Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_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: 2814991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 13
Found at i:2647501 original size:19 final size:19
Alignment explanation
Indices: 2647477--2647562 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 19
2647467 GCGATTTTGA
*
2647477 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
*
2647496 AAAATGTGTTGCGAGAGTTTG
1 AAAATGTGTTGCGATAG--TG
2647517 AAAAACGTGTTGTTGCGATAGTG
1 -AAAA--TG-TGTTGCGATAGTG
* *
2647540 AAAAAGTGTTGCTATAGTG
1 AAAATGTGTTGCGATAGTG
2647559 AAAA
1 AAAA
2647563 ATCCAAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 32 0.57
20 1 0.02
21 1 0.02
22 8 0.14
23 2 0.04
24 2 0.04
25 10 0.18
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:2648072 original size:32 final size:32
Alignment explanation
Indices: 2648031--2648092 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2648021 ATCTGGAAAT
*
2648031 TGATTTGCGATATTGGAGATCGCGTTGCGAAC
1 TGATTTGCGATACTGGAGATCGCGTTGCGAAC
2648063 TGATTTGCGATACTGGAGATCGCGTTGCGA
1 TGATTTGCGATACTGGAGATCGCGTTGCGA
2648093 TTTAGAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (32 bp):
TGATTTGCGATACTGGAGATCGCGTTGCGAAC
Found at i:2648092 original size:20 final size:19
Alignment explanation
Indices: 2648067--2648112 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2648057 GCGAACTGAT
* *
2648067 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
2648087 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
2648106 TTGCGAT
1 TTGCGAT
2648113 TTGTTGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:2648102 original size:19 final size:19
Alignment explanation
Indices: 2648078--2648114 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2648068 TGCGATACTG
*
2648078 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
2648097 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
2648115 GTTGGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:2648449 original size:2 final size:2
Alignment explanation
Indices: 2648442--2648475 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2648432 ATGCCGACCA
2648442 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
2648476 TAAAAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2654292 original size:12 final size:12
Alignment explanation
Indices: 2654275--2654299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2654265 AATAGTTGAT
2654275 AAGTTGAATTTG
1 AAGTTGAATTTG
2654287 AAGTTGAATTTG
1 AAGTTGAATTTG
2654299 A
1 A
2654300 CTTTTCATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:2655329 original size:20 final size:18
Alignment explanation
Indices: 2655286--2655358 Score: 87
Period size: 18 Copynumber: 3.9 Consensus size: 18
2655276 AGGGATAATC
2655286 AGTGGTCTTTCGGGAC-AT
1 AGTGGTC-TTCGGGACAAT
*
2655304 AGTGGTTCTTCGGAACAAT
1 AGTGG-TCTTCGGGACAAT
2655323 CAGTGGTCCTTCGGGAC-AT
1 -AGTGGT-CTTCGGGACAAT
2655342 AGTGGTCTTCGGGACAA
1 AGTGGTCTTCGGGACAA
2655359 ATATTCAGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.19
18 19 0.40
19 7 0.15
20 13 0.27
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (18 bp):
AGTGGTCTTCGGGACAAT
Found at i:2655336 original size:38 final size:37
Alignment explanation
Indices: 2655282--2655358 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 37
2655272 GTCGAGGGAT
*
2655282 AATCAGTGGTCTTTCGGGACATAGTGGTTCTTCGGAAC
1 AATCAGTGGTCCTTCGGGACATAGTGG-TCTTCGGAAC
*
2655320 AATCAGTGGTCCTTCGGGACATAGTGGTCTTCGGGAC
1 AATCAGTGGTCCTTCGGGACATAGTGGTCTTCGGAAC
2655357 AA
1 AA
2655359 ATATTCAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
37 11 0.30
38 26 0.70
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (37 bp):
AATCAGTGGTCCTTCGGGACATAGTGGTCTTCGGAAC
Found at i:2661153 original size:12 final size:12
Alignment explanation
Indices: 2661136--2661160 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2661126 AAGAGTTGAT
2661136 AAGTTGAATTTG
1 AAGTTGAATTTG
2661148 AAGTTGAATTTG
1 AAGTTGAATTTG
2661160 A
1 A
2661161 CTTGTCATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:2662155 original size:20 final size:19
Alignment explanation
Indices: 2662130--2662209 Score: 83
Period size: 18 Copynumber: 4.2 Consensus size: 19
2662120 CAAGAGTCGA
2662130 GGGATAATCAGTGGTCCTTC
1 GGGATAAT-AGTGGTCCTTC
*
2662150 GGGAT-ATAGTGGTTCTTC
1 GGGATAATAGTGGTCCTTC
* *
2662168 GGAACAATCAGTGGTCCTTC
1 GGGATAAT-AGTGGTCCTTC
* *
2662188 GGGA-CATAGTGGTCATTC
1 GGGATAATAGTGGTCCTTC
2662206 GGGA
1 GGGA
2662210 CAAATATTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
18 27 0.53
19 6 0.12
20 18 0.35
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (19 bp):
GGGATAATAGTGGTCCTTC
Found at i:2662210 original size:18 final size:18
Alignment explanation
Indices: 2662139--2662211 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
2662129 AGGGATAATC
*
2662139 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* *
2662157 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
2662176 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
2662195 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
2662212 AATATTCAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 29 0.62
19 4 0.09
20 14 0.30
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2666929 original size:43 final size:43
Alignment explanation
Indices: 2666863--2666954 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
2666853 TAGGCCTTAA
*
2666863 ATTATAGATTTTATTACAAAATGAGTTTAACACTATTATTTATC
1 ATTA-AGATTTTATTACAAAATGAGTTTAACACTATTATATATC
*
2666907 ATTAAGATTTTGTTACAAAATGAGTTTAACACTATTATATATC
1 ATTAAGATTTTATTACAAAATGAGTTTAACACTATTATATATC
2666950 ATTAA
1 ATTAA
2666955 AGAAGAGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 42 0.91
44 4 0.09
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (43 bp):
ATTAAGATTTTATTACAAAATGAGTTTAACACTATTATATATC
Found at i:2670473 original size:18 final size:18
Alignment explanation
Indices: 2670442--2670547 Score: 149
Period size: 18 Copynumber: 5.9 Consensus size: 18
2670432 GAGGGTCTAC
* *
2670442 GTGGTCTTTTGGGACATA
1 GTGGTCCTTCGGGACATA
* *
2670460 ATGGTCATTCGGGACATA
1 GTGGTCCTTCGGGACATA
2670478 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
2670496 ATGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACATA
2670514 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
2670532 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
2670548 AATTCTACGC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 78 1.00
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:2671574 original size:12 final size:12
Alignment explanation
Indices: 2671557--2671584 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2671547 AGAACTGACG
2671557 AAGAAGAAGAAT
1 AAGAAGAAGAAT
2671569 AAGAAGAAGAAT
1 AAGAAGAAGAAT
2671581 AAGA
1 AAGA
2671585 TTTGGGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (12 bp):
AAGAAGAAGAAT
Found at i:2674307 original size:42 final size:40
Alignment explanation
Indices: 2674249--2674336 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 40
2674239 CCAACCGAAC
* *
2674249 ACACCATAATGTGTAGGTTTCCGAGAACCATACACCCCACCA
1 ACACCATAATGTGTAGGTTCCCCA-AACCATACA-CCCACCA
*
2674291 ACACCATAATGTGTAGGTTCCCCAAACCGTACACCCACCA
1 ACACCATAATGTGTAGGTTCCCCAAACCATACACCCACCA
2674331 ACACCA
1 ACACCA
2674337 AGTAAGGCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 13 0.30
41 8 0.19
42 22 0.51
ACGTcount: A:0.34, C:0.36, G:0.12, T:0.17
Consensus pattern (40 bp):
ACACCATAATGTGTAGGTTCCCCAAACCATACACCCACCA
Found at i:2674520 original size:48 final size:48
Alignment explanation
Indices: 2674451--2674590 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 48
2674441 CATAATTCAT
* *
2674451 GTCAAGTATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAA
1 GTCAAGTATCATATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * *
2674499 GTCAAGTATCATATCATAATCCAAATCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * *
2674547 GTC-AGATATCAGATCAAAATTCATGTCAAGTATCAGATCAGAAT
1 GTCAAG-TATCATATCAAAATCCAAGTCAAGTATCAGATCAGAAT
2674591 TCAATCGAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 2 0.02
48 79 0.98
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCATATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAA
Found at i:2674593 original size:24 final size:24
Alignment explanation
Indices: 2674448--2674590 Score: 171
Period size: 24 Copynumber: 6.0 Consensus size: 24
2674438 AAACATAATT
* *
2674448 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
