Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001139.1 Hibiscus syriacus cultivar Beakdansim tig00002273_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: 129179
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
File 1 of 2
Found at i:829 original size:34 final size:35
Alignment explanation
Indices: 768--834 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
758 TGGATGCAAC
768 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
*
803 GCATGCATGAGTGCTAC-GTTAAAGCTTGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTTGGTCG
835 CGATGCAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
Found at i:929 original size:28 final size:29
Alignment explanation
Indices: 885--951 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
875 CCTACCCACA
885 CTACCATGTC-TAGGGACTCCAT-GCGAC
1 CTACCATGTCGTAGGGACTCCATGGCGAC
*
912 CTACCATGTCGTCGGGACTCCATGGCGAC
1 CTACCATGTCGTAGGGACTCCATGGCGAC
941 CTACCATGTCG
1 CTACCATGTCG
952 CGACCTACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 10 0.27
28 11 0.30
29 16 0.43
ACGTcount: A:0.19, C:0.34, G:0.24, T:0.22
Consensus pattern (29 bp):
CTACCATGTCGTAGGGACTCCATGGCGAC
Found at i:956 original size:15 final size:15
Alignment explanation
Indices: 907--963 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
897 GGGACTCCAT
907 GCGACCTACCATGTC
1 GCGACCTACCATGTC
922 GTCGGGA-CT-CCATG--
1 G-C--GACCTACCATGTC
936 GCGACCTACCATGTC
1 GCGACCTACCATGTC
951 GCGACCTACCATG
1 GCGACCTACCATG
964 CCGCCGGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
11 2 0.06
12 2 0.06
13 6 0.17
14 1 0.03
15 14 0.40
16 6 0.17
17 2 0.06
18 2 0.06
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.19
Consensus pattern (15 bp):
GCGACCTACCATGTC
Found at i:1214 original size:26 final size:27
Alignment explanation
Indices: 1180--1253 Score: 107
Period size: 26 Copynumber: 2.7 Consensus size: 27
1170 ATGATGGACG
*
1180 CCGGGCGTGCATGGCGACCTTATAGGA
1 CCGGGCGTGCATGGCGACCTTAAAGGA
1207 -CGGGCGTGCATGGCGACC-TAAAGGA
1 CCGGGCGTGCATGGCGACCTTAAAGGA
1232 CGCCGGGCGTGCATGGCGACCT
1 --CCGGGCGTGCATGGCGACCT
1254 ATGTTGCCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
25 6 0.14
26 18 0.43
28 18 0.43
ACGTcount: A:0.18, C:0.28, G:0.39, T:0.15
Consensus pattern (27 bp):
CCGGGCGTGCATGGCGACCTTAAAGGA
Found at i:1247 original size:28 final size:28
Alignment explanation
Indices: 1175--1254 Score: 121
Period size: 28 Copynumber: 2.9 Consensus size: 28
1165 AAATAATGAT
*
1175 GGACGCCGGGCGTGCATGGCGACCTTATA
1 GGACGCCGGGCGTGCATGGCGACC-TAAA
1204 GGA---CGGGCGTGCATGGCGACCTAAA
1 GGACGCCGGGCGTGCATGGCGACCTAAA
1229 GGACGCCGGGCGTGCATGGCGACCTA
1 GGACGCCGGGCGTGCATGGCGACCTA
1255 TGTTGCCACT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 6 0.13
26 18 0.38
28 20 0.43
29 3 0.06
ACGTcount: A:0.19, C:0.28, G:0.40, T:0.14
Consensus pattern (28 bp):
GGACGCCGGGCGTGCATGGCGACCTAAA
Found at i:11713 original size:22 final size:22
Alignment explanation
Indices: 11688--11729 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11678 CTTTGGTATA
11688 TTTATATGATTCTTAAGGAATG
1 TTTATATGATTCTTAAGGAATG
* * *
11710 TTTATGTGGTTCTTATGGAA
1 TTTATATGATTCTTAAGGAA
11730 AAATCTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (22 bp):
TTTATATGATTCTTAAGGAATG
Found at i:21716 original size:20 final size:20
Alignment explanation
Indices: 21670--21710 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21660 CGTTGCTCGT
*
21670 TAAACTCGTTAAAATTTTGC
1 TAAACTTGTTAAAATTTTGC
21690 TAAACTTGTTAAAATTTTGC
1 TAAACTTGTTAAAATTTTGC
21710 T
1 T
21711 TGACTTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
TAAACTTGTTAAAATTTTGC
Found at i:23946 original size:14 final size:14
Alignment explanation
Indices: 23927--23966 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
23917 TCTTCGAAAA
23927 GACATTTTCCCTAG
1 GACATTTTCCCTAG
23941 GACATTTTCCCTAG
1 GACATTTTCCCTAG
23955 GACATTTTCCCT
1 GACATTTTCCCT
23967 TGTAGTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (14 bp):
GACATTTTCCCTAG
Found at i:24386 original size:18 final size:20
Alignment explanation
Indices: 24356--24400 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
24346 ATGAAAATAC
24356 ATAAAATAAAAT-G-TTGGAA
1 ATAAAATAAAATGGATT-GAA
24375 ATAAAA-AAAATGGATTGAA
1 ATAAAATAAAATGGATTGAA
24394 ATAAAAT
1 ATAAAAT
24401 GCAGCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 16 0.70
20 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
ATAAAATAAAATGGATTGAA
Found at i:24768 original size:202 final size:202
Alignment explanation
Indices: 24498--24871 Score: 590
Period size: 202 Copynumber: 1.9 Consensus size: 202
24488 TACATAAATT
* * * * *
24498 TAAAAGTTAAGGGGTTTTTTTAACCATTTAACTCGGATCATAAATAATACGGGTCGTCCCGCAGG
1 TAAAAGTTAAGGGGTTTTTTTAACCATTTAACTCAGACCATAAATAATACGGATCATCCCCCAGG
*
24563 GCGGGTCACCATAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCGGATTAGTTTGTGCAATA
66 GCGGGTCACCACAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCGGATTAGTTTGTGCAATA
*
24628 AAATAAAATTTTAGTAAGTTAGTAAGAACAATAAAAATAAAAAAGGTAGTATGTTAATATGAACA
131 AAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAATAAAAAAGGTAGTATGTTAATATGAACA
24693 AATAAAA
196 AATAAAA
* * **
24700 TAAAAGTT-AGGGGTTGTTTTTAATCGTTTAAC-CTAGACCATAAATAATGTGGATCATCCCCCA
1 TAAAAGTTAAGGGGTT-TTTTTAACCATTTAACTC-AGACCATAAATAATACGGATCATCCCCCA
* * *
24763 GGGCGGGTCACCGCAAGGTCGTTGAATATTCGAATGTTTGAAAATTAGCGGGTTAGTTTGTGCAA
64 GGGCGGGTCACCACAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCGGATTAGTTTGTGCAA
24828 TAAAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAATAAAA
129 TAAAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAATAAAA
24872 GTTAGTATGA
Statistics
Matches: 156, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
201 8 0.05
202 148 0.95
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (202 bp):
TAAAAGTTAAGGGGTTTTTTTAACCATTTAACTCAGACCATAAATAATACGGATCATCCCCCAGG
GCGGGTCACCACAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCGGATTAGTTTGTGCAATA
AAATAAAATGTTAGTAAGTTAGTAAGAACAATAAAAATAAAAAAGGTAGTATGTTAATATGAACA
AATAAAA
Found at i:24866 original size:29 final size:26
Alignment explanation
Indices: 24845--24903 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
24835 AAATGTTAGT
24845 AAGTTAGTAAGAACAATAAAAA-TAA
1 AAGTTAGTAAGAACAATAAAAATTAA
* *
24870 AAGTTAGTATGAACAATAAAAATAAAA
1 AAGTTAGTAAGAACAATAAAAAT-TAA
24897 AAGTTAG
1 AAGTTAG
24904 AATGGTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 21 0.70
27 9 0.30
ACGTcount: A:0.61, C:0.03, G:0.14, T:0.22
Consensus pattern (26 bp):
AAGTTAGTAAGAACAATAAAAATTAA
Found at i:24876 original size:25 final size:25
Alignment explanation
Indices: 24845--24896 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
24835 AAATGTTAGT
24845 AAGTTAGTAAGAACAATAAAAATAA
1 AAGTTAGTAAGAACAATAAAAATAA
*
24870 AAGTTAGTATGAACAATAAAAATAA
1 AAGTTAGTAAGAACAATAAAAATAA
24895 AA
1 AA
24897 AAGTTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (25 bp):
AAGTTAGTAAGAACAATAAAAATAA
Found at i:24913 original size:60 final size:57
Alignment explanation
Indices: 24825--24935 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 57
24815 TTAGTTTGTG
* *
24825 CAATAAAATAAAATGTTAGTAAGTTAGTA-AGAACAATAAAAATAAAAGTTAGTATGAA
1 CAATAAAATAAAAAGTTAGTAAGGTAGTATA-AACAAT-AAAATAAAAGTTAGTATGAA
24883 CAATAAAAATAAAAAAGTTAG-AATGGTAGTATAAACAATAAAATAAAAGTTAG
1 CAAT-AAAAT-AAAAAGTTAGTAA-GGTAGTATAAACAATAAAATAAAAGTTAG
24936 AATGTTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
58 4 0.09
59 21 0.45
60 21 0.45
61 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.14, T:0.24
Consensus pattern (57 bp):
CAATAAAATAAAAAGTTAGTAAGGTAGTATAAACAATAAAATAAAAGTTAGTATGAA
Found at i:24936 original size:32 final size:34
Alignment explanation
Indices: 24874--24939 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 34
24864 AAATAAAAGT
*
24874 TAGTATGAACAATAAAAATAAAAAAGTTAGAATGG
1 TAGTATAAACAATAAAAAT-AAAAAGTTAGAATGG
24909 TAGTATAAACAAT-AAAAT-AAAAGTTAGAATG
1 TAGTATAAACAATAAAAATAAAAAGTTAGAATG
24940 TTAATAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
34 5 0.17
35 12 0.40
ACGTcount: A:0.58, C:0.03, G:0.15, T:0.24
Consensus pattern (34 bp):
TAGTATAAACAATAAAAATAAAAAGTTAGAATGG
Found at i:25894 original size:122 final size:122
Alignment explanation
Indices: 25689--25970 Score: 334
Period size: 122 Copynumber: 2.3 Consensus size: 122
25679 TTCCTTCATG
* * ** * *
25689 TTGAGAAAATTGGGTCAATC-GAGAGATAATACGGTGTTGAAGATGACTCTTCTCATCCACATTG
1 TTGAGGAAATCGGGTCAATCTG-GAGATAATTTGGTGTTAAAGATGACTCTGCTCATCCACATTG
* ** * * *
25753 AAGAGATCTGGTAGTTTTCAGATAAATTTTTTATTGAAGACGACGTTGTTCTTTCTCA
65 AAGAGATCTGGTAGCTTTCAGATAAATCATTTACTGAAGACGACGTTATTCCTTCTCA
** *
25811 TTGAGGAAATCGGGTCAATCTGGAGATAATTTGGTGTTAAAGATGACTCTGCTCATCCATGTTTA
1 TTGAGGAAATCGGGTCAATCTGGAGATAATTTGGTGTTAAAGATGACTCTGCTCATCCACATTGA
* * * *
25876 AGAGATCTGGTCA-CTTTCAGATAAATCATTTGCTGAAGATGATGTTATTCCTTCTTA
66 AGAGATCTGGT-AGCTTTCAGATAAATCATTTACTGAAGACGACGTTATTCCTTCTCA
* * *
25933 TTAAGGAAGTCGGGTCAATCTGGAGGTAATTTGGTGTT
1 TTGAGGAAATCGGGTCAATCTGGAGATAATTTGGTGTT
25971 GATGTTCTGG
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
122 134 0.99
123 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (122 bp):
TTGAGGAAATCGGGTCAATCTGGAGATAATTTGGTGTTAAAGATGACTCTGCTCATCCACATTGA
AGAGATCTGGTAGCTTTCAGATAAATCATTTACTGAAGACGACGTTATTCCTTCTCA
Found at i:26264 original size:138 final size:139
Alignment explanation
Indices: 25996--26413 Score: 592
Period size: 138 Copynumber: 3.0 Consensus size: 139
25986 TTTGGGTAAA
* * * * *
25996 TTGGAGACAATACA-ATTCCTTCACGTTGAGCAAGTCTGATTGTCTAAGGATGACACTGCTCCTT
1 TTGGAGACAATA-AGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTT
* * * *
26060 CGCGTTGAGAAGAAT-TGATCGGTGGACGACATTGTTCCTTAGTGTTGAGGAAGTCTAGTCGTTT
65 CGCGTTGAGGAG-ATCTGGTCGGTGGAAGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTT
*
26124 TAGAAGATAAT
129 TAGGAGATAAT
26135 TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGC-CCTTC
1 TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTTC
* * *
26199 GCGTTGAGGAGATCTGGTCAGTGGAAGACATTGTTCCTTCGTGTTGAGGAAGTATAGCCGTTTTA
66 GCGTTGAGGAGATCTGGTCGGTGGAAGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTTTA
26264 GGAGATAAT
131 GGAGATAAT
* * * * *
26273 TTGGAGACTATATGGTTCTTTTGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACAGTGCTCCTTC
1 TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTTC
* * *
26338 CCGTTGATGAGATCTGGTCGGT-GAACGACATTGTTCATTAGTGTTGAGGAAGTCTAGCCGTTTT
66 GCGTTGAGGAGATCTGGTCGGTGGAA-GACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTTT
26402 AGGAGATAAT
130 AGGAGATAAT
26412 TT
1 TT
26414 TTCTTTGGAA
Statistics
Matches: 251, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
137 2 0.01
138 126 0.50
139 123 0.49
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (139 bp):
TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTTC
GCGTTGAGGAGATCTGGTCGGTGGAAGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTTTA
GGAGATAAT
Found at i:26402 original size:139 final size:138
Alignment explanation
Indices: 25996--26413 Score: 583
Period size: 139 Copynumber: 3.0 Consensus size: 138
25986 TTTGGGTAAA
* * * * *
25996 TTGGAGACAATACA-ATTCCTTCACGTTGAGCAAGTCTGATTGTCTAAGGATGACACTGCTCCTT
