Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 56
Found at i:10264518 original size:65 final size:65
Alignment explanation
Indices: 10264414--10264587 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
10264404 GTTTCTCTTG
* * * **
10264414 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
10264479 AAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
10264544 TA
64 TA
* * *
10264546 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
10264588 CAGATATCTT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
65 36 0.38
66 4 0.04
67 32 0.34
68 23 0.24
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:10264584 original size:67 final size:67
Alignment explanation
Indices: 10264414--10264586 Score: 208
Period size: 67 Copynumber: 2.6 Consensus size: 67
10264404 GTTTCTCTTG
* * * * * **
10264414 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTAAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
10264477 TA
66 TA
* *
10264479 AAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTAAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
10264544 TA
66 TA
* * *
10264546 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTAAGACAGTTTCTCATGAAACA
10264587 ACAGATATCT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 32 0.34
66 2 0.02
67 37 0.39
68 23 0.24
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTAAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:10265502 original size:110 final size:110
Alignment explanation
Indices: 10265304--10265542 Score: 317
Period size: 110 Copynumber: 2.2 Consensus size: 110
10265294 GCTTCCTAGT
* * * * *
10265304 TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTTAAGTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
*
10265369 CAACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
* *
10265414 TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* * * * *
10265479 CAGCGAAGGGGCGGCTGGCTGTCAACAAATAA-TTTCCCAG-TTC-
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTT-TCAGTTTCA
10265522 -T-AGAGCCAATTTCAACTTCAC
1 TTCAGAGCCAATTTCAACTTCAC
10265543 GACGGAGGAT
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
106 19 0.17
107 1 0.01
109 6 0.05
110 88 0.77
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
Found at i:10267064 original size:37 final size:35
Alignment explanation
Indices: 10267014--10267093 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 35
10267004 ATTTACTAGG
*
10267014 TATATATTTTTTTCTTAATATTATATGTTATACGTTTT
1 TATATATTATTTTCTTAATATTATAT-TT-T-CGTTTT
10267052 TATATA-TATTTTCTTAATATTATATTTTCGTTTT
1 TATATATTATTTTCTTAATATTATATTTTCGTTTT
*
10267086 TATTTATT
1 TATATATT
10267094 TATATATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 11 0.28
35 2 0.05
36 2 0.05
37 18 0.46
38 6 0.15
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (35 bp):
TATATATTATTTTCTTAATATTATATTTTCGTTTT
Found at i:10267077 original size:16 final size:16
Alignment explanation
Indices: 10267023--10267080 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
10267013 GTATATATTT
10267023 TTTTCTTAATATTATA
1 TTTTCTTAATATTATA
**
10267039 TGTTATACGTTTTTATATATA
1 T-TT-T-C-TTAATAT-TATA
10267060 TTTTCTTAATATTATA
1 TTTTCTTAATATTATA
10267076 TTTTC
1 TTTTC
10267081 GTTTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 10 0.30
17 7 0.21
18 2 0.06
19 2 0.06
20 7 0.21
21 5 0.15
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTCTTAATATTATA
Found at i:10267093 original size:16 final size:17
Alignment explanation
Indices: 10267032--10267094 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 17
10267022 TTTTTCTTAA
10267032 TATTATATGTTATACGTTTT
1 TATTATAT-TT-T-CGTTTT
**
10267052 TATATATATTTTC-TTAA
1 TAT-TATATTTTCGTTTT
10267069 TATTATATTTTCGTTTT
1 TATTATATTTTCGTTTT
10267086 TATT-TATTT
1 TATTATATTT
10267095 ATATATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 14 0.38
17 11 0.30
18 1 0.03
19 1 0.03
20 5 0.14
21 5 0.14
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
TATTATATTTTCGTTTT
Found at i:10267122 original size:16 final size:17
Alignment explanation
Indices: 10267098--10267136 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10267088 TTTATTTATA
*
10267098 TATTATATTTTTACT-T
1 TATTTTATTTTTACTAT
*
10267114 TATTTTATTTTTTCTAT
1 TATTTTATTTTTACTAT
10267131 TATTTT
1 TATTTT
10267137 TTTCCTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTATTTTTACTAT
Found at i:10267125 original size:17 final size:17
Alignment explanation
Indices: 10267083--10267136 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
10267073 ATATTTTCGT
*
10267083 TTTTATTTATTTA-TATA
1 TTTTATTT-TTTACTTTA
*
10267100 TTATA-TTTTTACTTTA
1 TTTTATTTTTTACTTTA
10267116 TTTTATTTTTT-CTATTA
1 TTTTATTTTTTACT-TTA
10267133 TTTT
1 TTTT
10267137 TTTCCTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 11 0.35
17 16 0.52
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTTACTTTA
Found at i:10267284 original size:11 final size:11
Alignment explanation
Indices: 10267241--10267266 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10267231 TATGTACATA
10267241 TTTTTTATTTC
1 TTTTTTATTTC
10267252 TTTTTTATTTC
1 TTTTTTATTTC
10267263 TTTT
1 TTTT
10267267 ACCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATTTC
Found at i:10267352 original size:10 final size:9
Alignment explanation
Indices: 10267338--10267399 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
10267328 CATTTTATTA
*
10267338 ATTTTGTTT
1 ATTTTTTTT
*
10267347 ATTTTTATT
1 ATTTTTTTT
10267356 ATTTTTTATT
1 ATTTTTT-TT
10267366 ATTTTTTTT
1 ATTTTTTTT
** *
10267375 ACGTGTTTT
1 ATTTTTTTT
*
10267384 GTTATTTTTT
1 ATT-TTTTTT
10267394 ATTTTT
1 ATTTTT
10267400 ACGCGTTTTA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
9 24 0.60
10 16 0.40
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:10267352 original size:19 final size:19
Alignment explanation
Indices: 10267330--10267371 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10267320 TTTTTTAACA
10267330 TTTTATTAATTTTGT-TTAT
1 TTTTATT-ATTTTGTATTAT
*
10267349 TTTTATTATTTTTTATTAT
1 TTTTATTATTTTGTATTAT
10267368 TTTT
1 TTTT
10267372 TTTACGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTATTTTGTATTAT
Found at i:10267392 original size:9 final size:9
Alignment explanation
Indices: 10267330--10267371 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
10267320 TTTTTTAACA
10267330 TTTTATTAAT
1 TTTTATT-AT
10267340 TTTGT-TTAT
1 TTT-TATTAT
10267349 TTTTATTATT
1 TTTTATTA-T
10267359 TTTTATTAT
1 TTTTATTAT
10267368 TTTT
1 TTTT
10267372 TTTACGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 1 0.03
9 13 0.45
10 14 0.48
11 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTATTAT
Found at i:10267398 original size:24 final size:24
Alignment explanation
Indices: 10267357--10267418 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
10267347 ATTTTTATTA
*
10267357 TTTTTTATTA-TTTTTTTTACGTG
1 TTTTTTATTATTTTTTTTTACGCG
10267380 TTTTGTTATT-TTTTATTTTTACGCG
1 TTTT-TTATTATTTT-TTTTTACGCG
10267405 TTTTATTTATTATT
1 -TTT-TTTATTATT
10267419 CTCACGTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.12
24 8 0.25
25 9 0.28
26 8 0.25
27 3 0.09
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTTTTATTATTTTTTTTTACGCG
Found at i:10267407 original size:25 final size:23
Alignment explanation
Indices: 10267357--10267418 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 23
10267347 ATTTTTATTA
*
10267357 TTTTTTATTATTTTTTTTACGTG
1 TTTTTTATTATTTTTTTTACGCG
*
10267380 TTTTGTTATTTTTTATTTTTACGCG
