AACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
*
1529 CAATGATTGTTCTGCTA
66 CAATGATTGTTCTGCCA
* * *
1546 AACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
*
1611 CAATGATTGTTCTGCTA
66 CAATGATTGTTCTGCCA
* * * *
1628 AACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
* *
1693 CAATGAATGTTCTGCTA
66 CAATGATTGTTCTGCCA
* * *
1710 AACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
*
1775 CAATGATTGTTCTGCTA
66 CAATGATTGTTCTGCCA
* * * *
1792 AACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
* *
1857 C-ATGAATGTTCTG-CT
66 CAATGATTGTTCTGCCA
* * *
1872 AACCAGGTC-GATAACTCAAA-AACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
*
1935 CAATGATTGGTCTG
66 CAATGATTGTTCTG
1949 GGATATCACA
Statistics
Matches: 711, Mismatches: 17, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
78 43 0.06
79 21 0.03
80 9 0.01
81 13 0.02
82 384 0.54
83 241 0.34
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (82 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
CAATGATTGTTCTGCCA
Found at i:3084 original size:7 final size:6
Alignment explanation
Indices: 3055--3133 Score: 85
Period size: 6 Copynumber: 13.2 Consensus size: 6
3045 CTTGACCCCC
*
3055 TTTCTT TTTC-T TCTCTTT TTTCTAT TTTCTAT TTT-TT TTTCTT TTT-TT
1 TTTCTT TTTCTT TTTC-TT TTTCT-T TTTCT-T TTTCTT TTTCTT TTTCTT
3103 TTTCTT TTTCTT TTT-TCT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCT-T TTTCTT TTTCTT T
3134 CAAGCATAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
5 14 0.22
6 34 0.53
7 16 0.25
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:3091 original size:18 final size:17
Alignment explanation
Indices: 3055--3133 Score: 95
Period size: 18 Copynumber: 4.4 Consensus size: 17
3045 CTTGACCCCC
*
3055 TTTCTTTTTCTTCTCTTT
1 TTTCTTTTTCTTTTC-TT
*
3073 TTTCTATTTTCTATTTTTT
1 TTTCT-TTTTCT-TTTCTT
*
3092 TTTCTTTTTTTTTTCTT
1 TTTCTTTTTCTTTTCTT
3109 TTTCTTTTTTCTTTTCTT
1 TTTC-TTTTTCTTTTCTT
3127 TTTCTTT
1 TTTCTTT
3134 CAAGCATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
17 12 0.23
18 26 0.49
19 13 0.25
20 2 0.04
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTCTTTTCTT
Found at i:3094 original size:12 final size:11
Alignment explanation
Indices: 3055--3133 Score: 77
Period size: 11 Copynumber: 6.6 Consensus size: 11
3045 CTTGACCCCC
*
3055 TTTCTTTTTCT
1 TTTCTTTTTTT
*
3066 TCTCTTTTTTCTAT
1 TTTC-TTTTT-T-T
3080 TTTCTATTTTTT
1 TTTCT-TTTTTT
3092 TTTCTTTTTTT
1 TTTCTTTTTTT
3103 TTTCTTTTTCTTT
1 TTTC-TTTT-TTT
*
3116 TTTCTTTTCTT
1 TTTCTTTTTTT
3127 TTTCTTT
1 TTTCTTT
3134 CAAGCATAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
11 22 0.38
12 19 0.33
13 9 0.16
14 8 0.14
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:3102 original size:29 final size:27
Alignment explanation
Indices: 3059--3134 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 27
3049 ACCCCCTTTC
3059 TTTTTCTTCTCTTTTTTCTATTTTCTATTTT
1 TTTTTCTT-T-TTTTTTCT-TTTTCT-TTTT
3090 TTTTTCTTTTTTTTTTCTTTTTCTTTTT
1 TTTTTC-TTTTTTTTTCTTTTTCTTTTT
*
3118 TCTTTTCTTTTTCTTTC
1 T-TTTTCTTTTTTTTTC
3135 AAGCATAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 14 0.33
29 11 0.26
30 8 0.19
31 7 0.17
32 2 0.05
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (27 bp):
TTTTTCTTTTTTTTTCTTTTTCTTTTT
Found at i:15991 original size:3 final size:3
Alignment explanation
Indices: 15983--16092 Score: 193
Period size: 3 Copynumber: 36.7 Consensus size: 3
15973 TTAATATATT
*
15983 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
16031 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16079 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
16093 TGGATAAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19818 original size:21 final size:20
Alignment explanation
Indices: 19788--19864 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
19778 TTTATCGATA
19788 ATTTTAATAATATAATATTTT
1 ATTTT-ATAATATAATATTTT
* *
19809 ATTGTTATAATTATATTATTAT
1 ATT-TTATAA-TATAATATTTT
* * * *
19831 AATATATAATATTATAATTT
1 ATTTTATAATATAATATTTT
19851 ATTTTAATAATATA
1 ATTTT-ATAATATA
19865 TAACAAATTA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 10 0.24
21 19 0.45
22 13 0.31
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTTTATAATATAATATTTT
Found at i:19843 original size:15 final size:14
Alignment explanation
Indices: 19813--19849 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
19803 TATTTTATTG
*
19813 TTATAATTATATTA
1 TTATAATTATAATA
19827 TTATAATATATAATA
1 TTATAAT-TATAATA
19842 TTATAATT
1 TTATAATT
19850 TATTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTATAATA
Found at i:20019 original size:25 final size:25
Alignment explanation
Indices: 19973--20021 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
19963 TAATATTCTT
* *
19973 ATTTTAATATTATATATTTTTTAAC
1 ATTTTAACAATATATATTTTTTAAC
19998 ATTTTAACAATAT-TATTATTTTAA
1 ATTTTAACAATATATATT-TTTTAA
20022 TAAATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTAACAATATATATTTTTTAAC
Found at i:20030 original size:16 final size:17
Alignment explanation
Indices: 19998--20053 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
19988 ATTTTTTAAC
*
19998 ATTTTAACAATATTATT
1 ATTTTAATAATATTATT
20015 ATTTTAATAA-ATTATT
1 ATTTTAATAATATTATT
*
20031 AATTTAATTAATAATATATT
1 ATTTTAA-TAAT-AT-TATT
20051 ATT
1 ATT
20054 ATTGTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 12 0.38
17 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTAATAATATTATT
Found at i:20054 original size:42 final size:41
Alignment explanation
Indices: 20008--20096 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 41
19998 ATTTTAACAA
* * *
20008 TATTATTATTTTAATAAATTATTAATTTAATTAATAATATAT
1 TATTATTATTTTAATAAATAATAAATATAATTAATAATA-AT
* *
20050 TATTATTGTTTTAATAAATAATAAATATAATTTATAATAAT
1 TATTATTATTTTAATAAATAATAAATATAATTAATAATAAT
20091 T-TTATT
1 TATTATT
20097 TTAATATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 5 0.12
41 3 0.07
42 34 0.81
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (41 bp):
TATTATTATTTTAATAAATAATAAATATAATTAATAATAAT
Found at i:20163 original size:14 final size:13
Alignment explanation
Indices: 20093--20167 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 13
20083 ATAATAATTT
20093 TATTTTAATATAAA
1 TATTTTAATAT-AA
* *
20107 TATATTAATCGTAA
1 TATTTTAAT-ATAA
*
20121 TATTTTTATTTATAA
1 TA-TTTTA-ATATAA
* *
20136 AATTATAGATATAA
1 TATTTTA-ATATAA
20150 TATTTTAATAATAA
1 TATTTTAAT-ATAA
20164 TATT
1 TATT
20168 GACATAAATA
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
13 2 0.04
14 34 0.74
15 9 0.20
16 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (13 bp):
TATTTTAATATAA
Found at i:21667 original size:60 final size:60
Alignment explanation
Indices: 21586--21723 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
21576 AATCATTCAA
** *
21586 AATTCTGGGGATGAAATTGGAACATTCAAAAGTTTG-GGTATCAATATATCATGAGAGTCAT
1 AATT-TGGGGATGAAATTGGAACATTCAAAAGTTTGAGG-ATCAATATAGAATGAGAGTCAC
* * ** *
21647 AATTTGGGGATGCATTTGGAATGTTCAAAAGTTTGAGGATCAATTTAGAATGAGAGTCAC
1 AATTTGGGGATGAAATTGGAACATTCAAAAGTTTGAGGATCAATATAGAATGAGAGTCAC
* *
21707 AATTTAGAGATGAAATT
1 AATTTGGGGATGAAATT
21724 AGAATGTTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 58 0.91
61 6 0.09
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (60 bp):
AATTTGGGGATGAAATTGGAACATTCAAAAGTTTGAGGATCAATATAGAATGAGAGTCAC
Found at i:21759 original size:60 final size:60
Alignment explanation
Indices: 21595--21740 Score: 141
Period size: 60 Copynumber: 2.4 Consensus size: 60
21585 AAATTCTGGG
* ** * * ** * * *
21595 GATGAAATTGGAACATTCAAAAGTTTG-GGTATCAATATATCATGAGAGTCATAATTTGGG
1 GATGAAATTAGAATGTTCAAAACTTTGAGG-ATCAATTTAGAATGAGAGTCACAATTTAGA
* * * *
21655 GATGCATTTGGAATGTTCAAAAGTTTGAGGATCAATTTAGAATGAGAGTCACAATTTAGA
1 GATGAAATTAGAATGTTCAAAACTTTGAGGATCAATTTAGAATGAGAGTCACAATTTAGA
*
21715 GATGAAATTAGAATGTTGAAAACTTT
1 GATGAAATTAGAATGTTCAAAACTTT
21741 AGGGACAAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
60 68 0.97
61 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (60 bp):
GATGAAATTAGAATGTTCAAAACTTTGAGGATCAATTTAGAATGAGAGTCACAATTTAGA
Found at i:23693 original size:60 final size:59
Alignment explanation
Indices: 23586--23699 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
23576 ATTTGACACA
* * * * *
23586 ATGCCTTCAAGCTCTAGGGGAGGCATTCAACTGCAAGCTTCTTCGACCTCAATGCCTAT
1 ATGCCTTCAAGCTCAAGGGGAGACATGCAACTACAAGCTTCTTCGACCTAAATGCCTAT
* * *
23645 ATGCCTTCAAGTTCAAGGGGAAGACATGCAACTACCAGCTTGTTCGACCTAAATG
1 ATGCCTTCAAGCTCAAGGGG-AGACATGCAACTACAAGCTTCTTCGACCTAAATG
23700 TCGACAGCGT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 18 0.39
60 28 0.61
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (59 bp):
ATGCCTTCAAGCTCAAGGGGAGACATGCAACTACAAGCTTCTTCGACCTAAATGCCTAT
Found at i:24747 original size:59 final size:59
Alignment explanation
Indices: 24678--24910 Score: 360
Period size: 59 Copynumber: 3.9 Consensus size: 59
24668 TAAATTCAAT
* * * * ** *
24678 TGGAATTTCATACAATCAATAAGATTTTATTTCCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTAAGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* *
24737 TGGAAATTCATACACTTAGTATGATTTGCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTAAGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
*
24796 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTAAGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
24855 TGGAAATTCATACACTTAGTATA-ATTTCCTTACCATTTTAGCACACAAAGTGCCCT
1 TGGAAATTCATACACTTAGTA-AGATTTCCTTACCATTTTAGCACACAAAGTGCCCT
24911 TTGGTAACTT
Statistics
Matches: 163, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
59 163 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (59 bp):
TGGAAATTCATACACTTAGTAAGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
Found at i:25301 original size:53 final size:52
Alignment explanation
Indices: 25242--25412 Score: 245
Period size: 53 Copynumber: 3.2 Consensus size: 52
25232 CCTTCAGAAG
25242 GGTATCGATACACTACTGGGCTATCAGTACCCAAATTAACTTCGATGTTTACA
1 GGTATCGATACACTACTGGG-TATCAGTACCCAAATTAACTTCGATGTTTACA
* * *
25295 TGTATCGATACACTACTGAGATAT-TGATACCCAAATTAACTTCGATGTTTACA
1 GGTATCGATACACTACTG-GGTATCAG-TACCCAAATTAACTTCGATGTTTACA
* * *
25348 GGTATCAATACACTACTGAGGTATCGGTACCCAAATTAACTTTGATGTTTACA
1 GGTATCGATACACTACTG-GGTATCAGTACCCAAATTAACTTCGATGTTTACA
25401 GGTATCGATACA
1 GGTATCGATACA
25413 TGCCTGATGG