1 TTGGAGACAATA-AGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTT
* * *
26060 CGCGTTGAGAAGAAT-TGATCGGTGGACGACATTGTTCCTTAGTGTTGAGGAAGTCTAGTCGTTT
65 CGCGTTGAG-AG-ATCTGGTCGGTGAACGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTT
*
26124 TAGAAGATAAT
128 TAGGAGATAAT
26135 TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGC-CCTTC
1 TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTTC
* * *
26199 GCGTTGAGGAGATCTGGTCAGTGGAA-GACATTGTTCCTTCGTGTTGAGGAAGTATAGCCGTTTT
66 GCGTTGA-GAGATCTGGTCGGT-GAACGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTTT
26263 AGGAGATAAT
129 AGGAGATAAT
* * * * *
26273 TTGGAGACTATATGGTTCTTTTGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACAGTGCTCCTTC
1 TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTTC
* *
26338 CCGTTGATGAGATCTGGTCGGTGAACGACATTGTTCATTAGTGTTGAGGAAGTCTAGCCGTTTTA
66 GCGTTGA-GAGATCTGGTCGGTGAACGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTTTA
26403 GGAGATAAT
130 GGAGATAAT
26412 TT
1 TT
26414 TTCTTTGGAA
Statistics
Matches: 250, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
137 2 0.01
138 122 0.49
139 126 0.50
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (138 bp):
TTGGAGACAATAAGGTTCCTTCGCGTTGAGGAAGTCTGGTTGTCTGAGGATGACACTGCTCCTTC
GCGTTGAGAGATCTGGTCGGTGAACGACATTGTTCCTTAGTGTTGAGGAAGTCTAGCCGTTTTAG
GAGATAAT
Found at i:26796 original size:102 final size:102
Alignment explanation
Indices: 26603--26840 Score: 265
Period size: 102 Copynumber: 2.3 Consensus size: 102
26593 GGTGAGATAA
**
26603 AATTTTGTTTCAAGTGAAAC-ATTT-CAAAATTTGCGTTTCAAGGGAAAACTATCTCAATTGAGA
1 AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTGCGTTTCAAGGGAAAACTATCTCAAGCGAGA
*
26666 AGAAAATTGTTTTTAAGAAAAATAATCTCAA-ATGTTATC
66 AGAAAATTG-TTTTAAGAAAAATAATCTCAACAAG--ATC
** * ** *
26705 AATTTTGTTTCAAGTGAAACAATTTCCAATTTTTGTGTTTTGAGGGAAAACTGTCTCAAGCGAGA
1 AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTGCGTTTCAAGGGAAAACTATCTCAAGCGAGA
* * *
26770 CG-AAATTAG-TTTCAGTAAAACT-ATCTCAAGCAAGATC
66 AGAAAATT-GTTTTAAG-AAAAATAATCTCAA-CAAGATC
26807 AATTTTGTTTCAAGTGAAACAATTT-CAAAATTTG
1 AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTG
26841 GGGAAAATTG
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
101 7 0.06
102 60 0.52
103 14 0.12
104 35 0.30
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (102 bp):
AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTGCGTTTCAAGGGAAAACTATCTCAAGCGAGA
AGAAAATTGTTTTAAGAAAAATAATCTCAACAAGATC
Found at i:34472 original size:30 final size:31
Alignment explanation
Indices: 34408--34475 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
34398 AAAAGGACTG
34408 AAATAAAATGCAGCAAAATTAAAGGGCAGAA
1 AAATAAAATGCAGCAAAATTAAAGGGCAGAA
* * *
34439 AAATAAAATGCTG-AAATTTAAAGTGCTAG-A
1 AAATAAAATGCAGCAAAATTAAAGGGC-AGAA
34469 AAATAAA
1 AAATAAA
34476 TAAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.19
Consensus pattern (31 bp):
AAATAAAATGCAGCAAAATTAAAGGGCAGAA
Found at i:34939 original size:32 final size:34
Alignment explanation
Indices: 34903--34972 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
34893 ACCTTACAAC
* *
34903 TCCCTAG-TTTTTC-CGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCAT
* *
34935 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCAT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCAT
34969 TCCC
1 TCCC
34973 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCAT
Found at i:35212 original size:20 final size:22
Alignment explanation
Indices: 35187--35226 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
35177 TGTTGTATAT
35187 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
35207 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
35227 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:35368 original size:20 final size:20
Alignment explanation
Indices: 35339--35412 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
35329 GCAGCCTTCG
* * *
35339 TGCATGGATGCATAGCGGGA
1 TGCATCGATGCACAGCAGGA
**
35359 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
* **
35380 TGCATCAATGCACATAAGGA
1 TGCATCGATGCACAGCAGGA
35400 TGCATCGATGCAC
1 TGCATCGATGCAC
35413 TAATTGCATT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:35501 original size:95 final size:95
Alignment explanation
Indices: 35338--35561 Score: 389
Period size: 95 Copynumber: 2.4 Consensus size: 95
35328 TGCAGCCTTC
*
35338 GTGCATGGATGCATAGCGGGATGCATCGATGCACAGCCTTGATGCATCAATGCACATAAGGATGC
1 GTGCATGGATGCATAGCGGGATGCATCGATGCACAACCTTGATGCATCAATGCACATAAGGATGC
35403 ATCGATGCACTAATTGCATTCGGTGTTTGA
66 ATCGATGCACTAATTGCATTCGGTGTTTGA
*
35433 GTGCATGGATGCATAGCGGGATGCATCGATGTACAACCTTGATGCATCAATGCACATAAGGATGC
1 GTGCATGGATGCATAGCGGGATGCATCGATGCACAACCTTGATGCATCAATGCACATAAGGATGC
35498 ATCGATGCACTAATTGCATTCGGTGTTTGA
66 ATCGATGCACTAATTGCATTCGGTGTTTGA
*
35528 GTGCATGGATGCACT-GCATGG-TGCATCGATGCAC
1 GTGCATGGATGCA-TAGC-GGGATGCATCGATGCAC
35562 TAGTGCAGGT
Statistics
Matches: 123, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
95 120 0.98
96 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (95 bp):
GTGCATGGATGCATAGCGGGATGCATCGATGCACAACCTTGATGCATCAATGCACATAAGGATGC
ATCGATGCACTAATTGCATTCGGTGTTTGA
Found at i:35589 original size:13 final size:13
Alignment explanation
Indices: 35571--35595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35561 CTAGTGCAGG
35571 TGCAGGGGTGCAC
1 TGCAGGGGTGCAC
35584 TGCAGGGGTGCA
1 TGCAGGGGTGCA
35596 TGGATGCACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (13 bp):
TGCAGGGGTGCAC
Found at i:35732 original size:30 final size:30
Alignment explanation
Indices: 35685--35744 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
35675 AAACTTTGAA
35685 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
35714 TAAATTCATTTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
35745 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:36950 original size:19 final size:20
Alignment explanation
Indices: 36907--36954 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
36897 TCTAAATCCT
*
36907 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
36927 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
36946 TTTTCAAAA
1 TTTTCAAAA
36955 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:38351 original size:20 final size:20
Alignment explanation
Indices: 38326--38398 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
38316 CGGTGTTTGA
* *
38326 GTGCATGGATGCATTGCATG
1 GTGCATCGATGCACTGCATG
* *
38346 GTGCATCGAT-TAGTGCA-G
1 GTGCATCGATGCACTGCATG
*
38364 GTGCATGGATGCACTGCATG
1 GTGCATCGATGCACTGCATG
38384 GTGCATCGATGCACT
1 GTGCATCGATGCACT
38399 AGTGCATGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
18 10 0.23
19 10 0.23
20 24 0.55
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (20 bp):
GTGCATCGATGCACTGCATG
Found at i:38429 original size:42 final size:41
Alignment explanation
Indices: 38326--38440 Score: 114
Period size: 38 Copynumber: 2.8 Consensus size: 41
38316 CGGTGTTTGA
* *
38326 GTGCATGGATGCATTGCATGGTGCATCGAT----TAGTGCAG
1 GTGCAT-GATGCACTGCAGGGTGCATCGATGCACTAGTGCAG
* *
38364 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGCAT
1 GTGCAT-GATGCACTGCAGGGTGCATCGATGCACTAGTGCAG
*
38406 GTGCAT-ATGCACCTGCAGGGGTGCATGGATGCACT
1 GTGCATGATGCA-CTGCA-GGGTGCATCGATGCACT
38441 TTGACACCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
38 29 0.43
40 5 0.07
41 5 0.07
42 28 0.42
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (41 bp):
GTGCATGATGCACTGCAGGGTGCATCGATGCACTAGTGCAG
Found at i:38551 original size:28 final size:31
Alignment explanation
Indices: 38520--38578 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
38510 AAACTTTGAA
*
38520 TAAATTCAATT-AAG-TCCAAAA-CATTTTG
1 TAAATTCAATTCAAGTTCAAAAACCATTTTG
38548 TAAATTCAATTCAAGTTCAAAAACCATTTTG
1 TAAATTCAATTCAAGTTCAAAAACCATTTTG
38579 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.41
29 3 0.11
30 6 0.22
31 7 0.26
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTTCAAAAACCATTTTG
Found at i:38817 original size:33 final size:32
Alignment explanation
Indices: 38780--38882 Score: 118
Period size: 34 Copynumber: 3.1 Consensus size: 32
38770 AAATTAGCGG
* *
38780 GTTAGTTTGTGCAATAAAATAAAATGTTAGTAA-
1 GTTAGTATGTACAATAAAATAAAA-GTTAG-AAT
*
38813 GTTAGTAAGTACAATAAAAATAAAAAGTTAGAAT
1 GTTAGTATGTACAAT-AAAAT-AAAAGTTAGAAT
**
38847 GTTAGTATAAACAATAAAATAAAAGTTAGAAT
1 GTTAGTATGTACAATAAAATAAAAGTTAGAAT
38879 GTTA
1 GTTA
38883 ATAAGTTAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
32 16 0.26
33 19 0.31
34 22 0.36
35 4 0.07
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (32 bp):
GTTAGTATGTACAATAAAATAAAAGTTAGAAT
Found at i:38843 original size:34 final size:33
Alignment explanation
Indices: 38791--38888 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 33
38781 TTAGTTTGTG
*
38791 CAATAAAATAAAATGTTAGTAA-GTTAGTAAGTA
1 CAATAAAATAAAAAGTTAG-AATGTTAGTAAGTA
*
38824 CAATAAAAATAAAAAGTTAGAATGTTAGTATA-AA
1 CAAT-AAAATAAAAAGTTAGAATGTTAGTA-AGTA
*
38858 CAATAAAAT-AAAAGTTAGAATGTTAATAAGT
1 CAATAAAATAAAAAGTTAGAATGTTAGTAAGT
38889 TAGAAAAGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
31 1 0.02
32 18 0.32
33 11 0.19
34 26 0.46
35 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (33 bp):
CAATAAAATAAAAAGTTAGAATGTTAGTAAGTA
Found at i:40377 original size:20 final size:20
Alignment explanation
Indices: 40352--40444 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
40342 TTTTCCCAAT
40352 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
40372 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
40392 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
40413 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
40434 TCGCAATGCGA
1 TCGCAATGCGA
40445 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:40394 original size:41 final size:41
Alignment explanation
Indices: 40349--40444 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
40339 CGATTTTCCC
*
40349 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
40390 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
40431 AAATCGCAATGCGA
1 AATTCGCAATGCGA
40445 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:40457 original size:41 final size:41
Alignment explanation
Indices: 40371--40505 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
40361 GAATAAGTAA
* * * *
40371 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
40412 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
40453 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
40494 TTCGCAACGCGA
1 ATCGCAACGCGA
40506 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:40458 original size:20 final size:20
Alignment explanation
Indices: 40433--40526 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
40423 AATTGAGAAA
*
40433 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
40453 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
40474 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
40494 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
40514 TTCGCAACGCGAT
1 ATCGCAACGCGAT
40527 TTACTTAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:41841 original size:20 final size:20
Alignment explanation
Indices: 41816--41853 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41806 AATAGTTTCT
