Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002478.1 Hibiscus syriacus cultivar Beakdansim tig00005063_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: 102211
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:7775 original size:20 final size:21
Alignment explanation
Indices: 7741--7781 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7731 AACTACAACT
7741 AAAATTTAAATTAG-TATATA
1 AAAATTTAAATTAGTTATATA
7761 AAAATATTAAA-TAGTTATATA
1 AAAAT-TTAAATTAGTTATATA
7782 TCCATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAATTTAAATTAGTTATATA
Found at i:9454 original size:185 final size:181
Alignment explanation
Indices: 9233--9709 Score: 666
Period size: 185 Copynumber: 2.6 Consensus size: 181
9223 GATCCAAATT
* * * **
9233 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * * *
9298 AAACCGATAAAGCGCTACCAGATACATTTAAAGTGTCGGTACTTTAATATAAGGATTGACACTTC
66 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTC
* * **
9363 GTGAATTTAAAAGGGAATCAGTTTTAAATTCTATAAAGTGTCGATACTTTTAAAA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTT--AA
* *
9418 AAAAATGTATCGATCCAAAATGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
9483 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
66 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
** * *
9548 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATTCTTTAA
131 TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
9599 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
9664 AAACCGATAAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGAT-AAAACGATACCGGATATATTGAAAGTGTCGATACTTT
9710 CGTAAGTACA
Statistics
Matches: 261, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 70 0.27
182 36 0.14
183 3 0.01
184 56 0.21
185 96 0.37
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:9471 original size:20 final size:19
Alignment explanation
Indices: 9434--9494 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
9424 GTATCGATCC
*
9434 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
*
9453 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACCGGTA-A
9474 AAAATGATAAAACCGGTAA
1 AAAATGATAAAACCGGTAA
9493 AA
1 AA
9495 CGTTACCGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 24 0.67
21 7 0.19
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:9652 original size:20 final size:19
Alignment explanation
Indices: 9629--9676 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
9619 CGATATAACA
9629 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
9649 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
9669 GATAAAAA
1 GGTAAAAA
9677 CGATACCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:11926 original size:21 final size:21
Alignment explanation
Indices: 11900--11964 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
11890 AAGACAATCA
*
11900 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
11921 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
11942 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
11963 AG
1 AG
11965 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:12042 original size:33 final size:33
Alignment explanation
Indices: 11998--12063 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
11988 AAATAGATGG
* *
11998 AGTGGTGAAAGAACTAGAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAACTAGAGGTGTTAAGGGGTGA
* * *
12031 AGTGGTAAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTAAAAGAACTAGAGGTGTTAAGGGGTGA
12064 TATTAAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.02, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTAAAAGAACTAGAGGTGTTAAGGGGTGA
Found at i:13879 original size:19 final size:19
Alignment explanation
Indices: 13855--13903 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
13845 AATATAGGGT
13855 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
13874 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
13893 TAATTTTGTAT
1 TAATTTTGTAT
13904 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:14485 original size:200 final size:200
Alignment explanation
Indices: 14137--15298 Score: 2094
Period size: 200 Copynumber: 5.8 Consensus size: 200
14127 AATTTACAAT
* *
14137 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
14202 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
14267 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
14332 AATGA
196 AATGA
* * *
14337 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
14402 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCTGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
14467 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
14532 AATGA
196 AATGA
*
14537 ATGGCAAACAGGGTGCAACAATAAAGTGTCGAT-CATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
14601 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
14666 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
14731 AATGA
196 AATGA
*
14736 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
14801 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
14866 ATGAGAGAATAGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
14931 AATGA
196 AATGA
*
14936 ATGGCAAACAGGGTGCAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
15001 CAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
15066 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
15131 ATTGA
196 AATGA
*
15136 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
15200 CTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACTGGTACAAGTATATCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
15265 ATAAGAGAATAGGTCTAAATAATGTATCGACACT
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACT
15299 GTTTAATGTT
Statistics
Matches: 936, Mismatches: 25, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
199 310 0.33
200 626 0.67
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:14910 original size:399 final size:400
Alignment explanation
Indices: 14137--15317 Score: 2107
Period size: 399 Copynumber: 3.0 Consensus size: 400
14127 AATTTACAAT
* *
14137 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
14202 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
14267 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
* *
14332 AATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATA
196 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
* * *
14397 AACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCT
261 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
*
14462 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
326 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGG
14527 TCCAGAATGA
391 TCCAGAATGA
*
14537 ATGGCAAACAGGGTGCAACAATAAAGTGTCGAT-CATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
14601 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
14666 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
* *
14731 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATA
196 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
14796 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
261 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
*
14861 GTTTTATGAGAGAATAGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGG
326 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGG
14926 TCCAGAATGA
391 TCCAGAATGA
*
14936 ATGGCAAACAGGGTGCAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
15001 CAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
15066 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
15131 ATTGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCATA
196 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
* * * *
15195 AACATCTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACTGGTACAAGTATATCG
261 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
* * *
15260 GTTTTATAAGAGAATAGGTCTAAATAATGTATCGACACTGTTTAATGTTT-TGTCGATA
326 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTA-GTTTGTGTCGATA
15318 CTAATTTAAA
Statistics
Matches: 750, Mismatches: 29, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
399 512 0.68
400 238 0.32
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (400 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGG
TCCAGAATGA