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
52 1 0.01
53 103 0.97
54 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (52 bp):
GGTATCGATACACTACTGGGTATCAGTACCCAAATTAACTTCGATGTTTACA
Found at i:31628 original size:59 final size:59
Alignment explanation
Indices: 31555--31764 Score: 341
Period size: 59 Copynumber: 3.6 Consensus size: 59
31545 TAATCAATAA
* * *
31555 GATTTTCTTTCCATTTTAGCACACAAATTGCCCTATCTAGAAATTCATACACTTAGTAT
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTAGAAATTCATACACTTAGTAT
*
31614 GATTTCCTTACCATTTTAGCACACAAAGTGCCTTATCTA-AAATTCATACACTTAGTAT
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTAGAAATTCATACACTTAGTAT
* *
31672 GATTTCCTTACCATTTTAGCACACAAAGTACCCTATCTGGAAATTCATACACTTAGTAT
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTAGAAATTCATACACTTAGTAT
* *
31731 AATTTCCTTATCATTTTAGCACACAAAGTGCCCT
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCT
31765 TTGGTAATTT
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
58 55 0.39
59 85 0.61
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (59 bp):
GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTAGAAATTCATACACTTAGTAT
Found at i:32183 original size:53 final size:53
Alignment explanation
Indices: 32094--32284 Score: 249
Period size: 53 Copynumber: 3.6 Consensus size: 53
32084 CCTTTAGAAG
* * *
32094 GGTATCGATACACTACAGGGGTATCGATACCCAAATTAACTTCGATGTTTACA
1 GGTATCGATACACTACTGAGGTATCGATACCTAAATTAACTTCGATGTTTACA
* * *
32147 TGTATCGATACACTACTGAGGTATCGGTACTTAAATTAACTTCGATGTTTACA
1 GGTATCGATACACTACTGAGGTATCGATACCTAAATTAACTTCGATGTTTACA
* * * *
32200 GGTATCAATACACTACTGAGGTATCGATACCTATATTAGCTTCAATGTTTACA
1 GGTATCGATACACTACTGAGGTATCGATACCTAAATTAACTTCGATGTTTACA
* *
32253 GGTATTGATACA-TGCCTGATGGTATCGATACC
1 GGTATCGATACACT-ACTGA-GGTATCGATACC
32285 CCTTGAAGAT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
52 1 0.01
53 107 0.89
54 12 0.10
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (53 bp):
GGTATCGATACACTACTGAGGTATCGATACCTAAATTAACTTCGATGTTTACA
Found at i:35060 original size:16 final size:17
Alignment explanation
Indices: 35031--35064 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35021 CAATTGTTGG
35031 TAAATAAAAGAATTAAA
1 TAAATAAAAGAATTAAA
*
35048 TAAA-AAAATAATTAAA
1 TAAATAAAAGAATTAAA
35064 T
1 T
35065 GTATGAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAATAAAAGAATTAAA
Found at i:35175 original size:3 final size:3
Alignment explanation
Indices: 35167--35244 Score: 86
Period size: 3 Copynumber: 26.0 Consensus size: 3
35157 CTCCTCACTC
* * * * *
35167 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA CCA CCA CCA CCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
35215 GT-A TCA TCA TCA TCA TCA TTA TCA TCA TCA
1 -TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
35245 GGAACAAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.01
3 67 0.97
4 1 0.01
ACGTcount: A:0.33, C:0.37, G:0.01, T:0.28
Consensus pattern (3 bp):
TCA
Found at i:38283 original size:4 final size:4
Alignment explanation
Indices: 38274--38312 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
38264 ATAAACAATA
*
38274 AAAT AAAT AAAT AAAT AAAT AAA- ATATT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA
38313 AGAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 1 0.03
4 29 0.94
5 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:38283 original size:16 final size:14
Alignment explanation
Indices: 38264--38313 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
38254 TAAATTAATG
38264 ATAAACAATAAAATAA
1 ATAAA-AAT-AAATAA
38280 AT--AAATAAATAA
1 ATAAAAATAAATAA
38292 ATAAAATATTAAATAA
1 ATAAAA-A-TAAATAA
38308 ATAAAA
1 ATAAAA
38314 GAATTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 8 0.27
13 3 0.10
14 3 0.10
15 1 0.03
16 15 0.50
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:38295 original size:28 final size:27
Alignment explanation
Indices: 38244--38312 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
38234 AAAATTGTCC
* *
38244 TAAAATAAATTAAATTAATGATAAACA-A
1 TAAAATAAA-TAAATAAATAATAAA-ATA
38272 TAAAATAAATAAATAAATAAATAAAATA
1 TAAAATAAATAAATAAAT-AATAAAATA
*
38300 TTAAATAAATAAA
1 TAAAATAAATAAA
38313 AGAATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 9 0.25
28 27 0.75
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (27 bp):
TAAAATAAATAAATAAATAATAAAATA
Found at i:39598 original size:7 final size:7
Alignment explanation
Indices: 39573--39852 Score: 170
Period size: 7 Copynumber: 38.7 Consensus size: 7
39563 AATAATATTA
39573 ATATAAT
1 ATATAAT
39580 A-AT-AT
1 ATATAAT
39585 AATATAAT
1 -ATATAAT
39593 ATATAAT
1 ATATAAT
*
39600 AAATAA-
1 ATATAAT
39606 ATACTAAT
1 ATA-TAAT
39614 ATAT-AT
1 ATATAAT
*
39620 ATAATATT
1 AT-ATAAT
39628 ATAATAA-
1 AT-ATAAT
*
39635 ATAAAAT
1 ATATAAT
39642 ATATAAT
1 ATATAAT
39649 ATATATAT
1 ATATA-AT
39657 AATATACCAT
1 -ATATA--AT
39667 ATA-AAT
1 ATATAAT
*
39673 ATATACT
1 ATATAAT
39680 ATAT-A-
1 ATATAAT
*
39685 CTATAAT
1 ATATAAT
39692 ATATAAT
1 ATATAAT
*
39699 ATAATATAA
1 AT-ATA-AT
*
39708 ATATAAC
1 ATATAAT
39715 ACTATAAT
1 A-TATAAT
39723 ATAT-AT
1 ATATAAT
*
39729 ACTATAGT
1 A-TATAAT
39737 ATAT-A-
1 ATATAAT
39742 ATATAAT
1 ATATAAT
39749 ATA-AAT
1 ATATAAT
39755 ATTTATAAT
1 A--TATAAT
39764 ATATAGTATT
1 ATATA--A-T
39774 ACTATAAT
1 A-TATAAT
39782 ATATAAT
1 ATATAAT
*
39789 ATGTAAT
1 ATATAAT
*
39796 ATACAAT
1 ATATAAT
39803 ATATAATAT
1 ATAT-A-AT
39812 ATATATAT
1 ATATA-AT
39820 ATATAAT
1 ATATAAT
*
39827 ATAAAAT
1 ATATAAT
*
39834 ATATATT
1 ATATAAT
*
39841 ATATACT
1 ATATAAT
39848 ATATA
1 ATATA
39853 CTATCCCAGA
Statistics
Matches: 219, Mismatches: 24, Indels: 60
0.72 0.08 0.20
Matches are distributed among these distances:
5 9 0.04
6 26 0.12
7 110 0.50
8 43 0.20
9 23 0.11
10 4 0.02
11 4 0.02
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:39619 original size:2 final size:2
Alignment explanation
Indices: 39573--39852 Score: 150
Period size: 2 Copynumber: 149.5 Consensus size: 2
39563 AATAATATTA
* *
39573 AT AT A- AT A- AT AT A- AT AT A- AT AT AT A- AT AA AT AA AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* *
39611 A- AT AT AT AT AT A- AT AT -T AT A- AT AA AT A- AA AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
39647 AT AT AT AT AT A- AT AT ACC AT AT AA AT AT AT ACT AT AT ACT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT A-T AT
* *
39689 A- AT AT AT A- AT AT A- AT AT AA AT AT A- AC ACT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
39727 AT ACT AT AGT AT AT A- AT AT A- AT AT AA AT AT TT AT A- AT AT AT
1 AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
39768 AGT AT -T ACT AT A- AT AT AT A- AT AT GT A- AT AT AC A- AT AT AT
1 A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
39807 A- AT AT AT AT AT AT AT AT A- AT AT A- AA AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39845 ACT AT AT A
1 A-T AT AT A
39853 CTATCCCAGA
Statistics
Matches: 217, Mismatches: 22, Indels: 78
0.68 0.07 0.25
Matches are distributed among these distances:
1 29 0.13
2 170 0.78
3 18 0.08
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:39622 original size:45 final size:45
Alignment explanation
Indices: 39564--39852 Score: 177
Period size: 45 Copynumber: 6.2 Consensus size: 45
39554 AAAACCAAAA
39564 ATAATAT-TAATATAATA-ATATAATATAATATATAATAAATAAAT
1 ATAATATAT-ATATAATATATATAATATAATATATAATAAATAAAT
* *
39608 ACTAATATATATATAATAT-TATAATA-AATAAAATATATAATATATAT
1 A-TAATATATATATAATATATATAATATAAT-ATATA-ATAA-ATAAAT
* * *
39655 ATAATATACCATATAA-ATATATACTAT-ATACTATAATATAT-AAT
1 ATAATATA-TATATAATATATATAATATAATA-TATAATAAATAAAT
* * *
39699 ATAATATAAATATAACA-CTATAATATATATACTATAGTATATAATATAAT
1 ATAATATATATATAATATATATAATATA-ATA-TATA--ATA-AATA-AAT
* **
39749 ATAA-ATATTTATAATATATAGTATTACTATAATATATAATATGTAATAT
1 ATAATATATATATAATATATA-TA--A-TATAATATATAATAAATAA-AT
* * * *
39798 ACAATATATA-AT-ATATATATATATATAATATAAAATATATATTAT
1 ATAATATATATATAATATATATA-ATATAATATATAATAAATA-AAT
*
39843 ATACTATATA
1 ATAATATATA
39853 CTATCCCAGA
Statistics
Matches: 195, Mismatches: 24, Indels: 51
0.72 0.09 0.19
Matches are distributed among these distances:
43 13 0.07
44 15 0.08
45 61 0.31
46 20 0.10
47 28 0.14
48 10 0.05
49 18 0.09
50 16 0.08
51 2 0.01
52 4 0.02
53 4 0.02
54 4 0.02
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (45 bp):
ATAATATATATATAATATATATAATATAATATATAATAAATAAAT
Found at i:39693 original size:104 final size:109
Alignment explanation
Indices: 39573--39850 Score: 280
Period size: 112 Copynumber: 2.6 Consensus size: 109
39563 AATAATATTA
39573 ATATAATA-A-TATAATATAATATATA-ATAAATA-AATACTAATATATATATAATAT-TATAAT
1 ATATAATATACTATAATATAATATATATATAAATATAATACTAATATATATATAATATATATAAT
39633 A-AATA-AAATA-TATAATATATA-TA-TAATATACCATATA-AAT
66 ATAATATAAATATTATAATATATAGTATTAATATA--ATATATAAT
*
39673 ATATACTATATACTATAATAT-ATAATATAATATAAATATAACACT-ATAATATATATACTATAG
1 ATATA--ATATACTATAATATAAT-ATAT-ATATAAATATAATACTAAT-ATATATATA--ATA-
*
39736 TATATAATATAATATAAATATTTATAATATATAGTATTACTATAATATATAAT
58 TATATAATATAATATAAATA-TTATAATATATAGTATTAATATAATATATAAT
* * * * *
39789 ATGTAATATACAAT-ATATAATATATATATATATATAATA-TAAAATATATATTATATACTATA
1 ATATAATATACTATAATATAATATATATATAAATATAATACTAATATATATATAATATA-TATA
39851 TACTATCCCA
Statistics
Matches: 147, Mismatches: 8, Indels: 37
0.77 0.04 0.19
Matches are distributed among these distances:
100 5 0.03
102 3 0.02
103 3 0.02
104 12 0.08
105 1 0.01
106 9 0.06
107 14 0.10
108 2 0.01
109 10 0.07
110 1 0.01
111 16 0.11
112 17 0.12
113 13 0.09
114 10 0.07
115 16 0.11
116 9 0.06
117 6 0.04
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (109 bp):
ATATAATATACTATAATATAATATATATATAAATATAATACTAATATATATATAATATATATAAT
ATAATATAAATATTATAATATATAGTATTAATATAATATATAAT
Found at i:39856 original size:7 final size:6
Alignment explanation
Indices: 39573--39852 Score: 150
Period size: 5 Copynumber: 49.8 Consensus size: 6
39563 AATAATATTA
* *
39573 ATATA- ATA-AT ATA-AT ATA-AT ATATA- ATAAAT AAATACT A-ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATA-T ATATAT
* *
39616 ATATAT A-ATAT -TATA- ATAAAT A-AAAT ATATA- ATATAT ATATA-
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
39658 ATATACC ATATAA ATATAT ACTATAT ACTATA- ATATAT A-ATAT A-ATAT
1 ATATA-T ATATAT ATATAT A-TATAT A-TATAT ATATAT ATATAT ATATAT
* * *
39706 AAATAT A-ACACT ATA-AT ATATAT ACTATAGT ATATA- ATATA- ATATAA
