Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 39
Found at i:5007088 original size:18 final size:18
Alignment explanation
Indices: 5007065--5007102 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
5007055 CCCGTTGACT
5007065 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
5007083 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
5007101 CG
1 CG
5007103 TTGACCGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.50, G:0.24, T:0.11
Consensus pattern (18 bp):
CGACCCGTTGACCCGACC
Found at i:5007095 original size:8 final size:8
Alignment explanation
Indices: 5007084--5007130 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
5007074 GACCCGACCC
5007084 GACCCGTT
1 GACCCGTT
5007092 GACCC---
1 GACCCGTT
5007097 GACCCGTT
1 GACCCGTT
5007105 GA-CCGTT
1 GACCCGTT
*
5007112 GACCCATT
1 GACCCGTT
5007120 GA-CCGTT
1 GACCCGTT
5007127 GACC
1 GACC
5007131 GGAGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
5 5 0.16
7 13 0.41
8 14 0.44
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:5007095 original size:13 final size:13
Alignment explanation
Indices: 5007035--5007108 Score: 76
Period size: 13 Copynumber: 5.3 Consensus size: 13
5007025 GTCACAACCC
5007035 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
5007048 TACTCGACCCGTT
1 GACCCGACCCGTT
*
5007061 GACTCGACCCGTT
1 GACCCGACCCGTT
5007074 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
5007092 GACCCGACCCGTT
1 GACCCGACCCGTT
5007105 GACC
1 GACC
5007109 GTTGACCCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 40 0.77
18 12 0.23
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:5007121 original size:15 final size:15
Alignment explanation
Indices: 5007097--5007130 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5007087 CCGTTGACCC
*
5007097 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
5007112 GACCCATTGACCGTT
1 GACCCATTGACCGTT
5007127 GACC
1 GACC
5007131 GGAGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:5008517 original size:43 final size:42
Alignment explanation
Indices: 5008457--5008539 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
5008447 ACAAATGATG
5008457 AAATTGAATTAAATAATAAGA-TCGGATGGAGGAAAAAGATAT
1 AAATTGAATTAAATAATAAGACT-GGATGGAGGAAAAAGATAT
5008499 AAATTGGAATTAAATAATAAGACTGGATGGAGGAAAAAGAT
1 AAATT-GAATTAAATAATAAGACTGGATGGAGGAAAAAGAT
5008540 TGAAATACCG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
42 5 0.13
43 33 0.85
44 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.23
Consensus pattern (42 bp):
AAATTGAATTAAATAATAAGACTGGATGGAGGAAAAAGATAT
Found at i:5011954 original size:18 final size:18
Alignment explanation
Indices: 5011931--5011968 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
5011921 CCCGTTGAAT
5011931 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
5011949 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
5011967 CG
1 CG
5011969 TTGACCGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.50, G:0.24, T:0.11
Consensus pattern (18 bp):
CGACCCGTTGACCCGACC
Found at i:5011961 original size:8 final size:8
Alignment explanation
Indices: 5011950--5011996 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
5011940 GACCCGACCC
5011950 GACCCGTT
1 GACCCGTT
5011958 GACCC---
1 GACCCGTT
5011963 GACCCGTT
1 GACCCGTT
5011971 GA-CCGTT
1 GACCCGTT
*
5011978 GACCCATT
1 GACCCGTT
5011986 GA-CCGTT
1 GACCCGTT
5011993 GACC
1 GACC
5011997 GGAGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
5 5 0.16
7 13 0.41
8 14 0.44
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:5011961 original size:13 final size:13
Alignment explanation
Indices: 5011901--5011974 Score: 67
Period size: 13 Copynumber: 5.3 Consensus size: 13
5011891 GTCACAACCC
5011901 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
5011914 TACTCGACCCGTT
1 GACCCGACCCGTT
**
5011927 GAATCGACCCGTT
1 GACCCGACCCGTT
5011940 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
5011958 GACCCGACCCGTT
1 GACCCGACCCGTT
5011971 GACC
1 GACC
5011975 GTTGACCCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 39 0.78
18 11 0.22
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:5011987 original size:15 final size:15
Alignment explanation
Indices: 5011963--5011996 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5011953 CCGTTGACCC
*
5011963 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
5011978 GACCCATTGACCGTT
1 GACCCATTGACCGTT
5011993 GACC
1 GACC
5011997 GGAGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:5013383 original size:43 final size:42
Alignment explanation
Indices: 5013323--5013405 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
5013313 ACAAATGATG
5013323 AAATTGAATTAAATAATAAGA-TCGGATGGAGGAAAAAGATAT
1 AAATTGAATTAAATAATAAGACT-GGATGGAGGAAAAAGATAT
5013365 AAATTGGAATTAAATAATAAGACTGGATGGAGGAAAAAGAT
1 AAATT-GAATTAAATAATAAGACTGGATGGAGGAAAAAGAT
5013406 TGAAATACCG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
42 5 0.13
43 33 0.85
44 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.23
Consensus pattern (42 bp):
AAATTGAATTAAATAATAAGACTGGATGGAGGAAAAAGATAT
Found at i:5016137 original size:18 final size:18
Alignment explanation
Indices: 5016116--5016150 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5016106 TCCCATCTAG
5016116 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
5016134 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
5016151 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:5016761 original size:21 final size:21
Alignment explanation
Indices: 5016731--5016775 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5016721 ATTTTGTCGT
* *
5016731 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
5016752 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
5016773 TTG
1 TTG
5016776 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:5020190 original size:149 final size:149
Alignment explanation
Indices: 5019931--5020234 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
5019921 CGAAGTTCCC
* *
5019931 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
5019996 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATATTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATATTCCAAAGAATATA
5020061 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
5020080 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
* *
5020145 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATATTCCAAAGAATATA
*
5020210 CATATGTCTCGAAGAACCG
131 CATATGTCCCGAAGAACCG
5020229 CGTAGA
1 CGTAGA
5020235 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATATTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:5020916 original size:23 final size:23
Alignment explanation
Indices: 5020866--5020910 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
5020856 TAATTCAATT
5020866 TCATATAACTCCTATAATCTTTC
1 TCATATAACTCCTATAATCTTTC
*
5020889 TCATATAACTTC-ATAAT-TTTC
1 TCATATAACTCCTATAATCTTTC
5020910 T
1 T
5020911 ATCATACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 11 0.52
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (23 bp):
TCATATAACTCCTATAATCTTTC
Found at i:5020988 original size:18 final size:18
Alignment explanation
Indices: 5020967--5021001 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5020957 TCCCATCTAG
5020967 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
5020985 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
5021002 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:5021612 original size:21 final size:21
Alignment explanation
Indices: 5021582--5021626 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5021572 ATTTTGTCGT
* *
5021582 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
5021603 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
5021624 TTG
1 TTG
5021627 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:5023836 original size:184 final size:184
Alignment explanation
Indices: 5023523--5023871 Score: 637
Period size: 184 Copynumber: 1.9 Consensus size: 184
5023513 ATATCAGCAT
*
5023523 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
* *
5023588 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATATGTATACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACC
5023653 TATATCGACACTTTTTAATATTGTGTCGC-TACTTTATGTCCAGAATAGATGAAA
131 TATATCGACACTTTTTAATATTGTGTC-CATACTTTATGTCCAGAATAGATGAAA
5023707 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
* *
5023772 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACC
5023837 TATATCGACACTTTTTAATATTGTGTCCATACTTT
131 TATATCGACACTTTTTAATATTGTGTCCATACTTT
5023872 TAAGTAACGC
Statistics
Matches: 159, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 1 0.01
184 158 0.99
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCACAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACC
TATATCGACACTTTTTAATATTGTGTCCATACTTTATGTCCAGAATAGATGAAA
Found at i:5027203 original size:182 final size:182
Alignment explanation
Indices: 5026572--5027599 Score: 1717
Period size: 182 Copynumber: 5.6 Consensus size: 182
5026562 TTTTACATTT
* * *
5026572 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
5026637 AACAATATAACAGGTAAAAATATAACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
5026702 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
5026754 TTTAAAAGAGAAG-AGTTACAGCGTCAATAAAGTGTCGATACTTTATAAAAATATATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
5026818 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
5026883 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
5026933 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTTTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * *
5026997 TAACAATATAACAAGTAAAAATATGACAAAACCGATCTCGAAATGACAAAACAGGTAAAACGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
**
5027062 CCGAATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
5027115 TTTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
5027180 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
5027245 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
5027297 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTAAATGTATCG
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTAT---AA---AAATGTATCG
*
5027362 ATCCATAACAATATAACAGGTAAAAATATGACAAAAACGGTCTCGAAATGACAAAACAGGTAAAG
60 ATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAG
*
5027427 CGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
125 CGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
5027485 -TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* ** * *
5027549 TAATAATATAACATATAAAAATATGATAAAACCGATCT-GTAAATGACAAAA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCG-AAATGACAAAA
5027600 GGTGAACGCA
Statistics
Matches: 799, Mismatches: 34, Indels: 26
0.93 0.04 0.03