Found at i:15274 original size:599 final size:599
Alignment explanation
Indices: 14137--15298 Score: 2092
Period size: 599 Copynumber: 1.9 Consensus size: 599
14127 AATTTACAAT
* *
14137 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
14202 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
14267 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
* * *
14332 AATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATA
196 AATGAATGGAAAACAGGGTGCAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATA
* * *
14397 AACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCT
261 AACATCAAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
14462 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
326 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
14527 TCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCATATATAAAAAGTGTCGATCC
391 TCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCATATATAAAAAGTGTCGATCC
*
14592 GATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTAT
456 CATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTAT
*
14657 ACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTT
521 ACCGGTTTTATAAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTT
14722 TTGGTCCAGAATGA
586 TTGGTCCAGAATGA
*
14736 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
14801 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
14866 ATGAGAGAATAGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
14931 AATGAATGGCAAACAGGGTGCAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATA
196 AATGAATGGAAAACAGGGTGCAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATA
*
14996 AACATCAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
261 AACATCAAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
*
15061 GTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
326 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
* *
15126 TCCAGATTGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATC
391 TCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGAT-CATATATAAAAAGTGTCGATC
* * *
15190 CCATAAACATCTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACTGGTACAAGTA
455 CCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTA
*
15255 TATCGGTTTTATAAGAGAATAGGTCTAAATAATGTATCGACACT
520 TACCGGTTTTATAAGAGAATAGGTCTAAATAATGTATCGACACT
15299 GTTTAATGTT
Statistics
Matches: 538, Mismatches: 24, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
599 531 0.99
600 7 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (599 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGAATGGAAAACAGGGTGCAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATA
AACATCAAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
TCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCATATATAAAAAGTGTCGATCC
CATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTAT
ACCGGTTTTATAAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTT
TTGGTCCAGAATGA
Found at i:16822 original size:18 final size:18
Alignment explanation
Indices: 16795--16846 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
16785 CAAGCGGTCA
*
16795 ATGAAAATGAAGATGACG
1 ATGAAGATGAAGATGACG
* *
16813 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
* *
16831 ATGATGATGATGATGA
1 ATGAAGATGAAGATGA
16847 TGATCCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.31, T:0.23
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:16832 original size:3 final size:3
Alignment explanation
Indices: 16801--16850 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
16791 GTCAATGAAA
* * * *
16801 ATG AAG ATG ACG ATG AAG ATG ACG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
16849 AT
1 AT
16851 CCAAACAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (3 bp):
ATG
Found at i:18368 original size:183 final size:183
Alignment explanation
Indices: 18060--18647 Score: 1095
Period size: 183 Copynumber: 3.2 Consensus size: 183
18050 CAAATTTTTC
18060 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
18125 CAAAAAATGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
18190 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
18243 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
18308 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
18373 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
18426 ACACTTTTTAATATTGTATCGGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
18491 CAAAAAGTGTCGACATTTACACATCGGAATCGAGAATTATAATGTAATATATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
18556 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
18609 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
18648 TATAATGTAC
Statistics
Matches: 394, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 394 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:18736 original size:120 final size:120
Alignment explanation
Indices: 18523--18740 Score: 391
Period size: 120 Copynumber: 1.8 Consensus size: 120
18513 ATCGGAATCG
*
18523 AGAATTATAATGTAATATATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
18588 ATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCC
66 ATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCC
* * *
18643 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
*
18708 ATAGGTCTACAACCTATGTCGACACTTTTTAAT
66 ATAGGTCTACAACCTATATCGACACTTTTTAAT
18741 AGAGAAAATA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 93 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (120 bp):
AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCC
Found at i:18789 original size:120 final size:118
Alignment explanation
Indices: 18529--18766 Score: 280
Period size: 120 Copynumber: 2.0 Consensus size: 118
18519 ATCGAGAATT
18529 ATAATGTAATATATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGT
1 ATAA-GTAATATATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGT
* * **** * * * * *
18594 CTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATT
65 CTACAACCTATATCGACACTTTTTAA-TTAGAGAAAATACCTCATGACCAAAATC
* * * *
18649 ATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGT
1 ATAA-GTAATATATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGT
*
18714 CTACAACCTATGTCGACACTTTTTAA-TAGAGAAAATAACCTCAGTGACCAAAA
65 CTACAACCTATATCGACACTTTTTAATTAGAGAAAAT-ACCTCA-TGACCAAAA
18767 ATCCTAGATA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
118 4 0.04
119 4 0.04
120 93 0.92
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (118 bp):
ATAAGTAATATATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC
TACAACCTATATCGACACTTTTTAATTAGAGAAAATACCTCATGACCAAAATC
Found at i:18977 original size:22 final size:22
Alignment explanation
Indices: 18951--19003 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
18941 TTCCATTTCG
18951 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
18973 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
18995 CGTTGCGAT
1 CGTTGCGAT
19004 TTTCCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:19153 original size:5 final size:6
Alignment explanation
Indices: 19114--19150 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
19104 GACACGTATT
19114 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
19151 CGAGACGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:19779 original size:22 final size:21
Alignment explanation
Indices: 19753--19823 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 21
19743 CAACGAATTT
19753 TCGCAACGACAACTGTAGACTA
1 TCGCAACGACAA-TGTAGACTA
* * **
19775 TCGCAACG--AATTTGGAAAA
1 TCGCAACGACAATGTAGACTA
19794 TCGCAACGACAATTGTAGACTA
1 TCGCAACGACAA-TGTAGACTA
19816 TCGCAACG
1 TCGCAACG
19824 CGAAATGGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 13 0.34
20 2 0.05
21 2 0.05
22 21 0.55
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
TCGCAACGACAATGTAGACTA
Found at i:19782 original size:35 final size:36
Alignment explanation
Indices: 19736--19823 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 36
19726 ATTTTTTTTA
*
19736 ACTATCACAACGAATTT-TCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTATCGCAACGACAACTGTAG
*
19771 ACTATCGCAACGAATTTGGAAAATCGCAACGACAATTGTAG
1 ACTATCGCAACGAATTT-----ATCGCAACGACAACTGTAG
19812 ACTATCGCAACG
1 ACTATCGCAACG