2674472 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* * *
2674496 CAAGTCAAGTATCATATCATAATC
1 CATGTCAAGTATCAGATCAGAATC
**
2674520 CAAATCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
2674544 CATGTC-AGATATCAGATCAAAATT
1 CATGTCAAG-TATCAGATCAGAATC
2674568 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
2674591 TCAATCGAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 2 0.02
24 101 0.96
25 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:2674617 original size:48 final size:48
Alignment explanation
Indices: 2674524--2674620 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
2674514 ATAATCCAAA
* * *
2674524 TCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAAAATTCATG
1 TCAAGTATCAGATCAGAATCCATATCAGAAATCAGATAAAAATTCATG
* *
2674572 TCAAGTATCAGATCAGAATTCA-ATC-GAAAATTAGATAAAATATTCATG
1 TCAAGTATCAGATCAGAATCCATATCAG-AAATCAGATAAAA-ATTCATG
2674620 T
1 T
2674621 GGGTAGGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 1 0.02
47 12 0.29
48 29 0.69
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (48 bp):
TCAAGTATCAGATCAGAATCCATATCAGAAATCAGATAAAAATTCATG
Found at i:2678198 original size:31 final size:31
Alignment explanation
Indices: 2678141--2678199 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
2678131 GTAAACTACG
* *
2678141 ATTTTAGCACTTAAATTATCAGTTTTTTTCC
1 ATTTTAGCACCTAAATTATCAATTTTTTTCC
*
2678172 ATTTTAGTACCTAAACTT-TCAATTTTTT
1 ATTTTAGCACCTAAA-TTATCAATTTTTT
2678200 CAAAACCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.27, C:0.15, G:0.05, T:0.53
Consensus pattern (31 bp):
ATTTTAGCACCTAAATTATCAATTTTTTTCC
Found at i:2682196 original size:62 final size:62
Alignment explanation
Indices: 2682099--2682278 Score: 283
Period size: 62 Copynumber: 2.9 Consensus size: 62
2682089 TATGTTATAT
* *
2682099 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAAGTA-GCTTATATAATAAAATAGG
1 CATTTAACC-GAAATATTATCAAGTACAATAACATATTAGGTACGCTTATATAATAAAATAGG
*
2682161 CATTTAACCATAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
1 CATTTAACC-GAAATATTATCAAGTACAATAACATATTAGGTA-CGCTTATATAATAAAATAGG
2682225 CATTTAA-CGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAAT
1 CATTTAACCGAAATATTATCAAGTACAATAACATATTAGGTA-CGCTTATATAAT
2682279 GTAATATGTA
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
62 84 0.76
63 1 0.01
64 26 0.23
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (62 bp):
CATTTAACCGAAATATTATCAAGTACAATAACATATTAGGTACGCTTATATAATAAAATAGG
Found at i:2686011 original size:200 final size:201
Alignment explanation
Indices: 2685441--2686358 Score: 1575
Period size: 200 Copynumber: 4.6 Consensus size: 201
2685431 TGTTTTCGGG
*
2685441 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGACAAGATGTATCGATAC-TT
1 ATCGACACTTTGTTGTGCACTTGG-TTTTT-AAAATACAATCTGGACAAGATGTATCGACACTTT
* * *
2685505 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACTGGTATATTTAGACCGGTT
64 TTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTT
* *
2685570 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTT
129 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTT
2685635 TTAAATGT
194 TTAAATGT
*
2685643 ATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC---TT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
2685705 TTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTC-AAAACCGGTATATTTAGACCGGTTAC
66 TTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTAC
2685769 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTT
131 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTT
2685834 AAATGT
196 AAATGT
*
2685840 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGAC-A-A-GTATCGATACTTT
1 ATCGACACTTTGTTGTGCACTTGG-TTTTT-AAAATACAATCTGGACAAGATGTATCGACACTTT
* *
2685902 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTT
64 TTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTT
*
2685967 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACA-CTGTT
129 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTT
2686031 TTAAATGT
194 TTAAATGT
*
2686039 ATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
2686104 TTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTAC
66 TTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTAC
*
2686169 ATTAATAATTTACCTATTACGTTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTT
131 ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTT
2686234 AAATGT
196 AAATGT
* *
2686240 ATCGATACTTTGTTATGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
* **
2686305 TTTATTTGTGTTGATACTTTTTGTACATATGTTTTCTCAAAAACCGGTATATTT
66 TTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTT
2686359 GAAAAATGTA
Statistics
Matches: 682, Mismatches: 24, Indels: 21
0.94 0.03 0.03
Matches are distributed among these distances:
196 9 0.01
197 134 0.20
198 50 0.07
199 90 0.13
200 246 0.36
201 130 0.19
202 23 0.03
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (201 bp):
ATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTT
TTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTAC
ATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTT
AAATGT
Found at i:2686393 original size:400 final size:400
Alignment explanation
Indices: 2685441--2686358 Score: 1652
Period size: 397 Copynumber: 2.3 Consensus size: 400
2685431 TGTTTTCGGG
2685441 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGACAAGATGTATCGATAC-TT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGACAAGATGTATCGATACTTT
*
2685505 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACTGGTATATTTAGACCGGTT
66 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTT
*
2685570 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTT
131 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTT
2685635 TTAAATGTATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGA
196 TTAAATGTATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGA
2685700 CACTTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAACCGGTATATTTAGACCGG
261 CACTTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAACCGGTATATTTAGACCGG
2685765 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTG
326 TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTG
2685830 TTTTAAATGT
391 TTTTAAATGT
2685840 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGAC-A-A-GTATCGATACTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGACAAGATGTATCGATACTTT
2685902 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTT
66 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTT
2685967 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACAC-TGTT
131 ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTT
2686031 TTAAATGTATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGA
196 TTAAATGTATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGA
2686096 CACTTTTTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGA
261 CAC---TTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTC-AAAACCGGTATATTTAGA
*
2686161 CCGGTTACATTAATAATTTACCTATTACGTTATAATTATGTTTTTCGATGTTTTCGGGATCGACA
322 CCGGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACA
2686226 TTTGTTTTAAATGT
387 TTTGTTTTAAATGT
* * *
2686240 ATCGATACTTTGTTATGCACTTGG-TTTTT-AAAATACAATCTGGACAAGATGTATCGACACTTT
1 ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGACAAGATGTATCGATACTTT
* * ** *
2686303 TTTTTATTTGTGTTGATACTTTTTGTACATATGTTTTCTCAAAAACCGGTATATTT
66 TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTT
2686359 GAAAAATGTA
Statistics
Matches: 500, Mismatches: 11, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
396 82 0.16
397 126 0.25
398 17 0.03
399 93 0.19
400 119 0.24
401 63 0.13
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (400 bp):
ATCGACACTTTGTTGTGCACTTGGTTTTTTAAAAATACAATCTGGACAAGATGTATCGATACTTT
TTTTTATTTCTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTT
ACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTT
TTAAATGTATCGACACTTTTTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGA
CACTTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAACCGGTATATTTAGACCGG
TTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTG
TTTTAAATGT
Found at i:2687744 original size:3 final size:3
Alignment explanation
Indices: 2687736--2687797 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
2687726 ACTTGTTTGG
* * *
2687736 ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC ATT ATC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
2687784 ATC GTC ATC TTC AT
1 ATC ATC ATC ATC AT