1 ATATAT ATATA-T ATATAT ATATAT A-TATA-T ATATAT ATATAT ATATAT
* *
39753 ATATTT ATA-AT ATATAGT AT-TACT ATA-AT ATATA- ATATGT A-ATAT
1 ATATAT ATATAT ATATA-T ATATA-T ATATAT ATATAT ATATAT ATATAT
* *
39798 ACA-AT ATATA- ATATAT ATATAT ATATA- ATATA- AAATAT ATAT-T
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
39841 ATATACT ATATA
1 ATATA-T ATATA
39853 CTATCCCAGA
Statistics
Matches: 226, Mismatches: 17, Indels: 62
0.74 0.06 0.20
Matches are distributed among these distances:
4 1 0.00
5 116 0.51
6 71 0.31
7 36 0.16
8 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (6 bp):
ATATAT
Found at i:40986 original size:200 final size:201
Alignment explanation
Indices: 40623--41086 Score: 584
Period size: 200 Copynumber: 2.3 Consensus size: 201
40613 AAATCGTAGT
* * * *
40623 CAACCTTGGTATTCTTCTTGGCTTAAAGACCTCAGTTTAAAATTCAA-TCGAAAAGTAGTTCCTC
1 CAACCTAGGTCTTCTTCTTGGCTTAAAGACCTCAGTTTAAACTTCAACT-GGAAAGTAGTTCCTC
* * * * * *
40687 GTTGTTACCATGCGGTTGATACGCCCTCGAGCTAAATGGAATCAAACTCGAAAGTTTTTATTGAT
65 GCTGCTACCATGCAGTTGATACACCCTCGAGCTAAATGAAATCAAACTCGAAAGTTTTCATTGAT
*
40752 AGAAAACTTTTCTCAACTTAAGCTATATTGTAAATTAAGT-TGGGAGATAGTTCATTGT-TGCTA
130 AGAAAACTTTTCTCAACTTAAGCTATATTGTAAATTAA-TCTGGGAGATAGTTCATTATCT-CTA
40815 AATCACAAC
193 AATCACAAC
* *
40824 CAACCTAGGTCTT-TTCTTGGTTTAAATACCTCAGTTTAAACTTCAACTGGAAAGTAGTTCCTCG
1 CAACCTAGGTCTTCTTCTTGGCTTAAAGACCTCAGTTTAAACTTCAACTGGAAAGTAGTTCCTCG
* ** *
40888 CTGCTACCATGCAGTTGAT-CTACCCTCGAGCTGAATGAAATTGAACTCGAAAGTTTTCGTTGAT
66 CTGCTACCATGCAGTTGATAC-ACCCTCGAGCTAAATGAAATCAAACTCGAAAGTTTTCATTGAT
* * * *
40952 AGATAGA-TTTTCTCGACTTAATCTATGA-TGTAAATTAATCTGGGAGATAGTTTATTATCTCTA
130 AGA-AAACTTTTCTCAACTTAAGCTAT-ATTGTAAATTAATCTGGGAGATAGTTCATTATCTCTA
* *
41015 AATCGCAGC
193 AATCACAAC
* **
41024 CAACCTAGGTCTTCTTCTTGGCTTAAAGACCTCGGTTTAAACTTCAACCAGAAAGT-GTTCCTC
1 CAACCTAGGTCTTCTTCTTGGCTTAAAGACCTCAGTTTAAACTTCAACTGGAAAGTAGTTCCTC
41087 TAATTGAAGG
Statistics
Matches: 228, Mismatches: 28, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
199 2 0.01
200 173 0.76
201 53 0.23
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (201 bp):
CAACCTAGGTCTTCTTCTTGGCTTAAAGACCTCAGTTTAAACTTCAACTGGAAAGTAGTTCCTCG
CTGCTACCATGCAGTTGATACACCCTCGAGCTAAATGAAATCAAACTCGAAAGTTTTCATTGATA
GAAAACTTTTCTCAACTTAAGCTATATTGTAAATTAATCTGGGAGATAGTTCATTATCTCTAAAT
CACAAC
Found at i:41506 original size:22 final size:22
Alignment explanation
Indices: 41478--41537 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
41468 ATTCATTCTA
41478 AATTGGCTCTCGAACCCGTCTG
1 AATTGGCTCTCGAACCCGTCTG
41500 AATTGGCTCTCGAACCCGTCTG
1 AATTGGCTCTCGAACCCGTCTG
* *
41522 AATTAGATCTCGAACC
1 AATTGGCTCTCGAACC
41538 AGATTTGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (22 bp):
AATTGGCTCTCGAACCCGTCTG
Found at i:48084 original size:19 final size:20
Alignment explanation
Indices: 48034--48087 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
48024 AATTGTCCTA
* * *
48034 AAATAAATCAAATTAATGTT
1 AAATAAATAAAATAAATATT
*
48054 AAA-CAATAAAATAAATATT
1 AAATAAATAAAATAAATATT
48073 AAATAAAT-AAATAAA
1 AAATAAATAAAATAAA
48088 AGAATTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATAAATAAAATAAATATT
Found at i:48130 original size:15 final size:15
Alignment explanation
Indices: 48106--48156 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
48096 AATAAAATTC
*
48106 AAATTAAAAAGGATT
1 AAATTGAAAAGGATT
*
48121 AAATTGAAAAGAATT
1 AAATTGAAAAGGATT
* * *
48136 AAA-AGTAAAGGATC
1 AAATTGAAAAGGATT
48150 AAATTGA
1 AAATTGA
48157 TGTTAATTGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.59, C:0.02, G:0.16, T:0.24
Consensus pattern (15 bp):
AAATTGAAAAGGATT
Found at i:49380 original size:2 final size:2
Alignment explanation
Indices: 49355--49599 Score: 157
Period size: 2 Copynumber: 127.0 Consensus size: 2
49345 ATTAATAATA
* *
49355 AT AT GAT AT AT A- AT AA AT AG AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
49397 AT AT AT AT AT AT -T AT AA AT A- AC AT AT AT AT A- AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
49437 AT A- AT AT ACC AT AT AA AT AT AT AT ACT AT ACT AT A- AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT
* *
49478 AT A- AT AT AA AT AT TT AT A- AT AT AT -T AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
49516 AT AC A- AT -T AT A- AT AT AT AGC ACT ACT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT A-T A-T A-T AT AT AT AT AT AT AT
* * * *
49554 AT GT -T AT AT AC A- AT AT AT A- AT AT AT AA AA AT AT AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
49594 AT AT AT
1 AT AT AT
49600 TATCCCGGAC
Statistics
Matches: 195, Mismatches: 23, Indels: 50
0.73 0.09 0.19
Matches are distributed among these distances:
1 18 0.09
2 161 0.83
3 16 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:49458 original size:68 final size:65
Alignment explanation
Indices: 49352--49598 Score: 182
Period size: 61 Copynumber: 3.9 Consensus size: 65
49342 AATATTAATA
* * *
49352 ATAATAT-GATATATAATAA-ATAG-ATATATATAT-ATATATATATATATATATATAT-AT-TA
1 ATAATATAAATATAT-ATAATATAGTATATATATAACATATAAATATATATATATATATAATATA
49411 T
65 T
* *
49412 A-AATA-ACATATATATAATATAGTATATAATATACCATATAAATATATATACTATACTATAATA
1 ATAATATAAATATATATAATATAGTATAT-ATATAACATATAAATATATATA-TATA-TATAATA
49475 TAT
63 TAT
* * * * *
49478 ATAATATAAATATTTATAATATATTATATATATAATATATACAAT-TATA-ATATATAGCACTA-
1 ATAATATAAATATATATAATATAGTATATATATAACATATA-AATATATATATATATA-TAATAT
*
49540 CT
64 AT
* * * *
49542 ATAATATATAATATGT-T-ATATA-CA-ATATATAATATATAAAAATATATATACTATATA
1 ATAATATA-AATATATATAATATAGTATATATATAACATATAAATATATATATA-TATATA
49599 TTATCCCGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
58 4 0.03
59 14 0.09
60 7 0.05
61 23 0.15
62 19 0.12
63 13 0.08
64 15 0.10
65 15 0.10
66 5 0.03
67 18 0.12
68 22 0.14
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (65 bp):
ATAATATAAATATATATAATATAGTATATATATAACATATAAATATATATATATATATAATATAT
Found at i:51212 original size:23 final size:23
Alignment explanation
Indices: 51186--51250 Score: 130
Period size: 23 Copynumber: 2.8 Consensus size: 23
51176 AATAACATAT
51186 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
51209 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
51232 TAGGTAGCGCTTATATAAT
1 TAGGTAGCGCTTATATAAT
51251 AAATAGGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:51779 original size:200 final size:198
Alignment explanation
Indices: 51351--52060 Score: 718
Period size: 200 Copynumber: 3.5 Consensus size: 198
51341 TTTTCGAAGT
* * * *
51351 AAACCGGTATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATTATTATCGGTTACGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
* **
51416 TGTTTTCTAGATCGATACAATTT-TAAATGTATCGACACTTTATGCTTGCA-CCTGGTTGGGCAT
66 TGTTTTCGAGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCCT--TT-----T
** * * * * * *
51479 TCATATTTCATTCTGGAAAAAAAATATCGACATAAACTAACAGCGTATCGATACATTAT-TTAGA
124 TTGTATTT-ATTCTGG-ACAAAAGTATCGACACAAATTAACA-AGTGTCGATACATTATGTT-GA
*
51543 CCTATTCTCTCATA
185 CCTATTTTCTCATA
* * * **
51557 AAACCGGTATATTTATATCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
* * *
51622 TGTTTCCGGGATCGATACTTTTTATAAATGTATCGATACTTTATGCTTGCACCCTTTTTTGTATT
66 TGTTTTCGAGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCCTTTTTTGTATT
* * * *
51687 TATTCTGGACCAAAAGTATCGATACAAATTTAGCATGTGTCGATAC-TTGATGATGACCTATTTT
131 TATTCTGGA-CAAAAGTATCGACACAAA-TTAACAAGTGTCGATACATT-ATGTTGACCTATTTT
*
51751 ATCATA
193 CTCATA
* *
51757 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTAATACATTATAATTATCAGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
* * * * *
51822 TGTTGTT-GAGATCGATACTTTTAATAAATGTATCGACACTTTATG-TGTTCACCTCGTTTGTGC
66 TGTT-TTCGAGATCGATACTTTTTATAAATGTATCGACACTTTATGCT-TGCACC-CTTTTTTGT
* * * * *
51885 ATTCATCCTGGACAATAAGTATCGACACAAATTACACAAGCGTCGATACATTATGTTGACTTGTT
128 ATTTATTCTGGACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTGACCTATT
*
51950 TTCTAAT-
191 TTCTCATA
* * * * *
51957 TAACCGGTATATTTATACCAGTTACATTGTTAATTTACCTATTACATTATAATGATTAGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
* * *
52022 TGTTTTTTG-GGTCGATAC-TTGTATAAAATGTATCGACAC
66 TG-TTTTCGAGATCGATACTTTTTAT-AAATGTATCGACAC
52061 ATATTTAGGT
Statistics
Matches: 429, Mismatches: 60, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
199 8 0.02
200 240 0.56
201 72 0.17
202 2 0.00
206 78 0.18
207 26 0.06
208 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
TGTTTTCGAGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCCTTTTTTGTATT
TATTCTGGACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTGACCTATTTTCTC
ATA
Found at i:55192 original size:251 final size:250
Alignment explanation
Indices: 54729--55179 Score: 669
Period size: 250 Copynumber: 1.8 Consensus size: 250
54719 TTATGCGTCA
* *
54729 ACCCTTTTTGGCATCCATTCTGGACAAAAAATATCGACACAATATTAAGAAGTGTCGATACATAT
1 ACCCTTTTTGGCATCCATTCTGGACAAAAAATATCGACACAATACTAAGAAGTGTCGATAAATAT
* * * *
54794 TATAGACCTATTCTCTCATAAAATCGGTATATGTATACCGGTTATATTACAAAATTACCTATTAC
66 TATAGACATATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTACAAAATTACCCATTAC
*
54859 ATTATAATTATGGGTTTCGATGTTTTTGGGATCAGCACTTTTAATAAATGTATCGACACTTTATG
131 ATTATAATTATGGGTTTCGATGTTTTTGGGATCAGCACTTTTAATAAATGGATCGACACTTTAT-
* *
54924 CGTGCAACCCTTTTGGATCGACACTCTATGAAAATGTATCGGTACTTTGTAGGTTC
195 CGAGAAACCCTTTTGGATCGACACTCTATGAAAATGTATCGGTACTTTGTAGGTTC
* * *
54980 ACCCTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATGT
1 ACCCTTTTTGGCATCCATTCTGGACAAAAAATATCGACACAATACTAAGAAGTGTCGATAAATAT
* * *
55045 TGTAGACATATT-TTTCATAAAACCGGTATATTTATACCGGTTACATTGA-AAAATTACCCATTA
66 TATAGACATATTCTCTCATAAAACCGGTATATGTATACCGGTTACATT-ACAAAATTACCCATTA
* * *
55108 CATTATAATTATGGGTTTCGATGTTTTTTGGG-TC-GTTACTTTTTATATATGGATCGACACTTT
130 CATTATAATTATGGGTTTCGATG-TTTTTGGGATCAG-CACTTTTAATAAATGGATCGACACTTT
55171 AT-GAGAAAC
193 ATCGAGAAAC
55180 TTTAAGTTTG
Statistics
Matches: 179, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
248 5 0.03
249 1 0.01
250 94 0.53
251 79 0.44
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (250 bp):
ACCCTTTTTGGCATCCATTCTGGACAAAAAATATCGACACAATACTAAGAAGTGTCGATAAATAT
TATAGACATATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTACAAAATTACCCATTAC
ATTATAATTATGGGTTTCGATGTTTTTGGGATCAGCACTTTTAATAAATGGATCGACACTTTATC
GAGAAACCCTTTTGGATCGACACTCTATGAAAATGTATCGGTACTTTGTAGGTTC
Found at i:56471 original size:21 final size:21