19824 CGAAATGGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 16 0.36
41 29 0.64
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (36 bp):
ACTATCGCAACGAATTTATCGCAACGACAACTGTAG
Found at i:19811 original size:41 final size:40
Alignment explanation
Indices: 19753--19889 Score: 161
Period size: 41 Copynumber: 3.3 Consensus size: 40
19743 CAACGAATTT
* *
19753 TCGCAACGACAACTGTAGACTATCGCAA-CGAATTTGGAAAA
1 TCGCAACG-CAATTGTAGACTATCGCAACCGAA-ATGGAAAA
19794 TCGCAACGACAATTGTAGACTATCGCAACGCGAAATGGAAAA
1 TCGCAACG-CAATTGTAGACTATCGCAAC-CGAAATGGAAAA
* * *
19836 TCGCAACGCGATTTTCA-ACTATCGCAACGCGAACTGGAAAA
1 TCGCAACGCAATTGT-AGACTATCGCAAC-CGAAATGGAAAA
19877 TCGCAACGCAATT
1 TCGCAACGCAATT
19890 ATCGCTACGC
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
41 67 0.77
42 16 0.18
43 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (40 bp):
TCGCAACGCAATTGTAGACTATCGCAACCGAAATGGAAAA
Found at i:19840 original size:20 final size:20
Alignment explanation
Indices: 19815--19925 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
19805 ATTGTAGACT
19815 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
19835 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
19856 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
*
19876 ATCGCAACGC--AAT----T
1 ATCGCAACGCGAAATGGAAA
* *
19890 ATCGCTACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
19910 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
19926 CAACGTGAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
14 9 0.13
16 3 0.04
18 2 0.03
20 40 0.58
21 15 0.22
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:19900 original size:34 final size:34
Alignment explanation
Indices: 19855--19919 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
19845 GATTTTCAAC
* *
19855 TATCGCAACGCGAACTGGAAAATCGCAACGCAAT
1 TATCGCAACGCGAAATGAAAAATCGCAACGCAAT
*
19889 TATCGCTACGCGAAATGAAAAATCGCAACGC
1 TATCGCAACGCGAAATGAAAAATCGCAACGC
19920 GAAATGCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.15
Consensus pattern (34 bp):
TATCGCAACGCGAAATGAAAAATCGCAACGCAAT
Found at i:20373 original size:120 final size:120
Alignment explanation
Indices: 20160--20406 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
20150 ACATCGGAAC
20160 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
20225 GAATAGGTCTACAACCTATATTGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
20280 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACTGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
20345 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
20400 CCAGAAT
1 CCAGAAT
20407 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:20615 original size:303 final size:303
Alignment explanation
Indices: 20068--21177 Score: 2031
Period size: 303 Copynumber: 3.7 Consensus size: 303
20058 TTATTTTCTT
*
20068 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATTTGTCGATACCTTGTCAA
1 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGTCAA
20133 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
66 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
20198 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATTGACACTTTTTAATTTT
131 CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
20263 GTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGT
196 GTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGT
*
20328 ATACTGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
261 ATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
*
20371 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAA
1 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGTCAA
*
20436 AAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
66 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
20501 TGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATTTT
131 CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
20566 GTGTCGGTACTTTATGTCCAGAATTATAATATACTAGATAATTTTGTAATATAACCGGTATAAGT
196 GTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGT
20631 ATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
261 ATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
* *
20674 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAA
1 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGTCAA
* *
20739 AAAGTGTCGACATTTACACATCGGAACCGATAATTATAATGTAATAGATAATTTTGTAATATAAC
66 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
20804 CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGATACTTTTTAATATT
131 CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
20869 GTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGT
196 GTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGT
20934 ATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
261 ATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
*
20977 CTTTTTAATATTGTGTAGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGTCAA
1 CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGTCAA
* *
21042 AAAGTGTCGATATTTACACATCGGAACCGAGAATTATAATGTAATAGATAATTTTGTAATATAAC
66 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
21107 CGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATTGACACTTTTTAATATT
131 CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
21172 GTGTCG
196 GTGTCG
21178 CTAATTTTAA
Statistics
Matches: 784, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
303 784 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (303 bp):
CTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGTCAA
AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
CGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGT
ATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCGACA
Found at i:20634 original size:120 final size:120
Alignment explanation
Indices: 20467--20709 Score: 414
Period size: 120 Copynumber: 2.0 Consensus size: 120
20457 CGGAACCCAT
* *
20467 AATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGATTTTATGAGCGAAT
1 AATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
20532 AGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * * *
20587 AATTATAATATACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
20652 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
20707 AAT
1 AAT
20710 GGAAGAAAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (120 bp):
AATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:20915 original size:120 final size:120
Alignment explanation
Indices: 20770--21012 Score: 423
Period size: 120 Copynumber: 2.0 Consensus size: 120
20760 CGGAACCGAT
20770 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
* *
20835 AGGTCTACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTAGGTACTTTATGTCCAG
* * * *
20890 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
20955 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTAGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTAGGTACTTTATGTCCAG
21010 AAT
1 AAT
21013 AGAAGAAAAA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTAGGTACTTTATGTCCAG
Found at i:23934 original size:23 final size:23
Alignment explanation
Indices: 23903--23975 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
23893 ATAGGTAAAA
* *
23903 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
23926 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
23949 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
23972 ATAT
1 ATAT
23976 TGTAAAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:24423 original size:23 final size:23
Alignment explanation
Indices: 24392--24460 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
24382 ATAGGTAAAA
*
24392 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
24415 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGCTT
24438 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
24461 TTATTGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:24573 original size:489 final size:489
Alignment explanation
Indices: 23717--25377 Score: 2806
Period size: 489 Copynumber: 3.4 Consensus size: 489
23707 GACCCAAATT
*
23717 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
23782 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
23847 AAAAGTATCGATCATTTTTATAAAATGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