2687798 TGACCGCTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:2687797 original size:18 final size:18
Alignment explanation
Indices: 2687739--2687791 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2687729 TGTTTGGATC
2687739 ATCATCATCATCATCATT
1 ATCATCATCATCATCATT
2687757 ATCATCATCATCATCATT
1 ATCATCATCATCATCATT
* *
2687775 ATCATCTTCATCGTCAT
1 ATCATCATCATCATCAT
2687792 CTTCATTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.40
Consensus pattern (18 bp):
ATCATCATCATCATCATT
Found at i:2689704 original size:197 final size:199
Alignment explanation
Indices: 2689353--2689796 Score: 770
Period size: 197 Copynumber: 2.3 Consensus size: 199
2689343 GTTACATTGC
* * *
2689353 TACCTATTACATTATAATTATGGGTTTCGATATTTTTGGGATCGACACTTGTTATAAATGCATCA
1 TACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCG
2689418 ACACTTTTTAGTGCAC-TGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATT
66 ACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATT
* * *
2689482 TGTGTCGATAGTTTTTGTACACATGTTTTCTCAAAAACTGGTATATTTAGACCGATTATATTGCT
131 TGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCT
2689547 AATT
196 AATT
* *
2689551 TACCTATTA-ATTATCATTATGGGTTTCGATGTTTTTGAGATCGACACTTGTTAT-AATGTATCG
1 TACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCG
2689614 ACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATT
66 ACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATT
*
2689679 TGTGTCGATACTTTTTGTACACATGTTTTCTC-AAAACCGGTATATTTAGACCGTTTATATTGCT
131 TGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCT
2689743 AATT
196 AATT
*
2689747 TACCTATTACATTATTATTATGGGTTTCGATGTTTTTGGGATCGACACTT
1 TACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTT
2689797 TTTAGTGCAC
Statistics
Matches: 234, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
196 66 0.28
197 159 0.68
198 9 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
TACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCG
ACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATT
TGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCT
AATT
Found at i:2690000 original size:176 final size:185
Alignment explanation
Indices: 2689630--2690735 Score: 1381
Period size: 176 Copynumber: 6.0 Consensus size: 185
2689620 TTTAGTGCAC
2689630 TTGG-TTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
1 TTGGCTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
*
2689694 TGTACACATGTTTTCTC-AAAACCGGTATATTTAGACCGTTTATATTGCTAATTTACCTATTACA
66 TGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACA
* *
2689758 TTATTATTATGGGTTTCGATGTTTTTGGGATCGACACTTTT-T-A-G-T-GCAC-
131 TTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTATAATGATCACACT
2689807 TTGG-TTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
1 TTGGCTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
* * * *
2689871 TGTAAACATG-TTT-TCAAAAACTGATATATTTAGACCGGTTATATTGCTAATTTACATATTACA
66 TGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACA
* *
2689934 TTATAATTATGGTTTTCGATATTTTTGGGATCGACACTTTT-T-A-G-T-ACAC-
131 TTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTATAATGATCACACT
*
2689983 TTGG-TTTTGAGATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
1 TTGGCTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
*
2690047 TGTACACCTGTTTTCTCAAAAACCGGTATATTTAGA-CGGTTATATTGCTAATTTACCTATTACA
66 TGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACA
* *
2690111 TTATCATTATGGGTTTCGATG-TTTTGGGATCGATACTTTTATAAATGTATCGACACTTTTAGT
131 TTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAT-AATG-ATC-ACAC------T
* *
2690174 ACACTTGGTTTTTGAAATACA-TCTGGACCAAAAGTATCGACAC-TGTTTGATTTGTGTTGATAC
1 ----TTGGCTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * * *
2690237 TTTTTGTACACCTGTTTTCTAAAAAATCGGTATATTTAGACCTGTTATATTGCTAATTTACCTAT
62 TTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
* *
2690302 TACATTATCATTATGGG-TTCGATGTTTTTGGGATTGACACTTGTTATAAATGTATCGACACTT
127 TACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTT-TTAT-AATG-ATC-ACAC-T
** * *
2690365 TTAGTGCACTTGAAATACATT-TGAACC--AAGTATCAACACTTG-TTGATTTGTGTCGATACTT
1 TT-G-GCTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTT
*
2690426 TTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTATATTGCTAATTTACCTATTA
64 TTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTA
* *
2690491 CATTATAATTATGGTTTTCGATGTTTTT-GGATCAACACTTGTTATAAATGTATCGACACTT
129 CATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTT-TTAT-AATG-ATC-ACAC-T
* *
2690552 TTAGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCAACACTTGTTTGATTTGTGTCG
1 TT-G-G--C----TTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCG
* *
2690617 ATACTTTTTGGACACATGTTTTTCTCAAAAACCGGTATATTTAGACCGGTTATA-TGCTAATTCA
58 ATACTTTTTGTACACATG-TTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTA
* *
2690681 CCTATTACATTATAATTATAGTTTTCGATG-TTTTGGGATCGACACTTGTTATAAT
122 CCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTT-TTATAAT
2690736 TGTATCGACA
Statistics
Matches: 837, Mismatches: 49, Indels: 67
0.88 0.05 0.07
Matches are distributed among these distances:
175 2 0.00
176 180 0.22
177 122 0.15
178 19 0.02
179 1 0.00
180 1 0.00
182 1 0.00
184 4 0.00
187 142 0.17
188 15 0.02
189 17 0.02
190 1 0.00
191 1 0.00
193 12 0.01
194 69 0.08
195 81 0.10
196 51 0.06
197 84 0.10
198 34 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (185 bp):
TTGGCTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTT
TGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACA
TTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTATAATGATCACACT
Found at i:2690686 original size:197 final size:196
Alignment explanation
Indices: 2689963--2690746 Score: 1173
Period size: 187 Copynumber: 4.0 Consensus size: 196
2689953 TATTTTTGGG
* *
2689963 ATCGACACTTTTTAGTACACTTGGTTTTGAGATACATTCTGGACCAAAAGTATCGACACTTGTTT
1 ATCGACAC-TTTTAGTACACTTGGTTTTGAAATACA-TCTGGACCAAAAGTATCAACACTTGTTT
*
2690028 GATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGA-CGGTTATAT
64 GATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATAT
* * *
2690092 TGCTAATTTACCTATTACATTATCATTATGGGTTTCGATGTTTTGGGATCGATACTT-TTATAAA
129 TGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTGGGATCGACACTTGTTATAAA
2690156 TGT
194 TGT
*
2690159 ATCGACACTTTTAGTACACTTGGTTTTTGAAATACATCTGGACCAAAAGTATCGACAC-TGTTTG
1 ATCGACACTTTTAGTACACTTGG-TTTTGAAATACATCTGGACCAAAAGTATCAACACTTGTTTG
* * * * *
2690223 ATTTGTGTTGATACTTTTTGTACACCTGTTTTCTAAAAAATCGGTATATTTAGACCTGTTATATT
65 ATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATT
* * *
2690288 GCTAATTTACCTATTACATTATCATTATGG-GTTCGATGTTTTTGGGATTGACACTTGTTATAAA
130 GCTAATTTACCTATTACATTATAATTATGGTTTTCGATG-TTTTGGGATCGACACTTGTTATAAA
2690352 TGT
194 TGT
* * *
2690355 ATCGACACTTTTAGTGCAC------TTGAAATACATTTGAACC--AAGTATCAACACTTG-TTGA
1 ATCGACACTTTTAGTACACTTGGTTTTGAAATACATCTGGACCAAAAGTATCAACACTTGTTTGA
*
2690411 TTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCAGTTATATTG
66 TTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG
* *
2690476 CTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGATCAACACTTGTTATAAATG
131 CTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTGGGATCGACACTTGTTATAAATG
2690541 T
196 T
* *
2690542 ATCGACACTTTTAGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCAACACTTGTTTG
1 ATCGACACTTTTAGTACACTTGGTTTTGAAATACA-TCTGGACCAAAAGTATCAACACTTGTTTG
*
2690607 ATTTGTGTCGATACTTTTTGGACACATGTTTTTCTCAAAAACCGGTATATTTAGACCGGTTATA-
65 ATTTGTGTCGATACTTTTTGTACACATG-TTTTCTCAAAAACCGGTATATTTAGACCGGTTATAT
* * *
2690671 TGCTAATTCACCTATTACATTATAATTATAGTTTTCGATGTTTTGGGATCGACACTTGTTATAAT
129 TGCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTGGGATCGACACTTGTTATAAA
2690736 TGT
194 TGT
2690739 ATCGACAC
1 ATCGACAC
2690747 ATAAGTGTAC
Statistics
Matches: 541, Mismatches: 30, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
187 147 0.27
188 9 0.02
189 16 0.03
193 10 0.02
194 71 0.13
195 91 0.17
196 62 0.11
197 101 0.19
198 34 0.06
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (196 bp):
ATCGACACTTTTAGTACACTTGGTTTTGAAATACATCTGGACCAAAAGTATCAACACTTGTTTGA
TTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG
CTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTGGGATCGACACTTGTTATAAATG
T
Found at i:2690850 original size:15 final size:15
Alignment explanation
Indices: 2690832--2690861 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2690822 ATCTTTGTGT
2690832 TTATTAATTTTGTCA
1 TTATTAATTTTGTCA
*
2690847 TTATTTATTTTGTCA
1 TTATTAATTTTGTCA