Matches are distributed among these distances:
178 4 0.01
179 18 0.02
180 146 0.18
181 150 0.19
182 296 0.37
183 4 0.01
185 4 0.01
187 4 0.01
188 173 0.22
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:5027514 original size:370 final size:362
Alignment explanation
Indices: 5026572--5027599 Score: 1731
Period size: 370 Copynumber: 2.8 Consensus size: 362
5026562 TTTTACATTT
* * *
5026572 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
5026637 AACAATATAACAGGTAAAAATATAACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
5026702 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
* * *
5026767 -AGTTACAGCGTCAATAAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAT
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
5026831 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
261 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
5026896 AGTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 AGTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
* *
5026933 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTTTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * *
5026997 TAACAATATAACAAGTAAAAATATGACAAAACCGATCTCGAAATGACAAAACAGGTAAAACGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
*
5027062 CCGAATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
130 CCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
*
5027127 GAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
195 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
*
5027192 GGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
260 TGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
5027257 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
325 AAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
5027297 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTAAATGTATCG
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTAT---AA---AAATGTATCG
*
5027362 ATCCATAACAATATAACAGGTAAAAATATGACAAAAACGGTCTCGAAATGACAAAACAGGTAAAG
60 ATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAG
5027427 CGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATA
125 CGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-A
*
5027491 AGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAAT
189 AGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
* * *
5027556 ATAACATATAAAAATATGATAAAACCGATCT-GTAAATGACAAAA
254 ATAACATGTAAAAATATGACAAAACCGGTCTCG-AAATGACAAAA
5027600 GGTGAACGCA
Statistics
Matches: 624, Mismatches: 30, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
360 4 0.01
361 178 0.29
362 151 0.24
364 50 0.08
365 4 0.01
367 2 0.00
369 5 0.01
370 230 0.37
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (362 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
AGTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
Found at i:5029072 original size:186 final size:187
Alignment explanation
Indices: 5028756--5029316 Score: 1097
Period size: 186 Copynumber: 3.0 Consensus size: 187
5028746 ACATTTTAAA
5028756 TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGATTTTTTT
1 TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGA-TTTTTT
5028821 TTATTTTGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAA
65 TTATTTTGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAA
5028886 AATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
130 AATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
5028944 TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGA-TTTTTT
1 TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGATTTTTTT
*
5029008 TATTTGGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAAA
66 TATTTTGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAAA
5029073 ATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
131 ATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
5029130 TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGATTTTTTT
1 TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGATTTTTTT
5029195 TATTTTGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAAA
66 TATTTTGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAAA
5029260 ATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
131 ATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
5029317 GGTATGATTT
Statistics
Matches: 370, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
186 185 0.50
187 127 0.34
188 58 0.16
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.49
Consensus pattern (187 bp):
TACAATGTCACGATTATATAGTTATTTTGTGATATTATCTTAGTTTCATATGTTTAGATTTTTTT
TATTTTGTAAGAAATAATCATAATATGACAAATTTTGATATTTTACAATTTCGTTTTATTATAAA
ATATTTTAGTGGTCTCATTTTAAAAAGTATCACATGATTTGTACATTTTTTTAGATG
Found at i:5042223 original size:15 final size:15
Alignment explanation
Indices: 5042203--5042231 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5042193 CGTTTTTACA
5042203 TTACACTATTCATTT
1 TTACACTATTCATTT
5042218 TTACACTATTCATT
1 TTACACTATTCATT
5042232 CCATGGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (15 bp):
TTACACTATTCATTT
Found at i:5050804 original size:11 final size:10
Alignment explanation
Indices: 5050790--5050844 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
5050780 AAAACCCACT
5050790 AAAATTGGAAA
1 AAAATT-GAAA
5050801 AAAA-TGAAAA
1 AAAATTG-AAA
5050811 AAAATTGAAA
1 AAAATTGAAA
5050821 AAAAGTTG-AA
1 AAAA-TTGAAA
5050831 AAAA-TGAAA
1 AAAATTGAAA
5050840 AAAAT
1 AAAAT
5050845 GAAGTTGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.05
9 7 0.18
10 21 0.54
11 9 0.23
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (10 bp):
AAAATTGAAA
Found at i:5053076 original size:20 final size:20
Alignment explanation
Indices: 5053051--5053088 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5053041 GAATTCTAGA
*
5053051 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
5053071 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
5053089 TAAAAAAAGG
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:5053788 original size:103 final size:103
Alignment explanation
Indices: 5053563--5053780 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
5053553 GTAGAGGGTC
*
5053563 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
5053628 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATACTTGGCATATGTATATGATTCTTAAGGAATGA
5053666 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5053731 TTGATACTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATACTTGGCATATGTATATGATTCTTAAGGAATGA
5053769 TATGTGGTCCTT
1 TATGTGGTCCTT
5053781 ATGGACATTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATACTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:5053823 original size:23 final size:23
Alignment explanation
Indices: 5053797--5053864 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
5053787 ATTATTATAT
5053797 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTATGC
* * *
5053820 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTATGC
*
5053843 GGCACTTA-GGTGCAATTATATG
1 GGCAC-TACGGTGCAATTCTATG
5053865 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 37 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTATGC
Found at i:5059930 original size:21 final size:21
Alignment explanation
Indices: 5059888--5059930 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5059878 TTTCTGGGCT
* *
5059888 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
5059909 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
5059930 A
1 A
5059931 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:5060648 original size:103 final size:103
Alignment explanation
Indices: 5060469--5060787 Score: 611
Period size: 103 Copynumber: 3.1 Consensus size: 103
5060459 GGTGGAGGGT
* * *
5060469 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTTTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATA
5060534 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
5060572 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATA
5060637 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
5060675 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATA
5060740 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
5060778 ATATGTGGTC
1 ATATGTGGTC
5060788 TTTATGGACG
Statistics
Matches: 213, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATA
CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
Found at i:5060840 original size:23 final size:23
Alignment explanation
Indices: 5060807--5060869 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
5060797 GTTATTATAT
5060807 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
5060830 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
5060853 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
5060870 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:5062591 original size:149 final size:150
Alignment explanation
Indices: 5062402--5062717 Score: 564
Period size: 150 Copynumber: 2.1 Consensus size: 150
5062392 GGGTAGAGGG
* *
5062402 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* *
5062466 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
5062531 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
5062551 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
5062616 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
5062681 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
5062701 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
5062718 TGCATTTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
149 52 0.32
150 108 0.68
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:5064358 original size:2 final size:2
Alignment explanation
Indices: 5064351--5064382 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5064341 GCTAAAGTCC
5064351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5064383 AATCCCGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5064911 original size:9 final size:9
Alignment explanation
Indices: 5064897--5064922 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5064887 TTGCCTGAAG
5064897 AAAAGAAAT
1 AAAAGAAAT
5064906 AAAAGAAAT
1 AAAAGAAAT
5064915 AAAAGAAA
1 AAAAGAAA
5064923 AGAGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AAAAGAAAT
Found at i:5064924 original size:23 final size:23
Alignment explanation
Indices: 5064894--5064983 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 23
5064884 ACTTTGCCTG
5064894 AAGAAAAGA-AATAAA-AGAAATAA
1 AAGAAAAGAGAA-AAATAGAAA-AA
5064917 AAGAAAAGAGAAAAATAGAAAAA
1 AAGAAAAGAGAAAAATAGAAAAA
* * *
5064940 TAGAAAAAAGAAGAA-AGAAAAA
1 AAGAAAAGAGAAAAATAGAAAAA
* *
5064962 ATAAAAAATA-AAAAATA-AAAAA
1 A-AGAAAAGAGAAAAATAGAAAAA
5064984 CAAATAAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
22 16 0.29
23 33 0.59
24 7 0.12