23912 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG-TTTATAT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTT-TAT
* *
23976 TGTAAAATATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTA
260 TGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTA
* **
24041 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTTGTAATTATAGGCGTCTAATGATTTATTT
325 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTATCTAATGATTTATTT
24106 TTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
390 TTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
*
24171 TTATCTTTGGTTAATATTGTTAAATTTAAAATCTA
455 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
* *
24206 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
24271 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
24336 AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
*
24401 AATAGGTAGTGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTTTATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTTTATT
* *
24466 GTAAAGTATCTATCCTTTTTATAAAAGTGTTCATTCTTTTTTCACTGTGGAAAACATTAATTTAA
261 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
24531 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTATCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTATCTAATGATTTATTTT
*
24596 TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
391 TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
*
24661 TATCTTTGGTAAATATTGTTAAATTTAAATTCTA
456 TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
*
24695 AATATTATTTTATAAAATATCAAAACAATCAAATAGTTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
*
24760 ATATTGTAGGCGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
24825 AAAAGTATCGATCCTTTTTATAAAAAGTATCGATCCTTTTTATAAAAAGTATGTACACTTTCAAT
131 AAAAG--T--AT-C------------G-ATC-A---TTTTTATAAAAAGTATGGACACTTTCAAT
*
24890 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAA
174 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
* * *
24955 TGTAATAGGTAGTGCTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTATTTC
239 TGTAATAGGTAGTGCTTTTATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
*
25020 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTA
304 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
* * * *
25085 TATGTATCTAATGATTTATTTTTTATGTCACGGTATATATTATCATTAAATTAAAAACAATAAAC
369 TAGGTATCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC
*
25150 ATATATATTACATATTTATTATTATCTTTGATTAATATTGTTAAATTTAAATTCTA
434 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
25206 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
25271 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACA-AAGCTTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAA-CTTTAA
* *
25334 AAAAAGTATCGATCATTTTTATAAAAAAATATAGACACTTTCAA
130 AAAAAGTATCGATCATTTTTAT-AAAAAGTATGGACACTTTCAA
25378 CATATTATAA
Statistics
Matches: 1109, Mismatches: 38, Indels: 50
0.93 0.03 0.04
Matches are distributed among these distances:
488 7 0.01
489 621 0.56
490 3 0.00
491 2 0.00
492 3 0.00
493 3 0.00
494 1 0.00
505 1 0.00
506 3 0.00
507 3 0.00
508 2 0.00
509 2 0.00
510 35 0.03
511 423 0.38
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (489 bp):
AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTTTATT
GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTATCTAATGATTTATTTT
TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
Found at i:24885 original size:22 final size:22
Alignment explanation
Indices: 24819--24876 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
24809 ATTACATAAC
*
24819 TTTAAAAAAAGTATCGATCCTT
1 TTTATAAAAAGTATCGATCCTT
24841 TTTATAAAAAGTATCGATCCTT
1 TTTATAAAAAGTATCGATCCTT
24863 TTTATAAAAAGTAT
1 TTTATAAAAAGTAT
24877 GTACACTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTATAAAAAGTATCGATCCTT
Found at i:24934 original size:23 final size:23
Alignment explanation
Indices: 24903--24975 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
24893 ATAGGTAAAA
*
24903 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
24926 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
24949 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
24972 ATAT
1 ATAT
24976 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:25296 original size:511 final size:510
Alignment explanation
Indices: 24330--25360 Score: 1848
Period size: 511 Copynumber: 2.0 Consensus size: 510
24320 ATTACATAAC
*
24330 TTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA
1 TTTATAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA
* *
24395 TGATGTAATAGGTAGTGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
66 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCT
* * * *
24460 TTTATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATTCTTTTTTCACTGTGGAAAACATTA
131 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTA
*
24525 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTATCTAATGATT
196 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGTATCTAATGATT
* *
24590 TATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATT
261 TATTTTTTACGTCACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATT
*
24655 TATTATTATCTTTGGTAAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAA
326 TATTATTATCTTTGATAAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAA
*
24720 CAATCAAATAGTTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAAC
391 CAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAAC
*
24785 ACTATTAAAAAAATTGAAACATAAATTACATAA-CTTTAAAAAAAGTATCGATCCTT
456 ACTATT-AAAAAATTGAAACATAAATTACA-AAGCTTTAAAAAAAGTATCGATCATT
* *
24841 TTTATAAAAAGTATCGATCCTTTTTATAAAAAGTATGTACACTTTCAATATAATAGGTAAAAATA
1 TTTATAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA
24906 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCT
66 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCT
*
24971 TATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTA
131 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTA
*
25036 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATT
196 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGTATCTAATGATT
* *
25101 TATTTTTTATGTCACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATT
261 TATTTTTTACGTCACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATT
*
25166 TATTATTATCTTTGATTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAA
326 TATTATTATCTTTGATAAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAA
*
25231 CAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAAC
391 CAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAAC
25296 ACTATTAAAAAATTGAAACATAAATTACAAAGCTTTAAAAAAAGTATCGATCATT
456 ACTATTAAAAAATTGAAACATAAATTACAAAGCTTTAAAAAAAGTATCGATCATT
25351 TTTATAAAAA
1 TTTATAAAAA
25361 AATATAGACA
Statistics
Matches: 498, Mismatches: 21, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
509 2 0.00
510 55 0.11
511 441 0.89
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (510 bp):
TTTATAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA
TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTTTATATAATGTAATAGGTAGTGCT
TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTA
ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGTATCTAATGATT
TATTTTTTACGTCACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATT
TATTATTATCTTTGATAAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAA
CAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAAC
ACTATTAAAAAATTGAAACATAAATTACAAAGCTTTAAAAAAAGTATCGATCATT
Found at i:25497 original size:23 final size:23
Alignment explanation
Indices: 25451--25498 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
25441 AAATAGGTCA
*
25451 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
* *
25474 ATATAAGCGCTATCTAATATATT
1 ATATAAGCGCTACCTAATACATT
25497 AT
1 AT
25499 TGTATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:27319 original size:21 final size:21
Alignment explanation
Indices: 27303--27344 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27293 GCGTTGCATT
27303 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
27324 TCGCGTTGCGATAGTTAAAAA
1 TCGCGTTGCGATAGTTGAAAA
27345 AAAAGATTTT