1 TTTT-TTATTATTT-TTTTTACGCG
10267405 TTTTATTTATTATT
1 -TTT-TTTATTATT
10267419 CTCACGTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.12
24 8 0.25
25 9 0.28
26 10 0.31
27 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.73
Consensus pattern (23 bp):
TTTTTTATTATTTTTTTTACGCG
Found at i:10267410 original size:22 final size:23
Alignment explanation
Indices: 10267358--10267418 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
10267348 TTTTTATTAT
* *
10267358 TTTTTATTATTT-TTTTTACGTG
1 TTTTTATTTTTTATTTTTACGCG
10267380 TTTTGTTATTTTTTATTTTTACGCG
1 -TTT-TTATTTTTTATTTTTACGCG
*
10267405 -TTTTATTTATTATT
1 TTTTTATTTTTTATT
10267419 CTCACGTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 11 0.33
23 5 0.15
24 8 0.24
25 9 0.27
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTTTATTTTTACGCG
Found at i:10278667 original size:226 final size:224
Alignment explanation
Indices: 10278235--10278933 Score: 952
Period size: 226 Copynumber: 3.1 Consensus size: 224
10278225 ACATTGACCT
* * * * ** * *
10278235 TAACATAATCGGTTAATTACTCGAAACATTATTAACCATAATAACATATTAGGTAGCGATTATGT
1 TAACAAAATAGGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGATTATTT
* * * * * *
10278300 AACGTAATAGATAG-TGTCTTTTTAAAACTGATCGGCCTTAGAAATCTGTTGATAACAAAATATG
66 AACGTAATAG-TAGCGGT-TGTTTAAAGCTGATGGGCCTTAGAAATCCGATGATAACAAAATATG
* * * * *
10278364 TTAATTACTTGATTTGTTATCAATATTATCAACATATTAGGTAGTACCTAAAATGTTACTAAAAT
129 TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATCCCTAAAATGTTACCAAAGT
* * * *
10278429 TTAAGTTGATGGAACTTTAGAAATCCGAAGA
194 TTAAGATGATGGAGCCTTAGAAATCCGACGA
* * * * *
10278460 AAACAAAATAGGTTGATTATTGGAAACATTAACAACCATAATAACATAACAAGTAGCGTTTATTT
1 TAACAAAATAGGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGATTATTT
* *
10278525 AACGTAATATGTAGCGGTTGTTTAAAGCTAATAGGGCCTTAGAAATCCGACGATAACAAAATATG
66 AACGTAATA-GTAGCGGTTGTTTAAAGCTGAT-GGGCCTTAGAAATCCGATGATAACAAAATATG
*
10278590 TTAATTACTTAATTTGTTATCATTATTATCAACATATTAGGTAATCCCTAAAATGTTACCAAAGT
129 TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATCCCTAAAATGTTACCAAAGT
* *
10278655 TTAAGCTGATGGAGCCTTAGAAATCCGACTA
194 TTAAGATGATGGAGCCTTAGAAATCCGACGA
* *
10278686 TAACAAAATAGGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTATCGCTTATTT
1 TAACAAAATAGGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGATTATTT
* *
10278751 AATGTAATAGGTAGCGGTTGTTTAAAGCTGATGGGGCCTTAGAAATCCGATGATAACAAAATAGG
66 AACGTAATA-GTAGCGGTTGTTTAAAGCTGAT-GGGCCTTAGAAATCCGATGATAACAAAATATG
* *
10278816 TCAATTACTTAATTTGTTATCAATATTATCAACATATTAGGT-AGCACCTAAAATGTTACCAAAG
129 TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATC-CCTAAAATGTTACCAAAG
10278880 TTTAAAGATGATGGAGCCTTAGAAATCCGACGA
193 TTT-AAGATGATGGAGCCTTAGAAATCCGACGA
*
10278913 TAATAAAATAGGTTAATTACT
1 TAACAAAATAGGTTAATTACT
10278934 TGATATGTTA
Statistics
Matches: 419, Mismatches: 50, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
225 77 0.18
226 295 0.70
227 47 0.11
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (224 bp):
TAACAAAATAGGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGATTATTT
AACGTAATAGTAGCGGTTGTTTAAAGCTGATGGGCCTTAGAAATCCGATGATAACAAAATATGTT
AATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATCCCTAAAATGTTACCAAAGTTT
AAGATGATGGAGCCTTAGAAATCCGACGA
Found at i:10278961 original size:109 final size:109
Alignment explanation
Indices: 10278320--10278963 Score: 437
Period size: 118 Copynumber: 5.8 Consensus size: 109
10278310 ATAGTGTCTT
* * * ** * * *
10278320 TTTAAAACTGATCG-GCCTTAGAAATCTGTTGATAACAAAATATGTTAATTACTTGATTTGTTAT
1 TTTAAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATATGTTAT
* * *
10278384 CAATATTATCAACATATTAGGTAGTACCTAAAATGTTACTAAAA
66 CAATATTATCAACATATTAGGTAGCACCTAAAATGTTACCAAAG
* * * * * * **
10278428 TTT-AAGTTGATGGAACTTTAGAAATCCGAAGAAAACAAAATAGGTTGATTA-TTGGAA-ACATT
1 TTTAAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTT--AATATGTT
* * * ** * ** * ****
10278490 AACAACCATAAT-AACATAACAAGTAGCGTTTATTTAACGTAATATGTAGCGGTTG
64 ATCAA-TATTATCAACATATTAGGTAGC----ACCTAA---AATGT-TA-CCAAAG
* * *
10278545 TTTAAAGCTAATAGG-GCCTTAGAAATCCGACGATAACAAAATATGTTAATTACTTAATTTGTTA
1 TTTAAAGCTGAT-GGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATATGTTA
* *
10278609 TCATTATTATCAACATATTAGGTAATC-CCTAAAATGTTACCAAAG
65 TCAATATTATCAACATATTAGGT-AGCACCTAAAATGTTACCAAAG
* * **
10278654 TTT-AAGCTGATGGAGCCTTAGAAATCCGACTATAACAAAATAGGTTAATTACTGGAA-ACATTA
1 TTTAAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACT-TAATATGTTA
* * ** * ** * ****
10278717 TCAACCATAAT-AACATAACAAGTATCGCTTATTTAATGTAATAGGTAGCGGTTG
65 TCAA-TATTATCAACATATTAGGTA--GC--ACCTAA---AAT-GTTA-CCAAAG
* * * *
10278771 TTTAAAGCTGATGGGGCCTTAGAAATCCGATGATAACAAAATAGGTCAATTACTTAATTTGTTAT
1 TTTAAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATATGTTAT
10278836 CAATATTATCAACATATTAGGTAGCACCTAAAATGTTACCAAAG
66 CAATATTATCAACATATTAGGTAGCACCTAAAATGTTACCAAAG
* * *
10278880 TTTAAAGATGATGGAGCCTTAGAAATCCGACGATAATAAAATAGGTTAATTACTTGATATGTTAT
1 TTTAAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATATGTTAT
10278945 -AAGTATTATCAACATATTA
66 CAA-TATTATCAACATATTA
10278964 TCGTGTACAT
Statistics
Matches: 396, Mismatches: 104, Indels: 71
0.69 0.18 0.12
Matches are distributed among these distances:
107 12 0.03
108 110 0.28
109 93 0.23
110 5 0.01
111 7 0.02
112 7 0.02
114 7 0.02
115 7 0.02
116 7 0.02
117 21 0.05
118 114 0.29
119 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (109 bp):
TTTAAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATATGTTAT
CAATATTATCAACATATTAGGTAGCACCTAAAATGTTACCAAAG
Found at i:10279474 original size:200 final size:199
Alignment explanation
Indices: 10279121--10279568 Score: 671
Period size: 200 Copynumber: 2.2 Consensus size: 199
10279111 AGATAGAAAG
* * *
10279121 TATCGATACCTATACAAAAAGTATCGAAACTTTATGTTTATGCCTATTATCATTAAACCGGTAGA
1 TATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGA
* *
10279186 TTTTTACCGTTTACATTATAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTA
66 TTTTTACCGTTTACATTATAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTA
* * * **
10279251 TCCATACTTGTGATACGTGTATCGATACTTTCTGTGTGCATGTTGTTTGAGAAGCATACTAGACT
131 TCCATACTTGTGATACATGTATCGACACTTTCTGCGTGCAAATTG-TTGAGAAGCATACTAGACT
10279316 AAAAA
195 AAAAA
* * * *
10279321 TATCGATACATATACAAAGAGTATCGATACTTTATGTTTACGACTATTATCATTAAACCGTTATA
1 TATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGA
* * *
10279386 TTTTTACTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTA
66 TTTTTACCGTTTACATTATAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTA
* * * * * *
10279451 TCGATACTTGTTATACATGTATCGACATTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGATTA
131 TCCATACTTGTGATACATGTATCGACACTTTCTGCGTGCAAATTGTTGAGAAGCATACTAGACTA
*
10279516 AAAG
196 AAAA
10279520 TATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTA
1 TATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTA
10279569 CTAGGTACCG
Statistics
Matches: 222, Mismatches: 26, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
199 68 0.31
200 154 0.69
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (199 bp):
TATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGA
TTTTTACCGTTTACATTATAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTA
TCCATACTTGTGATACATGTATCGACACTTTCTGCGTGCAAATTGTTGAGAAGCATACTAGACTA
AAAA
Found at i:10281794 original size:78 final size:78
Alignment explanation
Indices: 10281693--10281842 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 78