2690862 CCTACATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TTATTAATTTTGTCA
Found at i:2691119 original size:17 final size:18
Alignment explanation
Indices: 2691079--2691126 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
2691069 TTACATTCAC
*
2691079 ATACAAAATTATAAATCTT
1 ATACAAAATTAAAAATC-T
2691098 ATACAAAATTAAAAATC-
1 ATACAAAATTAAAAATCT
*
2691115 GTACAAAATTAA
1 ATACAAAATTAA
2691127 CCATGCATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 11 0.41
19 16 0.59
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (18 bp):
ATACAAAATTAAAAATCT
Found at i:2692135 original size:22 final size:21
Alignment explanation
Indices: 2692107--2692162 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
2692097 AACCTGCATT
*
2692107 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
2692129 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
2692153 TATAAAAAAA
1 TATAATAAAA
2692163 ACAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
24 18 0.62
25 1 0.03
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:2693404 original size:19 final size:20
Alignment explanation
Indices: 2693357--2693405 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
2693347 CATTTATACA
2693357 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
2693376 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
2693394 ACCTATAAATAT
1 ACCTATAAATAT
2693406 TAAATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:2694306 original size:181 final size:180
Alignment explanation
Indices: 2693794--2694604 Score: 1064
Period size: 181 Copynumber: 4.5 Consensus size: 180
2693784 TAGTATCAAT
* * *
2693794 ACTTTCAACATATCCGGTAACGCTTTACCGGTTTTGTCATTTTGAGACCAGTTTTATCATATTTT
1 ACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTT
2693859 TACATGTTATATTGTTATGGATCGATACATTTTTA-AAAGTATCGACACTTTATAGGCGCTATAA
66 TACATGTTATA-TGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATAA
2693923 CTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGAC
130 CTTCTTCTCTTTTAAATTCATAAAGTGTCGATA-TTATATTAAATTATCGAC
* * **
2693975 ACTTTCAACATA-CCCGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTT
1 ACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTC-ATTTTGAGACCGGTTTTATCATATTT
*
2694039 TTACATGTTAT-TGTTAT-G---GATACATTTTT-TAAAGTATCGATACTTTATAGGCGCTATAA
65 TTACATGTTATATGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATAA
* *
2694098 CTTCTTCTCTTTTAAATTCCA-AAAGTGTCTATAGTTATATTAAAGTATCGAC
130 CTTCTTCTCTTTTAAATT-CATAAAGTGTCGATA-TTATATTAAATTATCGAC
* * *
2694150 ACTTTCAACATATCCAGTATCGTTTTACCGGTTTTTTCATTGTTGAGACCGGTTTTATCATA-TT
1 ACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATT-TTGAGACCGGTTTTATCATATTT
* * * * * *
2694214 TTA-GTGTTATATCGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTATGCGCTATA
65 TTACATGTTATAT-GTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATA
*
2694278 ACTTCTTCTCTTTTAAATTCATAAAGTGTCGATATTTATATTAAATTATCAAC
129 ACTTCTTCTCTTTTAAATTCATAAAGTGTCGATA-TTATATTAAATTATCGAC
* * * * **
2694331 ACTTTCAACATATCCGGTATCTTTTTTCCGGTTTTGTCATTTTTGATACATGTTTTATCATATTT
1 ACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCA-TTTTGAGACCGGTTTTATCATATTT
*
2694396 TTACATGTTATATTGTTATGGATCGAT--ATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
65 TTACATGTTATA-TGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATA
* * *
2694459 ACTTCTTCTC-TTTAAATTCAGAAAGTTTCGATACT-TATTAAATTATCGAC
129 ACTTCTTCTCTTTTAAATTCATAAAGTGTCGATATTATATTAAATTATCGAC
* * * *
2694509 ACTTTCAACATATCC--TAGCGTTTTATCGGTTTTGTCATTTTGGGACCGGTTTTGTCATATTTG
1 ACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTT
* * *
2694572 TA-AGTGTAATATGCTATGGAGCGATACATTTTT
66 TACA-TGTTATATGTTATGGATCGATACATTTTT
2694605 CATTTGTATC
Statistics
Matches: 553, Mismatches: 57, Indels: 45
0.84 0.09 0.07
Matches are distributed among these distances:
174 19 0.03
175 134 0.24
176 70 0.13
177 1 0.00
178 30 0.05
179 7 0.01
180 54 0.10
181 211 0.38
182 7 0.01
183 19 0.03
184 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (180 bp):
ACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTATCATATTTT
TACATGTTATATGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATAAC
TTCTTCTCTTTTAAATTCATAAAGTGTCGATATTATATTAAATTATCGAC
Found at i:2694558 original size:356 final size:352
Alignment explanation
Indices: 2693785--2694603 Score: 1144
Period size: 356 Copynumber: 2.3 Consensus size: 352
2693775 CGTACTTATT
* * * *
2693785 AGTATCAATACTTTCAACATATCCGGTAACGCTTTACCGGTTTTGTCATTTTGAGACCAGTTTTA
1 AGTATCGACACTTTCAACATATCC-GTAACGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTA
* *
2693850 TCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTAAAAGTATCGACACTTTATAGG
65 TCATA-TTTTA-GTGTTATA-TGTTATGGATCGATACATTTTCAAAAGTATCGACACTTTATAGG
*
2693915 CGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGACACTTT
127 CGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCAACACTTT
*
2693980 CAACATACCCGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACAT
192 CAACATACCCGTAGCGTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACAT
*
2694045 GTTATTGTTATGGATACATTTTTTAAAGTATCGATACTTTATAGGCGCTATAACTTCTTCTCTTT
257 GTTATTGTTATGGATACATTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTT
* *
2694110 TAAATTCCAAAAGTGTCTATAGTTATATTAA
322 TAAATTCCAAAAGTGTCGATAGCTATATTAA
* *
2694141 AGTATCGACACTTTCAACATATCCAGTATCGTTTTACCGGTTTTTTCATTGTTGAGACCGGTTTT
1 AGTATCGACACTTTCAACATATCC-GTAACGTTTTACCGGTTTTGTCATT-TTGAGACCGGTTTT
* * * *
2694206 ATCATATTTTAGTGTTATATCGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTATG
64 ATCATATTTTAGTGTTATAT-GTTATGGATCGATACATTTTCA-AAAGTATCGACACTTTATAGG
*
2694271 CGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATATTTATATTAAATTATCAACACTTT
127 CGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCAACACTTT
* * * * * *
2694336 CAACATATCCGGTATCTTTTTTCCGGTTTTGTCATTTTTGATACATGTTTTATCATATTTTTACA
192 CAACATA-CCCGTAGCGTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACA
*
2694401 TGTTATATTGTTATGGATCGATATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTT
256 TG-T-TATTGTTATGGAT--ACA-TTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTT
*
2694466 CTC-TTTAAATT-CAGAAAGTTTCGATA-CT-TATTAA
316 CTCTTTTAAATTCCA-AAAGTGTCGATAGCTATATTAA
* * * * *
2694500 ATTATCGACACTTTCAACATATCC-TAGCGTTTTATCGGTTTTGTCATTTTGGGACCGGTTTTGT
1 AGTATCGACACTTTCAACATATCCGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTAT
* * *
2694564 CATATTTGTAAGTGTAATATGCTATGGAGCGATACATTTT
66 CATATTT-T-AGTGTTATATGTTATGGATCGATACATTTT
2694604 TCATTTGTAT
Statistics
Matches: 414, Mismatches: 37, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
354 1 0.00
355 27 0.07
356 158 0.38
357 110 0.27
358 10 0.02
359 42 0.10
360 3 0.01
361 20 0.05
362 43 0.10
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (352 bp):
AGTATCGACACTTTCAACATATCCGTAACGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTAT
CATATTTTAGTGTTATATGTTATGGATCGATACATTTTCAAAAGTATCGACACTTTATAGGCGCT
ATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCAACACTTTCAAC
ATACCCGTAGCGTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACATGTTA
TTGTTATGGATACATTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAA
TTCCAAAAGTGTCGATAGCTATATTAA
Found at i:2696387 original size:18 final size:20
Alignment explanation
Indices: 2696359--2696402 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
2696349 ATAGAGAGTT
*
2696359 TATATAATTTAAATA-TTTA
1 TATAAAATTTAAATACTTTA
2696378 T-TAAAATTTAAATACTTTA
1 TATAAAATTTAAATACTTTA
2696397 TATAAA
1 TATAAA
2696403 CATAATAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAAAATTTAAATACTTTA
Found at i:2704146 original size:24 final size:24
Alignment explanation
Indices: 2704114--2704169 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
2704104 GAACGTTTAG
2704114 TTATGTTCGTACGGTTATGTTCGT
1 TTATGTTCGTACGGTTATGTTCGT
*
2704138 TTATGTTCGTTCGGTTATGTTCGT
1 TTATGTTCGTACGGTTATGTTCGT
2704162 TTATGTTC
1 TTATGTTC
2704170 ATTCATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (24 bp):
TTATGTTCGTACGGTTATGTTCGT
Found at i:2704162 original size:14 final size:14
Alignment explanation
Indices: 2704113--2704162 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
2704103 TGAACGTTTA
*
2704113 GTTATGTTCGTACG
1 GTTATGTTCGTTCG
2704127 GTTATGTTCG-T--
1 GTTATGTTCGTTCG
2704138 -TTATGTTCGTTCG
1 GTTATGTTCGTTCG
2704151 GTTATGTTCGTT
1 GTTATGTTCGTT
2704163 TATGTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.29
11 1 0.03
14 21 0.68
ACGTcount: A:0.10, C:0.12, G:0.26, T:0.52