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:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:27945 original size:5 final size:5
Alignment explanation
Indices: 27935--27968 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
27925 TCCGTCTCGT
27935 GTCGG GTCGG GTCGG GTCGG GTCGG GTCGG GTCG
1 GTCGG GTCGG GTCGG GTCGG GTCGG GTCGG GTCG
27969 TGGTAATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.59, T:0.21
Consensus pattern (5 bp):
GTCGG
Found at i:28620 original size:85 final size:85
Alignment explanation
Indices: 28437--28693 Score: 320
Period size: 85 Copynumber: 3.0 Consensus size: 85
28427 CAAATTGATA
* * * * *
28437 CTTTAGCGGCGTTTGTTGTAAAAACGCCGCTATATATCT-GACCTTTTGTGGCATTTTTTCCAAA
1 CTTTTGCGGCGTTTGTTCTAAAAACACCGCTATAGATCTCGACCTTTTGTGGCATTTATTCCAAA
* *
28501 AACGCTGCTATATATCTAAC
66 AACGCCGCTATAGATCTAAC
* * * *
28521 CTTTTGCGGCGTTTGTTCTAAAAA-ACCGCTATAGATCTCAACTTTTTGCGGCGTTTATTCCAAT
1 CTTTTGCGGCGTTTGTTCTAAAAACACCGCTATAGATCTCGACCTTTTGTGGCATTTATTCCAA-
* *
28585 ACACGCCGCTATAGATCTGAC
65 AAACGCCGCTATAGATCTAAC
* * * * *
28606 CTTTTGCGGCGTTTGTTCCAAAAACATCGCTATAGATCTCGACCTTCTGTGGCATTTGTTACAAA
1 CTTTTGCGGCGTTTGTTCTAAAAACACCGCTATAGATCTCGACCTTTTGTGGCATTTATTCCAAA
28671 AACGCCGCTATAGATCTTAAC
66 AACGCCGCTATAGATC-TAAC
28692 CT
1 CT
28694 ATGGCAGCGT
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
83 12 0.08
84 41 0.28
85 56 0.39
86 36 0.25
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (85 bp):
CTTTTGCGGCGTTTGTTCTAAAAACACCGCTATAGATCTCGACCTTTTGTGGCATTTATTCCAAA
AACGCCGCTATAGATCTAAC
Found at i:28625 original size:43 final size:42
Alignment explanation
Indices: 28437--28687 Score: 270
Period size: 42 Copynumber: 5.9 Consensus size: 42
28427 CAAATTGATA
* ** *
28437 CTTTAGCGGCGTTTGTTGTAAAAACGCCGCTATATATCTGAC
1 CTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAC
* * * * * *
28479 CTTTTGTGGCATTTTTTCCAAAAACGCTGCTATATATCTAAC
1 CTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAC
* * *
28521 CTTTTGCGGCGTTTGTTCTAAAAA-ACCGCTATAGATCTCAAC
1 CTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GAC
* * *
28563 TTTTTGCGGCGTTTATTCCAATACACGCCGCTATAGATCTGAC
1 CTTTTGCGGCGTTTGTTCCAA-AAACGCCGCTATAGATCTGAC
**
28606 CTTTTGCGGCGTTTGTTCCAAAAACATCGCTATAGATCTCGAC
1 CTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GAC
* * * *
28649 CTTCTGTGGCATTTGTTACAAAAACGCCGCTATAGATCT
1 CTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT
28688 TAACCTATGG
Statistics
Matches: 173, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
41 11 0.06
42 90 0.52
43 59 0.34
44 13 0.08
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (42 bp):
CTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAC
Found at i:30652 original size:6 final size:6
Alignment explanation
Indices: 30643--30676 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
30633 ATTATTATTT
* *
30643 ATTATA ATTATA ATTATA ATAATA ATTATT ATTA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTA
30677 ATATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:32756 original size:21 final size:21
Alignment explanation
Indices: 32711--32759 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
32701 ACAGAAAAAT
*
32711 AAAATAAAAAAATATCTAAAT
1 AAAATAAAAAAATATCTAAAG
32732 AAAATAAAAATAAT-T-TGAAAG
1 AAAATAAAAA-AATATCT-AAAG
32753 AAAATAA
1 AAAATAA
32760 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATAAAAAAATATCTAAAG
Found at i:34082 original size:11 final size:11
Alignment explanation
Indices: 34066--34101 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
34056 AGAACCAGAG
*
34066 TTCTCTCTGGT
1 TTCTCTCTAGT
34077 TTCTCTCTAGT
1 TTCTCTCTAGT
*
34088 TTCCCTCTAGT
1 TTCTCTCTAGT
34099 TTC
1 TTC
34102 CCTCGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.06, C:0.31, G:0.11, T:0.53
Consensus pattern (11 bp):
TTCTCTCTAGT
Found at i:34102 original size:11 final size:11
Alignment explanation
Indices: 34070--34105 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
34060 CCAGAGTTCT
* *
34070 CTCTGGTTTCT
1 CTCTAGTTTCC
34081 CTCTAGTTTCC
1 CTCTAGTTTCC
34092 CTCTAGTTTCC
1 CTCTAGTTTCC
34103 CTC
1 CTC
34106 GCCGGAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.06, C:0.36, G:0.11, T:0.47
Consensus pattern (11 bp):
CTCTAGTTTCC
Found at i:34880 original size:12 final size:11
Alignment explanation
Indices: 34863--34944 Score: 60
Period size: 12 Copynumber: 6.9 Consensus size: 11
34853 TTGGGTCTTG
34863 TAATAATATATT
1 TAATAATA-ATT
34875 TAATAATAATAT
1 TAATAATAAT-T
*
34887 AATATATATATAATA
1 --TA-ATA-ATAATT
34902 TAATAAT-ATT
1 TAATAATAATT
*
34912 T-ATAATAATAA
1 TAATAATAAT-T
34923 TAATAATAATTT
1 TAATAATAA-TT
34935 TAATAATAAT
1 TAATAATAAT
34945 GATTTAAGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
9 5 0.09
10 5 0.09
11 6 0.11
12 28 0.49
13 3 0.05
14 2 0.04
15 3 0.05
16 5 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATAATT
Found at i:34881 original size:3 final size:3
Alignment explanation
Indices: 34875--34944 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
34865 ATAATATATT
* *
34875 TAA TAA TAA T-A TAA TATA TATA TAA T-A TAA TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
34920 TAA TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
34945 GATTTAAGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.07
3 45 0.80
4 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:34883 original size:15 final size:15
Alignment explanation
Indices: 34863--34924 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
34853 TTGGGTCTTG
*
34863 TAATAATATATTTAA
1 TAATAATATATATAA
34878 TAATAATATA-AT-A
1 TAATAATATATATAA
34891 T-AT-ATATA-AT-A
1 TAATAATATATATAA
*
34902 TAATAATATTTATAA
1 TAATAATATATATAA
34917 TAATAATA
1 TAATAATA
34925 ATAATAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 9 0.22
12 4 0.10
13 6 0.15
14 3 0.07
15 19 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATATATAA
Found at i:34940 original size:24 final size:24
Alignment explanation
Indices: 34875--34944 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
34865 ATAATATATT
*
34875 TAATAATAA-TATAATATATATATAA
1 TAATAATAATTTTAATA-ATA-ATAA
34900 T-ATAATAATATTT-ATAATAATAA
1 TAATAATAAT-TTTAATAATAATAA
34923 TAATAATAATTTTAATAATAAT
1 TAATAATAATTTTAATAATAAT
34945 GATTTAAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
23 8 0.20
24 26 0.65
25 4 0.10
26 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATAATTTTAATAATAATAA
Found at i:34949 original size:15 final size:15
Alignment explanation
Indices: 34920--34949 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34910 TTTATAATAA
34920 TAATAATAATAATTT
1 TAATAATAATAATTT
*
34935 TAATAATAATGATTT
1 TAATAATAATAATTT
34950 AAGTAAAATG
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TAATAATAATAATTT
Found at i:34959 original size:14 final size:14
Alignment explanation
Indices: 34901--34960 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 14
34891 TATATATAAT
34901 ATAATAAT-ATTT-
1 ATAATAATGATTTA
*
34913 ATAATAAT-A-ATA
1 ATAATAATGATTTA
34925 ATAATAAT--TTTA
1 ATAATAATGATTTA
34937 ATAATAATGATTTA
1 ATAATAATGATTTA
34951 AGTAA-AATGA
1 A-TAATAATGA
34961 AAAATTAGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 1 0.02
12 27 0.66
14 10 0.24
15 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (14 bp):
ATAATAATGATTTA
Found at i:35595 original size:76 final size:76
Alignment explanation
Indices: 35123--35568 Score: 772
Period size: 76 Copynumber: 5.9 Consensus size: 76
35113 ATTGAAGGGT
* * * *
35123 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACAACATGCACTGCAGGATTTACAGA
1 TTTGAAAACATCAAAAAGATCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGA
*
35188 TGA-CCTGAAGAC
65 TGACCCT-AAGGC
* *
35200 -TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGCAGGACTTACAGA
1 TTTGAAAACATCAAAAAGATCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGA
35264 TGACCCTAAGGC
65 TGACCCTAAGGC
*
35276 TTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
35340 GACCCTAAGGC
66 GACCCTAAGGC
35351 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
35416 GACCCTAAGGC
66 GACCCTAAGGC
35427 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
35492 GACCCTAAGGC
66 GACCCTAAGGC