Alignment explanation
Indices: 56445--56494 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
56435 GTTTGGGTTG
56445 TCATCATCAACATCGTCGTCA
1 TCATCATCAACATCGTCGTCA
* * *
56466 TCATCATCATCTTCTTCGTCA
1 TCATCATCAACATCGTCGTCA
*
56487 TCTTCATC
1 TCATCATC
56495 TTCATTGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (21 bp):
TCATCATCAACATCGTCGTCA
Found at i:57971 original size:202 final size:202
Alignment explanation
Indices: 57610--58139 Score: 804
Period size: 202 Copynumber: 2.6 Consensus size: 202
57600 TATTTAAATT
* * * *
57610 AGTATCGACACAAAA-TAAAAAACGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAACCGG
1 AGTATCGACACAAAATTAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGA
*
57674 TATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTAT-GGATGCATATGTTTA
66 TATATTTATACCGGTTACATTG-AAATTTACCTATTACATTATACTTATGGGATGCAGATGTTTA
* * *
57738 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATG-GTTGCACCCTTTTTGGCTTTCATTA
130 TGGGATCGACACTTTTTATAAATGTATCGACACTTTATGTGTT-CACCCTTTTTGGCATCCATTA
*
57802 TGGACCAAA
194 TAGACCAAA
*
57811 AGTATCGACACAAAATTAAAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACTGA
1 AGTATCGACACAAAATTAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGA
* * * *
57876 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTC-GATGTTTT
66 TATATTTATACCGGTTACATTG-AAATTTACCTATTACATTATACTTATGGGATGCAGATGTTTA
*
57940 TGGGATCGACACTTTTTGA-AAATGTATCGACACTTTATGTGTTCACCCTTTTTGGCATCCATTC
130 TGGGATCGACACTTTTT-ATAAATGTATCGACACTTTATGTGTTCACCCTTTTTGGCATCCATTA
58004 TAGACCAAA
194 TAGACCAAA
*
58013 AGTATCGACACAAAATT-AAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACTGA
1 AGTATCGACACAAAATTAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGA
* *
58077 TATATTTATACCGGTTACATTGAAGATTTACCTATTATATTATACTTAT-GGATGCATATGTTT
66 TATATTTATACCGGTTACATTGAA-ATTTACCTATTACATTATACTTATGGGATGCAGATGTTT
58140 CTATGATCGA
Statistics
Matches: 300, Mismatches: 23, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
200 6 0.02
201 110 0.37
202 176 0.59
203 8 0.03
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (202 bp):
AGTATCGACACAAAATTAAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGA
TATATTTATACCGGTTACATTGAAATTTACCTATTACATTATACTTATGGGATGCAGATGTTTAT
GGGATCGACACTTTTTATAAATGTATCGACACTTTATGTGTTCACCCTTTTTGGCATCCATTATA
GACCAAA
Found at i:58441 original size:19 final size:19
Alignment explanation
Indices: 58417--58453 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
58407 ACATTCACAT
58417 ACAAAATTATAAATCTTAC
1 ACAAAATTATAAATCTTAC
58436 ACAAAATTATAAATCTTA
1 ACAAAATTATAAATCTTA
58454 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (19 bp):
ACAAAATTATAAATCTTAC
Found at i:58460 original size:19 final size:19
Alignment explanation
Indices: 58419--58460 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
58409 ATTCACATAC
*
58419 AAAATTATAAATCTTACAC
1 AAAATTATAAATCTTACAA
*
58438 AAAATTATAAATCTTATAA
1 AAAATTATAAATCTTACAA
58457 AAAA
1 AAAA
58461 ATTAGCCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCTTACAA
Found at i:60278 original size:33 final size:33
Alignment explanation
Indices: 60241--60306 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
60231 CATCTTAAGA
*
60241 TCACCCCTTAACACCTC-AACTTCTTTCACCACT
1 TCACCCCTCAACACCTCTAA-TTCTTTCACCACT
*
60274 TCACCCCTCAACACCTCTAATTCTTTCATCACT
1 TCACCCCTCAACACCTCTAATTCTTTCACCACT
60307 CCATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCTAATTCTTTCACCACT
Found at i:60364 original size:21 final size:21
Alignment explanation
Indices: 60339--60382 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
60329 CCCCTTATGC
60339 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
60360 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
60381 CT
1 CT
60383 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:60485 original size:15 final size:15
Alignment explanation
Indices: 60465--60496 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
60455 ACTCTGTTTT
60465 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
60480 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
60495 CC
1 CC
60497 TAATACAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.62, G:0.06, T:0.19
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:60795 original size:22 final size:24
Alignment explanation
Indices: 60767--60822 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
60757 AACCTGTATT
*
60767 TATAATAA-AAT-TTATCATTTTA
1 TATAATAACAATACTATCATTTTA
*
60789 TATAATAACTATACTATCATTTTA
1 TATAATAACAATACTATCATTTTA
*
60813 TATAAAAACA
1 TATAATAACA
60823 CAAAAAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 8 0.29
23 2 0.07
24 18 0.64
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TATAATAACAATACTATCATTTTA
Found at i:62872 original size:182 final size:181
Alignment explanation
Indices: 62556--63031 Score: 654
Period size: 182 Copynumber: 2.6 Consensus size: 181
62546 TATTTCTTTG
* *
62556 AAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTATCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATC-TTTTGATACCGGTTT
*
62621 TATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACTTTAT
65 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACTTTAT
62686 AGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATAC-TTATATT
130 AGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGAT-CTTTATATT
* * * * * *
62738 AAAGTACCAACACTTTAAATATATTCGGTAGCTCTTTACCGGTTTTATCTTTTCGATATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCTTTT-GATACCGGTTT
* * *
62803 TGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACATTTTAT
65 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACTTTAT
* *
62868 AGGCGTTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCTTTATATT
130 AGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCTTTATATT
* * **
62920 AAAGTATCGACA-TGTTCAATATATCCGGTAAG-GATTTACCGGTATTGCCTTTT-AGTGACCGG
1 AAAGTATCGACACT-TTCAATATATCCGGT-AGCGCTTTACCGGTTTTATCTTTTGA-T-ACCGG
* * * *
62982 TTTTATTGATATTTTTACCTGTTATATTGATATGGATCGATACATTTTTA
62 TTTTA-TCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTA
63032 ATTTGGATCG
Statistics
Matches: 258, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
180 1 0.00
181 7 0.03
182 208 0.81
183 42 0.16
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCTTTTGATACCGGTTTT
ATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACTTTATA
GGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCTTTATATT
Found at i:65856 original size:15 final size:15
Alignment explanation
Indices: 65836--65867 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65826 AAGCACCAAG
65836 CAGGTTTGCATCAAA
1 CAGGTTTGCATCAAA
65851 CAGGTTTGCATCAAA
1 CAGGTTTGCATCAAA
65866 CA
1 CA
65868 TTGTTATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (15 bp):
CAGGTTTGCATCAAA
Found at i:67783 original size:17 final size:18
Alignment explanation
Indices: 67749--67784 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67739 TTCAACTCAT
67749 AGAAGATGAACAATTCAA
1 AGAAGATGAACAATTCAA
*
67767 AGAATATGAAC-ATTCAA
1 AGAAGATGAACAATTCAA
67784 A
1 A
67785 CAAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (18 bp):
AGAAGATGAACAATTCAA
Found at i:72235 original size:3 final size:3
Alignment explanation
Indices: 72227--72255 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
72217 GGAAGAAATG
72227 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
72256 GCGTATTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:72910 original size:35 final size:35
Alignment explanation
Indices: 72871--72943 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
72861 TCCGTATAAG
*
72871 AAATATATTTGAGAAATAAATTACAGACAAAAGAA
1 AAATATATTTAAGAAATAAATTACAGACAAAAGAA
72906 AAATATATTTAAGAAATAAATTACAGACAAAAGAA
1 AAATATATTTAAGAAATAAATTACAGACAAAAGAA
72941 AAA
1 AAA
72944 ATTCAGTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (35 bp):
AAATATATTTAAGAAATAAATTACAGACAAAAGAA
Found at i:75250 original size:23 final size:22
Alignment explanation
Indices: 75202--75250 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
75192 AATAAACCCA
* *
75202 CTTGTTGTACAACAATAAACTT
1 CTTGATGTACAACAATAAACTG
* *
75224 CTTGATGTAGCAACAATGATCTG
1 CTTGATGTA-CAACAATAAACTG
75247 CTTG
1 CTTG
75251 GCATCTAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (22 bp):
CTTGATGTACAACAATAAACTG
Found at i:81519 original size:11 final size:11
Alignment explanation
Indices: 81499--81530 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
81489 AGAAATTCCT
*
81499 ATACGAGATTA
1 ATACGTGATTA
81510 ATACGTGATTA
1 ATACGTGATTA
81521 ATACGTGATT
1 ATACGTGATT
81531 TTGTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (11 bp):
ATACGTGATTA
Found at i:88971 original size:20 final size:21
Alignment explanation
Indices: 88943--89004 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
88933 TTCCCCTTGA
*
88943 AGTGAATCGATACATTCT-AC
1 AGTGCATCGATACATTCTAAC
88963 AGTGCATCGATACATTCTTTAAC
1 AGTGCATCGATACATTC--TAAC
*
88986 ATGTGCATCGATGCATTCT
1 A-GTGCATCGATACATTCT
89005 TTAGCATGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 16 0.44
22 2 0.06
23 3 0.08
24 15 0.42
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (21 bp):
AGTGCATCGATACATTCTAAC
Found at i:88996 original size:24 final size:24
Alignment explanation
Indices: 88948--89021 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
88938 CTTGAAGTGA
88948 ATCGATACATTC--T-ACA-GTGC
1 ATCGATACATTCTTTAACATGTGC
88968 ATCGATACATTCTTTAACATGTGC
1 ATCGATACATTCTTTAACATGTGC
* *
88992 ATCGATGCATTCTTTAGCATGTGC
1 ATCGATACATTCTTTAACATGTGC
89016 ATCGAT
1 ATCGAT
89022 GCACTACCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.25
22 1 0.02
23 3 0.06
24 32 0.67
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (24 bp):
ATCGATACATTCTTTAACATGTGC
Found at i:89022 original size:24 final size:24
Alignment explanation
Indices: 88964--89024 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
88954 ACATTCTACA
*
88964 GTGCATCGATACATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
*
88988 GTGCATCGATGCATTCTTTAGCAT
1 GTGCATCGATGCATTCTTTAACAT
89012 GTGCATCGATGCA
1 GTGCATCGATGCA
89025 CTACCCATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:93355 original size:15 final size:17
Alignment explanation
Indices: 93332--93365 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
93322 TTAAGACATG