10281683 AGTAAGTAAG
*
10281693 CATTAAAAGAATGTAATTTAGATTACAACTCTTTTAAT-TGATATAT-ATTTCGGAA-TAATTAA
1 CATTAAAAGAATGTAATTCAGATTACAACTC-TTTAATGT-ATATATAATTT--GAATTAATTAA
*
10281755 ATAATTTTTTAAATAAA
62 ATAATATTTTAAATAAA
* * * *
10281772 CATT-AAAGATTGTAATTCAGATTATAAGTCTTTAATGTATATTTAATTTGAATTAATTAAATAA
1 CATTAAAAGAATGTAATTCAGATTACAACTCTTTAATGTATATATAATTTGAATTAATTAAATAA
10281836 TATTTTA
66 TATTTTA
10281843 TTTATTAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
76 3 0.05
77 28 0.45
78 27 0.44
79 4 0.06
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (78 bp):
CATTAAAAGAATGTAATTCAGATTACAACTCTTTAATGTATATATAATTTGAATTAATTAAATAA
TATTTTAAATAAA
Found at i:10288719 original size:77 final size:78
Alignment explanation
Indices: 10288567--10288712 Score: 190
Period size: 77 Copynumber: 1.9 Consensus size: 78
10288557 ATATAGTAAG
*
10288567 TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATAATTGGAATAATTAA
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTGATATATAATTGGAATAATTAA
10288632 ATAAGTTTTTAAA
66 ATAAGTTTTTAAA
* * * * * *
10288645 TAAACATT-AAAGATTGTAATTCGGATTATAAGTC-TTTAA-TGTATATTTAATTTGAATTAATT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTG-ATATATAATTGGAA-TAATT
10288707 AAATAA
64 AAATAA
10288713 TATTTTATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.03
76 17 0.29
77 32 0.54
78 8 0.14
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (78 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTGATATATAATTGGAATAATTAA
ATAAGTTTTTAAA
Found at i:10290520 original size:60 final size:60
Alignment explanation
Indices: 10290339--10290817 Score: 602
Period size: 60 Copynumber: 8.0 Consensus size: 60
10290329 TCTAAAATGG
* * * * *
10290339 AAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGATGCCATTAATGTAAGTTAGATAAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
* * * * * * *
10290399 AAGTTAAATGCCTAATGGTGTATTTTGG-AAAAAAGTGCCATTAATGCAAGTTAGGTAAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
* * * * * *
10290458 AAGTTGAATGCGTAACGGTGCATTTTGGTAGAAAGATGTCATTAATGCAAGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
*
10290518 AAGTTAAATGCCTAACGGTGCATTTTAGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
* * * * *
10290578 AAGTTAAATGCCTAACGGTGAATTTAGGTAGAAAAGTGCCATTAATGCAAGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
* ** * * * *
10290638 AGGTTAAATGTATAGCTGTGTATTTTGGAAGAAAGGTGCCACTAATGCAAGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
* * *
10290698 AACTTAAATTCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAA
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
* *
10290758 AAGTTAAATGCCTAAC-TTAGCATTTTTGGCAGAAAGGTACCACTAATGCAAGTTAGATGA
1 AAGTTAAATGCCTAACGGT-GCA-TTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
10290818 AAAACAGTGC
Statistics
Matches: 362, Mismatches: 54, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
59 51 0.14
60 275 0.76
61 36 0.10
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (60 bp):
AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAT
Found at i:10296332 original size:19 final size:19
Alignment explanation
Indices: 10296308--10296346 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10296298 TTCTTCTTCT
10296308 CGTGTTCACGTGCTCTCCC
1 CGTGTTCACGTGCTCTCCC
10296327 CGTGTTCACGTGCTCTCCC
1 CGTGTTCACGTGCTCTCCC
10296346 C
1 C
10296347 ATAGCCAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.44, G:0.21, T:0.31
Consensus pattern (19 bp):
CGTGTTCACGTGCTCTCCC
Found at i:10296905 original size:18 final size:19
Alignment explanation
Indices: 10296859--10296926 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 19
10296849 AGATGAACAA
10296859 TATCGATACTGATGCAATGAG
1 TATCGATACTGATG--ATGAG
* *
10296880 TATTGATACTGATG-TGGG
1 TATCGATACTGATGATGAG
*
10296898 TATCGATACT-ATGAGGAAGG
1 TATCGATACTGATGATG-A-G
10296918 TATCGATAC
1 TATCGATAC
10296927 CATGGATTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.08
18 13 0.33
20 10 0.26
21 13 0.33
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (19 bp):
TATCGATACTGATGATGAG
Found at i:10297538 original size:60 final size:60
Alignment explanation
Indices: 10297424--10297843 Score: 545
Period size: 60 Copynumber: 7.0 Consensus size: 60
10297414 TCTAAAATTA
* * * *
10297424 AAGTTAAATGCCTAACGGTGCATTTTGGCA-AAAAGGTGCTATTATTGCATGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAA-GTGCCACTAATGCAAGTTAGATGAT
* *
10297484 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGTCACTAATGCAAGTTAGATGAC
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGAT
* * * * *
10297544 AAGTTAAATGCCTAACGATGCATTTTGGCAGGAAGGTGACACTAATGCATGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGAT
* * * *
10297604 AAGTTAAACGCCTAACGGTGCATTTTGGTAGAAATGTGCCATTAATGCAAGTTAGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGAT
** ** * * * *
10297664 AAGTTAAATGTTTAAATGTGCATTTTGGCATAATAGTGTCACTAATGCAAGTTGGATGAT
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGAT
* * * *
10297724 AAGTTAAATGACTAACAGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAA
1 AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGAT
* * *
10297784 AAGTTAAATGCCTAACTGAGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
1 AAGTTAAATGCCTAACGGTGCA-TTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGA
10297844 AAAACAATGA
Statistics
Matches: 313, Mismatches: 45, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
60 272 0.87
61 41 0.13
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (60 bp):
AAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGCCACTAATGCAAGTTAGATGAT
Found at i:10297730 original size:180 final size:180
Alignment explanation
Indices: 10297423--10297843 Score: 610
Period size: 180 Copynumber: 2.3 Consensus size: 180
10297413 GTCTAAAATT
* * * *
10297423 AAAGTTAAATGCCTAACGGTGCATTTTGGCAAAAAGGTGCTATTATTGCATGTTAGATGATAAGT
1 AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGATAAGT
*
10297488 TAAATGCCTAACGGTGCATTTTGGCAGAAAAGTGTCACTAATGCAAGTTAGATGACAAGTTAAAT
66 TAAATGCCTAAAGGTGCATTTTGGCAGAAAAGTGTCACTAATGCAAGTTAGATGACAAGTTAAAT
* * *
10297553 GCCTAAC-GATGCATTTTGGCAGGAAGGTGACACTAATGCATGTTAGATGA
131 GACTAACAG-TGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGA
* * * *
10297603 TAAGTTAAACGCCTAACGGTGCATTTTGGTAGAAATGTGCCATTAATGCAAGTTAGATGATAAGT
1 AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGATAAGT
** * * * * *
10297668 TAAATGTTTAAATGTGCATTTTGGCATAATAGTGTCACTAATGCAAGTTGGATGATAAGTTAAAT
66 TAAATGCCTAAAGGTGCATTTTGGCAGAAAAGTGTCACTAATGCAAGTTAGATGACAAGTTAAAT
*
10297733 GACTAACAGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
131 GACTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGA
* * *
10297783 AAAGTTAAATGCCTAACTGAGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
1 AAAGTTAAATGCCTAACGGTGCA-TTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGA
10297844 AAAACAATGA
Statistics
Matches: 212, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
180 177 0.83
181 35 0.17
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (180 bp):
AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGATAAGT
TAAATGCCTAAAGGTGCATTTTGGCAGAAAAGTGTCACTAATGCAAGTTAGATGACAAGTTAAAT
GACTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGA
Found at i:10299673 original size:20 final size:22
Alignment explanation
Indices: 10299629--10299673 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10299619 GGACTATAAG
*
10299629 TACCATGGTATAGAAGTATCGA
1 TACCATGGTATAGAAGTACCGA
*
10299651 TACCATGGTAT-G-GGTACCGA