41816 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
41836 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
41854 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:42142 original size:22 final size:22
Alignment explanation
Indices: 42117--42160 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42107 GATTTAGATA
42117 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
42139 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
42161 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:42373 original size:20 final size:20
Alignment explanation
Indices: 42348--42441 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
42338 GATTATGTAT
42348 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
42368 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
42388 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
42409 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
42429 TATCGCATTGCGA
1 TATCGCGTTGCGA
42442 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:42413 original size:41 final size:42
Alignment explanation
Indices: 42368--42503 Score: 118
Period size: 41 Copynumber: 3.3 Consensus size: 42
42358 CGAAAGTCAG
* * * *
42368 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTAT
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
* * *
42409 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAA
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
** ** * *
42451 T-TCGCGTTGCG-ATTTACTTATTCGCATTGCGAATTTCCCAA
1 TATCGCGTTGCGAAAGTAAGTA-TCGCATTGCGATTTTCTCAA
42492 T-TCGCGTTGCGA
1 TATCGCGTTGCGA
42504 TTTACTTATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
40 3 0.04
41 70 0.92
42 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (42 bp):
TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
Found at i:42442 original size:20 final size:20
Alignment explanation
Indices: 42328--42442 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
42318 CGCTTTGAAA
*
42328 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
42349 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
42369 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
42389 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
42410 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
42430 ATCGCATTGCGAT
1 ATCGCATTGCGAT
42443 TTTCTCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:42475 original size:20 final size:20
Alignment explanation
Indices: 42431--42523 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
42421 ATAGTCAGTA
*
42431 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
42452 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
42472 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
42493 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
42513 TCGCATTGCGA
1 TCGCATTGCGA
42524 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:42504 original size:41 final size:41
Alignment explanation
Indices: 42431--42526 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
42421 ATAGTCAGTA
* *
42431 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
42472 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
42513 TCGCATTGCGAATT
1 TCGCATTGCGAATT
42527 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:45374 original size:2 final size:2
Alignment explanation
Indices: 45367--45411 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
45357 AATTATTTGA
45367 AT AT AT AT AT AT AT AT AT AT 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
45409 AT A
1 AT A
45412 CTTAAAGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45721 original size:21 final size:21
Alignment explanation
Indices: 45695--45737 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
45685 TTGTACATTT
45695 TGGTAGGAGTAAAATGGTTCA
1 TGGTAGGAGTAAAATGGTTCA
45716 TGGTAGGAGTAAAATGGTTCA
1 TGGTAGGAGTAAAATGGTTCA
45737 T
1 T
45738 CTATTACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.33, T:0.30
Consensus pattern (21 bp):
TGGTAGGAGTAAAATGGTTCA
Found at i:52246 original size:36 final size:36
Alignment explanation
Indices: 52205--52288 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
52195 AAATATTATG
52205 TTACTCGACTCGTTACTCGTTAAACAAGTTAAAATT
1 TTACTCGACTCGTTACTCGTTAAACAAGTTAAAATT
* ** **
52241 TTACTCGACTCATTGTTCGTTAAACTCGTTAAAATT
1 TTACTCGACTCGTTACTCGTTAAACAAGTTAAAATT
* *
52277 TTGCTTGACTCG
1 TTACTCGACTCG
52289 GCTCGTTGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (36 bp):
TTACTCGACTCGTTACTCGTTAAACAAGTTAAAATT
Found at i:54397 original size:588 final size:592
Alignment explanation
Indices: 53266--54458 Score: 2034
Period size: 588 Copynumber: 2.0 Consensus size: 592
53256 CATAGTTTAG
* *
53266 TACAATGGTTCCACGAGGTCGAAGGAAAGCTCATAAGAAAATACACTTTCCATCTGTTTATAGAT
1 TACAATGGTTCCACGAGGTCGAAAGAAAGCTCATAAGAAAATACACGTTCCATCTGTTTATAGAT
*
53331 ATTGTCCTCTTATTTTAAATTTGCATAAAATAGTAAAGGAAACAGTACAAACTTCAAATTAACAA
66 ATTGTCCTCTTATTTTAAATTTGCATAAAATAGTAAAAGAAACAGTACAAACTTCAAATTAACAA
**
53396 TGATTTTATGTATGAAAAAGAAAATTTTGTTTGTTAAAACTAGGCAGTTATAATTAGTTTTATTT
131 TGATTTTATGTATGAAAAAGAAAAACTTGTTTGTT---A-T----AG---TAATTAGTTTTATTT
* *
53461 GTTAGATGGTCGTTAGCTTTGGTTAGTCAGATAGTAGAGTTCATATAAATAAGGGATTATCTTGT
185 GTTAGATGGACGTTAGCTTTGGTTAGTCAGATAGCAGAGTTCATATAAATAAGGGATTATCTTGT
* * *
53526 AACATTGTTATTATGAATATACAAGTATTTCACTGAATTAATTTCAACATGGTATCAGAGTCAGG
250 AACATTGTTATGATGAATATACAAGTATTTCACTGAATTAACTTCAACATGGTATCACAGTCAGG
*
53591 TTACATTATAAATCGGTTGCCATCATTTGTTTGGTCTTGGAAGTCACCTATTGAAACGTTTTATG
315 TTACATTATAAATCGGTTGCCATCATTTGTTTGGTCTTGGAAGTCACCTATTAAAACGTTTTATG
53656 GTAGGCCTCCCAGTTTTAATCATTTTCATGTCTTTGGTTGTCTATGTTATTCTGCTCGTTTAAAT
380 GTAGGCCTCCCAGTTTTAATCATTTTCATGTCTTTGGTTGTCTATGTTATTCTGCTCGTTTAAAT
* * *
53721 AATACAGACAATTTTGCTTTTCGGGCTATTCCTTTAGTTTTTCTTGGTTATTTTTTAAACTCAAA
445 AATACAGACAAATTTGCTTCTCGGGCTATTCCTTTAGTTTTTATTGGTTATTTTTTAAACTCAAA
*
53786 AGGGTTACCTCCTCTTTAGTCTACAGTCTAAGTCTTTTTATGTTAGTCGAGATGTCATATTTCAT
510 AGGGCTACCTCCTCTTTAGTCTACAGTCTAAGTCTTTTTATGTTAGTCGAGATGTCATATTTCAT
53851 GAAAATCAGTTTTCTTTT
575 GAAAATCAGTTTTCTTTT
* * *
53869 TACAATGGTTCCACGAGGTTGAAAGAAAGCTCATAAGAAAATACACGTTCCATTTTTTTATAGAT
1 TACAATGGTTCCACGAGGTCGAAAGAAAGCTCATAAGAAAATACACGTTCCATCTGTTTATAGAT
53934 ATTGTCCTCTTATTTTAAATTTGCATAAAATAGTAAAAGAAACAGTACAAACTTCAAATTAACAA
66 ATTGTCCTCTTATTTTAAATTTGCATAAAATAGTAAAAGAAACAGTACAAACTTCAAATTAACAA
53999 TGATTTTATGTATGAAAAAGAAAAACTTGTTTG-T-T-G-AATTAGTTTTATTTGTTAGATGGAC
131 TGATTTTATGTATGAAAAAGAAAAACTTGTTTGTTATAGTAATTAGTTTTATTTGTTAGATGGAC
*
54060 GTTAGTTTTGGTTAGTCAGATAGCAGAGTTCATATAAATAAGGGATTATCTTGTAACATTGTTAT
196 GTTAGCTTTGGTTAGTCAGATAGCAGAGTTCATATAAATAAGGGATTATCTTGTAACATTGTTAT
*
54125 GATGAATATACAAGTATTTCACTGAATTAACTTGAACATGGTATCACAGTCAGGTTACATTATAA
261 GATGAATATACAAGTATTTCACTGAATTAACTTCAACATGGTATCACAGTCAGGTTACATTATAA
*
54190 ATCGGTTGCCATCATTTGTTTGGTCTTGGAAGTCACCTATTAAAACGTTTTATGGTAGGCCTCTC
326 ATCGGTTGCCATCATTTGTTTGGTCTTGGAAGTCACCTATTAAAACGTTTTATGGTAGGCCTCCC
* *
54255 AGTTTTAATCATTTTCATGTCTTTGGTTGTCTTTGTTATTCTGCTTGTTTAAATAATACAGACAA
391 AGTTTTAATCATTTTCATGTCTTTGGTTGTCTATGTTATTCTGCTCGTTTAAATAATACAGACAA
* *
54320 ATTTGCTTCTCGGTCTATTCCTTTAGTTTTTATTGGTTATTTTTTAAACTCAAAAGGGCTATCTC
456 ATTTGCTTCTCGGGCTATTCCTTTAGTTTTTATTGGTTATTTTTTAAACTCAAAAGGGCTACCTC
54385 CTCTTTAGTCTACAGTCTAAGTCTTTTTATGTTAGTCGAGATGTCATATTTCATGAAAATCAGTT
521 CTCTTTAGTCTACAGTCTAAGTCTTTTTATGTTAGTCGAGATGTCATATTTCATGAAAATCAGTT
54450 TTCTTTT
586 TTCTTTT
54457 TA
1 TA
54459 TGATTCATCA
Statistics
Matches: 565, Mismatches: 25, Indels: 15
0.93 0.04 0.02
Matches are distributed among these distances:
588 407 0.72
592 1 0.00
597 1 0.00
602 1 0.00
603 155 0.27
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (592 bp):
TACAATGGTTCCACGAGGTCGAAAGAAAGCTCATAAGAAAATACACGTTCCATCTGTTTATAGAT
ATTGTCCTCTTATTTTAAATTTGCATAAAATAGTAAAAGAAACAGTACAAACTTCAAATTAACAA
TGATTTTATGTATGAAAAAGAAAAACTTGTTTGTTATAGTAATTAGTTTTATTTGTTAGATGGAC
GTTAGCTTTGGTTAGTCAGATAGCAGAGTTCATATAAATAAGGGATTATCTTGTAACATTGTTAT
GATGAATATACAAGTATTTCACTGAATTAACTTCAACATGGTATCACAGTCAGGTTACATTATAA
ATCGGTTGCCATCATTTGTTTGGTCTTGGAAGTCACCTATTAAAACGTTTTATGGTAGGCCTCCC
AGTTTTAATCATTTTCATGTCTTTGGTTGTCTATGTTATTCTGCTCGTTTAAATAATACAGACAA
ATTTGCTTCTCGGGCTATTCCTTTAGTTTTTATTGGTTATTTTTTAAACTCAAAAGGGCTACCTC
CTCTTTAGTCTACAGTCTAAGTCTTTTTATGTTAGTCGAGATGTCATATTTCATGAAAATCAGTT
TTCTTTT
Found at i:55604 original size:36 final size:36
Alignment explanation
Indices: 55564--56051 Score: 545
Period size: 38 Copynumber: 12.9 Consensus size: 36
55554 AAAAATCATT
*
55564 TTTTGAAAATATATATAATATATAATCTTTAAAACA
1 TTTTGAAAATATATATAATATATAATTTTTAAAACA
*
55600 TTTTGAAAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTG--AAAATATATATAATATATAATTTTTAAAACA
*
55638 TTTTGAATATATATATATATATAATATATATAGTTTTTAAAATA
1 TTTTG---A-A-A-ATATATATAATATATA-A-TTTTTAAAACA
* *
55682 TTTTGAAAACT-TATATAGTATATAGTTTTTTAAAACA
1 TTTTGAAAA-TATATATAATATATA-ATTTTTAAAACA
55719 TTTTGAAAAGATATATATAATATATAGA-TTTTAAAACA
1 TTTTG-AAA-ATATATATAATATATA-ATTTTTAAAACA
55757 TTTTGAAAACT-TATATAATATATAATTTTTAAAACA
1 TTTTGAAAA-TATATATAATATATAATTTTTAAAACA
*
55793 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAATTTTTAAAACA
* * * *
55829 TTTTGAATATATATGTATATAATATAGTTTTTTAAACA
1 TTTTGAAAATATATATA-AT-ATATAATTTTTAAAACA
* *
55867 TTTTGAAAATATATATATAATATATAGTTTTTAAAATA
1 TTTTG-AAA-ATATATATAATATATAATTTTTAAAACA
* *
55905 TTTTGAAAACT-TATATAAGATATAGTTTTTTAAAACA
1 TTTTGAAAA-TATATATAATATATA-ATTTTTAAAACA
*
55942 TTTTGAAACTATATATATAATATATAGTTTTTAAAACA
1 TTTTGAAA--ATATATATAATATATAATTTTTAAAACA
55980 TTTTGAAAACT-TATATAATATATAATTTTTAAAACA
1 TTTTGAAAA-TATATATAATATATAATTTTTAAAACA
* *
56016 TTTTGAAAACTTATATATAATATATAGTTTTGAAAA
1 TTTTGAAAA--TATATATAATATATAATTTTTAAAA
56052 AAAAACATTT
Statistics
Matches: 397, Mismatches: 28, Indels: 52
0.83 0.06 0.11
Matches are distributed among these distances:
35 2 0.01
36 124 0.31
37 45 0.11
38 148 0.37
39 35 0.09
40 10 0.03
41 2 0.01
42 16 0.04
44 15 0.04
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAATTTTTAAAACA
Found at i:55930 original size:223 final size:229
Alignment explanation
Indices: 55564--56051 Score: 794
Period size: 223 Copynumber: 2.1 Consensus size: 229
55554 AAAAATCATT
* *
55564 TTTTGAAAATATATATAATATATAATCTTTAAAACATTTTGAAAAAATATATATAATATATAGTT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATATAATATATAGTT
55629 TTTAAAACATTTTGAATATATATATATATATAATATATATAGTTTTTAAAATATTTTGAAAACTT
66 TTTAAAACATTTTGAATATATATATATATATAATATATATAGTTTTTAAAATATTTTGAAAACTT
55694 ATATAGTATATAGTTTTTTAAAACATTTTGAAAAGATATATATAATATATAGATTTTAAAACATT
131 ATATAGTATATAGTTTTTTAAAACATTTTGAAAAGATATATATAATATATAGATTTTAAAACATT
55759 TTGAAAACTTATATAATATATAATTTTTAAAACA
196 TTGAAAACTTATATAATATATAATTTTTAAAACA
* * *
55793 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTGAATATATATGTAT-ATAATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATATAAT-ATATAGT
*
55857 TTTTTAAACATTTTG-A-A-A-ATATATATAT-A-ATATATAGTTTTTAAAATATTTTGAAAACT
65 TTTTAAAACATTTTGAATATATATATATATATAATATATATAGTTTTTAAAATATTTTGAAAACT
** *
55916 TATATAAG-ATATAGTTTTTTAAAACATTTTGAAACTATATATATAATATATAGTTTTTAAAACA
130 TATAT-AGTATATAGTTTTTTAAAACATTTTGAAAAGATATATATAATATATAGATTTTAAAACA