Consensus pattern (14 bp):
GTTATGTTCGTTCG
Found at i:2704179 original size:24 final size:24
Alignment explanation
Indices: 2704127--2704182 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
2704117 TGTTCGTACG
* *
2704127 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTTTATGTTCATTCA
2704151 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCGTTTATGTTCATTCA
*
2704175 TTTATGTT
1 GTTATGTT
2704183 TAACTCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTATGTTCGTTTATGTTCATTCA
Found at i:2706623 original size:15 final size:15
Alignment explanation
Indices: 2706603--2706632 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2706593 ATCTCATTCT
2706603 TGTTTAATAAAATAG
1 TGTTTAATAAAATAG
2706618 TGTTTAATAAAATAG
1 TGTTTAATAAAATAG
2706633 GAACCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
TGTTTAATAAAATAG
Found at i:2708734 original size:27 final size:27
Alignment explanation
Indices: 2708660--2708726 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
2708650 GATAATGGCT
*
2708660 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGCACTTCTGTG
*
2708687 TTGAATCATTCAGAATGCACTTCTGTG
1 CTGAATCATTCAGAATGCACTTCTGTG
2708714 CTGAATCATTCAG
1 CTGAATCATTCAG
2708727 CCAGCACTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
CTGAATCATTCAGAATGCACTTCTGTG
Found at i:2709156 original size:30 final size:30
Alignment explanation
Indices: 2709070--2709142 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
2709060 TTAAAATAAT
* * *
2709070 AATTAAATT-ATT-AACCTCTCAGATTGAGA
1 AATTAAATTAATTAAATCTTTCA-ATTAAGA
*
2709099 AATTATATTAATTAAATCTTTCAATTAAGA
1 AATTAAATTAATTAAATCTTTCAATTAAGA
2709129 AATTAAATTAATTA
1 AATTAAATTAATTA
2709143 TTTCTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 8 0.22
30 22 0.59
31 7 0.19
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (30 bp):
AATTAAATTAATTAAATCTTTCAATTAAGA
Found at i:2713214 original size:23 final size:23
Alignment explanation
Indices: 2713187--2713230 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2713177 TACCTATCGG
* *
2713187 ACTAATAATTATAATAAATTTGA
1 ACTAATAACTAAAATAAATTTGA
2713210 ACTAATAACTAAAATAAATTT
1 ACTAATAACTAAAATAAATTT
2713231 TAGTAAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
ACTAATAACTAAAATAAATTTGA
Found at i:2720800 original size:18 final size:17
Alignment explanation
Indices: 2720749--2720800 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
2720739 ATAATGTTAA
*
2720749 AATTTGTTTAAATTATT
1 AATTTGTTTTAATTATT
* *
2720766 AATTAAGTTGTAATTATT
1 AATT-TGTTTTAATTATT
2720784 AATTTGTTTTAAGTTAT
1 AATTTGTTTTAA-TTAT
2720801 CCTCTAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (17 bp):
AATTTGTTTTAATTATT
Found at i:2721947 original size:2 final size:2
Alignment explanation
Indices: 2721940--2721967 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2721930 ATAATTTCCA
2721940 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
2721968 TACTTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2725166 original size:6 final size:6
Alignment explanation
Indices: 2725157--2725187 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2725147 ACCCCTACCC
2725157 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG G
1 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG G
2725188 CAAGTGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:2729585 original size:71 final size:70
Alignment explanation
Indices: 2729506--2729646 Score: 192
Period size: 71 Copynumber: 2.0 Consensus size: 70
2729496 AAATTATGTA
* * **
2729506 AAGCAAAAAAGAAAATTAGCTATGGTGGAATTTTTATAAACAATGCGTTTATGTTATAGATTAAG
1 AAGCAAAAAAGAAAATTAGCTATAGTAGAATTTTTATAAACAATGCGTTTATGTTA-AGAAGAAG
2729571 AAGAAG
65 AAGAAG
* * * * *
2729577 AAGCAAAAAGGAAAATTAGCTTTATTAGAATTTTTATAAACATTGTGTTTATGTTAAGAAGAAGA
1 AAGCAAAAAAGAAAATTAGCTATAGTAGAATTTTTATAAACAATGCGTTTATGTTAAGAAGAAGA
2729642 AGAAG
66 AGAAG
2729647 TGGGTGTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 12 0.20
71 49 0.80
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.30
Consensus pattern (70 bp):
AAGCAAAAAAGAAAATTAGCTATAGTAGAATTTTTATAAACAATGCGTTTATGTTAAGAAGAAGA
AGAAG
Found at i:2738129 original size:19 final size:21
Alignment explanation
Indices: 2738092--2738134 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2738082 TAACTTTTTC
2738092 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
2738112 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
2738132 TTT
1 TTT
2738135 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:2738140 original size:19 final size:20
Alignment explanation
Indices: 2738091--2738140 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2738081 TTAACTTTTT
*
2738091 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
2738111 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
2738130 CTTTTACCTTT
1 CTTTTACCTTT
2738141 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:2754349 original size:30 final size:30
Alignment explanation
Indices: 2754309--2754374 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
2754299 AGGGGGGTTA
2754309 AGAA-TTAGGGATTACAAGTCAGGAAATTG
1 AGAATTTAGGGATTACAAGTCAGGAAATTG
* **
2754338 GGAATTTAGGGATTATGAGTCAGGAAATTG
1 AGAATTTAGGGATTACAAGTCAGGAAATTG
2754368 AGAATTT
1 AGAATTT
2754375 GAAAAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (30 bp):
AGAATTTAGGGATTACAAGTCAGGAAATTG
Found at i:2761582 original size:30 final size:30
Alignment explanation
Indices: 2761548--2761667 Score: 240
Period size: 30 Copynumber: 4.0 Consensus size: 30
2761538 CCCTAAGGAC
2761548 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2761578 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2761608 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2761638 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2761668 ACTGTTCATA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 90 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2762507 original size:19 final size:19
Alignment explanation
Indices: 2762469--2762507 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2762459 TTTAAGCAGG
**
2762469 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTAATTA
2762488 TGCATCGATGCACTAATTA
1 TGCATCGATGCACTAATTA
2762507 T
1 T
2762508 ATTCGATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (19 bp):
TGCATCGATGCACTAATTA
Found at i:2764403 original size:18 final size:17
Alignment explanation
Indices: 2764349--2764397 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2764339 TTGGACCCTT
* *
2764349 AGTGCATCAATGCACTAA
1 AGTGCATCGATGCA-TCA
2764367 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
2764385 AGTGCATTCGATG
1 AGTGCA-TCGATG
2764398 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:2765172 original size:2 final size:2
Alignment explanation
Indices: 2765165--2765193 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2765155 ACCAAACCAA
2765165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2765194 AAGTTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2769981 original size:21 final size:21
Alignment explanation
Indices: 2769955--2769999 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2769945 GATTTATAGG
* *
2769955 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2769976 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2769997 CAA
1 CAA
2770000 ACGAACAAAA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2771445 original size:23 final size:23
Alignment explanation
Indices: 2771419--2771527 Score: 137
Period size: 23 Copynumber: 4.7 Consensus size: 23
2771409 ATTATTATAT
2771419 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
2771442 GGCACTACGGTACAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
2771465 GGCACTTCGGCGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
2771488 GGCACTACGGTACAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
2771511 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
2771528 ATACAAGCTG
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:2771485 original size:46 final size:46
Alignment explanation
Indices: 2771418--2771527 Score: 211
Period size: 46 Copynumber: 2.4 Consensus size: 46
2771408 CATTATTATA
2771418 TGGCACTTCGGTGCATTTCTACGCGGCACTACGGTACAATTCTACG
1 TGGCACTTCGGTGCATTTCTACGCGGCACTACGGTACAATTCTACG
*
2771464 TGGCACTTCGGCGCATTTCTACGCGGCACTACGGTACAATTCTACG
1 TGGCACTTCGGTGCATTTCTACGCGGCACTACGGTACAATTCTACG
2771510 TGGCACTTCGGTGCATTT
1 TGGCACTTCGGTGCATTT
2771528 ATACAAGCTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (46 bp):