93332 TTTAGTTTATTA-TTAT
1 TTTAGTTTATTAGTTAT
93348 TTTA-TTTATTAGTTAT
1 TTTAGTTTATTAGTTAT
93364 TT
1 TT
93366 AGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTAGTTAT
Found at i:101988 original size:55 final size:55
Alignment explanation
Indices: 101901--102433 Score: 525
Period size: 54 Copynumber: 9.8 Consensus size: 55
101891 TGTACTATAG
* *
101901 GCACTATGTGTGCAAATCAACGTAATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * * *
101956 GCACTATGTATGCAAATCCACGGAATTTATCATGAGTTGATGAATAACCGTATAG
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
102011 GCACTATGTGTGCAAATTCACGGAATTCATCATGATTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * * *
102066 GCACTATATGTGC-AATCCACAAAATTCATAATGAGTTGATGAATAACCGTACAA
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
102120 ACACTATGTGTGCAAATCTA-GAAAATTCATCATGAGATGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACG-AAATTCATCATGAGTTGATGAATAACCGTACAT
* * * * * *
102175 GCA-TGATATATGC-AACCCAAGGAATTCATCAT-ATGTTGATGAACAACCGTACAT
1 GCACT-ATGTGTGCAAATCCACGAAATTCATCATGA-GTTGATGAATAACCGTACAT
* * * * * * * * *
102229 GAACTATGTGTACAACT-CATGTAGTTTATCAT-ATGTTGATGAACAACCGTACAG
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGA-GTTGATGAATAACCGTACAT
* * * * * *
102283 GCACTATATGTGC-AACCCATGAAATTCATCAT-ATGTTGATGAAAAATCGTACAA
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGA-GTTGATGAATAACCGTACAT
* * *
102337 GCACTATGTGTGCAACT-CACGAAATTCATCAT-ATGTTGATGAACAACTGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGA-GTTGATGAATAACCGTACAT
* *
102391 GCACTATGTGTGCAACT-CAC-AGAATTCATCATGTGTTGATGAA
1 GCACTATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAA
102434 CGACTGTATA
Statistics
Matches: 402, Mismatches: 65, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.01
54 242 0.60
55 157 0.39
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (55 bp):
GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
Found at i:105825 original size:10 final size:9
Alignment explanation
Indices: 105810--105840 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
105800 AAATATGTAC
105810 AAATAAAAT
1 AAATAAAAT
105819 AACATAAAAT
1 AA-ATAAAAT
105829 AAATAAAAT
1 AAATAAAAT
105838 AAA
1 AAA
105841 AAGTTAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:105946 original size:116 final size:116
Alignment explanation
Indices: 105815--106097 Score: 309
Period size: 128 Copynumber: 2.3 Consensus size: 116
105805 TGTACAAATA
*
105815 AAATAACATAAA-ATAAATAAAATAAAAAGTTAATGGTTAGCAGAGTCTGAACCATAATAATGTG
1 AAATAA-ATAAATA-AAATAAAATAAAAAGTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTG
* *
105879 GATCATACCCCAGATCGAGTCACCACAAGGACGAGTCGAATATTAGAAAACAAT
64 GATCATACCCCAGATCGAGTCACCACAAGGACAAATCGAATATTA-AAAACAAT
* * * *
105933 AAATAAATAAATAATGGTTAGAGTGTAATAAAATAAAAGTCAGTAGTTAGTAGAGTCTGAACCAT
1 AAATAAATAAATAA-----A-A---TAA-AATA-AAAAGTTAGTGGTTAGCAGAGTCTGAACCAT
* *
105998 AATAATGTGGATCATACCCCAGATCGGGTCACCACAAGGTCAAATCGAATATTAAAAACAAT
55 AATAATGTGGATCATACCCCAGATCGAGTCACCACAAGGACAAATCGAATATTAAAAACAAT
* **
106060 AAATAAATAGAGTGCAATAAAAT-AAAAGTTAGTGGTTA
1 AAATAAATA-AATAAAATAAAATAAAAAGTTAGTGGTTA
106098 ATATACACTA
Statistics
Matches: 137, Mismatches: 15, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
116 13 0.09
117 6 0.04
118 9 0.07
119 3 0.02
122 2 0.01
123 2 0.01
126 3 0.02
127 20 0.15
128 79 0.58
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (116 bp):
AAATAAATAAATAAAATAAAATAAAAAGTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGA
TCATACCCCAGATCGAGTCACCACAAGGACAAATCGAATATTAAAAACAAT
Found at i:106003 original size:128 final size:128
Alignment explanation
Indices: 105830--106068 Score: 390
Period size: 128 Copynumber: 1.9 Consensus size: 128
105820 ACATAAAATA
* *
105830 AATAAAATAAAAAGTTAATGGTTAGCAGAGTCTGAACCATAATAATGTGGATCATACCCCAGATC
1 AATAAAATAAAAAGTCAATAGTTAGCAGAGTCTGAACCATAATAATGTGGATCATACCCCAGATC
* *
105895 GAGTCACCACAAGGACGAGTCGAATATTAGAAAACAATAAATAAATAAATAATGGTTAGAGTGT
66 GAGTCACCACAAGGACAAATCGAATATTA-AAAACAATAAATAAATAAATAATGGTTAGAGTGT
* *
105959 AATAAAAT-AAAAGTCAGTAGTTAGTAGAGTCTGAACCATAATAATGTGGATCATACCCCAGATC
1 AATAAAATAAAAAGTCAATAGTTAGCAGAGTCTGAACCATAATAATGTGGATCATACCCCAGATC
* *
106023 GGGTCACCACAAGGTCAAATCGAATATTAAAAACAATAAATAAATA
66 GAGTCACCACAAGGACAAATCGAATATTAAAAACAATAAATAAATA
106069 GAGTGCAATA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
127 17 0.17
128 77 0.75
129 8 0.08
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (128 bp):
AATAAAATAAAAAGTCAATAGTTAGCAGAGTCTGAACCATAATAATGTGGATCATACCCCAGATC
GAGTCACCACAAGGACAAATCGAATATTAAAAACAATAAATAAATAAATAATGGTTAGAGTGT
Found at i:107646 original size:139 final size:139
Alignment explanation
Indices: 107268--107699 Score: 453
Period size: 139 Copynumber: 3.1 Consensus size: 139
107258 TTAATCTATA
* * ** *
107268 GATAATTTGGTGACAACACGGTTCCTACGTGGTGAGAAAGTCTGATTGTCTAAGGATGACATTAC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGTCTAAGGATGACGCTGC
* * * * * * * * **
107333 TCCTTCACGTTGAGAAGATCTGGTT-GGTAGACGACACTGTT-CTTTCATAATGAGGTTGTCTA-
66 TCCTACGCGTTGAGGAGATAT-GTTCGGTGGACGACATTGTTCCTAT-ATGATGAGGACGTCTAG
*
107395 T-GTCTTTAGG
129 TCATCTTTAGG
** * ** * *
107405 GATAATTTAAAGACAACACGGATCCTACGTGAAAAGGAAGTCTGATTGTCTGA-GATGACGCTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGTCTAAGGATGACGCTGC
* * * * * * *
107469 TCCTATGCATTGAGGAGATATGGTCGGTGGA-TAGCATTGTTCCTATGTGATGAGGACATGTAGT
66 TCCTACGCGTTGAGGAGATATGTTCGGTGGACGA-CATTGTTCCTATATGATGAGGACGTCTAGT
107533 CATCTTTAGG
130 CATCTTTAGG
* * *
107543 GATAATTTGGAGACAACACGGTTCCTACATGATGAGAAAGTCTGGTTATCTAAGGATGACGCTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGTCTAAGGATGACGCTGC
* * *
107608 TCCTACGCGTTGAGGAGATATGTTCGGTGGACGACATTGTTCCTACATGATAAGGACGTCTAGCC
66 TCCTACGCGTTGAGGAGATATGTTCGGTGGACGACATTGTTCCTATATGATGAGGACGTCTAGTC
* *
107673 ATCATTAGA
131 ATCTTTAGG
107682 GATAATTTGGAGACAACA
1 GATAATTTGGAGACAACA
107700 ATCTCAAGTG
Statistics
Matches: 236, Mismatches: 52, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
135 3 0.01
136 44 0.19
137 48 0.20
138 51 0.22
139 89 0.38
140 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (139 bp):
GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGTCTAAGGATGACGCTGC
TCCTACGCGTTGAGGAGATATGTTCGGTGGACGACATTGTTCCTATATGATGAGGACGTCTAGTC
ATCTTTAGG
Found at i:107815 original size:66 final size:66
Alignment explanation
Indices: 107726--107985 Score: 349
Period size: 66 Copynumber: 3.9 Consensus size: 66
107716 AATTTTTTGG
* ** * *
107726 AAGAGAAACTGTCTTAAATGAGACAAAATTTGATTCAAGGGAAACAATCTCAAAGGTTTATGTTT
1 AAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTT
107791 C
66 C
* *
107792 AAGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTCGAGAGAAACAATCTCAAAGGTTTATGTTT
1 AAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTT
107857 C
66 C
* * * *
107858 AAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTTCAAGATAAACAATCTGAAAGGTTTACGTTT
1 AAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTT
*
107923 T
66 C
* * * * **
107924 AAGAAAAACTATCTTAAGCAAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGGTTTAT
1 AAGAGAAACTGTCTCAAGCGAGACAAAA-TTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
107986 CAATTTTGTT
Statistics
Matches: 169, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 141 0.83
67 28 0.17
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (66 bp):
AAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTT
C
Found at i:107874 original size:30 final size:30
Alignment explanation
Indices: 107759--107866 Score: 83
Period size: 30 Copynumber: 3.4 Consensus size: 30
107749 CAAAATTTGA
*
107759 TTCAAGGGAAACAATCTCAAAGGTTTATGT
1 TTCAAGAGAAACAATCTCAAAGGTTTATGT
*** **
107789 TTCAAGAGAAATTGTCTCAAGCGAGACAAAATT-TGT
1 TTCAAGAGAAACAATCTCAA---AG----GTTTATGT
*
107825 TTCGAGAGAAACAATCTCAAAGGTTTATGT
1 TTCAAGAGAAACAATCTCAAAGGTTTATGT
107855 TTCAAGAGAAAC
1 TTCAAGAGAAAC
107867 TGTCTCAAGT
Statistics
Matches: 57, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
29 2 0.04
30 30 0.53
33 4 0.07
36 19 0.33
37 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (30 bp):
TTCAAGAGAAACAATCTCAAAGGTTTATGT
Found at i:108251 original size:37 final size:36
Alignment explanation
Indices: 108210--108321 Score: 129
Period size: 36 Copynumber: 3.1 Consensus size: 36
108200 GAGACGGTTT
*
108210 TTTTAAGAAAAACTGTATCAAGCGAGACAAAATTTG
1 TTTTAAGAAAAACTGTCTCAAGCGAGACAAAATTTG
** *
108246 ATTTTAAG-AAAACAATCTCAAGTGAGATC-AAATTTG
1 -TTTTAAGAAAAACTGTCTCAAGCGAGA-CAAAATTTG
* *
108282 TTTTAAGAAAAACTGTCTCTAGCGAGACGAAACTTTG
1 TTTTAAGAAAAACTGTCTCAAGCGAGAC-AAAATTTG
108319 TTT
1 TTT
108322 CGATAGAAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
35 8 0.13
36 37 0.60
37 17 0.27
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (36 bp):
TTTTAAGAAAAACTGTCTCAAGCGAGACAAAATTTG
Found at i:110855 original size:12 final size:12
Alignment explanation
Indices: 110835--110893 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
110825 GTGCTTATTG
*
110835 TCTTCTTTTTTT
1 TCTTTTTTTTTT
*
110847 TCTTTTTTTCTT
1 TCTTTTTTTTTT
*
110859 TGTTTTTTTTCTT
1 TCTTTTTTTT-TT
**
110872 GTCTTTACTTTTT
1 -TCTTTTTTTTTT
110885 TCTTTTTTT
1 TCTTTTTTT
110894 GTCTTTACTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
12 25 0.69
13 4 0.11
14 7 0.19
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:110895 original size:22 final size:23
Alignment explanation
Indices: 110840--110905 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 23
110830 TATTGTCTTC
*
110840 TTTTTTTTCTT-T-TTTTCTTTG
1 TTTTTTTTCTTGTCTTTACTTTG
110861 TTTTTTTTCTTGTCTTTACTTT-
1 TTTTTTTTCTTGTCTTTACTTTG
110883 TTTCTTTTT-TTGTCTTTACTTTG
1 TTT-TTTTTCTTGTCTTTACTTTG
110906 ATTAGATCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 11 0.28
22 17 0.43
23 12 0.30
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTTTTTTCTTGTCTTTACTTTG
Found at i:116481 original size:22 final size:21
Alignment explanation
Indices: 116457--116496 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
116447 GAGAAATTAT
116457 TTTTAAAATAT-AAAAATGATG
1 TTTTAAAAT-TGAAAAATGATG
116478 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
116497 AAACAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATG
Found at i:120355 original size:23 final size:20
Alignment explanation
Indices: 120304--120363 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 20