55980 TTTTGAAAACTTATATAATATATAATTTTTAAAACA
194 TTTTGAAAACTTATATAATATATAATTTTTAAAACA
*
56016 TTTTGAAAACTTATATATAATATATAGTTTTGAAAA
1 TTTTGAAAA--TATATATAATATATAGTTTTTAAAA
56052 AAAAACATTT
Statistics
Matches: 245, Mismatches: 10, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
223 133 0.54
224 3 0.01
225 34 0.14
226 1 0.00
227 1 0.00
228 3 0.01
229 70 0.29
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (229 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATATAATATATAGTT
TTTAAAACATTTTGAATATATATATATATATAATATATATAGTTTTTAAAATATTTTGAAAACTT
ATATAGTATATAGTTTTTTAAAACATTTTGAAAAGATATATATAATATATAGATTTTAAAACATT
TTGAAAACTTATATAATATATAATTTTTAAAACA
Found at i:56155 original size:15 final size:15
Alignment explanation
Indices: 56107--56165 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
56097 ACATATAATA
*
56107 TTATTATACTTTTT-A
1 TTATTAT-CTTTTTCT
*
56122 TTATTAT-TATTATTAT
1 TTATTATCT-TT-TTCT
*
56138 TTATTTTCTTTTTCT
1 TTATTATCTTTTTCT
56153 TTATTATCTTTTT
1 TTATTATCTTTTT
56166 TAGGGTCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 24 0.67
16 8 0.22
17 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTATCTTTTTCT
Found at i:57452 original size:15 final size:15
Alignment explanation
Indices: 57434--57539 Score: 58
Period size: 15 Copynumber: 7.3 Consensus size: 15
57424 AAAATTTAAC
57434 ATTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
**
57449 A-TTTTATTTTTTCC
1 ATTTTTATTTTTTTT
** * *
57463 CCTTTGA-TTTATTT
1 ATTTTTATTTTTTTT
* * *
57477 AATATTATTTATTTT
1 ATTTTTATTTTTTTT
***
57492 ATTTTT-TCTTTGAGT
1 ATTTTTAT-TTTTTTT
57507 -TTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
*
57521 ATTTTTATGTTTTTT
1 ATTTTTATTTTTTTT
57536 ATTT
1 ATTT
57540 ATTTTTTCCC
Statistics
Matches: 63, Mismatches: 23, Indels: 10
0.66 0.24 0.10
Matches are distributed among these distances:
14 28 0.44
15 35 0.56
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (15 bp):
ATTTTTATTTTTTTT
Found at i:57532 original size:24 final size:24
Alignment explanation
Indices: 57484--57547 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 24
57474 TTTAATATTA
57484 TTTATTTTATTTTTTCTTTGAGTTT
1 TTTATTTT-TTTTTTCTTTGAGTTT
57509 TTTATTTTTTTTATT-TTT-ATGTTT
1 TTTATTTTTTTT-TTCTTTGA-GTTT
*
57533 TTTATTTATTTTTTC
1 TTTATTTTTTTTTTC
57548 CCTTTGATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 3 0.09
24 22 0.63
25 10 0.29
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (24 bp):
TTTATTTTTTTTTTCTTTGAGTTT
Found at i:57535 original size:38 final size:35
Alignment explanation
Indices: 57435--57535 Score: 107
Period size: 35 Copynumber: 2.8 Consensus size: 35
57425 AAATTTAACA
*
57435 TTTTTATTTTTTTTATTTTATTTTTTCCCCTTTGAT
1 TTTTTATTTTTTTTATTTTATTTTTT-TCCTTTGAT
* *
57471 TTATTTAATATTATTTATTTTA-TTTTTT-CTTTGAGT
1 TT-TTT-ATTTTTTTTATTTTATTTTTTTCCTTTGA-T
57507 TTTTTATTTTTTTTATTTTTATGTTTTTT
1 TTTTTATTTTTTTTA-TTTTAT-TTTTTT
57536 ATTTATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
34 8 0.15
35 14 0.26
36 5 0.09
37 14 0.26
38 13 0.24
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (35 bp):
TTTTTATTTTTTTTATTTTATTTTTTTCCTTTGAT
Found at i:57603 original size:86 final size:86
Alignment explanation
Indices: 57434--57603 Score: 211
Period size: 85 Copynumber: 2.0 Consensus size: 86
57424 AAAATTTAAC
* *
57434 ATTTTTATTTTTTTTATTTTATTTTTTCCCCTTTGATTTATTTAATATTATTTATTTTATTTTTT
1 ATTTTTATGTTTTTTATTTTATTTTTTCCCCTTTGATTTATTTAACATTATTTA-TTTATTTTTT
* * * * **
57499 CTTTGAGTTTTTTATTTTTTTT
65 ATGTAAATTTTCAATTTTTTTT
57521 ATTTTTATGTTTTTTA-TTTATTTTTT-CCCTTTGATTTATTTAACATTTATTTA-TTATTTTTT
1 ATTTTTATGTTTTTTATTTTATTTTTTCCCCTTTGATTTATTTAACA-TTATTTATTTATTTTTT
*
57583 ATGTAACATTTTCAACTTTTT
65 ATGTAA-ATTTTCAATTTTTT
57604 AGAGGAATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 12 0.17
85 28 0.39
86 17 0.24
87 15 0.21
ACGTcount: A:0.19, C:0.07, G:0.04, T:0.71
Consensus pattern (86 bp):
ATTTTTATGTTTTTTATTTTATTTTTTCCCCTTTGATTTATTTAACATTATTTATTTATTTTTTA
TGTAAATTTTCAATTTTTTTT
Found at i:60159 original size:29 final size:30
Alignment explanation
Indices: 60117--60177 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
60107 CAGTGACAGC
60117 ATAGGTCGCCATGCACGCCCGGCGTCC-TT
1 ATAGGTCGCCATGCACGCCCGGCGTCCATT
60146 ATAGGTCGCCATGCACGCCCGGCGTCCATT
1 ATAGGTCGCCATGCACGCCCGGCGTCCATT
60176 AT
1 AT
60178 TCTTTGCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.21
Consensus pattern (30 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCATT
Found at i:60426 original size:25 final size:26
Alignment explanation
Indices: 60391--60458 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 26
60381 CGGTTCTATC
*
60391 GTAGGTTGCCATGG-CCGGCGACATG
1 GTAGGTCGCCATGGCCCGGCGACATG
60416 GTAGGTCGCCATGGAGTCCCGGCGACATG
1 GTAGGTCGCCAT-G-G-CCCGGCGACATG
*
60445 GTAGGTCGACATGG
1 GTAGGTCGCCATGG
60459 TAGGTCTGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 11 0.30
26 1 0.03
27 2 0.05
28 1 0.03
29 22 0.59
ACGTcount: A:0.18, C:0.24, G:0.40, T:0.19
Consensus pattern (26 bp):
GTAGGTCGCCATGGCCCGGCGACATG
Found at i:60456 original size:13 final size:13
Alignment explanation
Indices: 60438--60464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60428 GGAGTCCCGG
60438 CGACATGGTAGGT
1 CGACATGGTAGGT
60451 CGACATGGTAGGT
1 CGACATGGTAGGT
60464 C
1 C
60465 TGCATCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (13 bp):
CGACATGGTAGGT
Found at i:61000 original size:21 final size:21
Alignment explanation
Indices: 60975--61018 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
60965 AATCTAGTTA
60975 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
60996 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
61017 AT
1 AT
61019 ATATTATATT
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:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:61437 original size:14 final size:14
Alignment explanation
Indices: 61418--61444 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61408 AGTAATTTAT
61418 TATTTTTTGTTGTC
1 TATTTTTTGTTGTC
61432 TATTTTTTGTTGT
1 TATTTTTTGTTGT
61445 TGTGTATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
TATTTTTTGTTGTC
Found at i:61444 original size:17 final size:17
Alignment explanation
Indices: 61415--61447 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61405 GTGAGTAATT
61415 TATTATTTTTTGTTGTC
1 TATTATTTTTTGTTGTC
61432 TATT-TTTTGTTGTTGT
1 TATTATTTT-TTGTTGT
61448 GTATGTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.73
Consensus pattern (17 bp):
TATTATTTTTTGTTGTC
Found at i:61577 original size:19 final size:19
Alignment explanation
Indices: 61512--61579 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
61502 GCGAGATAAT
*
61512 TTTTGTTTAAAAAAAAATA
1 TTTTGTTTTAAAAAAAATA
* **
61531 TTGTG-TTTAAAAATATTTA
1 TTTTGTTTTAAAAA-AAATA
* *
61550 GTGTTGTTTTAAAAAAACTA
1 -TTTTGTTTTAAAAAAAATA
61570 TTTTGTTTTA
1 TTTTGTTTTA
61580 TTTATATTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 7 0.19
19 16 0.43
20 6 0.16
21 8 0.22
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTTGTTTTAAAAAAAATA
Found at i:61842 original size:26 final size:25
Alignment explanation
Indices: 61813--61877 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
61803 AAATCATCTT
*
61813 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* * *
61839 ATTATATTAATAATAATTATTAAATC
1 ATTAT-TAAATAATAAATATCAAATC
61865 ATTATTAAA-AATA
1 ATTATTAAATAATA
61878 TTAGTAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 4 0.12
25 3 0.09
26 22 0.67
27 4 0.12
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:64794 original size:60 final size:60
Alignment explanation
Indices: 64717--65594 Score: 1219
Period size: 60 Copynumber: 15.2 Consensus size: 60
64707 GTATTTATAA
* * *
64717 GATTTAGTAATGATTAGTAATGATGAAATTATTAATAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
64777 GATTTAATAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
64837 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGT-A-
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
64895 -A--T-G-----ATTAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
64946 GA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGT-A-
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
65003 -A--T-G-----ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
65054 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * *
65114 GATTTAATAATGATTAGTAATAATGAAACTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
65174 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
65234 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGT-A-
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
65292 -A--T-G--AT--TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
** *
65344 GATTTAGTAACGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * *
65404 GATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
65464 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * *
65524 GATTTAGTAATGATTAGTAATAATTAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
65584 GATTTAGTAAT
1 GATTTAGTAAT
65595 GATTTATTAT
Statistics
Matches: 759, Mismatches: 28, Indels: 62
0.89 0.03 0.07
Matches are distributed among these distances:
49 89 0.12
50 44 0.06
51 1 0.00
52 4 0.01
53 2 0.00
54 5 0.01
55 5 0.01
56 2 0.00
57 2 0.00
58 2 0.00
59 46 0.06
60 557 0.73
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:64952 original size:10 final size:10
Alignment explanation
Indices: 64939--64965 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
64929 AATAATTTGA
64939 TAGTAATGAT
1 TAGTAATGAT
64949 TAGTAATGAT
1 TAGTAATGAT
64959 TAGTAAT
1 TAGTAAT
64966 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:65042 original size:35 final size:35
Alignment explanation
Indices: 65001--65103 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
64991 GATTTGATAG
65001 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
* * * *
65036 TAATGATT--TGAT-A-GTAATGA-T-TT-A---G
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
65061 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
65096 TAATGATT
1 TAATGATT
65104 TGATAGTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
25 8 0.16
27 3 0.06
28 2 0.04
29 7 0.14
30 2 0.04
31 7 0.14
32 2 0.04
33 3 0.06
35 16 0.32
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.48
Consensus pattern (35 bp):
TAATGATTAGTAATAATGAAATTATTATTAATTTT
Found at i:65071 original size:21 final size:20
Alignment explanation
Indices: 65047--65255 Score: 71
Period size: 21 Copynumber: 10.4 Consensus size: 20
65037 AATGATTTGA
65047 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
65068 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * * *
65086 TATTAATTTTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
*
65107 TAGTAATGATTTAATAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* *
65128 TAGTAATA-AT-GAAACTG-T
1 TAGTAATATTTAGTAA-TGAT
* * *
65146 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
65167 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* *
65188 TAGTAATA-AT-GAAATTG-T
1 TAGTAATATTTAGTAA-TGAT
* * *
65206 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
65227 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
65248 TAGTAATA
1 TAGTAATA
65256 ATGAAATTGT