TGGCACTTCGGTGCATTTCTACGCGGCACTACGGTACAATTCTACG
Found at i:2775776 original size:27 final size:26
Alignment explanation
Indices: 2775729--2775799 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
2775719 ATCAGTGCAT
**
2775729 CAAGTGCATTCGATGTTTCAAAAT-AGC
1 CAAGTGCA-TCGATGCATC-AAATGAGC
*
2775756 CAGAGTGCATCGATGCATCAAATGATC
1 CA-AGTGCATCGATGCATCAAATGAGC
*
2775783 TAAGTGCATCGATGCAT
1 CAAGTGCATCGATGCAT
2775800 GGTATGTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 19 0.50
27 13 0.34
28 6 0.16
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (26 bp):
CAAGTGCATCGATGCATCAAATGAGC
Found at i:2776447 original size:30 final size:30
Alignment explanation
Indices: 2776411--2776472 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
2776401 GGGTCAAGAA
* **
2776411 TTAGGGACTACGAGTTTGGAAATTGGGAAT
1 TTAGGGACTACAAGTCAGGAAATTGGGAAT
* *
2776441 TTAGGGATTGCAAGTCAGGAAATTGGGAAT
1 TTAGGGACTACAAGTCAGGAAATTGGGAAT
2776471 TT
1 TT
2776473 GGAAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.32, T:0.31
Consensus pattern (30 bp):
TTAGGGACTACAAGTCAGGAAATTGGGAAT
Found at i:2777590 original size:22 final size:22
Alignment explanation
Indices: 2777565--2777611 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2777555 ATCGAAGAAT
*
2777565 AATAATTTAAAGATACATACAA
1 AATAATTAAAAGATACATACAA
*
2777587 AATAATTAAAAGATATATACAA
1 AATAATTAAAAGATACATACAA
2777609 AAT
1 AAT
2777612 TAACGTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (22 bp):
AATAATTAAAAGATACATACAA
Found at i:2778030 original size:14 final size:13
Alignment explanation
Indices: 2777999--2778028 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2777989 TTTTTAAAAT
2777999 AAAATATTATTTA
1 AAAATATTATTTA
2778012 AAAATATTATTTA
1 AAAATATTATTTA
2778025 AAAA
1 AAAA
2778029 ATCTAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:2779166 original size:2 final size:2
Alignment explanation
Indices: 2779161--2779217 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
2779151 TGCATGTGTG
2779161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2779203 TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA
2779218 GTTGTGTTGA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2781838 original size:36 final size:32
Alignment explanation
Indices: 2781771--2781843 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
2781761 ATTTGATGAG
*
2781771 TGGCATGTGCTATGTCACTTGAAGTGATGGCA
1 TGGCATGTGCTATGTCACTCGAAGTGATGGCA
* * *
2781803 TGGCATGTGCT-TGTCACTCGAAGTGAAGACG
1 TGGCATGTGCTATGTCACTCGAAGTGATGGCA
2781834 TGGCATGTGC
1 TGGCATGTGC
2781844 CACATCACCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 26 0.70
32 11 0.30
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.29
Consensus pattern (32 bp):
TGGCATGTGCTATGTCACTCGAAGTGATGGCA
Found at i:2788279 original size:21 final size:21
Alignment explanation
Indices: 2788250--2788291 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2788240 CCTAATATTG
*
2788250 CAATGTCAAAATTAGGTGCAA
1 CAATATCAAAATTAGGTGCAA
2788271 CAATATCAAAATTAGGTGCAA
1 CAATATCAAAATTAGGTGCAA
2788292 TAATGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (21 bp):
CAATATCAAAATTAGGTGCAA
Found at i:2797619 original size:24 final size:23
Alignment explanation
Indices: 2797590--2797711 Score: 127
Period size: 24 Copynumber: 5.0 Consensus size: 23
2797580 AAAAATTCAA
2797590 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGA-ACTC
*
2797614 GAGCTCGATTGAAGCTCGAGGCTC
1 GAGCTCGATTGAAGCTCGA-ACTC
** *
2797638 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTGAAGCTCGAACTC
*
2797661 GAGCTCGATTCAAGCTCGATTCAAGCTC
1 GAGCTCGATTGAAGCTCG----AA-CTC
*
2797689 GAGCTCGATTCAAGCTCGAACTC
1 GAGCTCGATTGAAGCTCGAACTC
2797712 AAACTCGAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
23 21 0.25
24 44 0.52
27 1 0.01
28 19 0.22
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGAACTC
Found at i:2797695 original size:17 final size:17
Alignment explanation
Indices: 2797673--2797707 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2797663 GCTCGATTCA
2797673 AGCTCGATTCAAGCTCG
1 AGCTCGATTCAAGCTCG
2797690 AGCTCGATTCAAGCTCG
1 AGCTCGATTCAAGCTCG
2797707 A
1 A
2797708 ACTCAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (17 bp):
AGCTCGATTCAAGCTCG
Found at i:2797707 original size:11 final size:11
Alignment explanation
Indices: 2797591--2797690 Score: 74
Period size: 11 Copynumber: 8.6 Consensus size: 11
2797581 AAAATTCAAG
*
2797591 AGCTCGATTGA
1 AGCTCGATTCA
* *
2797602 AGCTCGAGACTCG
1 AGCTC--GATTCA
*
2797615 AGCTCGATTGA
1 AGCTCGATTCA
* *
2797626 AGCTCGAGGCTCG
1 AGCTCGA--TTCA
*
2797639 AGCTCGATTGA
1 AGCTCGATTCA
**
2797650 AGCTCGATTTTG
1 AGCTCGA-TTCA
2797662 AGCTCGATTCA
1 AGCTCGATTCA
2797673 AGCTCGATTCA
1 AGCTCGATTCA
2797684 AGCTCGA
1 AGCTCGA
2797691 GCTCGATTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
11 43 0.63
12 9 0.13
13 16 0.24
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:2798015 original size:21 final size:21
Alignment explanation
Indices: 2797990--2798041 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
2797980 TGGCATAACT
2797990 TAAACCCTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
* *
2798011 TAAACCTTAACACATAAACTC
1 TAAACCCTAACACATAAACCC
*
2798032 TAAACTCTAA
1 TAAACCCTAA
2798042 ACCTTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCTAACACATAAACCC
Found at i:2798016 original size:7 final size:7
Alignment explanation
Indices: 2797990--2798093 Score: 61
Period size: 7 Copynumber: 14.9 Consensus size: 7
2797980 TGGCATAACT
2797990 TAAACCC
1 TAAACCC
*
2797997 T-AACACA
1 TAAAC-CC
2798004 TAAACCC
1 TAAACCC
2798011 TAAA-CC
1 TAAACCC
* *
2798017 TTAACACA
1 TAAAC-CC
*
2798025 TAAACTC
1 TAAACCC
*
2798032 TAAACTC
1 TAAACCC
*
2798039 TAAACCT
1 TAAACCC
*
2798046 TAAATCC
1 TAAACCC
* *
2798053 T-ATCACA
1 TAAAC-CC
*
2798060 TAAACTC
1 TAAACCC
*
2798067 TAAATCC
1 TAAACCC
2798074 TAAACCC
1 TAAACCC
2798081 TAAACCC
1 TAAACCC
2798088 TAAACC
1 TAAACC
2798094 TTATCACATA
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
6 9 0.13
7 52 0.73
8 10 0.14
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:2798043 original size:35 final size:34
Alignment explanation
Indices: 2798004--2798086 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 34
2797994 CCCTAACACA
2798004 TAAACCCTAAACCTTAACACATAAACTCTAAA-CTC
1 TAAACCCTAAACC-TAACACATAAACTCTAAATC-C
* *
2798039 TAAACCTTAAATCCTATCACATAAACTCTAAATCC
1 TAAACCCTAAA-CCTAACACATAAACTCTAAATCC
2798074 TAAACCCTAAACC
1 TAAACCCTAAACC
2798087 CTAAACCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 2 0.05
35 38 0.88
36 3 0.07
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (34 bp):
TAAACCCTAAACCTAACACATAAACTCTAAATCC
Found at i:2798063 original size:28 final size:26
Alignment explanation
Indices: 2797988--2798079 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 26
2797978 CATGGCATAA
*
2797988 CTTAAACCCTAACACATAAACCCTAAAC
1 CTTAAA-CCT-ACACATAAACTCTAAAC
* * *
2798016 CTTAACACATAAACTCTAAACTCTAAAC
1 CTTAA-ACCTACAC-ATAAACTCTAAAC
2798044 CTTAAATCCTATCACATAAACTCTAAATC
1 CTTAAA-CCTA-CACATAAACTCTAAA-C
2798073 C-TAAACC
1 CTTAAACC
2798080 CTAAACCCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
27 6 0.12
28 41 0.79
29 5 0.10
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (26 bp):
CTTAAACCTACACATAAACTCTAAAC
Found at i:2798265 original size:25 final size:24
Alignment explanation
Indices: 2798225--2798273 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
2798215 TAGTTATTAC
2798225 AAATATTTTCATTAGA-AATATATT
1 AAATATTTTCATTAGAGAA-ATATT
2798249 AAATATTTGTCATTAGAGAAATATT
1 AAATATTT-TCATTAGAGAAATATT
2798274 TTTTTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.35
25 13 0.57
26 2 0.09
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (24 bp):
AAATATTTTCATTAGAGAAATATT
Found at i:2798856 original size:2 final size:2
Alignment explanation
Indices: 2798849--2798903 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
2798839 ATTTATTTTA
2798849 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
2798891 AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT
2798904 TTAGTTTAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2799154 original size:2 final size:2
Alignment explanation
Indices: 2799147--2799189 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2799137 TTATACATTT
2799147 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2799189 T
1 T
2799190 TTCATTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2801639 original size:20 final size:21