120294 TTTTGGTGCA
*
120304 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
120323 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
120344 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
120364 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.28
20 6 0.17
21 3 0.08
22 1 0.03
23 16 0.44
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:120372 original size:21 final size:21
Alignment explanation
Indices: 120346--120385 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
120336 CCCCCTTTGA
*
120346 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
120367 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
120386 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:124261 original size:18 final size:19
Alignment explanation
Indices: 124226--124264 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
124216 ACAGGCCACC
124226 TCCCATGATGGCCCACTAT
1 TCCCATGATGGCCCACTAT
*
124245 TCCCATGGTGG-CCACTAT
1 TCCCATGATGGCCCACTAT
124263 TC
1 TC
124265 TCGATCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.28
Consensus pattern (19 bp):
TCCCATGATGGCCCACTAT
Found at i:130814 original size:18 final size:19
Alignment explanation
Indices: 130791--130827 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
130781 CCAATAATCC
130791 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
130809 TATTCCTACTGGTAATCTT
1 TATTCC-ACTGGTAATCTT
130828 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:130833 original size:20 final size:20
Alignment explanation
Indices: 130797--130834 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
130787 ATCCTATTCC
**
130797 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTACATTCCTA
130817 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
130835 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCTA
Found at i:132177 original size:2 final size:2
Alignment explanation
Indices: 132172--132196 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132162 AATCCCTTAG
132172 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
132197 ATCTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:132205 original size:2 final size:2
Alignment explanation
Indices: 132200--132251 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
132190 TCTCTCTATC
132200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
132242 TA TA TA TA TA
1 TA TA TA TA TA
132252 CCTTCAACGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134858 original size:2 final size:2
Alignment explanation
Indices: 134834--134890 Score: 52
Period size: 2 Copynumber: 30.0 Consensus size: 2
134824 TAAAATAATA
134834 AT AT A- AT A- AT AT ACT AT -T AT AT AT AT A- AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
134874 AT TT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
134891 CCATAGAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
1 5 0.11
2 37 0.80
3 4 0.09
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:134867 original size:11 final size:11
Alignment explanation
Indices: 134828--134889 Score: 54
Period size: 11 Copynumber: 5.3 Consensus size: 11
134818 AAGAAATAAA
134828 ATAATA-ATAT
1 ATAATATATAT
134838 AATAATATACTATT
1 -ATAATATA-TA-T
134852 ATATATATAATAT
1 ATA-ATAT-ATAT
*
134865 ATACTATATAT
1 ATAATATATAT
*
134876 TTAATATATAT
1 ATAATATATAT
134887 ATA
1 ATA
134890 TCCATAGAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 21 0.50
12 4 0.10
13 9 0.21
14 7 0.17
15 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATATAT
Found at i:134872 original size:18 final size:17
Alignment explanation
Indices: 134834--134890 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
134824 TAAAATAATA
134834 ATATA-ATAATATACTATT
1 ATATATATAATATA-TA-T
134852 ATATATATAATATATACT
1 ATATATATAATATATA-T
*
134870 ATATATTTAATATATAT
1 ATATATATAATATATAT
134887 ATAT
1 ATAT
134891 CCATAGAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 5 0.14
18 23 0.64
19 8 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATAATATATAT
Found at i:150078 original size:24 final size:24
Alignment explanation
Indices: 150046--150094 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
150036 TCATTTTTTA
150046 AAATAAAATAAATTAAAATATAGT
1 AAATAAAATAAATTAAAATATAGT
150070 AAATAAAATAAATTAAAATATAGT
1 AAATAAAATAAATTAAAATATAGT
150094 A
1 A
150095 TAAAGAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATAAAATAAATTAAAATATAGT
Found at i:151693 original size:105 final size:105
Alignment explanation
Indices: 151508--151710 Score: 318
Period size: 105 Copynumber: 1.9 Consensus size: 105
151498 ATACCCGTTC
* * * *
151508 TAACCGTTTGGTATTAAAGTGGTGTTTGTCTTTTAACTTGAACTGAAAAAAGTTTAAACGTTATT
1 TAACCATTAGGTATTAAAGTGGTGTTTCTCTTTTAACTTGAACTGAAAAAAGTTTAAACGCTATT
151573 TACATTATAGAAAAAGCGACGGTTACATTCATGTTTACAT
66 TACATTATAGAAAAAGCGACGGTTACATTCATGTTTACAT
* * *
151613 TAACCATTAGGTATTAAAGTGGTGTTTCTCTTTTATCTTTAACTGAAAAATGTTTAAACGCTATT
1 TAACCATTAGGTATTAAAGTGGTGTTTCTCTTTTAACTTGAACTGAAAAAAGTTTAAACGCTATT
*
151678 TACGTTATA-ATAAAAGCGACGGTTACATTCATG
66 TACATTATAGA-AAAAGCGACGGTTACATTCATG
151711 ATCCGTTATT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 1 0.01
105 88 0.99
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (105 bp):
TAACCATTAGGTATTAAAGTGGTGTTTCTCTTTTAACTTGAACTGAAAAAAGTTTAAACGCTATT
TACATTATAGAAAAAGCGACGGTTACATTCATGTTTACAT
Found at i:152074 original size:44 final size:41
Alignment explanation
Indices: 152019--152128 Score: 159
Period size: 41 Copynumber: 2.6 Consensus size: 41
152009 AGGAACACCG
152019 CTTTAATACCAAACGATAATTATAATCATAAATTTCATGTTTCA
1 CTTTAATACCAAACG---ATTATAATCATAAATTTCATGTTTCA
* *
152063 CTTTAACACCAAACGGTTATAATCATAAATTTCATGTTTCA
1 CTTTAATACCAAACGATTATAATCATAAATTTCATGTTTCA
152104 CTTTAATACCAAACTG-TTATAATCA
1 CTTTAATACCAAAC-GATTATAATCA
152129 CATTTCATGC
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
41 47 0.76
42 1 0.02
44 14 0.23
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (41 bp):
CTTTAATACCAAACGATTATAATCATAAATTTCATGTTTCA
Found at i:152092 original size:41 final size:41
Alignment explanation
Indices: 152038--152128 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
152028 CAAACGATAA
152038 TTATAATCATAAATTTCATGTTTCACTTTAACACCAAACGG
1 TTATAATCATAAATTTCATGTTTCACTTTAACACCAAACGG
* *
152079 TTATAATCATAAATTTCATGTTTCACTTTAATACCAAACTG
1 TTATAATCATAAATTTCATGTTTCACTTTAACACCAAACGG
152120 TTATAATCA
1 TTATAATCA
152129 CATTTCATGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (41 bp):
TTATAATCATAAATTTCATGTTTCACTTTAACACCAAACGG
Found at i:155074 original size:34 final size:35
Alignment explanation
Indices: 155033--155108 Score: 136
Period size: 36 Copynumber: 2.2 Consensus size: 35
155023 GATTTTAGGG
155033 AAAATTTGACATT-AGAGTCTTTTATACCACCTGA
1 AAAATTTGACATTAAGAGTCTTTTATACCACCTGA
155067 AAAATTTGACATTAGAGAGTCTTTTATACCACCTGA
1 AAAATTTGACATTA-AGAGTCTTTTATACCACCTGA
155103 AAAATT
1 AAAATT
155109 ATCTAGTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 13 0.32
36 27 0.68
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (35 bp):
AAAATTTGACATTAAGAGTCTTTTATACCACCTGA
Found at i:156431 original size:21 final size:19
Alignment explanation
Indices: 156407--156511 Score: 73
Period size: 21 Copynumber: 5.5 Consensus size: 19
156397 ACATCTATAT
156407 ATATATATATAATGAAATAA
1 ATATATATATAAT-AAATAA
156427 GATATATATAATAA-AAAT-A
1 -ATATATAT-ATAATAAATAA
156446 ATATA-ATATAAATAAAATAA
1 ATATATATAT-AAT-AAATAA
156466 GGA-ATATAGTA-AATAAATAA
1 --ATATATA-TATAATAAATAA
156486 A-A-ATATATAATTAAA-AA
1 ATATATATATAA-TAAATAA
156503 ATATATATA
1 ATATATATA
156512 GGGGACGAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 28
0.72 0.00 0.28
Matches are distributed among these distances:
16 4 0.06
17 12 0.17
18 12 0.17
19 10 0.14
20 11 0.15
21 14 0.20
22 6 0.08
23 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
ATATATATATAATAAATAA
Found at i:156431 original size:23 final size:22
Alignment explanation
Indices: 156405--156494 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 22
156395 ATACATCTAT
156405 ATATATATATATAATGAAATAAG
1 ATATATATATATAAT-AAATAAG
156428 ATATATATA-ATAA-AAAT-A-
1 ATATATATATATAATAAATAAG
156446 ATATA-ATATA-AATAAAATAAGG
1 ATATATATATATAAT-AAATAA-G
*
156468 A-ATATA-GTA-AATAAATAA-
1 ATATATATATATAATAAATAAG
*
156486 AAATATATA
1 ATATATATA
156495 ATTAAAAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
17 5 0.09
18 7 0.12
19 10 0.18
20 11 0.20
21 8 0.14
22 6 0.11
23 9 0.16
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
ATATATATATATAATAAATAAG
Found at i:156433 original size:19 final size:18
Alignment explanation
Indices: 156409--156511 Score: 79
Period size: 19 Copynumber: 5.5 Consensus size: 18
156399 ATCTATATAT
*
156409 ATATATATAATGAAATAA
1 ATATATATAATAAAATAA
156427 GATATATATAATAAAA-ATA
1 -ATATATATAATAAAATA-A
156446 ATATAATATAAATAAAATAA
1 ATAT-ATAT-AATAAAATAA
156466 GGA-ATATAGTAA-ATAAATAA
1 --ATATATA-TAATA-AAATAA
* *
156486 AAATATATAATTAAA-AA
1 ATATATATAATAAAATAA
156503 ATATATATA
1 ATATATATA
156512 GGGGACGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
17 10 0.14
18 12 0.17
19 25 0.35
20 19 0.27
21 4 0.06
22 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
ATATATATAATAAAATAA
Found at i:156449 original size:14 final size:14
Alignment explanation
Indices: 156432--156465 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
156422 AATAAGATAT
156432 ATATAATAAAAATA
1 ATATAATAAAAATA
*
156446 ATATAATATAAATA
1 ATATAATAAAAATA
*
156460 AAATAA
1 ATATAA
156466 GGAATATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:158027 original size:110 final size:108
Alignment explanation
Indices: 157814--158078 Score: 358
Period size: 110 Copynumber: 2.5 Consensus size: 108
157804 GTGGGTAGTA
* * *
157814 TTGT-TCGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG--AAACTGGGAAATTGTT
1 TTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAAACTGGAAAATTGTT
* *
157876 TGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTG
66 TGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTG
* *
157919 TTGTCTCGAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATAAAACT-GAAAAGTT
1 TTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-A-AAAACTGGAAAA-TT
* * *
157983 GTTTGTTGACAATCAGTCGCCCCTTCGTTGTGAAGTTGAACTTGTG
63 GTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTG
* * *