35503 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
35568 G
66 G
35569 TGGGAAATAG
Statistics
Matches: 361, Mismatches: 5, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
75 49 0.14
76 307 0.85
77 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GACCCTAAGGC
Found at i:36270 original size:22 final size:22
Alignment explanation
Indices: 36245--36300 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
36235 CATAAAGCTT
* *
36245 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
* *
36267 TCATCTTTTAAAAAGGGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
36290 TCATCTTTGAA
1 TCATCTTTGAA
36301 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:37844 original size:35 final size:34
Alignment explanation
Indices: 37805--37877 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
37795 CATTACTTCT
37805 TATTGAGATGAACCTTCAAAATGCCCAAATATTC
1 TATTGAGATGAACCTTCAAAATGCCCAAATATTC
** * *
37839 ATATTGTTATGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGAGATGAACCTTCAAAATGCCCAAATATTC
37874 TATT
1 TATT
37878 TCTGGTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (34 bp):
TATTGAGATGAACCTTCAAAATGCCCAAATATTC
Found at i:38932 original size:114 final size:114
Alignment explanation
Indices: 38732--38944 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
38722 GATCATGCAG
* * *
38732 TTCATCTTTTAATTCTAATGATTGGTTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
38797 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGAAAA
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGAAAA
* *
38846 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
38911 ACACTTCCAGAAGATGCTATTGGATCTCCTTATT
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATT
38945 CCTACTACGA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGAAAA
Found at i:48084 original size:3 final size:3
Alignment explanation
Indices: 48078--48150 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
48068 ATAATATATT
* * *
48078 TAA TAA TAA T-A TAA TATA TATA TAA T-A TAT TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
48123 TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48151 TTAAGTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.07
3 46 0.81
4 7 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:48086 original size:15 final size:14
Alignment explanation
Indices: 48066--48154 Score: 65
Period size: 15 Copynumber: 6.0 Consensus size: 14
48056 TTGGGCCTTG
48066 TAATAATATATTTAA
1 TAATAATA-ATTTAA
*
48081 TAATAAT-ATAATATA
1 TAATAATAAT-TTA-A
48096 TATATAAT-ATATTAA
1 TA-ATAATAAT-TTAA
* * *
48111 TATTTATAATAATAA
1 TAATAATAAT-TTAA
48126 TAATAATAATTTTAA
1 TAATAATAA-TTTAA
48141 TAATAATAATTTAA
1 TAATAATAATTTAA
48155 GTAAAATGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 2 0.03
14 10 0.16
15 38 0.62
16 11 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:48100 original size:11 final size:11
Alignment explanation
Indices: 48066--48107 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
48056 TTGGGCCTTG
*
48066 TAATAATATATT
1 TAAT-ATATATA
48078 TAATA-ATAATA
1 TAATATAT-ATA
48089 TAATATATATA
1 TAATATATATA
48100 TAATATAT
1 TAATATAT
48108 TAATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 19 0.70
12 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATATATATA
Found at i:51418 original size:15 final size:15
Alignment explanation
Indices: 51398--51429 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51388 ATCAATACCT
51398 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
51413 TTTTGCATACATTCA
1 TTTTGCATACATGCA
51428 TT
1 TT
51430 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:58768 original size:14 final size:14
Alignment explanation
Indices: 58751--58793 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
58741 TGAAGAGAAG
58751 AAAAAGAAGAAAAA
1 AAAAAGAAGAAAAA
58765 AAAAAGAA-AAAAA
1 AAAAAGAAGAAAAA
58778 AAAGATA-AAGAAAAA
1 AAA-A-AGAAGAAAAA
58793 A
1 A
58794 GGGGGTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 7 0.27
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAGAAGAAAAA
Found at i:58791 original size:13 final size:11
Alignment explanation
Indices: 58746--58794 Score: 62
Period size: 11 Copynumber: 4.2 Consensus size: 11
58736 ATGCTTGAAG
*
58746 AGAAGAAAAAGA
1 AGAA-AAAAAAA
58758 AGAAAAAAAAA
1 AGAAAAAAAAA
58769 AGAAAAAAAAA
1 AGAAAAAAAAA
58780 AGATAAAGAAAAA
1 AGA-AAA-AAAAA
58793 AG
1 AG
58795 GGGGTCAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 20 0.59
12 7 0.21
13 7 0.21
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:59136 original size:15 final size:16
Alignment explanation
Indices: 59116--59149 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59106 TTCTATCTAT
59116 TTTAAG-TTCAATTTA
1 TTTAAGATTCAATTTA
59131 TTTAAGATTCAATTTA
1 TTTAAGATTCAATTTA
59147 TTT
1 TTT
59150 TCGAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAGATTCAATTTA
Found at i:60788 original size:95 final size:95
Alignment explanation
Indices: 60630--60829 Score: 382
Period size: 95 Copynumber: 2.1 Consensus size: 95
60620 TATTCTCCTC
*
60630 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAAATCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
60695 AAAGGTCACTTCATAATCAGATGAGTTATT
66 AAAGGTCACTTCATAATCAGATGAGTTATT
60725 ATCAGAATCAGAAATCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAAATCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
*
60790 AAAGGTCACTTCATAATCAGATGAGTTGTT
66 AAAGGTCACTTCATAATCAGATGAGTTATT
60820 ATCAGAATCA
1 ATCAGAATCA
60830 ACATGTTGCA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 103 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (95 bp):
ATCAGAATCAGAAATCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
AAAGGTCACTTCATAATCAGATGAGTTATT
Found at i:61338 original size:113 final size:114
Alignment explanation
Indices: 61140--61814 Score: 600
Period size: 113 Copynumber: 5.7 Consensus size: 114
61130 CCATCATTCA
* * *
61140 ATGGATCAGCATTT-CCAGAGAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAG
1 ATGGATAAACATTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
61204 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTG
66 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTG
*
61253 ATGGATAAACATTTGCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATAAACATTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * * *
61317 TTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCGACGTT-ATCAC-AG
66 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGA-ATTCATCTCTTG
* * *
61365 AAGGAGATAGATCGGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 -ATG-GATA-A-----A-C-A-TTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
61430 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTG
55 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTG
* * *
61490 ATGGATCAACATTTGCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAG
1 ATGGATAAACATTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* ** * *
61554 TTCATAATGAGAAGAACTTGTTTAA-TCTTTTGCTCG-ACGCTATCAC-AG
66 TTCATAATGAGAAGAACTTGTTCAACT-TTTTGCTCGAATTC-ATCTCTTG
* * * *
61602 AAGGAGATAGATCGGCACCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-A
1 -ATG-GATA-A-----A-C-A-TTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
* * * ** *
61666 GGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTG-TATAATTCTATAACAGAAGCA
55 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTC-AT--C----TC-
*
61730 GATAG
112 --TTG
* * * * *
61735 ATTAGCATAAACCTTT-CCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGA
1 A-T-GGATAAACATTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
61798 AGTTCATAATGAGAAGA
64 AGTTCATAATGAGAAGA
61815 GCTTATTTAA
Statistics
Matches: 462, Mismatches: 55, Indels: 80
0.77 0.09 0.13
Matches are distributed among these distances:
112 5 0.01
113 174 0.38
114 22 0.05
115 3 0.01
116 1 0.00
117 1 0.00
120 2 0.00
121 2 0.00
122 32 0.07
123 94 0.20
124 113 0.24
125 2 0.00
126 1 0.00
127 1 0.00
129 1 0.00
132 2 0.00
133 5 0.01
134 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (114 bp):
ATGGATAAACATTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTG
Found at i:61415 original size:124 final size:124
Alignment explanation
Indices: 61276--61919 Score: 684