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (23 bp):
AAGAAAAGAGAAAAATAGAAAAA
Found at i:5064936 original size:8 final size:8
Alignment explanation
Indices: 5064920--5064983 Score: 66
Period size: 7 Copynumber: 8.5 Consensus size: 8
5064910 GAAATAAAAG
*
5064920 AAAAGAGA
1 AAAATAGA
5064928 AAAATAGA
1 AAAATAGA
5064936 AAAATAGA
1 AAAATAGA
5064944 AAAA-AGA
1 AAAATAGA
*
5064951 AGAA-AGAA
1 AAAATAG-A
5064959 AAAATA-A
1 AAAATAGA
5064966 AAAATA-A
1 AAAATAGA
5064973 AAAATA-A
1 AAAATAGA
5064980 AAAA
1 AAAA
5064984 CAAATAAATG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
7 27 0.53
8 23 0.45
9 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (8 bp):
AAAATAGA
Found at i:5066368 original size:56 final size:56
Alignment explanation
Indices: 5066261--5066371 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
5066251 AAATCAAACT
* * *
5066261 CGATTCAATCTTCTCTGAAGAGCAATAGAGTGAATCAAAGCTTTCGGATCTGATCC
1 CGATTCAATCTTCCCTGAAGAGCAATAGAGTGAATCAAAGCTTCCAGATCTGATCC
* * * *
5066317 CGATTCAATCTTCCCTGAAGAGCAGTAGATTGAATCAATG-TCTCCATATCTGATC
1 CGATTCAATCTTCCCTGAAGAGCAATAGAGTGAATCAAAGCT-TCCAGATCTGATC
5066372 TACCCTGAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.02
56 46 0.98
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (56 bp):
CGATTCAATCTTCCCTGAAGAGCAATAGAGTGAATCAAAGCTTCCAGATCTGATCC
Found at i:5066610 original size:130 final size:131
Alignment explanation
Indices: 5066317--5066665 Score: 416
Period size: 130 Copynumber: 2.7 Consensus size: 131
5066307 GATCTGATCC
* * * *
5066317 CGATTCAATCTTCCCTGAAGAGCAGT-AGATTGAATCAATGTCTCCATATCTGATCTACCCTGAA
1 CGATTAAATCTTCCCTGAAGAGCAGTGA-AGTGAATCAATGTTTCCAGATCTGATCTACCCTGAA
* * * * * * * * *
5066381 GAGAAGTAGAGCAGATCCC-TTTATTCAGATTTGATCTTTCCTAAGGAGCAGTGGAACAAATCTT
65 GAGTAGTGGAGCAGATCCCTTTTAAT-AGATTTGATCTTCCCTAAGAAACAATAGAACAAATATT
5066445 CGT
129 CGT
* * ** *
5066448 CGATTTAATCTTCCCTGAAGAGCAGTGGAGTGAATCAACATTTCCAGATCTGATATACCCTGAAG
1 CGATTAAATCTTCCCTGAAGAGCAGTGAAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAG
* *
5066513 AGTAGTGGAGCAGATCCCTTTTAAT-GATTTGATCTTCCCTGAGAAACAATAGAACAAATATTCT
66 AGTAGTGGAGCAGATCCCTTTTAATAGATTTGATCTTCCCTAAGAAACAATAGAACAAATATTCG
5066577 T
131 T
* * *
5066578 TGATTAAATCTTCCCTGAAGAGCAGTGAAGTGAATCAATGTTCCCAGATCTGATCTACCTTGAAG
1 CGATTAAATCTTCCCTGAAGAGCAGTGAAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAG
* * *
5066643 AGTAGCGAATCAGATCCCCTTTT
66 AGTAGTGGAGCAGAT-CCCTTTT
5066666 TTCCAGATCT
Statistics
Matches: 185, Mismatches: 30, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
130 101 0.55
131 79 0.43
132 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (131 bp):
CGATTAAATCTTCCCTGAAGAGCAGTGAAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAG
AGTAGTGGAGCAGATCCCTTTTAATAGATTTGATCTTCCCTAAGAAACAATAGAACAAATATTCG
T
Found at i:5066923 original size:3 final size:3
Alignment explanation
Indices: 5066909--5066973 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
5066899 AAACTGTTAA
* *
5066909 TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT T-T AAC TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5066954 TAT TAT TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
5066974 TCTTTTACAG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5066951 original size:29 final size:27
Alignment explanation
Indices: 5066909--5066968 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 27
5066899 AAACTGTTAA
*
5066909 TATTATTAATTATTATTATTATTATTAT
1 TATTATTAACTATTATTATTATTATT-T
5066937 TATTATTTAACTATTATTATTATTATTT
1 TATTA-TTAACTATTATTATTATTATTT
5066965 TATT
1 TATT
5066969 TTATTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TATTATTAACTATTATTATTATTATTT
Found at i:5066971 original size:26 final size:26
Alignment explanation
Indices: 5066909--5066969 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
5066899 AAACTGTTAA
* *
5066909 TATTATTAATT-ATTATTATTATTAT
1 TATTATTATTTAACTATTATTATTAT
5066934 TATTATTATTTAACTATTATTATTAT
1 TATTATTATTTAACTATTATTATTAT
5066960 TATT-TTATTT
1 TATTATTATTT
5066970 TATTTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTATTATTTAACTATTATTATTAT
Found at i:5070109 original size:2 final size:2
Alignment explanation
Indices: 5070102--5070139 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5070092 AAATATTTTA
5070102 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
5070140 TATGAAATAG
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:5070948 original size:12 final size:12
Alignment explanation
Indices: 5070931--5070957 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5070921 TTAATCGTGA
5070931 AAATTGAAATTT
1 AAATTGAAATTT
5070943 AAATTGAAATTT
1 AAATTGAAATTT
5070955 AAA
1 AAA
5070958 ACGTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:5071099 original size:19 final size:19
Alignment explanation
Indices: 5071050--5071099 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
5071040 TAAATATTTA
5071050 AATAAATCAAAGAAAAACAT
1 AATAAATCAAA-AAAAACAT
* *
5071070 AA-GAATGAAAATAAAA-AT
1 AATAAATCAAAA-AAAACAT
5071088 AATAAATCAAAA
1 AATAAATCAAAA
5071100 GGGAGAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 5 0.21
19 17 0.71
20 2 0.08
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (19 bp):
AATAAATCAAAAAAAACAT
Found at i:5071218 original size:21 final size:22
Alignment explanation
Indices: 5071194--5071241 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
5071184 AAATTGTAAA
*
5071194 AATAAAT-AAAAAGAATAAAAG
1 AATAAATCAAAAAGAAAAAAAG
*
5071215 AATAAATCAAAAGGAAAAAAAG
1 AATAAATCAAAAAGAAAAAAAG
5071237 -ATAAA
1 AATAAA
5071242 GAGTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (22 bp):
AATAAATCAAAAAGAAAAAAAG
Found at i:5071220 original size:27 final size:26
Alignment explanation
Indices: 5071138--5071213 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
5071128 ATCAATTGGG
* *
5071138 AAAATAAAATAAAAATAAAAATATATT-
1 AAAAT-AAATAAAAAGAAAAA-AAATTA
*
5071165 -AAATAAATCAAAAGAAAAAAAATTGTA
1 AAAATAAATAAAAAGAAAAAAAA-T-TA
*
5071192 AAAATAAATAAAAAGAATAAAA
1 AAAATAAATAAAAAGAAAAAAA
5071214 GAATAAATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 2 0.05
25 14 0.35
26 5 0.12
28 19 0.47
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAATAAATAAAAAGAAAAAAAATTA
Found at i:5073256 original size:86 final size:85
Alignment explanation
Indices: 5073133--5073518 Score: 531
Period size: 86 Copynumber: 4.5 Consensus size: 85
5073123 AATCGAGCTT
* * * * *
5073133 GAAGGTATTTGCTGACAGATAACCCTTCTCGCCTTGAGCTATGTTGTAAATTAGATATGTCTTTG
1 GAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGTCTTTG
5073198 AGCTGAATGTAATTGAACTC
66 AGCTGAATGTAATTGAACTC
* * * *
5073218 GAAGGTCTTTTGTTGACAAATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTGGATATGCCTTT
1 GAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGTCTTT
5073283 GAGCTGAATGTAATTGAACTC
65 GAGCTGAATGTAATTGAACTC
* * * *
5073304 GAATGTATTTTGTTGACAGATAACTCTTCTCACCTTGAGCTATGCTGCAAATTTGATATG-CATT
1 GAAGGT-CTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGTC-TT
* *
5073368 TGAGCTTAATGTAATCGAACTC
64 TGAGCTGAATGTAATTGAACTC
* * * *
5073390 GAAGGTCTTGGTTGACAGATAACCTTTCTCGCCTTGAGTTATGGTGCAAATTTGATATGTCTTTG
1 GAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGTCTTTG
* *
5073455 AACTGAGTGTAATTGAACTC
66 AGCTGAATGTAATTGAACTC
* *
5073475 GAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
5073519 CGTCAATAGT
Statistics
Matches: 266, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
85 113 0.42
86 153 0.58
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
GAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATTTGATATGTCTTTG
AGCTGAATGTAATTGAACTC
Found at i:5078141 original size:85 final size:86
Alignment explanation
Indices: 5077941--5078208 Score: 423
Period size: 85 Copynumber: 3.1 Consensus size: 86
5077931 TGGTAACAAA
* * * * *
5077941 AAACGCCGCAATAGGTGTTGATATTTGGCGGC-ATTTTTCCAACAAACGCCGCAATAGGTGTTGA
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCC-ACAAACGCCGCAATAGGTCTTGA
*
5078005 GATTTAGCGGCGTTTTTCCCAA
65 GATTTAGCGGCGTTTTTCCCAC
*
5078027 AAACGCCGCAATAGGTTTTGAGATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAG
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAG
*
5078092 A-TTAGCGGCGTTTTTTCCAC
66 ATTTAGCGGCGTTTTTCCCAC
5078112 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAG
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAG
*
5078177 ATTTAGCGGAGTTTTTCCCAC
66 ATTTAGCGGCGTTTTTCCCAC
*
5078198 AAACACCGCAA
1 AAACGCCGCAA
5078209 AAGATCTGGT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
85 82 0.49
86 80 0.47
87 7 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (86 bp):
AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAG
ATTTAGCGGCGTTTTTCCCAC
Found at i:5078170 original size:128 final size:129
Alignment explanation
Indices: 5077941--5078234 Score: 416
Period size: 128 Copynumber: 2.3 Consensus size: 129
5077931 TGGTAACAAA
* * * *
5077941 AAACGCCGCAATAGGTGTTGATATTTGGCGGCATTTTTCCAACAAACGCCGCAATAGGTGTTGAG
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCATTTTTCCAACAAACGCCGCAATAGGTCTTGAG
* * *
5078006 ATTTAGCGGCGTTTTTCCCAAAAACGCCGCAATAGGTTTTGAGATTTAGCGGCGTTTTTTCCAC
66 ATTTAGCGGCGTTTTTCCCAAAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCAC
*
5078070 AAACGCCGCAATAGGTCTTGAGA-TTAGCGGCGTTTTTTCC-ACAAACGCCGCAATAGGTCTTGA
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGC-ATTTTTCCAACAAACGCCGCAATAGGTCTTGA
* *
5078133 GATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCAC
65 GATTTAGCGGCGTTTTTCCCAAAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCAC
* * * *
5078198 AAACACCGCAAAAGATC-TG-GTATATAGCGGCATTTTT
1 AAACGCCGCAATAGGTCTTGAG-ATTTAGCGGCATTTTT
5078235 TAGAACAAAT
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
126 1 0.01
127 8 0.05
128 110 0.75
129 28 0.19
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (129 bp):
AAACGCCGCAATAGGTCTTGAGATTTAGCGGCATTTTTCCAACAAACGCCGCAATAGGTCTTGAG
ATTTAGCGGCGTTTTTCCCAAAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCAC
Found at i:5078226 original size:85 final size:85
Alignment explanation
Indices: 5077974--5078235 Score: 366
Period size: 85 Copynumber: 3.1 Consensus size: 85
5077964 TTTGGCGGCA
* *
5077974 TTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAAAAACGCCGCAAT
1 TTTTTCC-ACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAACGCCGCAA-
* * *
5078039 AGGTTTTGAGATTTAGCGGCGT
64 AAGATCTGAGATTTAGCGGCGT
* *
5078061 TTTTTCCACAAACGCCGCAATAGGTCTTGAGA-TTAGCGGCGTTTTTTCCACAAACGCCGCAATA
1 TTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAACGCCGCAAAA
*
5078125 GGTCTTGAGATTTAGCGGCGT
66 GATC-TGAGATTTAGCGGCGT
* *
5078146 TTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAA
1 TTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAACGCCGCAAAA
* *
5078211 GATCTG-GTATATAGCGGCAT
66 GATCTGAG-ATTTAGCGGCGT
5078231 TTTTT
1 TTTTT
5078236 AGAACAAATG
Statistics
Matches: 158, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
84 3 0.02
85 93 0.59
86 55 0.35
87 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (85 bp):
TTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAACGCCGCAAAA
GATCTGAGATTTAGCGGCGT
Found at i:5078235 original size:43 final size:43
Alignment explanation
Indices: 5077941--5078208 Score: 414
Period size: 43 Copynumber: 6.3 Consensus size: 43
5077931 TGGTAACAAA
* * * *
5077941 AAACGCCGCAATAGGTGTTGATATTTGGCGGC-ATTTTTCCAAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCC-AC
* * *
5077984 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAA
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
*
5078027 AAACGCCGCAATAGGTTTTGAGATTTAGCGGCGTTTTTTCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
5078070 AAACGCCGCAATAGGTCTTGAGA-TTAGCGGCGTTTTTTCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
5078112 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
* *
5078155 AAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
*
5078198 AAACACCGCAA
1 AAACGCCGCAA
5078209 AAGATCTGGT
Statistics
Matches: 211, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 42 0.20
43 163 0.77
44 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (43 bp):
AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCAC
Found at i:5078269 original size:128 final size:128
Alignment explanation
Indices: 5077968--5078276 Score: 363
Period size: 128 Copynumber: 2.4 Consensus size: 128
5077958 TTGATATTTG
* * ** *
5077968 GCGGCATTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAAAAACGC
1 GCGGCATTTTTTCAACAAACGCCGCAAAAGGTCATGAGATATAGCGGCGTTTTTCCCAAAAACGC
* * * * * *
5078033 CGCAATAGGTTTTGAGATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAGATTA
66 CGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATCTTGAGATTA
* * * * * * *
5078096 GCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCCACAAACGC
1 GCGGCATTTTTTCAACAAACGCCGCAAAAGGTCATGAGATATAGCGGCGTTTTTCCCAAAAACGC
5078161 CGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATC-TG-GTATATA
66 CGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATCTTGAG-AT-TA
* * * **
5078224 GCGGCATTTTTTAGAACAAATGCCGCAAAATGTCAT-ATCTATAGCGGCGTTTT
1 GCGGCATTTTTT-CAACAAACGCCGCAAAAGGTCATGAGATATAGCGGCGTTTT
5078277 AAGATACAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
126 1 0.01
127 4 0.03
128 134 0.86
129 17 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (128 bp):
GCGGCATTTTTTCAACAAACGCCGCAAAAGGTCATGAGATATAGCGGCGTTTTTCCCAAAAACGC
CGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATCTTGAGATTA
Found at i:5078430 original size:21 final size:21
Alignment explanation
Indices: 5078404--5078462 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
5078394 ATTTTCCAAT
*
5078404 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
5078425 AAACTTCAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
5078446 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
5078463 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:5083440 original size:42 final size:42
Alignment explanation
Indices: 5083381--5083824 Score: 505
Period size: 42 Copynumber: 10.7 Consensus size: 42
5083371 TATGACAATT
5083381 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * *
5083423 GCGGCGTTTGGTATTAAAATGCCA-TAAAAGTACGTGCCTATA
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGAGTCTATA
* * *
5083465 GCGGCGTTTTTGTA--AAAACGCCACTAAAGTACTAATCTATA
1 GCGGCG-TTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
*
5083506 GCGGCGTTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGAGTCTATA
*
5083548 GCGGCGTTTGGTATTAAAACGCCA-TAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACT-AAAGTACGAGTCTATA
* *
5083590 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * *
5083632 GCTGCGTTTGTGTA--AAAATGCCACTAAAGTACGAGTCTGTA
1 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATA
* *
5083673 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * * * *
5083715 GCAGCGTTT-GTATAAAAACGCCACTAAAATACTAGTTTATA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
* * * ** * *
5083756 GCGGCGTTT-GTATAAAAACGCCACTACATTATTATTCTTTA
1 GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
*
5083797 GCGGCGTTT-TTA-TACAAACGCCACTAAA
1 GCGGCGTTTGGTATTA-AAACGCCACTAAA
5083825 ATATAGTATT
Statistics
Matches: 350, Mismatches: 41, Indels: 23
0.85 0.10 0.06
Matches are distributed among these distances:
40 10 0.03
41 143 0.41
42 188 0.54
43 9 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (42 bp):
GCGGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATA
Found at i:5083494 original size:83 final size:83
Alignment explanation
Indices: 5083381--5083779 Score: 572
Period size: 83 Copynumber: 4.8 Consensus size: 83
5083371 TATGACAATT
*
5083381 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAATGC
1 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGC
* *
5083445 CATAAAAGTACGTGCCTATA
64 CACAAAAGTACGTGTCTATA
* * *
5083465 GCGGCGTTTTTGTAAAAACGCCACTAAAGTACTAATCTATAGCGGCGTTTGGTATTAAAACGCCA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
*
5083530 TAAAAGTACGTGTCTATA
66 CAAAAGTACGTGTCTATA
*
5083548 GCGGCGTTTG-GTATTAAAACGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACG
1 GCGGCGTTTGTGTA--AAAACGCCACT-AAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACG
5083611 CCACAAAAGTACGTGTCTATA
63 CCACAAAAGTACGTGTCTATA
* * *
5083632 GCTGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTGTAGCGGCGTTTGGTATTAAAACGCCA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
5083697 CAAAAGTACGTGTCTATA
66 CAAAAGTACGTGTCTATA
* * * * * *
5083715 GCAGCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTT-GTATAAAAACGCCA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
5083779 C
66 C
5083780 TACATTATTA
Statistics
Matches: 287, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
82 17 0.06
83 182 0.63
84 82 0.29
85 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (83 bp):
GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
CAAAAGTACGTGTCTATA
Found at i:5083661 original size:125 final size:123
Alignment explanation
Indices: 5083381--5083781 Score: 544
Period size: 125 Copynumber: 3.2 Consensus size: 123
5083371 TATGACAATT
*
5083381 GCGGCGTTTG-GTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAATGC
1 GCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGC
* * *
5083445 CATAAAAGTACGTGCCTATAGCGGCGTTTTTGTA-AAAACGCCACTAAAGTACTAATCTATA
64 CATAAAAGTACGTGTCTATAGCGGCG--TTTGTATAAAACGCCACAAAAGTACTAGTCTATA
*
5083506 GCGGCGTTTG-GTATTAAAACGCCA-TAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACG
1 GCGGCGTTTGTGTA--AAAACGCCACT-AAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACG
5083569 CCATAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGT-GTCTATA
63 CCATAAAAGTACGTGTCTATAGCGGCGTTT-GTA-TAAAACGCCACAAAAGTAC-TAGTCTATA
* * *
5083632 GCTGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTGTAGCGGCGTTTGGTATTAAAACGCCA
1 GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
* * *
5083697 CAAAAGTACGTGTCTATAGCAGCGTTTGTATAAAAACGCCACTAAAA-TACTAGTTTATA
66 TAAAAGTACGTGTCTATAGCGGCGTTTGTAT-AAAACGCCAC-AAAAGTACTAGTCTATA
*
5083756 GCGGCGTTTGTATAAAAACGCCACTA
1 GCGGCGTTTGTGTAAAAACGCCACTA
5083782 CATTATTATT
Statistics
Matches: 251, Mismatches: 15, Indels: 21
0.87 0.05 0.07
Matches are distributed among these distances:
123 5 0.02
124 49 0.20
125 160 0.64
126 33 0.13
127 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (123 bp):
GCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCA
TAAAAGTACGTGTCTATAGCGGCGTTTGTATAAAACGCCACAAAAGTACTAGTCTATA
Found at i:5083861 original size:81 final size:82
Alignment explanation
Indices: 5083384--5083862 Score: 273
Period size: 83 Copynumber: 5.8 Consensus size: 82
5083374 GACAATTGCG
* * * * * *
5083384 GCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGGTATTAAAATGCCA-T
1 GCGTTT-GTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTT-GTATAAAAACGCCACT
* * * * *
5083448 A-A-AAGTACGTGCCTATAGCG
64 ACATTATTA--T-TCTTTAGCA
* * * * * *
5083468 GCGTTTTTGTAAAAACGCCACTAAAGTACTAATCTATAGCGGCGTTTGGTATTAAAACGCCA-TA
1 GCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTT-GTATAAAAACGCCACTA
* * * *
5083532 -A-AAGTACGTGTCTATAGCG
65 CATTATTA--T-TCTTTAGCA
* * *
5083551 GCGTTTGGTATTAAAACGCCA-TAAAAGTACGT-GTCTATAGCGGCGTTTGGTATTAAAACGCCA
1 GCGTTT-GTATAAAAACGCCACTAAAA-TAC-TAGTTTATAGCGGCGTTT-GTATAAAAACGCCA
* * * * * * *
5083614 CAAAAGTACGT-GTCTATAGCT
62 CTACATTA-TTATTCTTTAGCA
* * * * * * * *
5083635 GCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTGTAGCGGCGTTTGGTATTAAAACGCCACAA
1 GCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTT-GTATAAAAACGCCACTA
* * * * *
5083700 AAGTACGT-GTCTATAGCA
65 CATTA-TTATTCTTTAGCA
5083718 GCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTTGTATAAAAACGCCACTAC
1 GCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTTGTATAAAAACGCCACTAC
*
5083783 ATTATTATTCTTTAGCG
66 ATTATTATTCTTTAGCA
* * *
5083800 GCGTTTTTATACAAACGCCACTAAAATA-TAGTATT-TTGCGGCGTTTGT-TCAAAAACGCCACT
1 GCGTTTGTATAAAAACGCCACTAAAATACTAGT-TTATAGCGGCGTTTGTAT-AAAAACGCCACT
5083862 A
64 A
5083863 TATTTAAACA
Statistics
Matches: 343, Mismatches: 40, Indels: 27
0.84 0.10 0.07
Matches are distributed among these distances:
80 1 0.00
81 30 0.09
82 53 0.15
83 185 0.54
84 68 0.20
85 2 0.01
86 1 0.00
87 1 0.00
88 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (82 bp):
GCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTTGTATAAAAACGCCACTAC
ATTATTATTCTTTAGCA
Found at i:5085048 original size:2 final size:2
Alignment explanation
Indices: 5085041--5085070 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5085031 AACATCGTAA
5085041 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
5085071 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5092621 original size:20 final size:21
Alignment explanation
Indices: 5092598--5092643 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
5092588 TCCATTGTTG
5092598 TTTCTGT-ACTATTA-TTGCTT
1 TTTCTGTAACTATTACTT-CTT
* *
5092618 TTTCAGTAACTTTTACTTCTT
1 TTTCTGTAACTATTACTTCTT
5092639 TTTCT
1 TTTCT
5092644 TCCACTTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.29
21 13 0.62
22 2 0.10
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTCTGTAACTATTACTTCTT
Found at i:5096154 original size:3 final size:3
Alignment explanation
Indices: 5096146--5096208 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
5096136 CCATATTGAT
* *
5096146 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5096194 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