Alignment explanation
Indices: 2801614--2801665 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2801604 TTTTACCAAT
*
2801614 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2801634 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2801655 TCGCAATGCGA
1 TCGCAATGCGA
2801666 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2801678 original size:41 final size:41
Alignment explanation
Indices: 2801651--2801728 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
2801641 GCGAATTGGG
* * *
2801651 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
*
2801692 AAAATCGCAACGAGATACTTACTATCGCAACGAGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
2801729 CTTACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:2801679 original size:20 final size:20
Alignment explanation
Indices: 2801654--2801767 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
2801644 AATTGGGAAA
*
2801654 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
2801674 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
2801695 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
*
2801715 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
2801735 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
2801755 TTCGCAACGCGAT
1 ATCGCAACGCGAT
2801768 TTACATAGCG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 66 0.82
21 14 0.17
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:2802345 original size:19 final size:19
Alignment explanation
Indices: 2802285--2802365 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
2802275 TTCGAGAATG
2802285 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
2802305 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
2802321 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
2802338 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
2802357 AAAATCGCA
1 AAAATCGCA
2802366 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2802383 original size:19 final size:19
Alignment explanation
Indices: 2802361--2802545 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
2802351 GAAACCAAAA
*
2802361 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2802380 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2802399 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
2802418 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
2802438 TCGCATTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
2802454 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2802471 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2802485 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2802504 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2802524 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2802544 TC
1 TC
2802546 AACCAAAAGA
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2802438 original size:39 final size:38
Alignment explanation
Indices: 2802361--2802545 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
2802351 GAAACCAAAA
2802361 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
2802399 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
2802438 TCGCATTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * **
2802471 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * *
2802504 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
2802544 TC
1 TC
2802546 AACCAAAAGA
Statistics
Matches: 122, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
31 3 0.02
33 37 0.30
34 10 0.08
35 1 0.01
36 3 0.02
38 21 0.17
39 29 0.24
40 18 0.15
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:2802522 original size:20 final size:20
Alignment explanation
Indices: 2802488--2802545 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2802478 GCGATTCTCT
**
2802488 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
2802508 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
2802528 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
2802546 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:2804606 original size:42 final size:42
Alignment explanation
Indices: 2804546--2804668 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
2804536 GCCCGACTCG
* * *
2804546 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
2804588 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
2804630 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
2804669 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:2804626 original size:21 final size:21
Alignment explanation
Indices: 2804602--2804668 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2804592 TCATTCCTCG
2804602 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2804623 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2804644 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2804665 AGAG
1 AGAG
2804669 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2806044 original size:14 final size:14
Alignment explanation
Indices: 2806025--2806060 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2806015 ATTGTTTAAT
2806025 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2806039 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
2806053 TGATTTGT
1 TGATTTGT
2806061 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2806285 original size:33 final size:32
Alignment explanation
Indices: 2806243--2806369 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
2806233 ATTAAATTCG
2806243 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
2806276 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
2806309 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
2806342 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2806370 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:2806332 original size:66 final size:66
Alignment explanation
Indices: 2806236--2806368 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
2806226 ACGCGAAATT
* *
2806236 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
2806301 G
66 G
*
2806302 AAATTAGCGTTACGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
2806367 G
66 G
2806368 A
1 A
2806369 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:2808670 original size:12 final size:12
Alignment explanation
Indices: 2808653--2808677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2808643 TCTTCGGGGA
2808653 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2808665 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2808677 C
1 C
2808678 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2808894 original size:23 final size:24
Alignment explanation
Indices: 2808852--2808904 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
2808842 CTGAAACATC
*
2808852 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGTGTATTGACCAAG
*
2808876 ATCAAAGTCCG-GTATTGACCAAG
1 ATCAAAATCCGTGTATTGACCAAG
2808899 ATCAAA
1 ATCAAA
2808905 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGTGTATTGACCAAG
Found at i:2809984 original size:20 final size:20
Alignment explanation
Indices: 2809959--2810014 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2809949 CCATTTGACT
2809959 ATCGCAACGCGAAAATGGCC
1 ATCGCAACGCGAAAATGGCC
**
2809979 ATCGCAACGCGAAAATGGTT
1 ATCGCAACGCGAAAATGGCC
*
2809999 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
2810015 CGCAATGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCC
Found at i:2810057 original size:14 final size:14
Alignment explanation
Indices: 2810038--2810094 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
2810028 GAAAATCGCA
2810038 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
2810052 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
2810069 CATTGCG-GTTTCTCG
1 --TTGCGATTTTCTCG
2810084 TTGCGATTTTC
1 TTGCGATTTTC
2810095 ATTTCGCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 5 0.14
14 15 0.43
15 3 0.09
17 3 0.09
18 4 0.11
19 5 0.14
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:2810074 original size:19 final size:19
Alignment explanation
Indices: 2810033--2810147 Score: 126
Period size: 19 Copynumber: 6.6 Consensus size: 19
2810023 GAAATGAAAA
2810033 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
2810049 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2810066 TCGCATTGCG-GTTTC---
1 TCGCATTGCGATTTTCATT
2810081 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2810098 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2810117 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
2810136 TCGCGTTGCGAT