1 TACCATGGTATAGAAGTACCGA
10299671 TAC
1 TAC
10299674 TTTTGAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (22 bp):
TACCATGGTATAGAAGTACCGA
Found at i:10301183 original size:16 final size:16
Alignment explanation
Indices: 10301162--10301196 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10301152 TTGACATCCT
10301162 ATTGCATTTTATTTCA
1 ATTGCATTTTATTTCA
10301178 ATTGCATTTTATTTCA
1 ATTGCATTTTATTTCA
10301194 ATT
1 ATT
10301197 TGGTCATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (16 bp):
ATTGCATTTTATTTCA
Found at i:10303020 original size:81 final size:81
Alignment explanation
Indices: 10302927--10303283 Score: 527
Period size: 81 Copynumber: 4.4 Consensus size: 81
10302917 TTGTTTTAAA
* *
10302927 TAAAAGATTAATTGCCTAGCTATGCATTTGACAGAAA-GATATCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAA
10302991 GGTTAAATGCCTTTGAG
65 GGTTAAATGCCTTTGAG
* * *
10303008 TAAAAGATTAATTGCTTAGCTGTGCATTTGACAGAAATGTGTTAATTATGCCATTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
10303073 GTTAAATACCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * *
10303089 TAAAAGATTAATTGCCTAGCTGTGCATTTGAAAGAAATGTGTCAATTATGCGAATTATATAAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
10303154 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * **
10303170 TAAATGATTAATTGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCATGTTAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
10303235 GTTAAATGCCCTTGAG
66 GTTAAATGCCTTTGAG
10303251 TAAAAGATTAATTGCCTAGCTGTGCATTTGACA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACA
10303284 TCTGTATCTA
Statistics
Matches: 247, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 246 1.00
82 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATGCCTTTGAG
Found at i:10321874 original size:22 final size:22
Alignment explanation
Indices: 10321846--10321888 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10321836 ACTGAAAGGG
*
10321846 AGTATCGGTACCATGGTATAGA
1 AGTATCGATACCATGGTATAGA
10321868 AGTATCGATACCATGGTATAG
1 AGTATCGATACCATGGTATAG
10321889 GTACCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (22 bp):
AGTATCGATACCATGGTATAGA
Found at i:10321898 original size:20 final size:21
Alignment explanation
Indices: 10321845--10321898 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
10321835 TACTGAAAGG
* *
10321845 GAGTATCGGTACCATGGTATA
1 GAGTACCGATACCATGGTATA
*
10321866 GAAGTATCGATACCATGGTATA
1 G-AGTACCGATACCATGGTATA
10321888 G-GTACCGATAC
1 GAGTACCGATAC
10321899 TATTGAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 9 0.30
21 1 0.03
22 20 0.67
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
GAGTACCGATACCATGGTATA
Found at i:10322379 original size:81 final size:81
Alignment explanation
Indices: 10322281--10322773 Score: 691
Period size: 81 Copynumber: 6.1 Consensus size: 81
10322271 TTGTTTTAAA
* **
10322281 TAAAAGATTAATTGCCTAAG-TGTGCATTTGACAAAAATATGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCT-AGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
* * *
10322345 GTTTAAATGCTTTTGAT
65 GGTTAAATGCCTTTGAG
* *
10322362 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAT
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
10322427 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* *
10322443 TAAAAGATTAATTACATAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
10322508 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
** * * *
10322524 TAAAAGATTAATTGCCTAACTATGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
10322589 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* *
10322605 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
10322670 GCTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * * ** * * *
10322686 TTAAAGATTAAATGCCTAGATGTGCATTTGGCATAAATGCATCAATCATGCAAGTGAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
10322751 GCTAAATGCCTTTGGG
66 GTTAAATGCCTTTGAG
10322767 TAAAAGA
1 TAAAAGA
10322774 CTAAATGCTT
Statistics
Matches: 377, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
80 2 0.01
81 375 0.99
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATGCCTTTGAG
Found at i:10326131 original size:20 final size:19
Alignment explanation
Indices: 10326108--10326160 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 19
10326098 TATTAAACCT
10326108 TTGGTAGTGATACCTACATG
1 TTGGTA-TGATACCTACATG
10326128 TTGGTATCGATACCTACATG
1 TTGGTAT-GATACCTACATG
10326148 TTGGTATTGATAC
1 TTGGTA-TGATAC
10326161 ACTATGACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (19 bp):
TTGGTATGATACCTACATG
Found at i:10332556 original size:15 final size:15
Alignment explanation
Indices: 10332536--10332593 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 15
10332526 AGTTTATGGT
10332536 AAAAGAAGAATAAG-
1 AAAAGAAGAATAAGA
10332550 -AAA-AAGAATAAGA
1 AAAAGAAGAATAAGA
* *
10332563 AGATGAAGAA-AAGA
1 AAAAGAAGAATAAGA
* *
10332577 AAAACAAGAAGAAGA
1 AAAAGAAGAATAAGA
10332592 AA
1 AA
10332594 GAGGTAGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 9 0.26
13 3 0.09
14 12 0.34
15 11 0.31
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAAGAAGAATAAGA
Found at i:10332578 original size:26 final size:27
Alignment explanation
Indices: 10332540--10332591 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
10332530 TATGGTAAAA
* *
10332540 GAAGAATAAGAAAAAGAATAAGAAGAT
1 GAAGAATAAGAAAAACAAGAAGAAGAT
10332567 GAAGAA-AAGAAAAACAAGAAGAAGA
1 GAAGAATAAGAAAAACAAGAAGAAGA
10332592 AAGAGGTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.23, T:0.06
Consensus pattern (27 bp):
GAAGAATAAGAAAAACAAGAAGAAGAT
Found at i:10333761 original size:25 final size:25
Alignment explanation
Indices: 10333729--10333783 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
10333719 ACCTGAACCC
*
10333729 TAAAATATTTTATATATAACTAATA
1 TAAAATATTATATATATAACTAATA
*
10333754 TAAAATATTATATATATAATTAATA
1 TAAAATATTATATATATAACTAATA
10333779 TAAAA
1 TAAAA
10333784 AATATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAATATTATATATATAACTAATA
Found at i:10333795 original size:25 final size:25
Alignment explanation
Indices: 10333742--10333791 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10333732 AATATTTTAT
* *
10333742 ATATAACTAATATAAAATATTATAT
1 ATATAACTAATATAAAAAATTATAA
*
10333767 ATATAATTAATATAAAAAA-TATAA
1 ATATAACTAATATAAAAAATTATAA
10333791 A
1 A
10333792 ATATTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATAACTAATATAAAAAATTATAA
Found at i:10334809 original size:24 final size:24
Alignment explanation
Indices: 10334782--10334827 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
10334772 GGTATGTAGT
10334782 ACCGATATTGTTATTACAGTATAG
1 ACCGATATTGTTATTACAGTATAG
10334806 ACCGATATTGTTATTACAGTAT
1 ACCGATATTGTTATTACAGTAT
10334828 CGATACTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (24 bp):
ACCGATATTGTTATTACAGTATAG
Found at i:10335072 original size:25 final size:27
Alignment explanation
Indices: 10335044--10335104 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
10335034 ATTTTATTAT
10335044 TATTATTA-AATT-TATTATTATTAAA
1 TATTATTATAATTATATTATTATTAAA
*
10335069 TATTATTATTATTATATTATTATTAAA
1 TATTATTATAATTATATTATTATTAAA
10335096 TAATTATTA
1 T-ATTATTA
10335105 CAAACCCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 8 0.25
26 3 0.09
27 14 0.44
28 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTATTATAATTATATTATTATTAAA
Found at i:10335074 original size:31 final size:27
Alignment explanation
Indices: 10335041--10335104 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 27