158029 TTTTCTTGAGTCCAATATCCCTCGTTGTGAAGTTGAAATTGGCTCTGAAA
1 TTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
158079 CTGGGAAGCC
Statistics
Matches: 139, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
105 4 0.03
106 38 0.27
108 2 0.01
109 5 0.04
110 90 0.65
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (108 bp):
TTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAAACTGGAAAATTGTT
TGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTG
Found at i:158910 original size:36 final size:36
Alignment explanation
Indices: 158862--159252 Score: 215
Period size: 36 Copynumber: 11.4 Consensus size: 36
158852 GAAGATTTTG
*
158862 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
158898 TGTTTTAGGAGAAA-----T--A-A-ATTCAAATATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-AT-T
*
158927 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
158963 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * **
159000 AGTTCCAAAAGAAACTGTTTCAAGGGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
159036 TGTTTCAA-ATAAAACATAT-TC-----A-A-ATAATT
1 TGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACAAAATT
*
159065 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
159101 TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
159137 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
159165 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
159203 TGTTTTAAGGGAAACTATATCAAAAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
159239 CATTTCCAGAGAAA
1 TGTTTCAAGAGAAA
159253 TGTTTTCAAT
Statistics
Matches: 268, Mismatches: 52, Indels: 70
0.69 0.13 0.18
Matches are distributed among these distances:
27 5 0.02
28 6 0.02
29 47 0.18
30 4 0.01
31 2 0.01
32 1 0.00
33 1 0.00
34 3 0.01
35 5 0.02
36 127 0.47
37 61 0.23
38 6 0.02
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:158956 original size:65 final size:67
Alignment explanation
Indices: 158789--159107 Score: 228
Period size: 65 Copynumber: 4.7 Consensus size: 67
158779 TCTCAAAGAT
* * * *
158789 ATATGTTGTTTCATGA-AAAC-GATCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAATA-A-A
1 ATATTTTGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAAA-TTTG-TTTCAGGAGAAATACAGA
*
158849 TTTGAA
63 -TTCAA
*
158855 GAT-TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATA-A-AT
1 -ATATTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAGGAGAAATACAGAT
158917 TCAA
64 TCAA
* * *
158921 ATATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTATCTCAA
1 ATATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAGGAGAAA-TA---C--
**
158986 GAGAGACAA
60 -AGATTCAA
* * * * * ** * * *
158995 A-ACTTAGTTCCAAAAGAAACTGTTTCAAGGGAGATGAAATTTGTTTCA-AATAAA-ACATATTC
1 ATATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAGGAGAAATACAGATTC
159057 AA
66 AA
* * *
159059 ATAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
1 ATATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA
159108 AGGGAAACTG
Statistics
Matches: 205, Mismatches: 32, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
64 6 0.03
65 86 0.42
66 17 0.08
67 24 0.12
68 20 0.10
69 1 0.00
70 1 0.00
72 4 0.02
73 41 0.20
74 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (67 bp):
ATATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAGGAGAAATACAGATTC
AA
Found at i:159028 original size:138 final size:138
Alignment explanation
Indices: 158871--159130 Score: 389
Period size: 138 Copynumber: 1.9 Consensus size: 138
158861 GTGTTTCAAG
* * *
158871 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATA-A-ATTCAAATATTTTGTTTCA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA-AAGAAA-ACATATTCAAATAATTTGTTTCA
*
158934 AGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACT
64 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACT
158999 TAGTTCCAAA
129 TAGTTCCAAA
* ** *
159009 AGAAACTGTTTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAATAATTTGTTTCAAG
* * *
159074 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
66 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
159131 GAAATTTATT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
136 1 0.01
137 5 0.05
138 103 0.94
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAATAATTTGTTTCAAG
AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:159079 original size:102 final size:101
Alignment explanation
Indices: 158959--159201 Score: 281
Period size: 101 Copynumber: 2.4 Consensus size: 101
158949 AGAGAGACGA
*
158959 AATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTTTCAAG
1 AATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTAGTTCCAAAAGAAACTGTCTCAAG
* * *
159024 GGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
65 AGAGACGAAATTTATTTCAAATAAAACATATTCAAAT
* * * * **
159061 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
1 AATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTGTCTCAAGA
*** ** *
159126 GAGACGAAATTTATTTCAAGGGAAATGTTTTC-AAT
66 GAGACGAAATTTATTTCAAATAAAACATATTCAAAT
** * *
159161 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 AATT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
159202 TTGTTTTAAG
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 5 0.04
101 79 0.66
102 36 0.30
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (101 bp):
AATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTGTCTCAAGA
GAGACGAAATTTATTTCAAATAAAACATATTCAAAT
Found at i:159217 original size:37 final size:37
Alignment explanation
Indices: 159166--159238 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
159156 TCAATGTTTA
* * **
159166 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATATCAAAAGAGACAAAATTT
* *
159203 TGTTTTAAGGGAAACTATATCAAAAGAGACAAAATT
1 TGTTTCAAGAGAAACTATATCAAAAGAGACAAAATT
159239 CATTTCCAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATATCAAAAGAGACAAAATTT
Found at i:159339 original size:102 final size:101
Alignment explanation
Indices: 159065--159339 Score: 397
Period size: 102 Copynumber: 2.7 Consensus size: 101
159055 TCAAATAATT
* * * *
159065 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTTCAAGGGAAACTATCTCAAGAGAGA
* * *
159130 CGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
66 CAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTA
* * *
159166 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGGGAAACTATATCAAAAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT-TTTCAAGGGAAACTATCTCAAGAGAG
*
159231 ACAAAATTCATTTCCAGAGAAATGTTTTCAATGTTTA
65 ACAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTA
* * *
159268 TGTTTCAAGAGAAACTGTCTCAAGGGACACAATATTTTTTTCCAAGGGAAACTATCTCAAGCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTT-CAAGGGAAACTATCTCAAGAGAG
*
159333 ATAAAAT
65 ACAAAAT
159340 CTTCTTTTTA
Statistics
Matches: 154, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 38 0.25
102 116 0.75
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTA
Found at i:161036 original size:13 final size:13
Alignment explanation
Indices: 160995--161055 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
160985 TTTTCTTCAA
160995 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
161007 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
161019 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
*
161034 TTTT-T-TTCTCTT
1 TTTTCTCTT-TGTT
161046 TTTTCTCTTT
1 TTTTCTCTTT
161056 TTGTTCTGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
12 15 0.37
13 18 0.44
14 6 0.15
15 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:161040 original size:17 final size:18
Alignment explanation
Indices: 161013--161046 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
161003 TGTTTTTTCT
161013 CTTTTTATTTTCTCTTTG
1 CTTTTTATTTTCTCTTTG
161031 CTTTTT-TTTTCTCTTT
1 CTTTTTATTTTCTCTTT
161047 TTTCTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (18 bp):
CTTTTTATTTTCTCTTTG
Found at i:164204 original size:19 final size:19
Alignment explanation
Indices: 164182--164219 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
164172 AACAAAACAC
164182 ATAAAAAATAAT-AATAAAA
1 ATAAAAAA-AATGAATAAAA
*
164201 ATAAACAAAATGAATAAAA
1 ATAAAAAAAATGAATAAAA
164220 TGTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
ATAAAAAAAATGAATAAAA
Found at i:164576 original size:25 final size:24
Alignment explanation
Indices: 164528--164621 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 24
164518 CATCTAATAC
* *
164528 ATATATATATATATATAATGATATAAG
1 ATATATATA-ATA-AAAATAATAT-AG
164555 ATATATATAATAAAAATAATATA-
1 ATATATATAATAAAAATAATATAG
* *
164578 ATATAAATAA-AAAAAGGAATATAG
1 ATATATATAATAAAAA-TAATATAG
*
164602 -TAAATA-AATAAAAA-AATATA
1 ATATATATAATAAAAATAATATA
164622 ATTAAAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.10
22 7 0.12
23 24 0.41
24 1 0.02
25 8 0.14
26 3 0.05
27 9 0.16
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (24 bp):
ATATATATAATAAAAATAATATAG
Found at i:164619 original size:21 final size:22
Alignment explanation
Indices: 164561--164621 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 22
164551 TAAGATATAT
164561 ATAATAAAAATA-ATATAATATAA
1 ATAA-AAAAATATATATAA-ATAA
*
164584 ATAAAAAAAGGAATATAGTAAATAA
1 ATAAAAAAA--TATATA-TAAATAA
164609 ATAAAAAAATATA
1 ATAAAAAAATATA
164622 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 5 0.16
23 7 0.22
24 1 0.03
25 16 0.50
26 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (22 bp):
ATAAAAAAATATATATAAATAA
Found at i:164631 original size:21 final size:22
Alignment explanation
Indices: 164563--164632 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 22
164553 AGATATATAT
164563 AATAAAAATAATATAATATAAATA
1 AATAAAAA-AATATAAT-TAAATA
* *
164587 AA-AAAAGGAATAT-AGTAAATA
1 AATAAAA-AAATATAATTAAATA
164608 AATAAAAAAATATAATTAAA-A
1 AATAAAAAAATATAATTAAATA
164629 AATA
1 AATA
164633 TATATGGGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 18 0.46
22 10 0.26
23 9 0.23
24 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (22 bp):
AATAAAAAAATATAATTAAATA
Found at i:167270 original size:21 final size:21
Alignment explanation
Indices: 167233--167295 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
167223 ATACATACAC
*
167233 TATATTTATTTAAAAACTATAT
1 TATATTT-TTCAAAAACTATAT
167255 TATATTTTTCAAAAAC-A-AT
1 TATATTTTTCAAAAACTATAT
* *
167274 AATATGTTTTCAAAAATTATAT
1 TATAT-TTTTCAAAAACTATAT
167296 ATGTTATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 9 0.26