5096209 AATATATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5096721 original size:15 final size:15
Alignment explanation
Indices: 5096701--5096742 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
5096691 TCTCAGCAGC
5096701 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
5096716 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
5096731 AAAGAAGAGAAA
1 AAAGAAAAGAAA
5096743 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:5096726 original size:20 final size:20
Alignment explanation
Indices: 5096701--5096742 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5096691 TCTCAGCAGC
*
5096701 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
5096721 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
5096741 AA
1 AA
5096743 CTTACCGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:5097541 original size:27 final size:27
Alignment explanation
Indices: 5097511--5097592 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
5097501 TTAAATGTGT
5097511 TCATTTATTTTACTGCTTTTAAATATA
1 TCATTTATTTTACTGCTTTTAAATATA
* *
5097538 TCATTCTAATTGTA-T--TTTT--ATCGT-
1 TCATT-T-ATTTTACTGCTTTTAAAT-ATA
5097562 T-ATTTATTTTACTGCTTTTAAATATA
1 TCATTTATTTTACTGCTTTTAAATATA
5097588 TCATT
1 TCATT
5097593 ATAATTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 3 0.07
24 7 0.17
25 2 0.05
26 7 0.17
27 8 0.20
28 2 0.05
29 5 0.12
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (27 bp):
TCATTTATTTTACTGCTTTTAAATATA
Found at i:5097575 original size:50 final size:50
Alignment explanation
Indices: 5097513--5097608 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
5097503 AAATGTGTTC
*
5097513 ATTTATTTTACTGCTTTTAAATATATCATTCTAATTGTATTTTTATCGTT
1 ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTATCGTT
5097563 ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTAT
1 ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTAT
5097609 TGCTTTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.58
Consensus pattern (50 bp):
ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTATCGTT
Found at i:5109087 original size:9 final size:9
Alignment explanation
Indices: 5109065--5109138 Score: 59
Period size: 9 Copynumber: 8.3 Consensus size: 9
5109055 ATGCTTGAAG
5109065 AAAA-AGAA
1 AAAAGAGAA
*
5109073 AAAAGAGAG
1 AAAAGAGAA
*
5109082 AAAAGAAAA
1 AAAAGAGAA
5109091 AGAAAGAGATGA
1 A-AAAGAGA--A
5109103 AAAA-A-AA
1 AAAAGAGAA
5109110 GAAAA-AGAA
1 -AAAAGAGAA
5109119 AAAAGAGAA
1 AAAAGAGAA
5109128 AAAAGA-AA
1 AAAAGAGAA
5109136 AAA
1 AAA
5109139 GGGGGTCAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
7 1 0.02
8 18 0.33
9 24 0.44
10 7 0.13
11 3 0.05
12 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:5109089 original size:22 final size:22
Alignment explanation
Indices: 5109062--5109137 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
5109052 ATTATGCTTG
*
5109062 AAGAAAAAGAAAAAAGAGAGAA
1 AAGAAAAAGAAAAAAGAGAAAA
* *
5109084 AAGAAAAAGAAAGAGATGAAAAAA
1 AAGAAAAAGAAA-A-AAGAGAAAA
5109108 AAGAAAAAGAAAAAAGAGAAAA
1 AAGAAAAAGAAAAAAGAGAAAA
5109130 AAGAAAAA
1 AAGAAAAA
5109138 AGGGGGTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 27 0.57
23 2 0.04
24 18 0.38
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (22 bp):
AAGAAAAAGAAAAAAGAGAAAA
Found at i:5109092 original size:15 final size:15
Alignment explanation
Indices: 5109066--5109137 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
5109056 TGCTTGAAGA
*
5109066 AAAAGAAAAAAGAGAG
1 AAAAG-AAAAAGAAAG
5109082 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
* *
5109097 AGATGAAAAA-AAAG
1 AAAAGAAAAAGAAAG
5109111 AAAAAGAAAAAAGAGAA-
1 -AAAAG-AAAAAGA-AAG
5109128 AAAAGAAAAA
1 AAAAGAAAAA
5109138 AGGGGGTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
14 4 0.09
15 25 0.53
16 15 0.32
17 1 0.02
18 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:5109131 original size:40 final size:40
Alignment explanation
Indices: 5109060--5109135 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
5109050 ATATTATGCT
* *
5109060 TGAAGAAAAAGAAAAAAGAGAGAAAAGAAAAAGAAAGAGA
1 TGAAAAAAAAGAAAAAAGAGAAAAAAGAAAAAGAAAGAGA
5109100 TGAAAAAAAAG-AAAAAGA-AAAAAGAGAAAAAAGAAA
1 TGAAAAAAAAGAAAAAAGAGAAAAA-AG-AAAAAGAAA
5109136 AAAGGGGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 4 0.12
39 9 0.28
40 19 0.59
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (40 bp):
TGAAAAAAAAGAAAAAAGAGAAAAAAGAAAAAGAAAGAGA
Found at i:5109137 original size:6 final size:6
Alignment explanation
Indices: 5109062--5109121 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
5109052 ATTATGCTTG
* * * *
5109062 AAGAAA AAGAAA AA-AGA GAG-AA AAGAAA AAGAAA GAGATGA AA-AAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA-AA AAGAAA
5109108 AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AA
5109122 AGAGAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
5 9 0.21
6 31 0.74
7 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:5109486 original size:16 final size:16
Alignment explanation
Indices: 5109458--5109494 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
5109448 CAATTCTATC
5109458 TATTTCAAGTTCAATT
1 TATTTCAAGTTCAATT
5109474 TATTT-AAGATTCAATT
1 TATTTCAAG-TTCAATT
5109490 TATTT
1 TATTT
5109495 TCGAAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (16 bp):
TATTTCAAGTTCAATT
Found at i:5110425 original size:83 final size:83
Alignment explanation
Indices: 5110286--5110879 Score: 1134
Period size: 83 Copynumber: 7.2 Consensus size: 83
5110276 GAATAAATGC
5110286 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110351 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
5110369 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110434 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
5110452 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110517 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
5110535 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110600 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
5110618 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110683 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* * *
5110701 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110766 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
5110784 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
5110849 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
5110867 AATTTGCTCATAG
1 AATGTGCTCATAG
5110880 TAGAAATAAG
Statistics
Matches: 506, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 506 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:5111879 original size:113 final size:112
Alignment explanation
Indices: 5111695--5112441 Score: 1111
Period size: 113 Copynumber: 6.6 Consensus size: 112
5111685 TGGATTGACA
*
5111695 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
5111760 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTG-CTGAATTCATCACTTGATGGATCAGCT
*
5111808 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
*
5111873 AGAATTTGTTTAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTG-CTGAATTCATCACTTGATGGATCAGCT
*
5111921 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
* * *
5111986 AGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAGCC
66 AGAATTTGTTCAACCTTTT-GCTGAATTCATCACTTGATGGATCAGCT
* *
5112034 TTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
* * * *
5112099 AGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATAGATTAGCT
66 AGAATTTGTTCAACCTTTTGCTGAATTC-ATCACTTGATGGATCAGCT
**** *
5112147 TTTCCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
* * * *
5112212 AGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATAGATTAGCT
66 AGAATTTGTTCAACCTTTTGCTGAATTC-ATCACTTGATGGATCAGCT
**** *
5112260 TTTCCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
* * * *
5112325 AGAATTTGTTCAGA-TTTTTGCTCAAATCCATCACTTGATGGATCAACT
66 AGAATTTGTTCA-ACCTTTTGCT-GAATTCATCACTTGATGGATCAGCT
* *
5112373 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC-GAAAGAGGGATGAAGAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGAAGGATGAAGAAGTTCATAATGAG
5112437 AAGAA
65 AAGAA
5112442 CTCATCAAGA
Statistics
Matches: 596, Mismatches: 33, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
112 7 0.01
113 585 0.98
114 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTGCTGAATTCATCACTTGATGGATCAGCT
Found at i:5112708 original size:3 final size:3
Alignment explanation
Indices: 5112700--5112759 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
5112690 CCATATTGAT
* *
5112700 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5112748 TTA TTA TTA TTA
1 TTA TTA TTA TTA
5112760 AATATATTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5114092 original size:27 final size:27
Alignment explanation
Indices: 5114062--5114143 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
5114052 TTAAATGTGT
5114062 TCATTTATTTTACTGCTTTTAAATATA
1 TCATTTATTTTACTGCTTTTAAATATA
*
5114089 TCATTCTAATTGTA-T--TTTT--ATCAT-
1 TCATT-T-ATTTTACTGCTTTTAAAT-ATA
5114113 T-ATTTATTTTACTGCTTTTAAATATA
1 TCATTTATTTTACTGCTTTTAAATATA
5114139 TCATT
1 TCATT
5114144 ATAATTGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 3 0.07
24 7 0.16
25 4 0.09
26 7 0.16
27 8 0.19
28 2 0.05
29 5 0.12
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (27 bp):
TCATTTATTTTACTGCTTTTAAATATA
Found at i:5114126 original size:50 final size:50
Alignment explanation
Indices: 5114064--5114159 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
5114054 AAATGTGTTC
*
5114064 ATTTATTTTACTGCTTTTAAATATATCATTCTAATTGTATTTTTATCATT
1 ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTATCATT
5114114 ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTAT
1 ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTAT
5114160 TTCTTTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.58
Consensus pattern (50 bp):
ATTTATTTTACTGCTTTTAAATATATCATTATAATTGTATTTTTATCATT
Found at i:5114157 original size:26 final size:25
Alignment explanation
Indices: 5114078--5114158 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 25
5114068 ATTTTACTGC
5114078 TTTTAAATATATCATTCTAATTGTAT
1 TTTTAAATATATCATT-TAATTGTAT
*
5114104 TTTT--ATCAT-T-ATTT-ATTTTACT
1 TTTTAAAT-ATATCATTTAATTGTA-T
5114126 GCTTTTAAATATATCATTATAATTGTAT
1 --TTTTAAATATATCATT-TAATTGTAT
5114154 TTTTA
1 TTTTA
5114159 TTTCTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 3 0.07
24 7 0.16
25 4 0.09
26 12 0.28
27 3 0.07
28 2 0.05
29 5 0.12
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTTAAATATATCATTTAATTGTAT
Found at i:5114232 original size:26 final size:23
Alignment explanation
Indices: 5114203--5114255 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
5114193 AAATATATAT
*
5114203 AATAAATAATAATTTATATTTTTTTC