10335031 TAAATTTTAT
10335041 TATTATTATTAAATT-TATTATTATTAAA
1 TATTATTATT--ATTATATTATTATTAAA
10335069 TATTATTATTATTATATTATTATTAAA
1 TATTATTATTATTATATTATTATTAAA
10335096 TAATTATTA
1 T-ATTATTA
10335105 CAAACCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.09
27 14 0.41
28 17 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTATTATTATTATATTATTATTAAA
Found at i:10335104 original size:3 final size:3
Alignment explanation
Indices: 10335037--10335093 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
10335027 CATTTAAATT
* *
10335037 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA
10335083 -TA TTA TTA TTA
1 TTA TTA TTA TTA
10335094 AATAATTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 3 0.07
3 40 0.87
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10336094 original size:29 final size:30
Alignment explanation
Indices: 10336062--10336120 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
10336052 CACTAAAAGC
10336062 AATTTT-TGATTATTTTAATTTAGTC-TTAT
1 AATTTTAT-ATTATTTTAATTTAGTCATTAT
*
10336091 AATTTTATTTTATTTTAATTTAGTCATTAT
1 AATTTTATATTATTTTAATTTAGTCATTAT
10336121 CAGCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (30 bp):
AATTTTATATTATTTTAATTTAGTCATTAT
Found at i:10336380 original size:12 final size:12
Alignment explanation
Indices: 10336350--10336387 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10336340 ATTACTTTTA
10336350 TATTTTAATTAT
1 TATTTTAATTAT
**
10336362 TGCTTTAATTAT
1 TATTTTAATTAT
10336374 TATTTT-ATTAT
1 TATTTTAATTAT
10336385 TAT
1 TAT
10336388 CTTAGTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:10337281 original size:20 final size:21
Alignment explanation
Indices: 10337258--10337309 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
10337248 AGAAATTAAA
10337258 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
10337278 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
10337300 -ATT-ATTTATT
1 AATTCATTTATT
10337310 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:10344405 original size:115 final size:115
Alignment explanation
Indices: 10344154--10344384 Score: 340
Period size: 115 Copynumber: 2.0 Consensus size: 115
10344144 AAGTGCCATA
* * *
10344154 TGCTCATAGTAGAAATAAGAAGATTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * ** * *
10344219 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGATTCGATAAAAACCCCAAAAACCAATCATTGGAATTGAAAGATGAATC
10344269 TGCTCATAGTAGAAATAAGAAGACTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
10344334 TGATTCGATAAAAACCCC-AGAACCGATCATTGGAATTGAAAGATGAA-C
66 TGATTCGATAAAAACCCCAAAAACCAATCATTGGAATTGAAAGATGAATC
10344382 TGC
1 TGC
10344385 ATTATCATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 3 0.03
114 26 0.25
115 75 0.72
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCGATAAAAACCCCAAAAACCAATCATTGGAATTGAAAGATGAATC
Found at i:10346873 original size:22 final size:22
Alignment explanation
Indices: 10346842--10346896 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
10346832 ATCTACACTC
*
10346842 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
10346864 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
10346886 TTCAAAGATGA
1 TTCAAAGATGA
10346897 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:10347651 original size:76 final size:76
Alignment explanation
Indices: 10347552--10348573 Score: 1956
Period size: 76 Copynumber: 13.5 Consensus size: 76
10347542 CTATTTCCCA
10347552 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10347617 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10347628 CATCTGTAAGTCCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10347693 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10347704 CATCTGTAAGTCCTTCAGTACATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10347769 AGCCTTAGGGT
66 AGCCTTAGGGT
10347780 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10347845 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10347856 CATCTGTAAGTCCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10347921 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10347932 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10347997 AGCCTTAGGGT
66 AGCCTTAGGGT
10348008 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10348072 AGCCTTAGGGT
66 AGCCTTAGGGT
10348083 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10348148 AGCCTTAGGGT
66 AGCCTTAGGGT
10348159 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10348224 AGCCTTAGGGT
66 AGCCTTAGGGT
10348235 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10348300 AGCCTTAGGGT
66 AGCCTTAGGGT
10348311 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10348376 AGCCTTAGGGT
66 AGCCTTAGGGT
10348387 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10348452 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10348463 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGTAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
10348528 AGCCTTCGGGT
66 AGCCTTAGGGT
* * *
10348539 CATCTGTAAGCCCTTCAGTGCATGATATTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
10348574 CATTTCCATC
Statistics
Matches: 932, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
75 74 0.08
76 858 0.92
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:10348736 original size:25 final size:27
Alignment explanation
Indices: 10348708--10348768 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
10348698 ATTTTATTAT
10348708 TATTATTA-AATT-TATTATTATTAAA
1 TATTATTATAATTATATTATTATTAAA
*
10348733 TATTATTATTATTATATTATTATTAAA
1 TATTATTATAATTATATTATTATTAAA
10348760 TAATTATTA
1 T-ATTATTA
10348769 CAAACCCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 8 0.25
26 3 0.09
27 14 0.44
28 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTATTATAATTATATTATTATTAAA
Found at i:10348738 original size:31 final size:27
Alignment explanation
Indices: 10348705--10348768 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 27
10348695 TAAATTTTAT
10348705 TATTATTATTAAATT-TATTATTATTAAA
1 TATTATTATT--ATTATATTATTATTAAA
10348733 TATTATTATTATTATATTATTATTAAA
1 TATTATTATTATTATATTATTATTAAA
10348760 TAATTATTA
1 T-ATTATTA
10348769 CAAACCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.09
27 14 0.41
28 17 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTATTATTATTATATTATTATTAAA
Found at i:10348768 original size:3 final size:3
Alignment explanation
Indices: 10348701--10348757 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
10348691 CATTTAAATT
* *
10348701 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA
10348747 -TA TTA TTA TTA
1 TTA TTA TTA TTA
10348758 AATAATTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 3 0.07
3 40 0.87
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10349747 original size:29 final size:30
Alignment explanation
Indices: 10349715--10349773 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
10349705 CACTAAAAGC
10349715 AATTTT-TGATTATTTTAATTTAGTC-TTAT
1 AATTTTAT-ATTATTTTAATTTAGTCATTAT
*
10349744 AATTTTATTTTATTTTAATTTAGTCATTAT
1 AATTTTATATTATTTTAATTTAGTCATTAT
10349774 CAGCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (30 bp):
AATTTTATATTATTTTAATTTAGTCATTAT
Found at i:10350033 original size:12 final size:12
Alignment explanation
Indices: 10350003--10350040 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10349993 ATTACTTTTA
10350003 TATTTTAATTAT
1 TATTTTAATTAT
**
10350015 TGCTTTAATTAT
1 TATTTTAATTAT
10350027 TATTTT-ATTAT
1 TATTTTAATTAT