Period size: 123 Copynumber: 5.3 Consensus size: 124
61266 TGCCAGAAGT
*
61276 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
61341 ACCTTTTGCTCGACGTTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAA
66 ACCTTTTGCTCGACGTTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAA
*
61400 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
* * * * * **
61465 ACTTTTTGCTCGA-ATTCATCTC---------TTGAT-GG-ATCAACATTTGCCAGA-AGT
66 ACCTTTTGCTCGACGTT-ATCACAGAAGGAGATAGATCGGCATCAAC-TTTTCCAGAGAAA
*
61513 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
* * *
61578 ATCTTTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCACCAACTTTTCCAGAGAAA
66 ACCTTTTGCTCGACGTTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAA
* * * *
61637 GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
** ** * * ** * * **
61701 ACCTTTTG-TATAATTCTATAACAGAAGCAGATAGATTAGCATAAACCTTTCCAGA-AGT
66 ACCTTTTGCTCGACGT-TATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAA
* * * *
61759 GTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTTA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
* * * * * * ** *
61824 ACATTTTGAAT-GAC-TCTATCACAGAAGGAAATAGGTC--CA-CATCATCCCCAACAGAAA
66 ACCTTTTG-CTCGACGT-TATCACAGAAGGAGATAGATCGGCATCAACTTTTCC-AGAGAAA
* *
61881 GTTCATAATGAGAAGAACTCATCTAAAGAAAG-AGAAGAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
61920 TTTATTCAAC
Statistics
Matches: 433, Mismatches: 66, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
113 85 0.20
114 11 0.03
115 4 0.01
120 5 0.01
121 11 0.03
122 63 0.15
123 140 0.32
124 113 0.26
125 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (124 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTA
ACCTTTTGCTCGACGTTATCACAGAAGGAGATAGATCGGCATCAACTTTTCCAGAGAAA
Found at i:61566 original size:237 final size:236
Alignment explanation
Indices: 61151--61919 Score: 1034
Period size: 237 Copynumber: 3.2 Consensus size: 236
61141 TGGATCAGCA
* *
61151 TTTCCAGAGAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
61216 AGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTGATGGATAAACATTTGCCAGAAGTGTTCA
66 AGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTGATGGATAAACATTTGCCAGAAGTGTTCA
* *
61281 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
61346 TTGCTCGACGTTATCACAGAAGGAGATAGATCGGCATCAACT
196 TTGCTCGACGTTATCACAGAAGGAGATAGATCGGCA-CAACT
61388 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
61453 AGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTGATGGATCAACATTTGCCAGAAGTGTTCA
66 AGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTGATGGATAAACATTTGCCAGAAGTGTTCA
*
61518 TAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAATCTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
*
61583 TTGCTCGACGCTATCACAGAAGGAGATAGATCGGCACCAACT
196 TTGCTCGACGTTATCACAGAAGGAGATAGATCGGCA-CAACT
* *
61625 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * ** * * * *
61689 AGAGCTTGTTCAACCTTTTG-TATAATTCTATAACAGAAGCAGATAGATTAGCATAAACCTTT-C
66 AGAACTTGTTCAACTTTTTGCTCGAATTC-AT--C----TC---TTGA-T-GGATAAACATTTGC
* *
61752 CAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGGA-GAAAGAAGAAGTTCATAATGAGAAGAG
119 CAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAA-AAGAAGTTCATAATGAGAAGAA
* * * * * * *
61816 CTTATTTAACATTTTGAAT-GAC-TCTATCACAGAAGGAAATAGGTC--CACATCA
183 CTTGTTTAACCTTTTG-CTCGACGT-TATCACAGAAGGAGATAGATCGGCACAACT
** * * *
61868 TCCCCAACAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAG-AGAAGAA
1 TTTCC-AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
61920 TTTATTCAAC
Statistics
Matches: 479, Mismatches: 36, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
235 6 0.01
236 43 0.09
237 268 0.56
238 1 0.00
242 1 0.00
243 6 0.01
244 41 0.09
245 9 0.02
246 94 0.20
247 10 0.02
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (236 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACTTTTTGCTCGAATTCATCTCTTGATGGATAAACATTTGCCAGAAGTGTTCA
TAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
TTGCTCGACGTTATCACAGAAGGAGATAGATCGGCACAACT
Found at i:61698 original size:123 final size:118
Alignment explanation
Indices: 61149--61909 Score: 624
Period size: 123 Copynumber: 6.4 Consensus size: 118
61139 AATGGATCAG
* *
61149 CATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGA
* * * * ****** *
61214 GAAGAACTTGTTCAACTTTT-TG-CTCGAAT-TCATCTCTTGATGGAT---A-AA
65 GAAGAGCTTGTTTAACTTTTGTGACTC-TATCACAGAAGGAGATAGATCGCACAA
**
61262 CATTTGCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1 CATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATG
**
61326 AGAAGAATTTGTTTAACCTTTTGCTCGACGT-TATCACAGAAGGAGATAGATCGGCATCAA
64 AGAAGAGCTTGTTTAA-CTTTTG-T-GAC-TCTATCACAGAAGGAGATAGATC-GCA-CAA
*
61386 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGA
* * * * ****** *
61451 GAAGAACTTGTTCAACTTTT-TG-CTCGAAT-TCATCTCTTGATGGAT----CAA
65 GAAGAGCTTGTTTAACTTTTGTGACTC-TATCACAGAAGGAGATAGATCGCACAA
** *
61499 CATTTGCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATG
1 CATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATG
* *
61563 AGAAGAACTTGTTTAATCTTTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCACCAA
64 AGAAGAGCTTGTTTAA-CTTTTG-T-GACTCTATCACAGAAGGAGATAGATC-GCA-CAA
* * *
61623 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAG
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* * * * * * *
61688 AAGAGCTTGTTCAACCTTTTGTATAATTCTATAACAGAAGCAGATAGATTAGCATAAA
66 AAGAGCTTGTTTAA-CTTTTG--TGACTCTATCACAGAAGGAGATAGA-TCGCA-CAA
* ** *
61746 CCTTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAGGAAGAAGAAGTTCATAATGA
* * * *
61810 GAAGAGCTTATTTAACATTTTGAATGACTCTATCACAGAAGGAAATAGGTC-CACAT
65 GAAGAGCTTGTTTAAC-TTTTG--TGACTCTATCACAGAAGGAGATAGATCGCACAA
** * *
61866 CATCCCCAACAGAAAGTTCATAATGAGAAGAACTCATCTAAAGA
1 CATTTCC-AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
61910 AAGAGAAGAA
Statistics
Matches: 526, Mismatches: 85, Indels: 66
0.78 0.13 0.10
Matches are distributed among these distances:
113 142 0.27
114 20 0.04
116 2 0.00
117 6 0.01
118 20 0.04
119 10 0.02
120 8 0.02
121 7 0.01
122 57 0.11
123 146 0.28
124 108 0.21
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (118 bp):
CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
AAGAGCTTGTTTAACTTTTGTGACTCTATCACAGAAGGAGATAGATCGCACAA
Found at i:62063 original size:3 final size:3
Alignment explanation
Indices: 62057--62119 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
62047 TTACCCATTT
* * * *
62057 TTA TTA TTA TTTA TTA TAA TTA TAA TTA TTA TCA TTA TTA ATA TATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
62104 TTA TTTA TTA ATA TTA
1 TTA -TTA TTA TTA TTA
62120 CAAAACCCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
3 38 0.81
4 9 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:64490 original size:2 final size:2
Alignment explanation
Indices: 64479--64507 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
64469 GTATTAATTA
64479 AT AT -T 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
64508 TTGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:65178 original size:20 final size:20
Alignment explanation
Indices: 65128--65178 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
65118 CACGAAATGT
* *
65128 AAGATTATCAATGGGAATAA
1 AAGATTACCAGTGGGAATAA
65148 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
65168 AAGATTACCAG
1 AAGATTACCAG
65179 AGAATAGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.22
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:65905 original size:23 final size:23
Alignment explanation
Indices: 65875--65924 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
65865 TTAAAAGAAA
65875 TGTTCTTTTTTATTTGTCCAACG
1 TGTTCTTTTTTATTTGTCCAACG
*
65898 TGTTCTTTTTTATTTGTCCAATG
1 TGTTCTTTTTTATTTGTCCAACG
65921 TGTT
1 TGTT
65925 TGGAGTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (23 bp):
TGTTCTTTTTTATTTGTCCAACG
Found at i:66973 original size:27 final size:26
Alignment explanation
Indices: 66934--66993 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
66924 AACGTACGAC
*
66934 TTTTTTTTGGTTTGGTGCTTAATATT
1 TTTTTTTTAGTTTGGTGCTTAATATT
*
66960 TTTTATTTTAGTTTGGTGTTTAATATT