Statistics
Matches: 132, Mismatches: 34, Indels: 45
0.63 0.16 0.21
Matches are distributed among these distances:
18 33 0.25
19 10 0.08
20 13 0.10
21 56 0.42
22 20 0.15
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.44
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:65161 original size:35 final size:34
Alignment explanation
Indices: 65121--65513 Score: 135
Period size: 35 Copynumber: 12.2 Consensus size: 34
65111 AATGATTTAA
65121 TAATGATTAGTAATAATGAAACTGTTATTAATATT
1 TAATGATTAGTAATAATGAAA-TGTTATTAATATT
* * *
65156 TAATGATT--TGAT-A-GTAATG--ATT--TA-G
1 TAATGATTAGTAATAATGAAATGTTATTAATATT
65181 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAATGAAA-TGTTATTAATATT
* * *
65216 TAATGATT--TGAT-A-GTAATG--ATT--TA-G
1 TAATGATTAGTAATAATGAAATGTTATTAATATT
65241 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAATGAAA-TGTTATTAATATT
* * * *
65276 TAATGATTTGATAGTAATG--AT-TTAGTAATAATG
1 TAATGATTAG-TAATAATGAAATGTTATTAAT-ATT
* * * ** * *
65309 AAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
1 TAATGATTAGTAA----TAATGAAATGTTATTAAT-A-TT
* * *
65349 AGTAACGATTAGTAATAATGAAATTATTATTAATTTT
1 --TAATGATTAGTAATAATGAAA-TGTTATTAATATT
* * *
65386 TAATGATT--TGAT-A-GTAATG--ATT--TA-A
1 TAATGATTAGTAATAATGAAATGTTATTAATATT
65411 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAATGAAA-TGTTATTAATATT
* * *
65446 TAATGATT--TGAT-A-GTAATG--ATT--TA-G
1 TAATGATTAGTAATAATGAAATGTTATTAATATT
65471 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAATGAAA-TGTTATTAATATT
65506 TAATGATT
1 TAATGATT
65514 TGATAGTAAT
Statistics
Matches: 255, Mismatches: 50, Indels: 106
0.62 0.12 0.26
Matches are distributed among these distances:
25 32 0.13
26 7 0.03
27 12 0.05
28 16 0.06
29 12 0.05
30 15 0.06
31 12 0.05
32 25 0.10
33 21 0.08
34 9 0.04
35 48 0.19
36 12 0.05
37 2 0.01
38 7 0.03
39 15 0.06
40 1 0.00
42 9 0.04
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (34 bp):
TAATGATTAGTAATAATGAAATGTTATTAATATT
Found at i:65361 original size:290 final size:290
Alignment explanation
Indices: 64890--65594 Score: 1324
Period size: 290 Copynumber: 2.4 Consensus size: 290
64880 AATGATTTGA
* * *
64890 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAGTAATGA-TTAGTA
1 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
64954 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAATAAT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATAAT
*
65018 GAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAAT
131 GAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAACGATTAGTAATAATGAAAT
65083 TATTATTAATTTTTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAACTGTTA
196 TATTATTAATTTTTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAACTGTTA
65148 TTAATATTTAATGATTTGATAGTAATGATT
261 TTAATATTTAATGATTTGATAGTAATGATT
65178 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* *
65243 ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATAAT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATAAT
65308 GAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAACGATTAGTAATAATGAAAT
131 GAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAACGATTAGTAATAATGAAAT
*
65373 TATTATTAATTTTTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAATTGTTA
196 TATTATTAATTTTTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAACTGTTA
65438 TTAATATTTAATGATTTGATAGTAATGATT
261 TTAATATTTAATGATTTGATAGTAATGATT
65468 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
*
65533 ATGATTAGTAATAATTAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAAT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAAT
65595 GATTTATTAT
Statistics
Matches: 405, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
288 55 0.14
289 57 0.14
290 293 0.72
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (290 bp):
TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATAAT
GAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAACGATTAGTAATAATGAAAT
TATTATTAATTTTTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAACTGTTA
TTAATATTTAATGATTTGATAGTAATGATT
Found at i:65533 original size:11 final size:11
Alignment explanation
Indices: 65517--65600 Score: 51
Period size: 11 Copynumber: 8.2 Consensus size: 11
65507 AATGATTTGA
65517 TAGTAATGATT
1 TAGTAATGATT
65528 TAGTAATGA-T
1 TAGTAATGATT
*
65538 TAGTAAT-AAT
1 TAGTAATGATT
*
65548 TA--AATTA-T
1 TAGTAATGATT
*
65556 TATTAAT--TT
1 TAGTAATGATT
65565 T--TAATGATTT
1 TAGTAATGA-TT
65575 GATAGTAATGATT
1 --TAGTAATGATT
65588 TAGTAATGATT
1 TAGTAATGATT
65599 TA
1 TA
65601 TTATAAATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
7 4 0.07
8 6 0.10
9 4 0.07
10 16 0.26
11 22 0.36
12 1 0.02
13 2 0.03
14 6 0.10
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (11 bp):
TAGTAATGATT
Found at i:67968 original size:15 final size:16
Alignment explanation
Indices: 67948--67981 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
67938 CAAAAAAATT
67948 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
67963 TAATATAATAAACTTA
1 TAATATAATAAACTTA
67979 TAA
1 TAA
67982 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:68068 original size:30 final size:30
Alignment explanation
Indices: 68034--68133 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
68024 TTTCTTTAAA
68034 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
68064 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* * *
68094 AAACTAATAAAATATTTTTTAATTATAA-TT
1 CAACTAATAAACTATTCTTTAA-TATAACTT
*
68124 C-ACTACTAAA
1 CAACTAATAAA
68134 AGACTAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.12
30 51 0.80
31 5 0.08
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:68086 original size:15 final size:16
Alignment explanation
Indices: 68038--68092 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
68028 TTTAAACAAC
68038 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
**
68053 TAATATAAC--TTCAAC
1 TAATATAACTATTC-TT
68068 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
68083 TAATATAACT
1 TAATATAACT
68093 TAAACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 15 0.48
16 10 0.32
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAACTATTCTT
Found at i:68529 original size:27 final size:27
Alignment explanation
Indices: 68491--68545 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
68481 AGGGTCGGCT
68491 GCCATGCACCAATAATTGAAGAATCAC
1 GCCATGCACCAATAATTGAAGAATCAC
68518 GCCATGCACCAATAATTGAAGAATCAC
1 GCCATGCACCAATAATTGAAGAATCAC
68545 G
1 G
68546 AGCCGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.18
Consensus pattern (27 bp):
GCCATGCACCAATAATTGAAGAATCAC
Found at i:68835 original size:29 final size:29
Alignment explanation
Indices: 68727--68814 Score: 167
Period size: 29 Copynumber: 3.0 Consensus size: 29
68717 AGGGGATGTT
*
68727 GCCGGGCATGCATGGCGACCTAGGAGGTC
1 GCCGGGCGTGCATGGCGACCTAGGAGGTC
68756 GCCGGGCGTGCATGGCGACCTAGGAGGTC
1 GCCGGGCGTGCATGGCGACCTAGGAGGTC
68785 GCCGGGCGTGCATGGCGACCTAGGAGGTC
1 GCCGGGCGTGCATGGCGACCTAGGAGGTC
68814 G
1 G
68815 TTGGGAGTGC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.15, C:0.27, G:0.44, T:0.14
Consensus pattern (29 bp):
GCCGGGCGTGCATGGCGACCTAGGAGGTC
Found at i:68888 original size:12 final size:12
Alignment explanation
Indices: 68871--68899 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
68861 ACACGACCCT
68871 CGTCGGAAGCCA
1 CGTCGGAAGCCA
68883 CGTCGGAAGCCA
1 CGTCGGAAGCCA
68895 CGTCG
1 CGTCG
68900 TAGGTCGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.34, T:0.10
Consensus pattern (12 bp):
CGTCGGAAGCCA
Found at i:69696 original size:13 final size:13
Alignment explanation
Indices: 69678--69702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69668 TACAGACGCA
69678 CATATGAAGACTG
1 CATATGAAGACTG
69691 CATATGAAGACT
1 CATATGAAGACT
69703 TTTCAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
CATATGAAGACTG
Found at i:73330 original size:26 final size:26
Alignment explanation
Indices: 73291--73340 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
73281 TTATTTTATA
**
73291 ATAAATTTTTTATAATTTT-AAAAATT
1 ATAAATTTCATAT-ATTTTGAAAAATT
73317 ATAAATTTCATATATTTTGAAAAA
1 ATAAATTTCATATATTTTGAAAAA
73341 AATATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
ATAAATTTCATATATTTTGAAAAATT
Found at i:73964 original size:333 final size:328
Alignment explanation
Indices: 73348--74145 Score: 1166
Period size: 333 Copynumber: 2.4 Consensus size: 328
73338 AAAAATATTA
* *
73348 AATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATA-TTTAATATTTTTAA
1 AATAATAATTCATTTGATCTCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTATATTTTTAA
* *
73412 ATAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAATTTTTTAAATTAT
66 ACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAATTTTTAAAATTAT
*
73477 --AAATATTTATCATCATTATCATTTTGTAAAAGAAATATTAGTTATAAAACTTTTAAAAAATTA
131 AAAAATATTTATCATCATTATCATTTTGTAAAAGAAATACTAGTTAT--AA---TT-AAAAATTA
* * *
73540 TTCATATTTTAAAATACTTATCCTCAAAGTTTTTATATACTAGATTATATGTATTGTGTAATTTT
190 TTCATATTTTAAAATACTTACCCTCAAAGTTTTTATATACTAGATTATACGTATTGTGAAATTTT
* ** * * *
73605 AATGTAAAAATTTAAATAATTTTATTAAAAATGAATAAACATTATTACCTGTTCTTAAAAATTAA
255 AATGCAAAAATCAAAATAAATTTATTAAAAATGAATAAACATTATTAACTGTTCTTAAAAACTAA
73670 AAATTAATG
320 AAATTAATG
73679 AATAATAATTCATTTGATCTCTCAATTGTAATTAAAAGTTTATTTTAATATTCTTTTATATTTTT
1 AATAATAATTCATTTGATCTCTCAATTGTAATTAAAAGTTTATTTTAATA-T-TTTTATATTTTT
73744 AAACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAATTTTTAAAATT
64 AAACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAATTTTTAAAATT
*
73809 ATAAAATATTTATTATTATCATCATCATCATCATTTTGTAAAATAAATACTAG-T-T-A-T-AAA
129 ATAAAA-A--TA-T-TTATCATCAT--T-ATCATTTTGTAAAAGAAATACTAGTTATAATTAAAA
* *
73869 ATTATTCATATTTTAAAATAGTTACCCTCAAAGTTTTCT-TATATTAGATTATACGTATTGTGAA
186 ATTATTCATATTTTAAAATACTTACCCTCAAAGTTTT-TATATACTAGATTATACGTATTGTGAA
*
73933 ATTTTAATGCAAAAATCAAAATAAATTTATTAAAAATGAATAAACATTATTAACTGTTGTTAAAA
250 ATTTTAATGCAAAAATCAAAATAAATTTATTAAAAATGAATAAACATTATTAACTGTTCTTAAAA
*
73998 ACTAAAATTTAATG
315 ACTAAAAATTAATG
*
74012 AATAATAATTCATTTGATCTCTTAATTGTAATTAAAAGTTTATTTTAATATTTTTATATTTTTAA
1 AATAATAATTCATTTGATCTCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTATATTTTTAA
** *
74077 ACAATTAATTTTAAAAGAAAATATTTTTTTC-AAAATATATGAAATTTATAATTTTTAAAATTAT
66 ACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAATTTTTAAAATTAT
74141 AAAAA
131 AAAAA
74146 AAATATTATT
Statistics
Matches: 430, Mismatches: 23, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
329 1 0.00
330 37 0.09
331 91 0.21
332 1 0.00
333 180 0.42
334 77 0.18
335 1 0.00
336 2 0.00
337 1 0.00
339 3 0.01
340 1 0.00
341 10 0.02
342 1 0.00
343 2 0.00
344 22 0.05
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (328 bp):
AATAATAATTCATTTGATCTCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTATATTTTTAA
ACAATTAATTTTAAAAGGTAATAATTTTTTCAAAAATATATGAAATTTATAATTTTTAAAATTAT
AAAAATATTTATCATCATTATCATTTTGTAAAAGAAATACTAGTTATAATTAAAAATTATTCATA
TTTTAAAATACTTACCCTCAAAGTTTTTATATACTAGATTATACGTATTGTGAAATTTTAATGCA
AAAATCAAAATAAATTTATTAAAAATGAATAAACATTATTAACTGTTCTTAAAAACTAAAAATTA
ATG
Found at i:74990 original size:10 final size:10
Alignment explanation
Indices: 74975--75009 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