1 AATAAAT--TAATTTA-ATATTTTTC
*
5114229 AATAAATTATTTTAATATTTTTC
1 AATAAATTAATTTAATATTTTTC
5114252 AATA
1 AATA
5114256 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
26 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATTAATTTAATATTTTTC
Found at i:5117958 original size:23 final size:24
Alignment explanation
Indices: 5117932--5117987 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
5117922 TACTTTCGTA
*
5117932 TTATAAATAT-TTATTATAATTAT
1 TTATAAATATATTATAATAATTAT
*
5117955 TTATAAAT-TATTATAATAATTTT
1 TTATAAATATATTATAATAATTAT
5117978 TTA-AAATATA
1 TTATAAATATA
5117988 AATAGAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATAAATATATTATAATAATTAT
Found at i:5118128 original size:26 final size:28
Alignment explanation
Indices: 5118099--5118168 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
5118089 TATTAAATAA
*
5118099 TAATTTATGAAAATAAT-AAA-TATTAT
1 TAATTTATAAAAATAATGAAATTATTAT
* * *
5118125 TAATTTATTATATTAATGAAATTATTAT
1 TAATTTATAAAAATAATGAAATTATTAT
5118153 TATTATTTATAAAAAT
1 TA--ATTTATAAAAAT
5118169 TGATAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 14 0.41
27 3 0.09
28 8 0.24
30 9 0.26
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TAATTTATAAAAATAATGAAATTATTAT
Found at i:5121022 original size:53 final size:54
Alignment explanation
Indices: 5120928--5121036 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 54
5120918 ATTGGTGTTC
* * * *
5120928 ACCTGAACCCGAGTTGGACCTGAAAATTATGGATCTGAACCCGACCTGCATCCG
1 ACCTGAACCCGAATTGAACCTGAAAATTATGGATCCGAACCCGAACTGCATCCG
5120982 ACCTGAACCCGAATTGAACC-GAAAA-TAT-GATACCCGAACCCGAACTGCATCCG
1 ACCTGAACCCGAATTGAACCTGAAAATTATGGAT--CCGAACCCGAACTGCATCCG
5121035 AC
1 AC
5121037 TGATATGAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
51 3 0.06
52 3 0.06
53 25 0.51
54 18 0.37
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.17
Consensus pattern (54 bp):
ACCTGAACCCGAATTGAACCTGAAAATTATGGATCCGAACCCGAACTGCATCCG
Found at i:5121263 original size:17 final size:17
Alignment explanation
Indices: 5121230--5121330 Score: 72
Period size: 17 Copynumber: 6.1 Consensus size: 17
5121220 TTTTAAATTT
5121230 ATAA-TAAATTA--ATG
1 ATAATTAAATTATTATG
5121244 ATAATTAAATTATTATG
1 ATAATTAAATTATTATG
*
5121261 ATAATTAAATTAATATG
1 ATAATTAAATTATTATG
* *
5121278 ATTACTTTTTAAA--ATT-TT
1 A-TA---ATTAAATTATTATG
*
5121296 ATCA-TAAATTATTATG
1 ATAATTAAATTATTATG
*
5121312 ATAATTAAATTAATATG
1 ATAATTAAATTATTATG
5121329 AT
1 AT
5121331 TACTTTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.06
14 4 0.06
15 10 0.15
16 4 0.06
17 34 0.51
18 4 0.06
19 2 0.03
21 5 0.07
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (17 bp):
ATAATTAAATTATTATG
Found at i:5121361 original size:51 final size:51
Alignment explanation
Indices: 5121249--5121344 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
5121239 TAATGATAAT
5121249 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTAAAATTTTATCA
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTAAAATTTTATCA
5121300 TAAATTATTATGATAATTAAATTAATATGATTAC-TTTTAAAATTT
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTAAAATTT
5121345 AGTTTTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 11 0.24
51 34 0.76
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (51 bp):
TAAATTATTATGATAATTAAATTAATATGATTACTTTTTAAAATTTTATCA
Found at i:5123662 original size:13 final size:11
Alignment explanation
Indices: 5123546--5123664 Score: 59
Period size: 11 Copynumber: 10.6 Consensus size: 11
5123536 ATATATAAAC
5123546 TATATAATTTA
1 TATATAATTTA
**
5123557 TAT-TAATAAA
1 TATATAATTTA
5123567 CTATATAATTTA
1 -TATATAATTTA
5123579 T-TCAATATATATTA
1 TAT--ATA-AT-TTA
*
5123593 TTTATAA-TTA
1 TATATAATTTA
*
5123603 TACATAATATATA
1 TATATAAT-T-TA
* *
5123616 AATATAA-AT-
1 TATATAATTTA
* *
5123625 TGTATAGTTTA
1 TATATAATTTA
*
5123636 TATATAATTCA
1 TATATAATTTA
5123647 TATATAATTTA
1 TATATAATTTA
5123658 TATATAA
1 TATATAA
5123665 ACTATGTAGT
Statistics
Matches: 79, Mismatches: 17, Indels: 24
0.66 0.14 0.20
Matches are distributed among these distances:
9 4 0.05
10 16 0.20
11 32 0.41
12 10 0.13
13 12 0.15
14 4 0.05
15 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (11 bp):
TATATAATTTA
Found at i:5124180 original size:215 final size:215
Alignment explanation
Indices: 5123772--5124373 Score: 975
Period size: 216 Copynumber: 2.8 Consensus size: 215
5123762 TTTTATTTGC
* *
5123772 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTA-TT
*
5123837 TTTTGTATTAATTTCAACCTCAAAATTTTAAATTATTTTGATTTGATCCCT--T---T-TGTGTT
65 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTT
* * * *
5123896 ATTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
130 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTCAGTCATCCAAATTTTAT
*
5123961 TTGCATCTGAAATTGA-CTCAT
195 TTGCATATGAAATTGATC-CAT
* *
5123982 ACTTATTACTTATTTCTATTTTTAAATTGACCCATAACTTTTTAAATGGGTACAATTTAGTATTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTATTT
* *
5124047 TTTGTATTAATTTCAACATCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTG
66 TTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTG
5124112 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTCAGTCATCCAAATTTTATT
131 TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTCAGTCATCCAAATTTTATT
5124177 TGCATATGAAATTGATCCAT
196 TGCATATGAAATTGATCCAT
* * *
5124197 ACTTATTACTTAATTCTATTTTTTTAATTGGTCCATAACTTTTTAAATGGGTATAATTTAGTATT
1 ACTTATTACTTATTTCTA-TTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTATT
* *
5124262 TTTTGTATTAATTTCAACCTCATAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
65 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTT
5124327 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
130 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
5124374 TAATTCTTAA
Statistics
Matches: 364, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
209 50 0.14
210 58 0.16
211 1 0.00
214 1 0.00
215 102 0.28
216 152 0.42
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (215 bp):
ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTATTT
TTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTG
TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTCAGTCATCCAAATTTTATT
TGCATATGAAATTGATCCAT
Found at i:5129523 original size:103 final size:103
Alignment explanation
Indices: 5129298--5129515 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
5129288 GTCGAGGGTC
* *
5129298 TATGTGGTTCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5129363 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
5129401 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
5129466 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
5129504 TATGTGGTCCTT
1 TATGTGGTCCTT
5129516 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:5129581 original size:23 final size:23
Alignment explanation
Indices: 5129531--5129591 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
5129521 CATTATTATA
5129531 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
5129554 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
* *
5129577 TGGCATTTCGGTGCA
1 TGGCACTACGGTGCA
5129592 TTTATATGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:5138748 original size:2 final size:2
Alignment explanation
Indices: 5138741--5138803 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
5138731 TTCTCTTTCA
5138741 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
5138783 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
5138804 ATGAAACCTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5142085 original size:15 final size:15
Alignment explanation
Indices: 5142062--5142101 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5142052 GCTCCTACTA
*
5142062 CTTCTCCACCAACTT
1 CTTCACCACCAACTT
**
5142077 CTTCACCACCTGCTT
1 CTTCACCACCAACTT
5142092 CTTCACCACC
1 CTTCACCACC
5142102 GGCTGCGGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.50, G:0.03, T:0.30
Consensus pattern (15 bp):
CTTCACCACCAACTT
Found at i:5146177 original size:14 final size:15
Alignment explanation
Indices: 5146158--5146194 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
5146148 TACCATTTTC
5146158 TTTTCTTTTTTC-TT
1 TTTTCTTTTTTCATT
5146172 TTTTC-TTTTTCATT
1 TTTTCTTTTTTCATT
*
5146186 TTTTATTTT
1 TTTTCTTTT
5146195 AAATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 11 0.55
15 3 0.15
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTTTCATT
Found at i:5148691 original size:18 final size:18
Alignment explanation
Indices: 5148668--5148738 Score: 99
Period size: 18 Copynumber: 3.9 Consensus size: 18
5148658 AGGGATTATC
*
5148668 AGTGGTCCTTC-GAGACAT
1 AGTGGTCATTCAG-GACAT
5148686 AGTGGTCATTCAGGACAT
1 AGTGGTCATTCAGGACAT
*
5148704 AATGGTCATTCAGGACAT
1 AGTGGTCATTCAGGACAT
*
5148722 AGTGGTCATTCGGGACA
1 AGTGGTCATTCAGGACA
5148739 AATATTCAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
18 47 0.98
19 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (18 bp):
AGTGGTCATTCAGGACAT
Found at i:5155008 original size:18 final size:18
Alignment explanation
Indices: 5154985--5155033 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
5154975 AGGGATTATC
*
5154985 AGTGGTCCTTCAGAACAT
1 AGTGGTCATTCAGAACAT
*
5155003 AGTGGTCATTCGGAACAT
1 AGTGGTCATTCAGAACAT
5155021 AGTGGTCATTCAG
1 AGTGGTCATTCAG
5155034 GACAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (18 bp):
AGTGGTCATTCAGAACAT
Found at i:5155905 original size:139 final size:140
Alignment explanation
Indices: 5155692--5156184 Score: 677
Period size: 140 Copynumber: 3.5 Consensus size: 140
5155682 GAATAGGTTA
* * * * * * *
5155692 TTCTCAATATGAACTTCTTTTCCTTCATCGAATGAATTATTCTCATTATGAACTCTCCACTGGAA
1 TTCTCATTATGAACTTCTTCTCCTTTATCGGATGAATTCTTCTCATTATGAACTCTCCATTTGAA
* *
5155757 ATGTTGATCCCTCAAGCGAGGTGTTGCTAATTCAACTCCATATGCGATGAATTGAGCTATAGGTT
66 ATGTTGATCCCTCAAGCGAGGTGTTGCTGATTCAACTCCATATGCGATGAATCGAGCTATAGGTT
* *
5155822 AAACAAACTC
131 GAACAAGCTC
* *
5155832 TTCTCATTA-AAACTTCTTCTCCTTTATCGGATGAATTCTTCTCATGATGAACTCTCCATTTGAA
1 TTCTCATTATGAACTTCTTCTCCTTTATCGGATGAATTCTTCTCATTATGAACTCTCCATTTGAA
* *
5155896 ATGTTGATCCCTCAAGCGAGGTGTTGCTGATTCAACTCCATATAC-ATTTAATCGAGCTATAGGT
66 ATGTTGATCCCTCAAGCGAGGTGTTGCTGATTCAACTCCATATGCGA-TGAATCGAGCTATAGGT
* *
5155960 CGAATAAGCTC
130 TGAACAAGCTC
* *
5155971 TTCTCATTATGAACTTCTTCTCCTTTATCGGACGAGTTCTTCTCATTATGAACTCTCCATTTGAA
1 TTCTCATTATGAACTTCTTCTCCTTTATCGGATGAATTCTTCTCATTATGAACTCTCCATTTGAA
* * * *
5156036 ATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCAAGCTA-AGGTT
66 ATGTTGATCCCTCAAGCGAGGTGTTGCTGATTCAACTCCATATGCGATGAATCGAGCTATAGGTT
*
5156100 GAACAAGTTC
131 GAACAAGCTC
* * * * *
5156110 TTCTCATTATGAATTTCTTCTCCCTTTGTCTGATGAGTTCTTCTCATTATGAGCTCTCCATTTGA
1 TTCTCATTATGAACTTCTTCT-CCTTTATCGGATGAATTCTTCTCATTATGAACTCTCCATTTGA