10350038 TAT
1 TAT
10350041 CTTAGTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:10352946 original size:17 final size:17
Alignment explanation
Indices: 10352924--10352960 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10352914 TAAATGGAAA
10352924 TATAATAAATTATTT-TT
1 TATAATAAA-TATTTATT
10352941 TATAATAAATATTTATT
1 TATAATAAATATTTATT
10352958 TAT
1 TAT
10352961 TTTTGGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATAATAAATATTTATT
Found at i:10370870 original size:31 final size:30
Alignment explanation
Indices: 10370828--10370951 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 30
10370818 ACATGTGTAC
10370828 TATATA-T-AAATATAATATATAATATATA
1 TATATATTAAAATATAATATATAATATATA
* * *
10370856 TAT-TTTTAAAAAATAATATATACTATATA
1 TATATATTAAAATATAATATATAATATATA
*
10370885 TATATA-T-ATAT-TCAA-ATATAATATATA
1 TATATATTAAAATAT-AATATATAATATATA
* *
10370912 TATATATTAAAAAATAATATATGTACTAATATA
1 TATATATTAAAATATAATATA--TAAT-ATATA
10370945 TATATAT
1 TATATAT
10370952 ATATTTCTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
27 19 0.25
28 9 0.12
29 27 0.36
30 5 0.07
32 3 0.04
33 12 0.16
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
TATATATTAAAATATAATATATAATATATA
Found at i:10370912 original size:23 final size:23
Alignment explanation
Indices: 10370882--10370975 Score: 96
Period size: 23 Copynumber: 4.3 Consensus size: 23
10370872 TATATACTAT
10370882 ATATATATATATATTCAAATATA
1 ATATATATATATATTCAAATATA
10370905 ATATATATATATATT-AAA-A-A
1 ATATATATATATATTCAAATATA
* *
10370925 ATA-ATATATGTA--CTAATAT-
1 ATATATATATATATTCAAATATA
10370944 ATATATATATAT-TTCTTAAATATA
1 ATATATATATATATTC--AAATATA
10370968 ATATATAT
1 ATATATAT
10370976 GCTACATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.03
19 12 0.21
20 11 0.19
21 2 0.03
22 3 0.05
23 20 0.34
24 8 0.14
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (23 bp):
ATATATATATATATTCAAATATA
Found at i:10370926 original size:25 final size:23
Alignment explanation
Indices: 10370882--10371000 Score: 94
Period size: 23 Copynumber: 5.5 Consensus size: 23
10370872 TATATACTAT
*
10370882 ATATATATATATATTCAAATATA
1 ATATATATATATATTAAAATATA
10370905 ATATATATATATATT-AAA-A-A
1 ATATATATATATATTAAAATATA
* * *
10370925 ATA-ATATATGTACTAATATAT-
1 ATATATATATATATTAAAATATA
* *
10370946 ATATATATATTTCTT-AAATATA
1 ATATATATATATATTAAAATATA
* *
10370968 ATATATATGCTACA-TAAAATATA
1 ATATATAT-ATATATTAAAATATA
10370991 A-ATA-ATATAT
1 ATATATATATAT
10371001 GAAATACACA
Statistics
Matches: 76, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.12
20 8 0.11
21 12 0.16
22 23 0.30
23 24 0.32
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATATATATATATTAAAATATA
Found at i:10370975 original size:2 final size:2
Alignment explanation
Indices: 10370828--10370955 Score: 78
Period size: 2 Copynumber: 67.5 Consensus size: 2
10370818 ACATGTGTAC
* * * *
10370828 TA TA TA TA AA TA TA -A TA TA TA -A TA TA TA TA TT TT TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
10370867 AA TA -A TA TA TA CTA TA TA TA TA TA TA TA T- TCA AA TA TA -A TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * *
10370908 TA TA TA TA TA T- TA -A AA AA TA -A TA TA TG TA CTA -A 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
10370947 TA TA TA TA T
1 TA TA TA TA T
10370956 TTCTTAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
1 10 0.10
2 89 0.86
3 4 0.04
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (2 bp):
TA
Found at i:10371633 original size:2 final size:2
Alignment explanation
Indices: 10371623--10371739 Score: 79
Period size: 2 Copynumber: 62.0 Consensus size: 2
10371613 ATATGTACTA
* * * * *
10371623 AT AT A- AT AT AT AT -T AT AT AC AT AT AG AT AT -T TT AA AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
10371662 -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT CT -T AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
10371702 AT AT A- AT AT AT AT ACT AT AT A- AA AT AT AA AT A- AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
10371740 GAAATACACA
Statistics
Matches: 92, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
1 8 0.09
2 82 0.89
3 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10371683 original size:42 final size:44
Alignment explanation
Indices: 10371621--10371722 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
10371611 ATATATGTAC
10371621 TAATATA-ATATATAT-TATATACATATAGATA-TT-TTAAAAA
1 TAATATATATATATATATATATACATATAGATATTTCTTAAAAA
* * * *
10371661 TTATATATATATATATATATATATATATATATATTTCTTAAATA
1 TAATATATATATATATATATATACATATAGATATTTCTTAAAAA
10371705 TAATATATATACTATATA
1 TAATATATATA-TATATA
10371723 AAATATAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 6 0.12
41 8 0.15
42 14 0.27
43 2 0.04
44 16 0.31
45 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (44 bp):
TAATATATATATATATATATATACATATAGATATTTCTTAAAAA
Found at i:10371744 original size:18 final size:18
Alignment explanation
Indices: 10371706--10371745 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10371696 TCTTAAATAT
* *
10371706 AATATATATACTATATAA
1 AATATAAATAATATATAA
*
10371724 AATATAAATAATATATGA
1 AATATAAATAATATATAA
10371742 AATA
1 AATA
10371746 CACACAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
AATATAAATAATATATAA
Found at i:10372356 original size:739 final size:737
Alignment explanation
Indices: 10370865--10373048 Score: 3873
Period size: 739 Copynumber: 3.0 Consensus size: 737
10370855 ATATTTTTAA
10370865 AAAATAATATA--TACTATATATATATATATATTCAAATATA-ATATATATATATATTAAAAA--
1 AAAATAATATATGTACTA-ATATA-ATATATATT---ATATACATATA-ATAT-T-TTAAAAATT
* *
10370925 ATA-ATATATGTACTAATATATATATATATATTTCTTAAATATAATATATATGCTACATAAAATA
58 ATATATATATATA-TAATATATATATATATATTTCTTAAATATAATATATATGCTATATAAAATA
*
10370989 TAAATAATATATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAATT
122 TAAATAATATATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAGTT
* * *
10371054 ATTCCACTTTGTCCTTTATTGTGCAACGAAAATATGACAAAGATAGAAACAAACACATTTTCATT
187 GTCCCACTTTGTCCTTTATTGTGCAACGAAAATAGGACAAAGATAGAAACAAACACATTTTCATT
* *
10371119 CGGTTTTTAAAATAGATAGATTCTTAAAGTAAGCCTGCTCCCATGATGTTAAAGCATTTAGCTTT
252 CGGTTTTTAAAATAGATAGATTCTGAAAGTAAGCCTGCTCCCATGATGTTGAAGCATTTAGCTTT
* *
10371184 TCCTTGAAAATCTGATCAAATTTTGGGTGACTCTCCTCTACGGATTAAGTCGAGTGAATTCTTGT
317 TCCTTGAAAATCTAATCAAATTTTGGGTGACTCTCCTCTACGGATTAAGTCGAGTGAATACTTGT
10371249 TCATTCAAGATTGGGTGTTCTTCGAGCCTAATATCCTTCACCGTGAAGTTGAAATCTGACTCAAA
382 TCATTCAAGATTGGGTGTTCTTCGAGCCTAATATCCTTCACCGTGAAGTTGAAATCTGACTCAAA
10371314 GTTATAGATGATTTTTCTTTAAGTCCAAAAGACTTGTGAATCCTCTATGGGTTAATTCAACTCTA
447 GTTATAGATGATTTTTCTTTAAGTCCAAAAGACTTGTGAATCCTCTATGGGTTAATTCAACTCTA
10371379 AATATCTCCTAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTT
512 AATATCTCCTAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTT
10371444 ATTTGAGCCCAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAATCAATTAGGAAATAGCTC
577 ATTTGAGCCCAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAATCAATTAGGAAATAGCTC
10371509 ATCGTTGTTGAGTTAAGATAAGTTGTACATGACTCATCCATTGCGATTTAAGTCAGTCTTGTATA
642 ATCGTTGTTGAGTTAAGATAAGTTGTACATGACTCATCCATTGCGATTTAAGTCAGTCTTGTATA
10371574 ACTCGAACTTGAAATCCTTCATCATGAAGTT
707 ACTCGAACTTGAAATCCTTCATCATGAAGTT
10371605 AAAATAATATATGTACTAATATAATATATATTATATACATATAGATATTTTAAAAATTATATATA
1 AAAATAATATATGTACTAATATAATATATATTATATACATATA-ATATTTTAAAAATTATATATA
*
10371670 TATATATATATATATATATATATATTTCTTAAATATAATATATATACTATATAAAATATAAATAA
65 TATATATA-ATATATATATATATATTTCTTAAATATAATATATATGCTATATAAAATATAAATAA