74965 TTTATCACAC
74975 CAAATTCTCT
1 CAAATTCTCT
74985 CAAATTCTCT
1 CAAATTCTCT
74995 -AAATTTCTCT
1 CAAA-TTCTCT
75005 CAAAT
1 CAAAT
75010 AATCTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:75340 original size:111 final size:111
Alignment explanation
Indices: 75141--75362 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
75131 TGGAAATCAT
* *
75141 ATATCTCTACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTTAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
75206 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* *
75252 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAG
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
75317 TAATTAGTTGATTTATTTGATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
75363 TTTTTGTAAT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:77707 original size:12 final size:12
Alignment explanation
Indices: 77690--77726 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
77680 ATTTATAAGA
77690 GAGGAGAGATGC
1 GAGGAGAGATGC
*
77702 GA-G-GAGATGT
1 GAGGAGAGATGC
77712 GAGGAGAGATGC
1 GAGGAGAGATGC
77724 GAG
1 GAG
77727 AACCGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.32, C:0.05, G:0.51, T:0.11
Consensus pattern (12 bp):
GAGGAGAGATGC
Found at i:78143 original size:19 final size:19
Alignment explanation
Indices: 78119--78163 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
78109 AGACGAGATT
*
78119 GTGAAGTCCAATCTGCGCA
1 GTGAAGTCCAATCTACGCA
78138 GTGAAGTCCAATCTACGCA
1 GTGAAGTCCAATCTACGCA
78157 GTGAAGT
1 GTGAAGT
78164 GAAACATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (19 bp):
GTGAAGTCCAATCTACGCA
Found at i:82066 original size:14 final size:14
Alignment explanation
Indices: 82047--82074 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82037 TAAATTAATC
82047 CTAATTTAATCACT
1 CTAATTTAATCACT
82061 CTAATTTAATCACT
1 CTAATTTAATCACT
82075 AAAATTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
CTAATTTAATCACT
Found at i:82080 original size:14 final size:14
Alignment explanation
Indices: 82049--82082 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
82039 AATTAATCCT
**
82049 AATTTAATCACTCT
1 AATTTAATCACTAA
82063 AATTTAATCACTAA
1 AATTTAATCACTAA
82077 AATTTA
1 AATTTA
82083 GGTACTACAA
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:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTAATCACTAA
Found at i:83101 original size:11 final size:10
Alignment explanation
Indices: 83067--83097 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
83057 TAAAAATTTC
83067 ATATTTTTAT
1 ATATTTTTAT
83077 ATATTTTTA-
1 ATATTTTTAT
83086 ATATTTTTAT
1 ATATTTTTAT
83096 AT
1 AT
83098 TATTCTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:86768 original size:65 final size:66
Alignment explanation
Indices: 86638--86797 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 66
86628 AGGCCAATAT
* * * * *
86638 CCTTCGCTGTGAAGTTGAAATTG-AC--TCTGAAACTGGGAAGTTGTTTGTTGACAGCCAGCGAC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAGTTGTTTGTTGACAACCAGCGAC
86700 C
66 C
*
86701 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGGAA-TT-TTTGTTGACAACCAGCGG
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACT-GGGAAGTTGTTTGTTGACAACCAGCGA
86764 CC
65 CC
*
86766 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTT
86798 GAGTCCAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 21 0.24
64 1 0.01
65 49 0.57
66 10 0.12
67 5 0.06
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (66 bp):
CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAGTTGTTTGTTGACAACCAGCGAC
C
Found at i:86867 original size:106 final size:107
Alignment explanation
Indices: 86701--86903 Score: 313
Period size: 106 Copynumber: 1.9 Consensus size: 107
86691 GCCAGCGACC
* * *
86701 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGGAATTTTTGTTGACAACCAGCGGCC
1 CCTTCGCTGTGAAGTTGAAATTGTGC-GTCTGAAACTGGGGAATTTTTGTTGACAACCAGCGGCC
86766 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
65 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
* *
86809 CCTTCGCTGTGAAGTTGAAATTG-GC-TCTGAAA-TTGGGAAGTTGTTTGTTGACAGCCAGCGGC
1 CCTTCGCTGTGAAGTTGAAATTGTGCGTCTGAAACTGGGGAA-TT-TTTGTTGACAACCAGCGGC
86871 CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
64 CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
86904 AAACTGGGAA
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
104 6 0.07
105 8 0.09
106 51 0.58
107 2 0.02
108 21 0.24
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (107 bp):
CCTTCGCTGTGAAGTTGAAATTGTGCGTCTGAAACTGGGGAATTTTTGTTGACAACCAGCGGCCC
CTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
Found at i:86888 original size:63 final size:63
Alignment explanation
Indices: 86809--87030 Score: 286
Period size: 64 Copynumber: 3.5 Consensus size: 63
86799 AGTCCAATAT
* * * * *
86809 CCTTCGCTGTGAAGTTGAAATTG-G-CTCTGAAATTGGGAAGTTGTTTGTTGACAGCCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTGTGTCTGAAACTGGGAA-TT-TTTGTTGACAACCAGCGGCC
* *
86872 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTAAACTGGGAAATTTTGTTGACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAATTTTTGTTGACAACCAGCGGCC
* * *
86936 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAATTTTTGTTAACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAATTTTTGTTGACAACCAGCGGCC
*
87000 CCTTCGTTGTGAAGCTGAACTTGTGTTGTCT
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCT
87031 TGAGTTCCAA
Statistics
Matches: 143, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
63 21 0.15
64 109 0.76
65 1 0.01
66 12 0.08
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (63 bp):
CCTTCGTTGTGAAGTTGAACTTGTGTGTCTGAAACTGGGAATTTTTGTTGACAACCAGCGGCC
Found at i:86934 original size:64 final size:64
Alignment explanation
Indices: 86852--87031 Score: 299
Period size: 64 Copynumber: 2.8 Consensus size: 64
86842 TGGGAAGTTG
*
86852 TTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTAAACTGGGAAA-T
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTAAACT-GGAAATT
* *
86916 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGAAATT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTAAACTGGAAATT
* *
86980 TTTGTTAACAACCAGCGGCCCCTTCGTTGTGAAGCTGAACTTGTGTTGTCTT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
87032 GAGTTCCAAT
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
63 5 0.05
64 104 0.95
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (64 bp):
TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTAAACTGGAAATT
Found at i:87630 original size:36 final size:36
Alignment explanation
Indices: 87520--87637 Score: 91
Period size: 36 Copynumber: 3.3 Consensus size: 36
87510 AGAGAAACTG
* * * *
87520 TCTCAAGGGAGACAAAGT-TTGTTTCAAGAGAAACTA
1 TCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAA
* * ** **
87556 TCTCAAGCGAGATAAAATCTTCTAGT--G-AAAACGG
1 TCTCAAGCGAGA-CAAATCTTGTTTTAAGAAAAACAA
87590 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
*
87626 TCTCAAGTGAGA
1 TCTCAAGCGAGA
87638 TAATCATCTG
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
33 9 0.15
34 16 0.26
35 2 0.03
36 28 0.46
37 6 0.10
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (36 bp):
TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
Found at i:88474 original size:22 final size:22
Alignment explanation
Indices: 88449--88491 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
88439 CATTTTTGTT
*
88449 CATTTGATGCTCAAAGGTTTGG
1 CATTGGATGCTCAAAGGTTTGG
88471 CATTGGATGCTCAAAGGTTTG
1 CATTGGATGCTCAAAGGTTTG
88492 CTGGGGTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
CATTGGATGCTCAAAGGTTTGG
Found at i:89137 original size:8 final size:8
Alignment explanation
Indices: 89120--89181 Score: 53
Period size: 8 Copynumber: 8.2 Consensus size: 8
89110 TTTTTTTTTA
89120 TTTG-TTT
1 TTTGCTTT
89127 TTTGCTTT
1 TTTGCTTT
89135 TTTG--TT
1 TTTGCTTT
*
89141 CTTG-TTT
1 TTTGCTTT
*
89148 TTTCCTTT
1 TTTGCTTT
89156 TTTGCTTCT
1 TTTGCTT-T
89165 TTT-CTTT
1 TTTGCTTT
*
89172 TTTTCTTT
1 TTTGCTTT
89180 TT
1 TT
89182 GCCCTTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
6 5 0.11
7 12 0.26
8 25 0.54
9 4 0.09
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (8 bp):
TTTGCTTT
Found at i:89172 original size:22 final size:21
Alignment explanation
Indices: 89101--89165 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
89091 TTAGGGAATC
* *
89101 TTTTTGTCCTTTTTTTTTATTTG
1 TTTTT-TCCTTTTTTGTT-CTTG
*
89124 TTTTTTGCTTTTTTGTTCTTG
1 TTTTTTCCTTTTTTGTTCTTG
89145 TTTTTTCCTTTTTTGCTTCTT
1 TTTTTTCCTTTTTTG-TTCTT
89166 TTCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 17 0.46
22 15 0.41
23 5 0.14
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.77
Consensus pattern (21 bp):
TTTTTTCCTTTTTTGTTCTTG
Found at i:96838 original size:23 final size:23
Alignment explanation
Indices: 96807--96851 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
96797 AGTGTTATAT
*
96807 TATATTTTAAAAATATTAATTAG
1 TATAATTTAAAAATATTAATTAG
* *
96830 TATAATTTAAATATATTTATTA
1 TATAATTTAAAAATATTAATTA
96852 AAATATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATAATTTAAAAATATTAATTAG
Found at i:96855 original size:14 final size:16
Alignment explanation
Indices: 96838--96908 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 16
96828 AGTATAATTT
96838 AAATA-TATT-TATTA
1 AAATATTATTATATTA
96852 AAATATTATTATATT-
1 AAATATTATTATATTA
* *
96867 -AATATTAAATATATAA
1 AAATATT-ATTATATTA
96883 ATAATATTATTCATTATTA
1 A-AATATTATT-A-TATTA
96902 AATATAT
1 AA-ATAT
96909 AAATAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.25
15 10 0.23
16 4 0.09
17 2 0.05
18 8 0.18
19 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATATTATTATATTA
Found at i:96855 original size:35 final size:34
Alignment explanation
Indices: 96807--96917 Score: 99
Period size: 35 Copynumber: 3.2 Consensus size: 34
96797 AGTGTTATAT
96807 TATATTTTAAAAATATTAATTAGTA-TAAT-TTAAA
1 TATATTTTAAAAATATT-ATTA-TATTAATATTAAA
*
96841 TATATTTATTAAAATATTATTATATTAATATTAAA
1 TATATTT-TAAAAATATTATTATATTAATATTAAA
96876 TATA---TAAATAATATTATTCATTATTAAATATATAAA
1 TATATTTTAAA-AATATTATT-A-TATT-AATAT-TAAA
96912 TA-ATTT
1 TATATTT
96918 ATTATATATT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
31 3 0.05
32 9 0.14
33 3 0.05
34 19 0.30
35 24 0.38
36 6 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (34 bp):
TATATTTTAAAAATATTATTATATTAATATTAAA
Found at i:96907 original size:28 final size:29
Alignment explanation
Indices: 96852--97030 Score: 119
Period size: 29 Copynumber: 6.2 Consensus size: 29
96842 ATATTTATTA
*
96852 AAAT-ATTATTATATTAATATTAAATATAT
1 AAATAATTATTATA-TATTATTAAATATAT
96881 AAATAA-TATTAT-TCATTATTAAATATAT
1 AAATAATTATTATAT-ATTATTAAATATAT
*
96909 AAATAATTTATTATATATTATTAAA-ATAA
1 AAATAA-TTATTATATATTATTAAATATAT
* *
96938 AAATATAATATCT-TATATTA-T-ATTATTAT
1 AAATA-ATTAT-TATATATTATTAAATA-TAT
*
96967 ATATAATTGATTAT-T-TTATTATAATAT-T
1 AAATAATT-ATTATATATTATTA-AATATAT
* *
96995 AAA-AATATAATATCATATTATTAGATATAT
1 AAATAAT-TATTAT-ATATTATTAAATATAT
*
97025 TAATAA
1 AAATAA
97031 ATATATTTTA
Statistics
Matches: 118, Mismatches: 12, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
27 12 0.10
28 30 0.25
29 43 0.36
30 30 0.25