*
5156175 AATTTTGATC
65 AATGTTGATC
5156185 GGTTCATCTT
Statistics
Matches: 313, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
138 1 0.00
139 153 0.49
140 158 0.50
141 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (140 bp):
TTCTCATTATGAACTTCTTCTCCTTTATCGGATGAATTCTTCTCATTATGAACTCTCCATTTGAA
ATGTTGATCCCTCAAGCGAGGTGTTGCTGATTCAACTCCATATGCGATGAATCGAGCTATAGGTT
GAACAAGCTC
Found at i:5157201 original size:42 final size:41
Alignment explanation
Indices: 5157123--5157265 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 41
5157113 AAGTCTTGTG
*
5157123 GATGACCCGAAGGACTTATCATCTTACTCGAAAGACTTACA
1 GATGACCCGAAGGACTTAGCATCTTACTCGAAAGACTTACA
* * *
5157164 GATGACCCGAATGATTTAAGCATCATT-CTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AGCATC-TTACTCGAAAGACTTACA
* * * * * * * *
5157206 GATGGCCCAAAGGACTTACTCATCATGCTCAAAAGATTTACT
1 GATGACCCGAAGGACTTA-GCATCTTACTCGAAAGACTTACA
*
5157248 GATGGCCCGAAGGACTTA
1 GATGACCCGAAGGACTTA
5157266 TACTGATTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
41 17 0.20
42 66 0.78
43 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCTTACTCGAAAGACTTACA
Found at i:5157223 original size:20 final size:20
Alignment explanation
Indices: 5157198--5157265 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
5157188 ATTCTCGAAA
5157198 GACTTACTGATGGCCCAAAG
1 GACTTACTGATGGCCCAAAG
* * * *
5157218 GACTTACTCATCATGCTCAAAA
1 GACTTACTGAT--GGCCCAAAG
* *
5157240 GATTTACTGATGGCCCGAAG
1 GACTTACTGATGGCCCAAAG
5157260 GACTTA
1 GACTTA
5157266 TACTGATTCG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 20 0.57
22 15 0.43
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (20 bp):
GACTTACTGATGGCCCAAAG
Found at i:5157433 original size:22 final size:22
Alignment explanation
Indices: 5157405--5157475 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
5157395 TGGCCTGAAG
5157405 GACTTACACATTATGCTCGAAA
1 GACTTACACATTATGCTCGAAA
* *
5157427 GACTTAC-CGA-T-GGCCCGAAA
1 GACTTACAC-ATTATGCTCGAAA
* *
5157447 AACTTACACATCATGCTCGAAA
1 GACTTACACATTATGCTCGAAA
5157469 GACTTAC
1 GACTTAC
5157476 TGATGACCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 14 0.37
21 3 0.08
22 21 0.55
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (22 bp):
GACTTACACATTATGCTCGAAA
Found at i:5157452 original size:42 final size:42
Alignment explanation
Indices: 5157406--5157501 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
5157396 GGCCTGAAGG
*
5157406 ACTTACACATTATGCTCGAAAGACTTACCGATGGCCCGAAAA
1 ACTTACACATTATGCTCGAAAGACTTACCGATGACCCGAAAA
* * **
5157448 ACTTACACATCATGCTCGAAAGACTTACTGATGACCCGAATG
1 ACTTACACATTATGCTCGAAAGACTTACCGATGACCCGAAAA
*
5157490 ACTTACTCATTA
1 ACTTACACATTA
5157502 AGAAAACCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
ACTTACACATTATGCTCGAAAGACTTACCGATGACCCGAAAA
Found at i:5157826 original size:36 final size:36
Alignment explanation
Indices: 5157779--5158061 Score: 354
Period size: 36 Copynumber: 7.8 Consensus size: 36
5157769 GCTTCGAATT
* * *
5157779 AAACTATCTCAAGCGAGATAAAATTCGTTTCAAGGG
1 AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGG
* *** *
5157815 AAACTATCTCAAACAAGAT-AAATTTGTTTCAAGAG
1 AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGG
*
5157850 AAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
1 AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGG
*
5157886 AAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
1 AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGG
*
5157922 AAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGGG
1 AAACTGTCTCAAGGGAGATAAAA-TTTGTTTCAAGGG
* *
5157959 AAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGG
1 AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGG
* ** *
5157995 AAACTGTCTCAAGAGAGATAAAATTTGTTTTGAGTAG
1 AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAG-GG
* *
5158032 AAACTGTCAT-AAGAGAGACAAAATTTGTTT
1 AAACTGTC-TCAAGGGAGATAAAATTTGTTT
5158062 TGAGTAAAAA
Statistics
Matches: 221, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
35 28 0.13
36 131 0.59
37 61 0.28
38 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
AAACTGTCTCAAGGGAGATAAAATTTGTTTCAAGGG
Found at i:5157884 original size:21 final size:21
Alignment explanation
Indices: 5157858--5157922 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
5157848 AGAAACTGTC
5157858 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
5157879 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
5157894 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
5157915 TCAAGGGA
1 TCAAGGGA
5157923 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 1 0.03
19 1 0.03
20 5 0.15
21 15 0.44
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:5157974 original size:73 final size:72
Alignment explanation
Indices: 5157779--5158061 Score: 381
Period size: 73 Copynumber: 3.9 Consensus size: 72
5157769 GCTTCGAATT
* * * *** *
5157779 AAACTATCTCAAGCGAGATAAAATTCGTTTCAAGGGAAACTATCTCAAACAAGA-TAAATTTGTT
1 AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTT
*
5157843 TCAAGAG
66 TCAAGGG
* * *
5157850 AAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTT
5157915 TCAAGGG
66 TCAAGGG
5157922 AAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
1 AAACTGTCTCAAGAGAGATAAAA-TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGT
5157987 TTCAAGGG
65 TTCAAGGG
** * * *
5157995 AAACTGTCTCAAGAGAGATAAAATTTGTTTTGAGTAGAAACTGTCAT-AAGAGAGACAAAATTTG
1 AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAG-GGAAACTATC-TCAAGGGAGACAAAATTTG
5158059 TTT
64 TTT
5158062 TGAGTAAAAA
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
71 46 0.24
72 45 0.24
73 98 0.52
74 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (72 bp):
AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTT
TCAAGGG
Found at i:5157993 original size:109 final size:108
Alignment explanation
Indices: 5157779--5158101 Score: 400
Period size: 109 Copynumber: 3.0 Consensus size: 108
5157769 GCTTCGAATT
* * * * *
5157779 AAACTATCTCAAGCGAGATAAAATTCGTTTCAAGGGAAACTATCTCAA-ACAAGAT-AAATTTGT
1 AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGA-GAGATAAAATTTGT
*
5157842 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
65 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGG
* *
5157886 AAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAACTTTGT
1 AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA-TTTGT
*
5157951 TTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGG
65 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGG
** * *
5157995 AAACTGTCTCAAGAGAGATAAAATTTGTTTTGAGTAGAAACTGTCAT-AAGAGAGACAAAATTTG
1 AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAG-GGAAACTGTC-TCAAGAGAGATAAAATTTG
** * * *
5158059 TTTTGAGTAAAAAAATTTCTCAAGGGAGACAAAATTGTGTTTC
64 TTTCAAG--AGAAACTATCTCAAGGGAGACAAAATT-TGTTTC
5158102 TTAGAGAAAA
Statistics
Matches: 188, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
107 47 0.25
108 4 0.02
109 86 0.46
110 21 0.11
111 24 0.13
112 6 0.03
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (108 bp):
AAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTT
TCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGG
Found at i:5158182 original size:36 final size:37
Alignment explanation
Indices: 5157858--5158184 Score: 183
Period size: 36 Copynumber: 8.8 Consensus size: 37
5157848 AGAAACTGTC
* * *
5157858 TCAAGGGAGACAAAATTTGTTTCAAGG-GAAAC-TGT
1 TCAAGGGAGACAAAATTTGTTTTAAGGAAAAACATCT
* * *
5157893 CTCAAGGGAGACAAAATTTGTTTCAAGG-GAAAC-TGT
1 -TCAAGGGAGACAAAATTTGTTTTAAGGAAAAACATCT
* * * *
5157929 CTCAAGAGAGATAAAACTTTGTTTCAAGG-GAAACTATC-
1 -TCAAGGGAGACAAAA-TTTGTTTTAAGGAAAAAC-ATCT
* * *
5157967 TCAAGGGAGACAAAATTTGTTTCAAGG-GAAAC-TGT
1 TCAAGGGAGACAAAATTTGTTTTAAGGAAAAACATCT
* * * * * * *
5158002 CTCAAGAGAGATAAAATTTGTTTTGAGTAGAAACTGTCA
1 -TCAAGGGAGACAAAATTTGTTTTAAGGAAAAAC-ATCT
* * * * *
5158041 T-AAGAGAGACAAAATTTGTTTTGAGTAAAAAAATTT
1 TCAAGGGAGACAAAATTTGTTTTAAGGAAAAACATCT
*
5158077 CTCAAGGGAGACAAAATTGTGTTTCTTAGAGAAAAACAATC-
1 -TCAAGGGAGACAAAATT-TGTTT-TAAG-GAAAAAC-ATCT
* ** * *
5158118 TCAAGTGAGATTAATTTTGTTTTAAGGAAAATCATCT
1 TCAAGGGAGACAAAATTTGTTTTAAGGAAAAACATCT
5158155 TC-AGGGAGACAAAATTTGTTCTT-AGGAAAA
1 TCAAGGGAGACAAAATTTGTT-TTAAGGAAAA
5158185 CTATCTCATG
Statistics
Matches: 241, Mismatches: 34, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
34 1 0.00
36 113 0.47
37 74 0.31
38 18 0.07
39 12 0.05
40 16 0.07
41 5 0.02
42 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (37 bp):
TCAAGGGAGACAAAATTTGTTTTAAGGAAAAACATCT
Found at i:5158209 original size:36 final size:35
Alignment explanation
Indices: 5158099--5158210 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 35
5158089 AAAATTGTGT
* *
5158099 TTCTTAGAGAAAAACAATCTCAAGTGAGATTAATTTTG
1 TTCTTAG-G-AAAACTATCTC-AGTGAGATCAATTTTG
* *
5158137 TT-TTAAGGAAAA-TCATCTTCAGGGAGA-CAAAATTTG
1 TTCTT-AGGAAAACT-ATC-TCAGTGAGATC-AATTTTG
5158173 TTCTTAGGAAAACTATCTCATGTGAGATCAATTTTG
1 TTCTTAGGAAAACTATCTCA-GTGAGATCAATTTTG
5158209 TT
1 TT
5158211 TTAAATATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
35 3 0.05
36 44 0.73
37 9 0.15
38 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (35 bp):
TTCTTAGGAAAACTATCTCAGTGAGATCAATTTTG
Found at i:5158428 original size:104 final size:104
Alignment explanation
Indices: 5158247--5158491 Score: 370
Period size: 104 Copynumber: 2.4 Consensus size: 104
5158237 TGTCTCATAC
** ****
5158247 GAGACGATGTTTGTTTTAAGAGAAAAATGTCTCAAGT--GAAACAAAATTTGTTTTTAAGAAAAA
1 GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGGGAAA-TTTTTTTGTTTTTAAGAAAAA
* *
5158310 TAACTTTGAAATTTGTGTTTTGAAGGAAAATGTCTCAAGT
65 CAACTTTGAAATTTGTGTTCTGAAGGAAAATGTCTCAAGT
*
5158350 GAGACGAAATTT-TTTTAAAGAGGAAAATGTCTCAAGTGGGAAATTTTTTTGTTTTTAAGAAAAA
1 GAGACGAAATTTGTTTT-AAGAGAAAAATGTCTCAAGTGGGAAATTTTTTTGTTTTTAAGAAAAA
5158414 CAACTTTGAAATTTGTGTTCTGAAGGAAAATGTCTCAAGT
65 CAACTTTGAAATTTGTGTTCTGAAGGAAAATGTCTCAAGT
5158454 GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTG
1 GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTG
5158492 AGACGAAATT
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
102 4 0.03
103 29 0.23
104 87 0.68
105 8 0.06
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.34
Consensus pattern (104 bp):
GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGGGAAATTTTTTTGTTTTTAAGAAAAAC
AACTTTGAAATTTGTGTTCTGAAGGAAAATGTCTCAAGT
Found at i:5158463 original size:19 final size:19
Alignment explanation
Indices: 5158441--5158500 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
5158431 TTCTGAAGGA
5158441 AAATGTCTCAAGTGAGACG
1 AAATGTCTCAAGTGAGACG
* * *
5158460 AAATTTGTTTTAA--GAGA-A
1 AAA--TGTCTCAAGTGAGACG
5158478 AAATGTCTCAAGTGAGACG
1 AAATGTCTCAAGTGAGACG
5158497 AAAT
1 AAAT