10371735 TATATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAGTTGTCCCAC
129 TATATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAGTTGTCCCAC
*
10371800 TTTGTCCTTTATTGTGCAACGAAAATAGGACAAAGATAGAAACAAACACATTTTCATTCGGGTTT
194 TTTGTCCTTTATTGTGCAACGAAAATAGGACAAAGATAGAAACAAACACATTTTCATTCGGTTTT
10371865 TAAAATAGATAGATTCTGAAAGTAAGCCTGCTCCCATGATGTTGAAGCATTTAGCTTTTCCTTGA
259 TAAAATAGATAGATTCTGAAAGTAAGCCTGCTCCCATGATGTTGAAGCATTTAGCTTTTCCTTGA
*
10371930 AAATCTAATCAAATTTTGGGTGACTCTCCTTTACGGATTAAGTCGAGTGAATACTTGTTCATTCA
324 AAATCTAATCAAATTTTGGGTGACTCTCCTCTACGGATTAAGTCGAGTGAATACTTGTTCATTCA
*
10371995 AGATTGGGTGTTCTTCGAGCCTAATATTCTTCACCGTGAAGTTGAAATCTGACTCAAAGTTATAG
389 AGATTGGGTGTTCTTCGAGCCTAATATCCTTCACCGTGAAGTTGAAATCTGACTCAAAGTTATAG
*
10372060 ATGATTTTTCTTTAAGTCCAAAATACTTGTGAATCCTCTATGGGTTAATTCAACTCTAAATATCT
454 ATGATTTTTCTTTAAGTCCAAAAGACTTGTGAATCCTCTATGGGTTAATTCAACTCTAAATATCT
10372125 CCTAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTTATTTGAG
519 CCTAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTTATTTGAG
10372190 CCCAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAATCAATTAGGAAATAGCTCATCGTTG
584 CCCAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAATCAATTAGGAAATAGCTCATCGTTG
10372255 TTGAGTTAAGATAAGTTGTACATGACTCATCCATTGCGATTTAAGTCAGTCTTGTATAACTCGAA
649 TTGAGTTAAGATAAGTTGTACATGACTCATCCATTGCGATTTAAGTCAGTCTTGTATAACTCGAA
10372320 CTTGAAATCCTTCATCATGAAGTT
714 CTTGAAATCCTTCATCATGAAGTT
10372344 AAAATAATATATGTACTAATATAATATATATTATATACATATAA-A---T----ATT-T-TA-A-
1 AAAATAATATATGTACTAATATAATATATATTATATACATATAATATTTTAAAAATTATATATAT
10372397 A-A-ATAATATATATATATATATTTCTTAAATATAATATATATGCTATATAAAATATAAATAATA
66 ATATATAATATATATATATATATTTCTTAAATATAATATATATGCTATATAAAATATAAATAATA
10372460 TATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAGTTGTCCCACTT
131 TATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAGTTGTCCCACTT
10372525 TGTCCTTTA---T---ACGAAAATAGGACAAAGATAGAAACAAACACATTTTCATTCGGTTTTTA
196 TGTCCTTTATTGTGCAACGAAAATAGGACAAAGATAGAAACAAACACATTTTCATTCGGTTTTTA
10372584 AAATAGATAGATTCTGAAAGTAAGCCTGCTCCCATGATGTTGAAGCATTTAGCTTTTCCTT-AAA
261 AAATAGATAGATTCTGAAAGTAAGCCTGCTCCCATGATGTTGAAGCATTTAGCTTTTCCTTGAAA
* *
10372648 AGTCTAATCAAATTTTGGGTGACTCTCCTCTGCGGATTAAGTCGAGTGAATACTTTTTCATTCAA
326 A-TCTAATCAAATTTTGGGTGACTCTCCTCTACGGATTAAGTCGAGTGAATACTTGTTCATTCAA
10372713 GATTGGGTGTTCTTCGAGCCTAATATCCTTCACCGTGAAGTTGAAATCTGACTCAAAGTTATAGA
390 GATTGGGTGTTCTTCGAGCCTAATATCCTTCACCGTGAAGTTGAAATCTGACTCAAAGTTATAGA
10372778 TGATTTTTCTTTAAGTCCAAAAGACTTGTGAATCCTCTATGGGTTAATTCAACTCTAAATATCTC
455 TGATTTTTCTTTAAGTCCAAAAGACTTGTGAATCCTCTATGGGTTAATTCAACTCTAAATATCTC
10372843 CTAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTTATTTGAGC
520 CTAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTTATTTGAGC
*
10372908 CCAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAACCAATTAGGAAATAGCTCATCGTTGT
585 CCAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAATCAATTAGGAAATAGCTCATCGTTGT
* * * *
10372973 TGAGTTAAGCTATGTTGTACATGACTCATCCATTGCGAGTTAAGTCAGTCTTGTATGACTCGAAC
650 TGAGTTAAGATAAGTTGTACATGACTCATCCATTGCGATTTAAGTCAGTCTTGTATAACTCGAAC
10373038 TTGAAATCCTT
715 TTGAAATCCTT
10373049 TGTGATGAAG
Statistics
Matches: 1408, Mismatches: 28, Indels: 39
0.95 0.02 0.03
Matches are distributed among these distances:
716 4 0.00
717 498 0.35
720 1 0.00
723 131 0.09
724 3 0.00
725 1 0.00
726 1 0.00
727 1 0.00
728 2 0.00
729 1 0.00
730 3 0.00
734 1 0.00
736 7 0.00
737 7 0.00
738 15 0.01
739 702 0.50
740 20 0.01
741 5 0.00
742 5 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (737 bp):
AAAATAATATATGTACTAATATAATATATATTATATACATATAATATTTTAAAAATTATATATAT
ATATATAATATATATATATATATTTCTTAAATATAATATATATGCTATATAAAATATAAATAATA
TATGAAATACACACAAATTCCTAAAGTAACCCCAGACAAAAATATGTGATATAGTTGTCCCACTT
TGTCCTTTATTGTGCAACGAAAATAGGACAAAGATAGAAACAAACACATTTTCATTCGGTTTTTA
AAATAGATAGATTCTGAAAGTAAGCCTGCTCCCATGATGTTGAAGCATTTAGCTTTTCCTTGAAA
ATCTAATCAAATTTTGGGTGACTCTCCTCTACGGATTAAGTCGAGTGAATACTTGTTCATTCAAG
ATTGGGTGTTCTTCGAGCCTAATATCCTTCACCGTGAAGTTGAAATCTGACTCAAAGTTATAGAT
GATTTTTCTTTAAGTCCAAAAGACTTGTGAATCCTCTATGGGTTAATTCAACTCTAAATATCTCC
TAGCCGTTATGTTGTAGATGACTCCTCCATTACGAGTGAAATCAAAGTGAAATGTTATTTGAGCC
CAATATCCTTCATCGTGAAGTTGAAATCTAACTTAGAATCAATTAGGAAATAGCTCATCGTTGTT
GAGTTAAGATAAGTTGTACATGACTCATCCATTGCGATTTAAGTCAGTCTTGTATAACTCGAACT
TGAAATCCTTCATCATGAAGTT
Found at i:10372405 original size:26 final size:28
Alignment explanation
Indices: 10372376--10372434 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
10372366 AATATATATT
10372376 ATATACATATAAATA-TT-TTAAAAATA
1 ATATACATATAAATATTTCTTAAAAATA
* * *
10372402 ATATATATATATATATTTCTTAAATATA
1 ATATACATATAAATATTTCTTAAAAATA
10372430 ATATA
1 ATATA
10372435 TATGCTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.46
27 2 0.07
28 13 0.46
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATACATATAAATATTTCTTAAAAATA
Found at i:10372424 original size:28 final size:28
Alignment explanation
Indices: 10372375--10372437 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
10372365 TAATATATAT
*
10372375 TATATACATATAAATATTTTAAAAATAA
1 TATATATATATAAATATTTTAAAAATAA
* *
10372403 TATATATATATATAT-TTCTTAAATATAA
1 TATATATATATAAATATT-TTAAAAATAA
10372431 TATATAT
1 TATATAT
10372438 GCTATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATATATATATAAATATTTTAAAAATAA
Found at i:10374442 original size:21 final size:21
Alignment explanation
Indices: 10374416--10374460 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
10374406 CCACCCCCGG
10374416 ACACAAGCGAGAGTTTCCCTA
1 ACACAAGCGAGAGTTTCCCTA
10374437 ACACAAGCGAGAGTTTCCCTA
1 ACACAAGCGAGAGTTTCCCTA
10374458 ACA
1 ACA
10374461 ATCCTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.18
Consensus pattern (21 bp):
ACACAAGCGAGAGTTTCCCTA
Found at i:10375051 original size:140 final size:138
Alignment explanation
Indices: 10374768--10375203 Score: 489
Period size: 139 Copynumber: 3.1 Consensus size: 138
10374758 TAATCCTAGC
* * * *
10374768 CAATTTTATCAAATTATTGAATCGAATAATTGAAATGGGACCTCATGCATAAATACAAGGACCAA
1 CAATTTTATCCAATTATTGAATCGAATAATTGAAATGGAACCTCAAGCAT-AATACGAGGACCAA
** * *
10374833 ATAAAAAATTCACCTAA-ACTAAGGGACTAAAGTGAAGTTAAGCCTAAAGTGAAGGCTTTAATAT
65 ATAAAAAATTCACCTAATTTTAA-GGACTAAAGTGAAATTAAGCCTAAAGTGAAGGCTCTAATAT
** * *
10374897 CGACTTTAAC
129 TAACTCTAAA
* * * * * *
10374907 CAATTTTGTCCAATTATTGAATTGAATAATTGAAATGGAACCTAAAACATATACACGAGGAACAA
1 CAATTTTATCCAATTATTGAATCGAATAATTGAAATGGAACCTCAAGCATA-ATACGAGGACCAA
**
10374972 ATAAAAAAATTCACCTAATTTTAAGGACTAAAGTGAAATTAAGCCTTAAA-TGAATACTCTAATA
65 AT-AAAAAATTCACCTAATTTTAAGGACTAAAGTGAAATTAAGCC-TAAAGTGAAGGCTCTAATA
* *
10375036 TTAACCCTAAT
128 TTAACTCTAAA
* * * * * *
10375047 CAATTTTAACCAATTATGGAATCGAATAATTGAAATGGAAACTCGAGCATAATTGCGAAGACCAA
1 CAATTTTATCCAATTATTGAATCGAATAATTGAAATGGAACCTCAAGCATAA-TACGAGGACCAA
* * * * *
10375112 ACAAAAAATTCACCCAATTTTAAGAACTAAAGTGATATTAAGCCTAAAGTGAAGGTTCTAATATT
65 ATAAAAAATTCACCTAATTTTAAGGACTAAAGTGAAATTAAGCCTAAAGTGAAGGCTCTAATATT
* *
10375177 AATTGTAAA
130 AACTCTAAA
10375186 CAATTTTATCCAATTATT
1 CAATTTTATCCAATTATT
10375204 CAATAGCCCT
Statistics
Matches: 245, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
138 5 0.02
139 129 0.53
140 104 0.42
141 7 0.03
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (138 bp):
CAATTTTATCCAATTATTGAATCGAATAATTGAAATGGAACCTCAAGCATAATACGAGGACCAAA
TAAAAAATTCACCTAATTTTAAGGACTAAAGTGAAATTAAGCCTAAAGTGAAGGCTCTAATATTA
ACTCTAAA
Found at i:10375508 original size:18 final size:18