22 9 0.26
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
TATATTTTTCAAAAACTATAT
Found at i:167297 original size:19 final size:19
Alignment explanation
Indices: 167255--167300 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
167245 AAAACTATAT
167255 TATAT-TTTTCAAAAACAA
1 TATATGTTTTCAAAAACAA
**
167273 TAATATGTTTTCAAAAATTA
1 T-ATATGTTTTCAAAAACAA
167293 TATATGTT
1 TATATGTT
167301 ATATACGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 11 0.46
20 12 0.50
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (19 bp):
TATATGTTTTCAAAAACAA
Found at i:167434 original size:14 final size:14
Alignment explanation
Indices: 167415--167443 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
167405 ACTATATATT
167415 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
167429 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
167443 A
1 A
167444 ACCATACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:167443 original size:38 final size:38
Alignment explanation
Indices: 167274--167466 Score: 119
Period size: 37 Copynumber: 5.1 Consensus size: 38
167264 CAAAAACAAT
* *
167274 AATATGTTTTCAAAAATTATATATGTTATATACGTTTTCAAA
1 AATATGTTTTCAAAAACTATATA---TATATA-TTTTTCAAA
** ** * * * *
167316 AA-CCGTTTAAAAAAACCATATATATATATATAT-ATA
1 AATATGTTTTCAAAAACTATATATATATATTTTTCAAA
* * *
167352 TATATGTTTTCAAAAACTTTATTATATATATTTTTAAAA
1 AATATGTTTTCAAAAACTATA-TATATATATTTTTCAAA
* **
167391 AAAACATTTT-AAAAACTATATAT-TATATGTTTTCAAA
1 AATATGTTTTCAAAAACTATATATATATAT-TTTTCAAA
* *
167428 AATATGTTTTCAAAAAACCATA-CTATATA-TTTTCAAA
1 AATATGTTTTC-AAAAACTATATATATATATTTTTCAAA
167465 AA
1 AA
167467 CTATATATAT
Statistics
Matches: 113, Mismatches: 31, Indels: 19
0.69 0.19 0.12
Matches are distributed among these distances:
36 8 0.07
37 41 0.36
38 27 0.24
39 21 0.19
41 14 0.12
42 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (38 bp):
AATATGTTTTCAAAAACTATATATATATATTTTTCAAA
Found at i:181213 original size:18 final size:20
Alignment explanation
Indices: 181177--181233 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
181167 ACTATATTTA
181177 TTTAAAAAATATATTATAT-T
1 TTTAAAAAATATA-TATATGT
*
181197 TTTAAAAACTATA-ATATGT
1 TTTAAAAAATATATATATGT
* *
181216 TTTCAAAAATTTATATAT
1 TTTAAAAAATATATATAT
181234 ATTATATACG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.13
19 11 0.35
20 16 0.52
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTAAAAAATATATATATGT
Found at i:204586 original size:56 final size:53
Alignment explanation
Indices: 204496--204645 Score: 149
Period size: 52 Copynumber: 2.8 Consensus size: 53
204486 CAAAAGAATT
* * * * * **
204496 TTTAAAGAAACTAAGCATGATCTTCAGGGGTTTCTTGATGATTATTTCTGATGAA
1 TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATT-TTT-AAATGAA
* *
204551 TTTAAAAAAAACTAAGCCTAATTTTTAGGGATTTCTTGATG-TTTTTAAATGAG
1 TTT-AAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTTTAAATGAA
** * *
204604 TTTTTAGAAACTAAACCTAATTTTTAGGGGTTTCTTGATGAT
1 TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGAT
204646 AATTGAAAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
52 32 0.41
53 8 0.10
54 3 0.04
55 5 0.06
56 31 0.39
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (53 bp):
TTTAAAAAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTTTAAATGAA
Found at i:204936 original size:39 final size:39
Alignment explanation
Indices: 204893--204970 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
204883 AGGGATCAAC
*
204893 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGGTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
204932 ATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
204971 TATAGTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:204984 original size:28 final size:28
Alignment explanation
Indices: 204944--204998 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
204934 CTCGCTTGAG
204944 ATAGTTTCACTCGAAATAGAAGATTTTT
1 ATAGTTTCACTCGAAATAGAAGATTTTT
204972 ATAGTTTCACTCGAAATAGAAGATTTT
1 ATAGTTTCACTCGAAATAGAAGATTTT
204999 AATCTCGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (28 bp):
ATAGTTTCACTCGAAATAGAAGATTTTT
Found at i:205037 original size:67 final size:67
Alignment explanation
Indices: 204905--205038 Score: 198
Period size: 67 Copynumber: 2.0 Consensus size: 67
204895 CTCGCTTGAG
* ** *
204905 ATAGTTTCACTCGAAACAGAAGGTTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
1 ATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAACTTCACTCGAAACAGAAGATTT
204970 TT
66 TT
* *
204972 ATAGTTTCACTCGAAATAGAAGATTTTAATCTCGCTTGAGATAACTTCACTCGAAACATAA-ATT
1 ATAGTTTCACTCGAAACAGAAGATTTT-ATCTCGCTTGAGATAACTTCACTCGAAACAGAAGATT
205036 TTT
65 TTT
205039 TCTCACTTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 31 0.52
68 29 0.48
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (67 bp):
ATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAACTTCACTCGAAACAGAAGATTT
TT
Found at i:205239 original size:38 final size:39
Alignment explanation
Indices: 205152--205247 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
205142 AGGGATCAAC
205152 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
205191 ATCTCGCTTGATATAGTTTCACTCGAAACA-AATGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAA-GATTTT
* *
205229 ATCTCACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
205248 TTCTTAAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
38 21 0.40
39 31 0.60
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:205397 original size:59 final size:60
Alignment explanation
Indices: 205262--205378 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 60
205252 TAAAACGAAC
* *
205262 AACGCCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAACACTTCGAATCAGT
1 AACGCCCTACCAGAGGGGATAACATTTCCTATTGCTCGATTCACAACACTTCGAATCAGT
* * *
205322 AACGCCCTACCAGAGGGGATAATATTTCCT-TTGCTCGATTCACGACATTTCGAATCA
1 AACGCCCTACCAGAGGGGATAACATTTCCTATTGCTCGATTCACAACACTTCGAATCA
205379 TCGATGCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
59 25 0.48
60 27 0.52
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (60 bp):
AACGCCCTACCAGAGGGGATAACATTTCCTATTGCTCGATTCACAACACTTCGAATCAGT
Found at i:205447 original size:39 final size:39
Alignment explanation
Indices: 205404--205616 Score: 315
Period size: 39 Copynumber: 5.5 Consensus size: 39
205394 AGGGATCAAC
* *
205404 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTT
* *
205443 ATCTCGCTCGGGATAGTTTCACTCGAAACAGAAGACTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTT
205482 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTT
*
205521 ATCTCGCTTGAGATAGTTTCACTCGAAACA-AACGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAA-GA-CTTT
*
205561 ATTTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTT
* *
205599 -TCTCACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
205617 TTCTTAAAAC
Statistics
Matches: 160, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
37 15 0.09
38 5 0.03
39 104 0.65
40 34 0.21
41 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTT
Found at i:205699 original size:59 final size:59
Alignment explanation
Indices: 205636--205752 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
205626 CAAACAACGG
* *
205636 CCCAATAGAACAGTTAACATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGC
1 CCCAAAAGAACAGTCAACATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGC
*** *
205695 CCCAAAAGAGGGGTCAATATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATG
1 CCCAAAAGAACAGTCAACATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATG
205753 TCTCACCAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (59 bp):
CCCAAAAGAACAGTCAACATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGC
Found at i:205764 original size:59 final size:59
Alignment explanation
Indices: 205654--205805 Score: 216
Period size: 59 Copynumber: 2.6 Consensus size: 59
205644 AACAGTTAAC
205654 ATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGCCCCAAAAGAGGGGTCAAT
1 ATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGCCCCAAAAGAGGGGTCAAT
* * ** *
205713 ATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGTCTCACCAGAGGGGTTAAT
1 ATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGCCCCAAAAGAGGGGTCAAT
* * *
205772 A-TTTCATTTTCTCGATTCACAACACTTCAAATCA
1 ATTTTC-TTTGCTAGATTCACAACACTTCGAATCA
205806 GCAACGCTCA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 4 0.05
59 80 0.95
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (59 bp):
ATTTTCTTTGCTAGATTCACAACACTTCGAATCATCAATGCCCCAAAAGAGGGGTCAAT
Found at i:207340 original size:13 final size:11
Alignment explanation
Indices: 207311--207371 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
207301 TATATTTATG
207311 TTTTTTATTTT
1 TTTTTTATTTT
*
207322 TATTTTATGTTGT
1 TTTTTTAT-TT-T
*
207335 TTTTTTACTTT
1 TTTTTTATTTT
* *
207346 TTTATTATTGT
1 TTTTTTATTTT
**
207357 AATTTTATTTT
1 TTTTTTATTTT
207368 TTTT
1 TTTT
207372 AAATTAGGTT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
11 25 0.69
12 4 0.11
13 7 0.19
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:209246 original size:89 final size:88
Alignment explanation
Indices: 209096--209269 Score: 321
Period size: 89 Copynumber: 2.0 Consensus size: 88
209086 GATTGTCCAA
*
209096 GACCTTCATCTGGACAAATGTATGGGATCAAGAGAAATATGTTCAAGACCTAATCACTAAACAAA
1 GACCTTCATCTGGACAAATGTATGGGATCAAGAGAAATATGTTCAAGACCTAACCACTAAACAAA
*
209161 ATTAGGGCACTTATAACATCTTG
66 ATTAGGGAACTTATAACATCTTG
209184 GACCTTCATCTGGACAAATGTATGGGGATCAAGAGAAATATGTTCAAGACCTAACCACTAAACAA
1 GACCTTCATCTGGACAAATGTAT-GGGATCAAGAGAAATATGTTCAAGACCTAACCACTAAACAA
209249 AATTAGGGAACTTATAACATC
65 AATTAGGGAACTTATAACATC
209270 GCTGACAGAT
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 23 0.28
89 60 0.72
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (88 bp):
GACCTTCATCTGGACAAATGTATGGGATCAAGAGAAATATGTTCAAGACCTAACCACTAAACAAA
ATTAGGGAACTTATAACATCTTG
Found at i:213872 original size:20 final size:19
Alignment explanation
Indices: 213835--213871 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
213825 TTTAGGACAA
213835 TTTAGGATCTTTTTATTAT
1 TTTAGGATCTTTTTATTAT
213854 TTTAGGAT-TTTTT-TTAT
1 TTTAGGATCTTTTTATTAT
213871 T
1 T
213872 AGTATATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 8 0.44
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (19 bp):
TTTAGGATCTTTTTATTAT
Done.