5158501 TTGTTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 6 0.20
18 7 0.23
19 11 0.37
21 6 0.20
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.27
Consensus pattern (19 bp):
AAATGTCTCAAGTGAGACG
Found at i:5158514 original size:36 final size:36
Alignment explanation
Indices: 5158421--5158515 Score: 136
Period size: 37 Copynumber: 2.6 Consensus size: 36
5158411 AAACAACTTT
* *
5158421 GAAATTTGTGTTCTGAAGGAAAATGTCTCAAGTGAGAC
1 GAAATTTGT-TT-TAAAGAAAAATGTCTCAAGTGAGAC
5158459 GAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAC
1 GAAATTTGTTTTAA-AGAAAAATGTCTCAAGTGAGAC
*
5158496 GAAATTTGTTTTTAAGAAAA
1 GAAATTTGTTTTAAAGAAAA
5158516 CAATGTCCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 8 0.15
37 36 0.68
38 9 0.17
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (36 bp):
GAAATTTGTTTTAAAGAAAAATGTCTCAAGTGAGAC
Found at i:5158521 original size:38 final size:37
Alignment explanation
Indices: 5158440--5158522 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 37
5158430 GTTCTGAAGG
5158440 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
5158477 AAAATGTCTCAAGTGAGACGAAATTTGTTTTTAAGA-A
1 AAAATGTCTCAAGTGAGACGAAATTTG-TTTTAAGAGA
5158514 AACAATGTC
1 AA-AATGTC
5158523 CTAGAGAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
37 30 0.68
38 14 0.32
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (37 bp):
AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
Found at i:5158542 original size:38 final size:38
Alignment explanation
Indices: 5158440--5158544 Score: 128
Period size: 37 Copynumber: 2.8 Consensus size: 38
5158430 GTTCTGAAGG
*
5158440 AAAATGTCTCAAGTGAGACGAAATTTG-TTTTAAGAGA
1 AAAATGTCTCAAGAGAGACGAAATTTGTTTTTAAGAGA
*
5158477 AAAATGTCTCAAGTGAGACGAAATTTGTTTTTAAGA-A
1 AAAATGTCTCAAGAGAGACGAAATTTGTTTTTAAGAGA
*
5158514 AACAATGTC-CTAGAGAGA-GAACATTTTGTTT
1 AA-AATGTCTCAAGAGAGACGAA-A-TTTGTTT
5158545 CGAGAGAAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
36 3 0.05
37 38 0.61
38 21 0.34
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (38 bp):
AAAATGTCTCAAGAGAGACGAAATTTGTTTTTAAGAGA
Found at i:5158891 original size:4 final size:4
Alignment explanation
Indices: 5158876--5158905 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
5158866 GCAAATTTTA
5158876 TATG TCATG TATG TATG TATG TATG TATG T
1 TATG T-ATG TATG TATG TATG TATG TATG T
5158906 TTTCTCGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5159046 original size:15 final size:15
Alignment explanation
Indices: 5159026--5159071 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
5159016 TTTATTTTCC
5159026 TTGCCCCATCAAAAT
1 TTGCCCCATCAAAAT
*
5159041 TTGCCCTATCAAAAT
1 TTGCCCCATCAAAAT
5159056 TTGCCCCA--AAAAT
1 TTGCCCCATCAAAAT
5159069 TTG
1 TTG
5159072 TCTTTCCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 8 0.28
15 21 0.72
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (15 bp):
TTGCCCCATCAAAAT
Found at i:5159934 original size:2 final size:2
Alignment explanation
Indices: 5159927--5159987 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
5159917 TAGCAGGTAT
5159927 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
5159969 AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC A
5159988 TATATATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5159992 original size:2 final size:2
Alignment explanation
Indices: 5159987--5160038 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
5159977 ACACACACAC
5159987 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
5160029 AT AT AT AT AT
1 AT AT AT AT AT
5160039 TCTGGGTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5165703 original size:20 final size:20
Alignment explanation
Indices: 5165675--5165731 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
5165665 CTAATTCAAA
*
5165675 TTATAAGTATCAATACTAAG
1 TTATGAGTATCAATACTAAG
*
5165695 TTATGAGTATCGATACTAAG
1 TTATGAGTATCAATACTAAG
*
5165715 TTACG-GTATCAATACTA
1 TTATGAGTATCAATACTA
5165732 TAATAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
TTATGAGTATCAATACTAAG
Found at i:5166243 original size:3 final size:3
Alignment explanation
Indices: 5166235--5166338 Score: 127
Period size: 3 Copynumber: 34.7 Consensus size: 3
5166225 CTCAAACTAA
* * * * * * * * *
5166235 AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5166283 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5166331 AAT AAT AA
1 AAT AAT AA
5166339 AACACATATA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:5166706 original size:17 final size:16
Alignment explanation
Indices: 5166681--5166737 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
5166671 TCCGAGCTGA
5166681 TATTATTATA-T-TAT
1 TATTATTATATTATAT
*
5166695 TATTACTATTATTATAT
1 TATTATTA-TATTATAT
*
5166712 AATTATATATATTATAT
1 TATTAT-TATATTATAT
*
5166729 TAATATTAT
1 TATTATTAT
5166738 TATATTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 4 0.12
17 19 0.56
18 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:5166706 original size:20 final size:19
Alignment explanation
Indices: 5166680--5166744 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
5166670 GTCCGAGCTG
5166680 ATATTATTATATTATTATT
1 ATATTATTATATTATTATT
*
5166699 ACTATTATTATATAATTATAT
1 A-TATTATTATATTATTAT-T
*
5166720 ATATTA-TATTAATATTATT
1 ATATTATTA-TATTATTATT
5166739 ATATTA
1 ATATTA
5166745 CAAATTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.25
20 28 0.70
21 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTATTATATTATTATT
Found at i:5166730 original size:31 final size:31
Alignment explanation
Indices: 5166682--5166742 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
5166672 CCGAGCTGAT
*
5166682 ATTATTATATTATTATTACTATTATTATATA
1 ATTATTATATTATTATTAATATTATTATATA
5166713 ATTATATATATTA-TATTAATATTATTATAT
1 ATTAT-TATATTATTATTAATATTATTATAT
5166743 TACAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTATTATATTATTATTAATATTATTATATA
Found at i:5166754 original size:3 final size:3
Alignment explanation
Indices: 5166681--5166744 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
5166671 TCCGAGCTGA
* *
5166681 TAT TAT TA- TAT TAT TAT TAC TAT TAT TA- TAT AAT TA- TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
5166724 TA- TAT TAA TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
5166745 CAAATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
2 10 0.20
3 36 0.73
4 3 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:5171965 original size:45 final size:45
Alignment explanation
Indices: 5171913--5172017 Score: 210
Period size: 45 Copynumber: 2.3 Consensus size: 45
5171903 GATGCATTGG
5171913 TAGTGCATCGATGCACTCTTTTAAAATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCACTCTTTTAAAATAAATACATCGAATGCAAT
5171958 TAGTGCATCGATGCACTCTTTTAAAATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCACTCTTTTAAAATAAATACATCGAATGCAAT
5172003 TAGTGCATCGATGCA
1 TAGTGCATCGATGCA
5172018 TAAGGCATGC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (45 bp):
TAGTGCATCGATGCACTCTTTTAAAATAAATACATCGAATGCAAT
Found at i:5172796 original size:31 final size:31
Alignment explanation
Indices: 5172758--5172882 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
5172748 AGGGTCGAGG
5172758 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
5172789 GTTTACCTATGTTCTTCGAGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5172820 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
**
5172851 GTTTACCTACATTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
5172882 G
1 G
5172883 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:5177325 original size:31 final size:31
Alignment explanation
Indices: 5177282--5177437 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
5177272 AGGGTCGAGG
* *
5177282 GTTTGCCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5177313 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
5177344 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5177375 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
**
5177406 GTTTACCTACATTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
5177437 G
1 G
5177438 GTCCTTCGGG
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:5181531 original size:119 final size:119
Alignment explanation
Indices: 5181320--5181706 Score: 578
Period size: 119 Copynumber: 3.3 Consensus size: 119
5181310 ATTTTCCACG
* * * *
5181320 GATTTGTAAAACCACTGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTCGCATGAAAAAGAGA
1 GATTTGAAAAACCTCCGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * *
5181385 AAGCAATTTTCAAAGTTTCTTATTTAATGTTCTAGAAAATTAAATCCTTCGGGT
66 AAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* * *
5181439 GATTTGAAAAACCTCCGGGTCATCTGTAAAGCCTCAGAGTATGATGTTTTCACATGAAAATGAGA
1 GATTTGAAAAACCTCCGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
5181504 AAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
66 AAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* *** * *
5181558 GATTTGTAAAACCTATTGGTCATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 GATTTGAAAAACCTCCGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
5181623 AAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
66 AAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* * * *
5181677 CATTT-ATAAAACCTCCAGGTAATTTGTAAA
1 GATTTGA-AAAACCTCCGGGTCATCTGTAAA
5181707 ACATTCTGGT
Statistics
Matches: 242, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
119 242 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (119 bp):
GATTTGAAAAACCTCCGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
AAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
Found at i:5181691 original size:20 final size:20
Alignment explanation
Indices: 5181663--5181736 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
5181653 TCTAGAAAAT
* * *
5181663 TAAATCCTCCGGGTCATTTA
1 TAAAACCTCCAGGTCATTTG
*
5181683 TAAAACCTCCAGGTAATTTG
1 TAAAACCTCCAGGTCATTTG
* * * *
5181703 TAAAACATTCTGGTCATCTG
1 TAAAACCTCCAGGTCATTTG
5181723 TAAAACCTCCAGGT
1 TAAAACCTCCAGGT
5181737 AAGATGTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (20 bp):
TAAAACCTCCAGGTCATTTG
Found at i:5181906 original size:9 final size:8
Alignment explanation
Indices: 5181878--5181953 Score: 64
Period size: 9 Copynumber: 8.8 Consensus size: 8
5181868 GTCCGAGCTG
5181878 ATATTATT
1 ATATTATT
5181886 ATATTGTTATT
1 ATA---TTATT
5181897 ACTATTATT
1 A-TATTATT
*
5181906 ACTATTATC
1 A-TATTATT
*
5181915 ATATAATT
1 ATATTATT
5181923 ATATATATT
1 ATAT-TATT
5181932 ATA-TATT
1 ATATTATT
5181939 AATATTATT
1 -ATATTATT
5181948 ATATTA
1 ATATTA
5181954 CAAATTATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
7 4 0.07
8 21 0.37
9 24 0.42
11 6 0.11
12 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (8 bp):
ATATTATT
Done.