31 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (29 bp):
AAATAATTATTATATATTATTAAATATAT
Found at i:96946 original size:59 final size:58
Alignment explanation
Indices: 96857--97030 Score: 146
Period size: 59 Copynumber: 3.0 Consensus size: 58
96847 TATTAAAATA
* *
96857 TTATTATATTAATATT-AAATATATAA-ATAATATTATTCATTATTAAATATATAAATAAT
1 TTATTATA-TATTATTAAAATA-AAAATATAATATTATT-ATTATTAAATATATAAATAAT
* * *
96916 TTATTATATATTATTAAAATAAAAATATAATA-TCTTA-TATTATATTATTATATATAAT
1 TTATTATATATTATTAAAATAAAAATATAATATTATTATTATTA-AATA-TATAAATAAT
* * * *
96974 TGATTAT-T-TTATTATAATATTAAAAATATAATATCA-TATTATTAGATATATTAATAA
1 TTATTATATATTATTA-AA-A-TAAAAATATAATATTATTATTATTAAATATATAAATAA
97031 ATATATTTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
56 11 0.12
57 7 0.07
58 35 0.37
59 36 0.38
60 5 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (58 bp):
TTATTATATATTATTAAAATAAAAATATAATATTATTATTATTAAATATATAAATAAT
Found at i:97024 original size:64 final size:65
Alignment explanation
Indices: 96906--97035 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 65
96896 TTATTAAATA
* * *
96906 TATAAATAATTTATTATATATTATTA-AA-A-TAAAAATATAATATC---TTA-TATTATATTAT
1 TATATATAATTGATTATATATTATTATAATATTAAAAATATAATATCATATTATTAATATATTAT
96964 TATATATAATTGATTAT-T-TTATTATAATATTAAAAATATAATATCATATTATTAGATATATTA
1 TATATATAATTGATTATATATTATTATAATATTAAAAATATAATATCATATTATTA-ATATATTA
*
97027 A
65 T
*
97028 TAAATATA
1 TATATATA
97036 TTTTAAATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
56 6 0.10
57 3 0.05
58 16 0.27
59 15 0.25
62 3 0.05
63 2 0.03
64 14 0.24
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (65 bp):
TATATATAATTGATTATATATTATTATAATATTAAAAATATAATATCATATTATTAATATATTAT
Found at i:97045 original size:23 final size:24
Alignment explanation
Indices: 97009--97077 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
96999 ATATAATATC
*
97009 ATATTATTAGATATATTAATAAAT
1 ATATTATTAAATATATTAATAAAT
* *
97033 ATATT-TTAAATATTTTAATAATT
1 ATATTATTAAATATATTAATAAAT
*
97056 AATATGATTAAAATGATATTAA
1 -ATATTATT-AAAT-ATATTAA
97078 AATGTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 15 0.42
24 9 0.25
25 2 0.06
26 4 0.11
27 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATTATTAAATATATTAATAAAT
Found at i:97305 original size:42 final size:42
Alignment explanation
Indices: 97258--97347 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
97248 TTCCTCCAAC
* * *
97258 CAAACAC-TGAAAAACATTTTTCGAAAAACAAATTACGTGAAA
1 CAAACACATG-AAAACATTTTCCAAAAAACAAATTACATGAAA
* *
97300 CAAACACATGAAAATATTTTCCAAAAAACAAATTATATGAAA
1 CAAACACATGAAAACATTTTCCAAAAAACAAATTACATGAAA
97342 CAAACA
1 CAAACA
97348 TAGAATTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.21
Consensus pattern (42 bp):
CAAACACATGAAAACATTTTCCAAAAAACAAATTACATGAAA
Found at i:98896 original size:26 final size:26
Alignment explanation
Indices: 98867--98918 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
98857 TACATGTGCC
98867 AGATGGGCGACGGCCCAGGGCAGCAT
1 AGATGGGCGACGGCCCAGGGCAGCAT
98893 AGATGGGCGACGGCCCAGGGCAGCAT
1 AGATGGGCGACGGCCCAGGGCAGCAT
98919 GTAAGGTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.42, T:0.08
Consensus pattern (26 bp):
AGATGGGCGACGGCCCAGGGCAGCAT
Found at i:101363 original size:2 final size:2
Alignment explanation
Indices: 101356--101393 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
101346 AAACAATGAA
101356 AT AT AT AT AT AT AT AT 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
101394 CTTAACCGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102371 original size:23 final size:23
Alignment explanation
Indices: 102353--102432 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 23
102343 AAGCGCTATA
102353 TATTATGTTAAACAGGCGCTACC
1 TATTATGTTAAACAGGCGCTACC
*
102376 TATTATGTTAAATAGGCGCTACC
1 TATTATGTTAAACAGGCGCTACC
* * * **
102399 TATTACGTTAAATAAGCATTACC
1 TATTATGTTAAACAGGCGCTACC
102422 TATTATGTTAA
1 TATTATGTTAA
102433 TTTATCTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (23 bp):
TATTATGTTAAACAGGCGCTACC
Found at i:102409 original size:46 final size:46
Alignment explanation
Indices: 102339--102432 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
102329 TGGTAAAATA
* * * *
102339 AAATAAGCGCTATATATTATGTTAAACAGGCGCTACCTATTATGTT
1 AAATAAGCGCTACATATTACGTTAAACAAGCACTACCTATTATGTT
* * * *
102385 AAATAGGCGCTACCTATTACGTTAAATAAGCATTACCTATTATGTT
1 AAATAAGCGCTACATATTACGTTAAACAAGCACTACCTATTATGTT
102431 AA
1 AA
102433 TTTATCTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (46 bp):
AAATAAGCGCTACATATTACGTTAAACAAGCACTACCTATTATGTT
Found at i:102448 original size:144 final size:143
Alignment explanation
Indices: 102274--102804 Score: 511
Period size: 144 Copynumber: 3.6 Consensus size: 143
102264 TAAAATAGGC
* * *
102274 TACCTATTACGTTAAAATACCTACCAGTTTGTTT-AATGGTTACTAATAATGTAAATGGTAAAAT
1 TACCTATTATGTTAAAATACCTACCGGTTTGTTTGAA-GGTTACTAATAATGTAAACGGTAAAAT
** *
102338 AAAATA-AGCGCTATATATTATGTTAAACAGGCGCTACCTATTATGTTAAATAGGCGCTACCTAT
65 AAAATAGA-CGCTACCTATTATGTTAAA-AGGCACTACCTATTATGTTAAATAGGCGCTACCTAT
102402 TACGTTAAATAAGCAT
128 TACGTTAAATAAGCAT
** * * * *
102418 TACCTATTATGTTAATTTATCTATCGGTTTGTTTGAAGATTACTAATAATGTAAACGATAAAAAT
1 TACCTATTATGTTAAAATACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACGGT-AAAAT
* * *** * ** *
102483 AAAATAGATGCTACCTATTATATTAAAATATA-TACC-AGTT-TGTTTAA-AGGTTACTA-ATAA
65 AAAATAGACGCTACCTATTATGTTAAAAGGCACTACCTA-TTATGTTAAATAGG-CGCTACCT-A
* * **
102543 TATAAATGATAAAATAAAATAGACGC
127 T-T--ACG-TTAAAT---A-AG-CAT
* * *
102569 TACCTATTACGTTAAAATACCTACCGGTTTGTTTAAAAGTTACTAATAATGTAAACGGTAAAATA
1 TACCTATTATGTTAAAATACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAATA
* * * *
102634 AAATAGACGATACTTATTATGTTAAATAGGCACTACTTATTATGTTAAATAGGCGCAACCTATTA
66 AAATAGACGCTACCTATTATGTTAAA-AGGCACTACCTATTATGTTAAATAGGCGCTACCTATTA
*
102699 CGTTAAATAAG-TT
130 CGTTAAATAAGCAT
* *
102712 CTACCTATTATGTTAAACTACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACAGTAAAAT
1 -TACCTATTATGTTAAAATACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAAT
* *
102777 AAAATAGGCGCTACCTATTACGTTAAAA
65 AAAATAGACGCTACCTATTATGTTAAAA
102805 TACATACTGG
Statistics
Matches: 305, Mismatches: 60, Indels: 45
0.74 0.15 0.11
Matches are distributed among these distances:
141 4 0.01
142 12 0.04
143 8 0.03
144 130 0.43
145 32 0.10
146 7 0.02
149 6 0.02
150 32 0.10
151 53 0.17
152 6 0.02
153 11 0.04
154 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (143 bp):
TACCTATTATGTTAAAATACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAATA
AAATAGACGCTACCTATTATGTTAAAAGGCACTACCTATTATGTTAAATAGGCGCTACCTATTAC
GTTAAATAAGCAT
Found at i:102584 original size:75 final size:75
Alignment explanation
Indices: 102182--102659 Score: 314
Period size: 75 Copynumber: 6.4 Consensus size: 75
102172 CTTAACCGGT
* * * *
102182 TAAAATAAAATAGGA-GTTACCTCTATTATGTTAAATTATC-TACCGGTTTGTTTTAAGGTTACT
1 TAAAATAAAATA-GACGCTA-C-CTATTATGTTAAAATA-CATACCAGTTTGTTTAAAGGTTACT
*
102245 AATAATGTAAACGG
62 AATAATGTAAACGA
* * *
102259 TAAAATAAAATAG--GCTACCTATTACGTTAAAATACCTACCAGTTTGTTTAATGGTTACTAATA
1 TAAAATAAAATAGACGCTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAGGTTACTAATA
* *
102322 ATGTAAATGG
66 ATGTAAACGA
** ** * * **
102332 TAAAATAAAATA-AGCGCTATATATTATGTTAAACAGGCGCTACCTA-TTATGTTAAATAGG-CG
1 TAAAATAAAATAGA-CGCTACCTATTATGTTAAA-ATAC-ATACC-AGTT-TGTTTAA-AGGTTA
*
102394 CTACCT-AT-T--ACG-
60 CTA-ATAATGTAAACGA
* * * * * * * *
102406 TTAAATAAGCAT-TAC-CTA-TTATGTTAAT-TT---AT-C-TATCGGTTTGTTTGAAGATTACT
1 TAAAATAA-AATAGACGCTACCTA--TT-ATGTTAAAATACATACCAGTTTGTTTAAAGGTTACT
102462 AATAATGTAAACGA
62 AATAATGTAAACGA
* * *
102476 TAAAAATAAAATAGATGCTACCTATTATATTAAAATATATACCAGTTTGTTTAAAGGTTACTAAT
1 T-AAAATAAAATAGACGCTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAGGTTACTAAT
* *
102541 AATATAAATGA
65 AATGTAAACGA
* * * *
102552 TAAAATAAAATAGACGCTACCTATTACGTTAAAATACCTACCGGTTTGTTTAAAAGTTACTAATA
1 TAAAATAAAATAGACGCTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAGGTTACTAATA
*
102617 ATGTAAACGG
66 ATGTAAACGA
* *
102627 TAAAATAAAATAGACGATACTTATTATGTTAAA
1 TAAAATAAAATAGACGCTACCTATTATGTTAAA
102660 TAGGCACTAC
Statistics
Matches: 314, Mismatches: 55, Indels: 66
0.72 0.13 0.15
Matches are distributed among these distances:
65 3 0.01
66 10 0.03
67 6 0.02
69 4 0.01
70 6 0.02
71 11 0.04
72 6 0.02
73 64 0.20
74 15 0.05
75 119 0.38
76 35 0.11
77 20 0.06
78 12 0.04
79 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (75 bp):
TAAAATAAAATAGACGCTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAGGTTACTAATA
ATGTAAACGA
Found at i:102670 original size:23 final size:23
Alignment explanation
Indices: 102648--102728 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
102638 AGACGATACT
*
102648 TATTATGTTAAATAGGCACTACT
1 TATTATGTTAAATAGGCACTACC
* *
102671 TATTATGTTAAATAGGCGCAACC
1 TATTATGTTAAATAGGCACTACC
* * **
102694 TATTACGTTAAATAAGTTCTACC
1 TATTATGTTAAATAGGCACTACC
102717 TATTATGTTAAA
1 TATTATGTTAAA
102729 CTACCTACCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (23 bp):
TATTATGTTAAATAGGCACTACC
Found at i:102719 original size:295 final size:293
Alignment explanation
Indices: 102182--102878 Score: 983
Period size: 295 Copynumber: 2.4 Consensus size: 293
102172 CTTAACCGGT
* * * *
102182 TAAAATAAAATAGGA-GTTACCTCTATTATGTTAAATTATCTACCGGTTTGTTTTAAGGTTACTA
1 TAAAATAAAATA-GACGCTA-C-CTATTATGTTAAAATATATACCGGTTTGTTTAAAGGTTACTA
102246 ATAATGTAAACGGTAAAATAAAATAG-GCTACCTATTACGTTAAAATACCTACCAGTTTGTTTAA
63 ATAATGTAAACGGTAAAATAAAATAGCGCTACCTATTACGTTAAAATACCTACCAGTTTGTTTAA
** * * *
102310 TGGTTACTAATAATGTAAATGGTAAAATAAAATAAGCGCTATATATTATGTTAAACAGGCGCTAC
128 AAGTTACTAATAATGTAAACGGTAAAATAAAATAAGCGATATATATTATGTTAAACAGGCACTAC
* ** *
102375 CTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAGCATTACCTATTATGTTAATTTATCT
193 CTATTATGTTAAATAGGCGCAACCTATTACGTTAAATAAGCATTACCTATTATGTTAAACTACCT
*
102440 ATCGGTTTGTTTGAAGATTACTAATAATGTAAAC-G
258 ACCGGTTTGTTTGAAGATTACTAATAATGTAAACAG
* * *
102475 ATAAAAATAAAATAGATGCTACCTATTATATTAAAATATATACCAGTTTGTTTAAAGGTTACTAA
1 -T-AAAATAAAATAGACGCTACCTATTATGTTAAAATATATACCGGTTTGTTTAAAGGTTACTAA
* * * *
102540 TAATATAAATGATAAAATAAAATAGACGCTACCTATTACGTTAAAATACCTACCGGTTTGTTTAA
64 TAATGTAAACGGTAAAATAAAATAG-CGCTACCTATTACGTTAAAATACCTACCAGTTTGTTTAA
*
102605 AAGTTACTAATAATGTAAACGGTAAAATAAAAT-AGACGATACT-TATTATGTTAAATAGGCACT
128 AAGTTACTAATAATGTAAACGGTAAAATAAAATAAG-CGATA-TATATTATGTTAAACAGGCACT
* *
102668 ACTTATTATGTTAAATAGGCGCAACCTATTACGTTAAATAAG-TTCTACCTATTATGTTAAACTA
191 ACCTATTATGTTAAATAGGCGCAACCTATTACGTTAAATAAGCAT-TACCTATTATGTTAAACTA
*
102732 CCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACAG
255 CCTACCGGTTTGTTTGAAGATTACTAATAATGTAAACAG
* * * *
102771 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGACGCTACCTATTATGTTAAAATATATACCGGTTTGTTTAAAGGTTACTAATA
* *
102836 ATGTATACGGTAAAATAAAATAGGCGCTACCTATTATGTTAAA
66 ATGTAAACGGTAAAATAAAATA-GCGCTACCTATTACGTTAAA
102879 TAGGCGCTAC
Statistics
Matches: 358, Mismatches: 36, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
293 60 0.17
294 100 0.28
295 196 0.55
296 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (293 bp):
TAAAATAAAATAGACGCTACCTATTATGTTAAAATATATACCGGTTTGTTTAAAGGTTACTAATA