1 TTTT-TTTTAGTTTGGTGCTTAATATT
*
66987 TTATTTT
1 TTTTTTT
66994 GTAATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.68
Consensus pattern (26 bp):
TTTTTTTTAGTTTGGTGCTTAATATT
Found at i:80789 original size:32 final size:29
Alignment explanation
Indices: 80752--80850 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 29
80742 AATAATTTGA
* **
80752 AATATTTGTTATTATGGTTTTAATTTTTTTCT
1 AATATTTATTATTATGGGCTT-A-TTTTTT-T
*
80784 AATATTTATTATTTTGGGCTTATTTTTTT
1 AATATTTATTATTATGGGCTTATTTTTTT
*
80813 AATATTTATTATTA-GGTAC-TATTTTTTT
1 AATATTTATTATTATGG-GCTTATTTTTTT
80841 -ATAATTTATT
1 AAT-ATTTATT
80851 TTTTCTAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.03
28 18 0.31
29 15 0.25
30 6 0.10
31 1 0.02
32 17 0.29
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (29 bp):
AATATTTATTATTATGGGCTTATTTTTTT
Found at i:80838 original size:29 final size:30
Alignment explanation
Indices: 80774--80845 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
80764 TATGGTTTTA
* * *
80774 ATTTTTTTCTAATATTTATTATTTTGGGCT
1 ATTTTTTTATAATATTTATTATTTAGGACT
80804 -TATTTTTT-TAATATTTATTA-TTAGGTACT
1 AT-TTTTTTATAATATTTATTATTTAGG-ACT
80833 ATTTTTTTATAAT
1 ATTTTTTTATAAT
80846 TTATTTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
28 4 0.11
29 21 0.58
30 11 0.31
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (30 bp):
ATTTTTTTATAATATTTATTATTTAGGACT
Found at i:81674 original size:24 final size:24
Alignment explanation
Indices: 81647--81705 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
81637 CAAGTTGTGA
* *
81647 TATTTTAATTATATTATTTCATTG
1 TATTTAAATCATATTATTTCATTG
81671 TATTTAAATCATATTATTTCATTG
1 TATTTAAATCATATTATTTCATTG
81695 TATTTAAATCA
1 TATTTAAATCA
81706 ATAGATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (24 bp):
TATTTAAATCATATTATTTCATTG
Found at i:88023 original size:60 final size:62
Alignment explanation
Indices: 87955--88076 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 62
87945 AGGTCTTTAT
* * *
87955 TATCTATTTACCTTTGAATA-TTAAAGATAA-TTATA-TATTAAATATTTCAAATTAAAATAA
1 TATCTATTTAACTTTGAATAGTAAAAGA-AATTTATACTATTAAATATTTAAAATTAAAATAA
* * *
88015 TATCTATTTAAGTTTGAATAGTAAAAGAAATTTATATCTTTTGAATATTTAAAATTAAAATA
1 TATCTATTTAACTTTGAATAGTAAAAGAAATTTATA-CTATTAAATATTTAAAATTAAAATA
88077 TATTACTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
60 20 0.38
61 11 0.21
63 21 0.40
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (62 bp):
TATCTATTTAACTTTGAATAGTAAAAGAAATTTATACTATTAAATATTTAAAATTAAAATAA
Found at i:88352 original size:79 final size:79
Alignment explanation
Indices: 88221--88367 Score: 231
Period size: 79 Copynumber: 1.9 Consensus size: 79
88211 TAAAACTATT
* * *
88221 TTCTCTCATTCTTAGTTTTCTGGTGATAGACGAAGGCAAAGATATTTCATGATCTCTACTATTGT
1 TTCTCTCATTCTTAGTTTTCCGGTGATAGACAAAGGCAAAGATAGTTCATGATCTCTACTATTGT
88286 ACTTGAAAAAAAAA
66 ACTTGAAAAAAAAA
* * * *
88300 TTCTCTCATTTTTAGTTTTCCGGTGATAGATAAAGGCAAAGATAGTTCATGATCTCTATTGTTGT
1 TTCTCTCATTCTTAGTTTTCCGGTGATAGACAAAGGCAAAGATAGTTCATGATCTCTACTATTGT
88365 ACT
66 ACT
88368 ACTGTAGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (79 bp):
TTCTCTCATTCTTAGTTTTCCGGTGATAGACAAAGGCAAAGATAGTTCATGATCTCTACTATTGT
ACTTGAAAAAAAAA
Found at i:89767 original size:65 final size:63
Alignment explanation
Indices: 89685--89808 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 63
89675 GGTATTTATC
* * * *
89685 ATCTCTTTAACTTTGAATATTAAATATAATTATATATAATTTCT-AATATTTTAAATTAAAATAA
1 ATCTATTTAACTTTGAATAGTAAAAATAATT-TATAT-ATTT-TGAATATTTCAAATTAAAATAA
89749 T
63 T
*
89750 ATCTATTTAAGTTTGAATAGTAAAAATAATTTATATATTTTGAATATTTCAAATTAAAA
1 ATCTATTTAACTTTGAATAGTAAAAATAATTTATATATTTTGAATATTTCAAATTAAAA
89809 GATATTATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
62 1 0.02
63 20 0.38
64 5 0.09
65 27 0.51
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (63 bp):
ATCTATTTAACTTTGAATAGTAAAAATAATTTATATATTTTGAATATTTCAAATTAAAATAAT
Found at i:92404 original size:12 final size:12
Alignment explanation
Indices: 92384--92414 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
92374 AAAATCATTT
92384 AAATATATTTTA
1 AAATATATTTTA
*
92396 AAATTTATTTTA
1 AAATATATTTTA
92408 AAATATA
1 AAATATA
92415 GATTGATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATATATTTTA
Found at i:92413 original size:22 final size:20
Alignment explanation
Indices: 92397--92697 Score: 165
Period size: 22 Copynumber: 13.7 Consensus size: 20
92387 TATATTTTAA
92397 AATTTATTTTAAAATATAGATT
1 AATTTATTTTAAAATAT--ATT
*
92419 GATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATAT--ATT
* **
92441 GATTTATTTTAAAATATGAAAA
1 AATTTATTTTAAAATAT--ATT
92463 AATTTATTTTAAAATATTGATT
1 AATTTATTTTAAAATA-T-ATT
* **
92485 GATTTATTTTAAAATATAGAAA
1 AATTTATTTTAAAATAT--ATT
92507 AATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATAT--ATT
* *
92529 GATTTATTTTAAAATATGGA-A
1 AATTTATTTTAAAATAT--ATT
* *
92550 AACATTATTTTAAAATACGGATT
1 AA-TTTATTTTAAAATA--TATT
* *
92573 GATTTATTTTAAAATATGGA-A
1 AATTTATTTTAAAATAT--ATT
92594 AATTTTATTTTAAAATATGGATT
1 AA-TTTATTTTAAAATAT--ATT
*
92617 GATTTATTTTAAAATATGGATT
1 AATTTATTTTAAAATAT--ATT
* **
92639 GATTTATTTTAAAATATGGAAA
1 AATTTATTTTAAAATAT--ATT
92661 AATTTTATTTTAAAATATGGATT
1 AA-TTTATTTTAAAATAT--ATT
*
92684 GATTTATTTTAAAA
1 AATTTATTTTAAAA
92698 AATTTATTAT
Statistics
Matches: 233, Mismatches: 35, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.01
22 208 0.89
23 22 0.09
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.47
Consensus pattern (20 bp):
AATTTATTTTAAAATATATT
Found at i:92447 original size:44 final size:44
Alignment explanation
Indices: 92398--92697 Score: 406
Period size: 44 Copynumber: 6.8 Consensus size: 44
92388 ATATTTTAAA
* **
92398 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATAAATTTATTTTAAAATATGGATTG
* * *
92442 ATTTATTTTAAAATATGAAAAAATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATATGGATAAATTTATTTTAAAATATGGATTG
* *
92486 ATTTATTTTAAAATATAGAAAAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATAAATTTATTTTAAAATATGGATTG
* *
92530 ATTTATTTTAAAATATGGA-AAACATTATTTTAAAATACGGATTG
1 ATTTATTTTAAAATATGGATAAA-TTTATTTTAAAATATGGATTG
92574 ATTTATTTTAAAATATGGA-AAATTTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATAAA-TTTATTTTAAAATATGGATTG
** ***
92618 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATAAATTTATTTTAAAATATGGATTG
**
92662 ATTTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 A-TTTATTTTAAAATATGGATAAATTTATTTTAAAA
92698 AATTTATTAT
Statistics
Matches: 233, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
43 3 0.01
44 195 0.84
45 35 0.15
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (44 bp):
ATTTATTTTAAAATATGGATAAATTTATTTTAAAATATGGATTG
Found at i:92466 original size:66 final size:66
Alignment explanation
Indices: 92395--92697 Score: 428
Period size: 66 Copynumber: 4.6 Consensus size: 66
92385 AATATATTTT
*
92395 AAAATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGA
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGA
92460 A
66 A
* * *** *
92461 AAAATTTATTTTAAAATATTGATTGATTTATTTTAAAATATAGAAAAATTTATTTTAAAATATGG
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGA
92526 A
66 A
*** ** * *
92527 TTGATTTATTTTAAAATATGGA-AAACATTATTTTAAAATACGGATTGATTTATTTTAAAATATG
1 AAAATTTATTTTAAAATATGGATTGA-TTTATTTTAAAATATGGATTGATTTATTTTAAAATATG
*
92591 GA
65 AA
*
92593 AAATTTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGG
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATAT-G
92658 AA
65 AA
*
92660 AAATTTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAA
92698 AATTTATTAT
Statistics
Matches: 207, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.00
66 165 0.80
67 41 0.20
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.47
Consensus pattern (66 bp):
AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGA
A
Found at i:96462 original size:22 final size:22
Alignment explanation
Indices: 96437--96478 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
96427 GCCTGCCTAA
*
96437 CTTTGAAATTTAAAGCAGCCCC
1 CTTTGAAAATTAAAGCAGCCCC
*
96459 CTTTGAAAATTCAAGCAGCC
1 CTTTGAAAATTAAAGCAGCC
96479 ACCGGCTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (22 bp):
CTTTGAAAATTAAAGCAGCCCC
Done.