1 TCGCATTGCGAT
2810148 AGTCTGTTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 19
0.79 0.04 0.18
Matches are distributed among these distances:
13 5 0.06
14 15 0.18
15 3 0.04
16 3 0.04
17 6 0.07
18 4 0.05
19 48 0.57
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2810086 original size:32 final size:33
Alignment explanation
Indices: 2810033--2810146 Score: 140
Period size: 32 Copynumber: 3.3 Consensus size: 33
2810023 GAAATGAAAA
*
2810033 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAGTTTCTCGTTGCGATTTTCATT
2810066 TCGCATTGCG-GTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAGTTTCTCGTTGCGATTTTCATT
* *
2810098 TCGCATTGCGATTTTCATTTCGCATTGCGATTTCCATT
1 TCGCATTGCGAGTTTC---TCG--TTGCGATTTTCATT
*
2810136 TCGCGTTGCGA
1 TCGCATTGCGA
2810147 TAGTCTGTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
32 31 0.44
33 14 0.20
36 3 0.04
38 23 0.32
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGAGTTTCTCGTTGCGATTTTCATT
Found at i:2812166 original size:20 final size:19
Alignment explanation
Indices: 2812131--2812197 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2812121 GAAACTTAAA
2812131 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
2812150 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
2812170 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2812189 ATCGCAACG
1 ATCGCAACG
2812198 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2812205 original size:14 final size:14
Alignment explanation
Indices: 2812186--2812243 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2812176 ATGCGAAATG
2812186 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2812200 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2812216 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2812232 AAAATCGCAACG
1 AAAATCGCAACG
2812244 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2812228 original size:32 final size:33
Alignment explanation
Indices: 2812170--2812248 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2812160 GGAAATGGCT
*
2812170 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2812203 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2812235 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2812249 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2812277 original size:19 final size:18
Alignment explanation
Indices: 2812255--2812350 Score: 73
Period size: 14 Copynumber: 5.7 Consensus size: 18
2812245 GAAACACAAA
2812255 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
2812274 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
*
2812290 T--CTTTGCGATTTCATT
1 TCGCATTGCGATTTCATT
* *
2812306 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
2812322 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
2812339 TCGCATTGCGAT
1 TCGCATTGCGAT
2812351 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
14 16 0.26
15 3 0.05
16 8 0.13
17 4 0.07
18 14 0.23
19 16 0.26
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:2812341 original size:33 final size:33
Alignment explanation
Indices: 2812260--2812350 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2812250 ACAAATCGCA
*
2812260 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCT
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
2812293 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
2812325 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
2812351 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:2812369 original size:20 final size:19
Alignment explanation
Indices: 2812335--2812388 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
2812325 TTGCGATTTT
*
2812335 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2812354 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
2812374 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
2812389 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2812387 original size:19 final size:19
Alignment explanation
Indices: 2812323--2812388 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
2812313 GCGATTTTGT
**
2812323 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
2812342 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
2812362 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
2812381 TGTTGCGA
1 CGTTGCGA
2812389 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2814233 original size:20 final size:19
Alignment explanation
Indices: 2814208--2814248 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2814198 AATAGTTTCT
2814208 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAA-AC
**
2814228 GAAAATGACTATCGCAAAC
1 GAAAATGAAAATCGCAAAC
2814247 GA
1 GA
2814249 GAATCGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (19 bp):
GAAAATGAAAATCGCAAAC
Found at i:2814526 original size:22 final size:22
Alignment explanation
Indices: 2814501--2814544 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2814491 GATTTAGATA
2814501 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2814523 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2814545 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2814824 original size:20 final size:20
Alignment explanation
Indices: 2814731--2814824 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
2814721 GATTGTGTAA
* *
2814731 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
2814751 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* * *
2814771 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTAAGT
*
2814792 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
2814812 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
2814825 TTCCCAATTC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.73
21 12 0.19
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:2814836 original size:20 final size:20
Alignment explanation
Indices: 2814813--2814925 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
2814803 ATAGTAAGTA
2814813 TCGCATTGCGATTTCCCAAT
1 TCGCATTGCGATTTCCCAAT
*
2814833 TCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTCCCAAT
* * **
2814854 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTCCCAAT
2814874 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTCCCAAT
* * **
2814895 TCGCGTTGCGATTTTCTTAT
1 TCGCATTGCGATTTCCCAAT
2814915 TCGCATTGCGA
1 TCGCATTGCGA
2814926 ATTGGGAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
20 42 0.54
21 36 0.46
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTCCCAAT
Found at i:2814840 original size:61 final size:61
Alignment explanation
Indices: 2814775--2814925 Score: 166
Period size: 61 Copynumber: 2.5 Consensus size: 61
2814765 GTAAGTATCT
2814775 CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTA-TCGCATTGCGA-TTTCCCAATTCG
1 CGTTGCGATTTT-TATTATCGCATTGCGAT-GTAAGTATTCGCATTGCGATTTTCCCAATTCG
* * * * **
2814836 CGTTGCGATTTTCCCAAT-TCGCGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTT--TATTATCGCATTGCGATGTAAGTATTCGCATTGCGATTTTCCCAATTCG
*
2814898 CGTTGCGA-TTTTCTTATTCGCATTGCGA
1 CGTTGCGATTTTTATTA-TCGCATTGCGA
2814926 ATTGGGAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
59 1 0.01
60 4 0.05
61 47 0.64
62 22 0.30
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.40
Consensus pattern (61 bp):
CGTTGCGATTTTTATTATCGCATTGCGATGTAAGTATTCGCATTGCGATTTTCCCAATTCG
Found at i:2814850 original size:21 final size:21
Alignment explanation
Indices: 2814813--2814910 Score: 137
Period size: 21 Copynumber: 4.8 Consensus size: 21
2814803 ATAGTAAGTA
*
2814813 TCGCATTGCGA-TTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
2814833 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* **
2814854 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
*
2814874 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
2814895 TCGCGTTGCGATTTTC
1 TCGCGTTGCGATTTTC
2814911 TTATTCGCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
20 26 0.39
21 41 0.61
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:2814863 original size:41 final size:41
Alignment explanation
Indices: 2814813--2814925 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 41
2814803 ATAGTAAGTA
* * *
2814813 TCGCATTGCGATTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTACCAATTCGCATTGCGATTTTCCCAAT
**
2814854 TCGCGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTACCAATTCGCATTGCGATTTTCCCAAT
* **
2814895 TCGCGTTGCGATTTTCTTATTCGCATTGCGA
1 TCGCGTTGCGATTTACCAATTCGCATTGCGA
2814926 ATTGGGAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATTTACCAATTCGCATTGCGATTTTCCCAAT
Done.