ATGTAAACGGTAAAATAAAATAGCGCTACCTATTACGTTAAAATACCTACCAGTTTGTTTAAAAG
TTACTAATAATGTAAACGGTAAAATAAAATAAGCGATATATATTATGTTAAACAGGCACTACCTA
TTATGTTAAATAGGCGCAACCTATTACGTTAAATAAGCATTACCTATTATGTTAAACTACCTACC
GGTTTGTTTGAAGATTACTAATAATGTAAACAG
Found at i:102754 original size:219 final size:219
Alignment explanation
Indices: 102493--102888 Score: 623
Period size: 219 Copynumber: 1.8 Consensus size: 219
102483 AAAATAGATG
* *
102493 CTACCTATTATATTAAAATATATACCAGTTTGTTTAAAGGTTACTAATAATATAAA-TGATAAAA
1 CTACCTATTATATTAAAATACATACCAGTTTGTTTAAAGGTTACTAATAATATAAACAG-TAAAA
*
102557 TAAAATAGACGCTACCTATTACGTTAAAATACCTACCGGTTTGTTTAAAAGTTACTAATAATGTA
65 TAAAATAGACGCTACCTATTACGTTAAAATACATACCGGTTTGTTTAAAAGTTACTAATAATGTA
*
102622 AACGGTAAAATAAAATAGACGATACTTATTATGTTAAATAGGCACTACTTATTATGTTAAATAGG
130 AACGGTAAAATAAAATAGACGATACCTATTATGTTAAATAGGCACTACTTATTATGTTAAATAGG
102687 CGCAACCTATTACGTTAAATAAGTT
195 CGCAACCTATTACGTTAAATAAGTT
* * * * * *
102712 CTACCTATTATGTTAAACTACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACAGTAAAAT
1 CTACCTATTATATTAAAATACATACCAGTTTGTTTAAAGGTTACTAATAATATAAACAGTAAAAT
* * * *
102777 AAAATAGGCGCTACCTATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAT
66 AAAATAGACGCTACCTATTACGTTAAAATACATACCGGTTTGTTTAAAAGTTACTAATAATGTAA
* * *
102842 ACGGTAAAATAAAATAGGCGCTACCTATTATGTTAAATAGGCGCTAC
131 ACGGTAAAATAAAATAGACGATACCTATTATGTTAAATAGGCACTAC
102889 CTTTTACATT
Statistics
Matches: 159, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
219 158 0.99
220 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (219 bp):
CTACCTATTATATTAAAATACATACCAGTTTGTTTAAAGGTTACTAATAATATAAACAGTAAAAT
AAAATAGACGCTACCTATTACGTTAAAATACATACCGGTTTGTTTAAAAGTTACTAATAATGTAA
ACGGTAAAATAAAATAGACGATACCTATTATGTTAAATAGGCACTACTTATTATGTTAAATAGGC
GCAACCTATTACGTTAAATAAGTT
Found at i:102827 original size:75 final size:75
Alignment explanation
Indices: 102712--102878 Score: 167
Period size: 75 Copynumber: 2.2 Consensus size: 75
102702 TAAATAAGTT
* * * * * * *
102712 CTACCTATTATGTTAAACTACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAA-CAGTAAAA
1 CTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAAGTTACTAATAATATAAAGGA-TAAAA
*
102776 TAAAATAGGCG
65 TAAAATAGACG
* ** * * *
102787 CTACCTATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTATACGG-TAAAA
1 CTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAAGTTACTAATAATATA-AAGGATAAAA
*
102851 TAAAATAGGCG
65 TAAAATAGACG
102862 CTACCTATTATGTTAAA
1 CTACCTATTATGTTAAA
102879 TAGGCGCTAC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
75 81 0.99
76 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (75 bp):
CTACCTATTATGTTAAAATACATACCAGTTTGTTTAAAAGTTACTAATAATATAAAGGATAAAAT
AAAATAGACG
Found at i:102882 original size:23 final size:23
Alignment explanation
Indices: 102853--102924 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
102843 CGGTAAAATA
102853 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
* **
102876 AAATAGGCGCTACCTTTTACATT
1 AAATAGGCGCTACCTATTATGTT
** *
102899 AAATAAACGCTACATATTATGTT
1 AAATAGGCGCTACCTATTATGTT
102922 AAA
1 AAA
102925 CTACCTACCG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTATGTT
Found at i:102994 original size:196 final size:194
Alignment explanation
Indices: 102657--103261 Score: 836
Period size: 196 Copynumber: 3.1 Consensus size: 194
102647 TTATTATGTT
* * * **
102657 AAATAGGCACTACTTATTATGTTAAATAGGCGCAACCTATTACGTTAAATAAGTTCTACCTATTA
1 AAATAGGCGCTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAGCGCTACCTATTA
* * **
102722 TGTTAAACTACCTACCGGTTTGTTTGAAGGTTACTAATAATGTAAACAGTAAAATAAAATAGGCG
66 TGTTAAACTACCTACCGGTTTGTTTGAAGGTTATTAATAATGTAAACAGTAAAAT-AAATTGATG
* * *
102787 CTACCTATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTATACGGTAAAAT
130 CTACCTATTACGTTAAAATAC-TACCGGTTTGTTTAAAGGTTACTAATAATGTAAACGATAAAAT
102852 A
194 A
* * * *
102853 AAATAGGCGCTACCTATTATGTTAAATAGGCGCTACCTTTTACATTAAATAAACGCTACATATTA
1 AAATAGGCGCTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAGCGCTACCTATTA
* * *
102918 TGTTAAACTACCTACCGGTTTGTTTGAATGTTATTAATAATGTAAACTGTAAAATAAAGTTGATA
66 TGTTAAACTACCTACCGGTTTGTTTGAAGGTTATTAATAATGTAAACAGTAAAATAAA-TTGATG
* *
102983 ATACTTATTACGTTAAAATACCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACGATAAAAT
130 CTACCTATTACGTTAAAATA-CTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACGATAAAAT
103048 A
194 A
*
103049 AAATAGGCGCTACCTATTTTGTTAAATAGGCGCTACCTATTACGTTAAATAAGCGCTACCTATTA
1 AAATAGGCGCTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAGCGCTACCTATTA
* * * * * *
103114 TGTTAAATTGCCTA-CGGTTT-TTTTAAGGTTATTAATAATGTAAACGGTAAAATAAAATAAGTG
66 TGTTAAACTACCTACCGGTTTGTTTGAAGGTTATTAATAATGTAAACAGTAAAATAAATTGA-TG
* * *
103177 CTACCTATTACGTTAAAATATCTACCGGTTTGTTTAAATGTTACTAATAATGAAAATGATAAAAT
130 CTACCTATTACGTTAAAATA-CTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACGATAAAAT
103242 A
194 A
* * *
103243 AAATTGACGTTACCTATTA
1 AAATAGGCGCTACCTATTA
103262 ACCGTTTGAA
Statistics
Matches: 362, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
193 2 0.01
194 109 0.30
195 9 0.02
196 241 0.67
197 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (194 bp):
AAATAGGCGCTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAGCGCTACCTATTA
TGTTAAACTACCTACCGGTTTGTTTGAAGGTTATTAATAATGTAAACAGTAAAATAAATTGATGC
TACCTATTACGTTAAAATACTACCGGTTTGTTTAAAGGTTACTAATAATGTAAACGATAAAATA
Found at i:103073 original size:75 final size:75
Alignment explanation
Indices: 102899--103074 Score: 201
Period size: 75 Copynumber: 2.3 Consensus size: 75
102889 CTTTTACATT
* * * * *
102899 AAATAAACGCTACATATTATGTTAAACTACCTACCGGTTTGTTTGAATGTTATTAATAATGTAAA
1 AAATAGACGCTACATATTATGTTAAAATACCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAA
102964 CTGTAAAATA
66 CTGTAAAATA
* * *** * *
102974 AAGTTGATAATACTTATTACGTTAAAATACCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAA
1 AAATAGACGCTACATATTATGTTAAAATACCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAA
103039 C-GATAAAATA
66 CTG-TAAAATA
* * *
103049 AAATAGGCGCTACCTATTTTGTTAAA
1 AAATAGACGCTACATATTATGTTAAA
103075 TAGGCGCTAC
Statistics
Matches: 79, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
74 1 0.01
75 78 0.99
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (75 bp):
AAATAGACGCTACATATTATGTTAAAATACCTACCGGTTTGTTTAAAGGTTACTAATAATGTAAA
CTGTAAAATA
Found at i:103078 original size:23 final size:23
Alignment explanation
Indices: 103049--103121 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
103039 CGATAAAATA
*
103049 AAATAGGCGCTACCTATTTTGTT
1 AAATAGGCGCTACCTATTATGTT
*
103072 AAATAGGCGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTATGTT
*
103095 AAATAAGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
103118 AAAT
1 AAAT
103122 TGCCTACGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTATGTT
Found at i:103261 original size:75 final size:72
Alignment explanation
Indices: 103095--103246 Score: 169
Period size: 75 Copynumber: 2.1 Consensus size: 72
103085 CTATTACGTT
* * * * * * *
103095 AAATAAGCGCTACCTATTATGTTAAATTGCCTACGGTTTTTTTAAGGTTATTAATAATGTAAACG
1 AAATAAG-TCTACCTATTACGTTAAAATACCTACGGTTTTTTAAAGGTTACTAATAATGAAAACG
*
103160 GTAAAATA
65 ATAAAATA
* *
103168 AAATAAGTGCTACCTATTACGTTAAAATATCTACCGGTTTGTTTAAATGTTACTAATAATGAAAA
1 AAATAAGT-CTACCTATTACGTTAAAATACCTA-CGGTTT-TTTAAAGGTTACTAATAATGAAAA
*
103233 TGATAAAATA
63 CGATAAAATA
103243 AAAT
1 AAAT
103247 TGACGTTACC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 27 0.42
74 6 0.09
75 32 0.49
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (72 bp):
AAATAAGTCTACCTATTACGTTAAAATACCTACGGTTTTTTAAAGGTTACTAATAATGAAAACGA
TAAAATA
Found at i:103922 original size:106 final size:106
Alignment explanation
Indices: 103724--104227 Score: 375
Period size: 107 Copynumber: 4.6 Consensus size: 106
103714 TGTTATTATT
* * * *
103724 TATTAATAACAAAATAAAAAATTAACCTATTTTGTTGTCGTGGGATTTCGAAGGCTTCATCAGCT
1 TATTAATAACAAAAT-AAAAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGC-CCATCAGCT
* * *
103789 TAAATTTTGGTAACATTTTAAGTGTTACCTAATATGTTGATAA
64 TAAACTTTGATAACATTTTAAGCGTTACCTAATATGTTGATAA
** * * * * *
103832 TATTAATAACAAAATAAAAATTAATATATTTTATTTTCATCGGATTTTTAAGTCCCATCAGCTTA
1 TATTAATAACAAAATAAAAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCATCAGCTTA
* * *
103897 AACTTTGATAATATTTTAGGCGTTACCTAATTTGTTGATAA
66 AACTTTGATAACATTTTAAGCGTTACCTAATATGTTGATAA
* * * *
103938 TATTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCTATCAGCTT
1 TATTAATAACAAAATAA-AAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCATCAGC-T
* * * * * ** *
104003 TAAAAAGACGCTACCT-ATTACATTAAATAAGCGCTACTTGTTATGTT-ATTA
64 T---AA-A--CT--TTGATAACATT--TTAAGCGTTACCTAATATGTTGATAA
* * **** ** * * *
104054 TGGTTGATAA-TGTTTCCAGTAATTAGCCTATTTTGTTATCGTTGAATTTCTAAGGCTCCATCAG
1 T-ATTAATAACAAAAT--AAAAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGC-CCATCAG
* * *
104118 CTTAAACTTTGATAACATTTTAGGCGCTACCTAATCTGTTGATAA
62 CTTAAACTTTGATAACATTTTAAGCGTTACCTAATATGTTGATAA
* * * ** *
104163 TATTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTTAGATTTCTAAGGTCCATCAGCTT
1 TATTAATAACAAAATAA-AAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCATCAGCTT
104228 TAAAAGGTGC
Statistics
Matches: 311, Mismatches: 65, Indels: 41
0.75 0.16 0.10
Matches are distributed among these distances:
106 60 0.19
107 77 0.25
108 72 0.23
109 7 0.02
110 7 0.02
111 4 0.01
112 1 0.00
113 1 0.00
114 4 0.01
115 6 0.02
116 7 0.02
117 57 0.18
118 8 0.03
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (106 bp):
TATTAATAACAAAATAAAAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCATCAGCTTA
AACTTTGATAACATTTTAAGCGTTACCTAATATGTTGATAA
Found at i:106493 original size:14 final size:15
Alignment explanation
Indices: 106474--106502 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
106464 ATGGGATAAT
106474 ATATATTT-ATCAAA
1 ATATATTTGATCAAA
106488 ATATATTTGATCAAA
1 ATATATTTGATCAAA
106503 TATGGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATATTTGATCAAA
Found at i:106594 original size:26 final size:27
Alignment explanation
Indices: 106549--106603 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
106539 TTGCATATAT
*
106549 TAAATTTTAAAATTAGTCTTGGAAATA
1 TAAATTTTAAAATTAGTCTTAGAAATA
106576 TAAA-TTTAAAACTTA-TCTTAGAAATA
1 TAAATTTTAAAA-TTAGTCTTAGAAATA
106602 TA
1 TA
106604 TTATAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAATTTTAAAATTAGTCTTAGAAATA
Found at i:107809 original size:18 final size:18
Alignment explanation
Indices: 107770--107818 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
107760 GTTTAATCTC
* *
107770 AAGAAGAAGAAAATGAAG
1 AAGAAGAAGAAGATGAAA
*
107788 AAGAAGAAGAAGATTAAA
1 AAGAAGAAGAAGATGAAA
*
107806 AAGAAAAAGAAGA
1 AAGAAGAAGAAGA
107819 GTTGAAGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.06
Consensus pattern (18 bp):
AAGAAGAAGAAGATGAAA
Found at i:110981 original size:15 final size:15
Alignment explanation
Indices: 110961--110999 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
110951 TCCTATGGTA
110961 GAAGAAGAGTCAGAT
1 GAAGAAGAGTCAGAT
*
110976 GAAGAAGAGTCATAT
1 GAAGAAGAGTCAGAT
110991 GAAGAAGAG
1 GAAGAAGAG
111000 GTTCAGACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.33, T:0.13
Consensus pattern (15 bp):
GAAGAAGAGTCAGAT
Done.