Alignment explanation
Indices: 10375485--10375524 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10375475 TGAACCTAAA
10375485 AATAATAAAATATAATAT
1 AATAATAAAATATAATAT
* *
10375503 AATAATAATATATATTAT
1 AATAATAAAATATAATAT
10375521 AATA
1 AATA
10375525 TATACTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATAAAATATAATAT
Found at i:10375517 original size:2 final size:2
Alignment explanation
Indices: 10375494--10375733 Score: 66
Period size: 2 Copynumber: 131.5 Consensus size: 2
10375484 AAATAATAAA
10375494 AT AT A- AT AT A- AT A- AT A- AT AT AT AT -T AT A- AT AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * * *
10375531 A- AT AT AT AT TT TT AA AT AT AT A- AC AT AT -T TT AA AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
10375569 AC AT AT AT AT -T AT AT AT AA AT AT AA AT -T AT AT -T TT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10375607 AA AT A- AT AT AT AT ACT A- AT AT AT AT AT -T CAT AT -T A- AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT -AT AT AT AT AT AT
* * * *
10375646 AT AT -T AT AT A- AT AT AT -T AT AA AA AT A- AT AT AT AT AC CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
10375684 TT AT AT AT AT TT AT -T AA AT TT A- AT TT AT -T AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10375722 AT AT ACT AT AT A
1 AT AT A-T AT AT A
10375734 AAAATATAAA
Statistics
Matches: 177, Mismatches: 30, Indels: 62
0.66 0.11 0.23
Matches are distributed among these distances:
1 27 0.15
2 143 0.81
3 7 0.04
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10375538 original size:10 final size:10
Alignment explanation
Indices: 10375486--10375538 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
10375476 GAACCTAAAA
*
10375486 ATAATAAAAT
1 ATAATAATAT
10375496 ATAAT-ATA-
1 ATAATAATAT
10375504 ATAATAATAT
1 ATAATAATAT
10375514 ATATTATAATAT
1 ATA--ATAATAT
*
10375526 ATACTAATAT
1 ATAATAATAT
10375536 ATA
1 ATA
10375539 TTTTTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 5 0.14
9 5 0.14
10 17 0.46
12 10 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAATAATAT
Found at i:10375589 original size:42 final size:43
Alignment explanation
Indices: 10375532--10375630 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
10375522 ATATATACTA
*
10375532 ATATATATT-T-T-TAAATATATAA-CATATTTT-AAATATAAC
1 ATATATATTATATATAAATATA-AATCATATTTTAAAAAATAAC
* *
10375571 ATATATATTATATATAAATATAAATTATATTTTAAAAAATAAT
1 ATATATATTATATATAAATATAAATCATATTTTAAAAAATAAC
*
10375614 ATATATACTAATATATA
1 ATATATA-TTATATATA
10375631 TATTCATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.18
40 1 0.02
41 3 0.06
42 15 0.30
43 14 0.28
44 8 0.16
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (43 bp):
ATATATATTATATATAAATATAAATCATATTTTAAAAAATAAC
Found at i:10375593 original size:24 final size:23
Alignment explanation
Indices: 10375492--10375680 Score: 77
Period size: 24 Copynumber: 8.0 Consensus size: 23
10375482 AAAAATAATA
*
10375492 AAATAT-AATATA-ATAATA-AT
1 AAATATAAATATATATTATATAT
* *
10375512 ATATATTATAATATATACTAATATAT
1 AAATA-TA-AATATATA-TTATATAT
** * ** *
10375538 ATTTTTAAATATATAACATATTTT
1 AAATATAAATATATATTATA-TAT
10375562 AAATATAACATATATATTATATAT
1 AAATATAA-ATATATATTATATAT
* *
10375586 AAATATAAAT-TATATTTTA-AA
1 AAATATAAATATATATTATATAT
*
10375607 AAATAATATATATACTAATATATATAT
1 AAAT-ATAAATATA-T-AT-TATATAT
** *
10375634 TCATATTAATATATATTATATAAT
1 AAATATAAATATATATTATAT-AT
* *
10375658 ATATTATAAA-A-ATAATATATAT
1 A-AATATAAATATATATTATATAT
10375680 A
1 A
10375681 CCTTTATATA
Statistics
Matches: 127, Mismatches: 26, Indels: 30
0.69 0.14 0.16
Matches are distributed among these distances:
20 4 0.03
21 6 0.05
22 16 0.13
23 26 0.20
24 32 0.25
25 25 0.20
26 15 0.12
27 3 0.02
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATAAATATATATTATATAT
Found at i:10375646 original size:60 final size:61
Alignment explanation
Indices: 10375575--10375694 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 61
10375565 TATAACATAT
*
10375575 ATATTATATATA-AATATA-AATTATATTTTAAAAAATAATATATATA-CTAATATATATATTC
1 ATATTATATATATAATATATAA-TATATTAT-AAAAATAATATATATACCT-ATATATATATTC
* *
10375636 ATATTA-ATATATATTATATAATATATTATAAAAATAATATATATACCTTTATATATATT
1 ATATTATATATATAATATATAATATATTATAAAAATAATATATATACCTATATATATATT
10375695 TATTAAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
60 31 0.58
61 20 0.38
62 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (61 bp):
ATATTATATATATAATATATAATATATTATAAAAATAATATATATACCTATATATATATTC
Found at i:10375674 original size:30 final size:29
Alignment explanation
Indices: 10375596--10375679 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
10375586 AAATATAAAT
* *
10375596 TATATTTTAAAAAATAATATATA-TACTAA
1 TATATTAT-AAAAATAATATATATTAATAA
* * *
10375625 TATATATATTCATATTAATATATATTATATAA
1 TATAT-TA-TAAAAATAATATATATTA-ATAA
10375657 TATATTATAAAAATAATATATAT
1 TATATTATAAAAATAATATATAT
10375680 ACCTTTATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
29 5 0.12
30 25 0.58
31 5 0.12
32 8 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TATATTATAAAAATAATATATATTAATAA
Found at i:10375690 original size:62 final size:61
Alignment explanation
Indices: 10375574--10375723 Score: 159
Period size: 62 Copynumber: 2.4 Consensus size: 61
10375564 ATATAACATA
* *
10375574 TATATT-ATATATA-AATATAAATTATATTTTAAAAAATAATATATATACTAATATATA-TAT
1 TATATTAATATATATTATAT-AA-TATATTATAAAAAATAATATATATACTAATATATATTAT
*
10375634 TCATATTAATATATATTATATAATATATTAT-AAAAATAATATATATACCTTTATATATATTTAT
1 T-ATATTAATATATATTATATAATATATTATAAAAAATAATATATATA-C-TAATATATA-TTAT
*
10375698 TAAATTTAAT-T-TATTATATAATATAT
1 TATA-TTAATATATATTATATAATATAT
10375724 ATACTATATA
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
60 17 0.22
61 13 0.17
62 32 0.41
63 7 0.09
64 9 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (61 bp):
TATATTAATATATATTATATAATATATTATAAAAAATAATATATATACTAATATATATTAT
Found at i:10380376 original size:182 final size:183
Alignment explanation
Indices: 10380151--10380498 Score: 529
Period size: 182 Copynumber: 1.9 Consensus size: 183
10380141 CGTTAATTAC
* * ** *
10380151 ACACTGATATCAAAATATATCTACCAAGGAACCTCTTGTACCTCAAGACTTGGTCACAAATAACT
1 ACACTGATATCAAAATAGATCTACCAAGGAACCTCTTGTACCTCAAAACACGGTCACAAACAACT
*
10380216 CTAGAGCATGACTCACT-CAAGTAAGGTATCTTTATCCTATTTCGAACACT-GGTGATCTCCCTG
66 CTAGAGCATGACTCACTAAAAG-AAGGTATCTTTATCCTATTTCGAACACTGGGTGATCTCCCTG
* *
10380279 AACTTGCTGTGAGAACTGAAATCTCAAATCATCCATATGTGCCTCAGTAATTGT
130 AACTTGCTGAGAGAACTGAAATCTCAAATCATACATATGTGCCTCAGTAATTGT
* * *
10380333 ACACTGATATCAAAATGGATCTCCCAAGGAACCTCTTGTACCTCAAAACACGGTCATAAACAACT
1 ACACTGATATCAAAATAGATCTACCAAGGAACCTCTTGTACCTCAAAACACGGTCACAAACAACT
* * * *
10380398 CTGGAGCATGACTCACTAAAAGAAGGTCTCTTTCTCCTATTTCGAACATTGGGTGATCTCCCTGA
66 CTAGAGCATGACTCACTAAAAGAAGGTATCTTTATCCTATTTCGAACACTGGGTGATCTCCCTGA
*
10380463 ACTTGTTGAGAGAACTGAAATCTCAAATCATACATA
131 ACTTGCTGAGAGAACTGAAATCTCAAATCATACATA
10380499 CTTGCTTTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
182 98 0.66
183 50 0.34
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (183 bp):
ACACTGATATCAAAATAGATCTACCAAGGAACCTCTTGTACCTCAAAACACGGTCACAAACAACT
CTAGAGCATGACTCACTAAAAGAAGGTATCTTTATCCTATTTCGAACACTGGGTGATCTCCCTGA
ACTTGCTGAGAGAACTGAAATCTCAAATCATACATATGTGCCTCAGTAATTGT
Found at i:10387054 original size:194 final size:191
Alignment explanation
Indices: 10386707--10387064 Score: 481
Period size: 194 Copynumber: 1.9 Consensus size: 191
10386697 ATTATATATG
* *
10386707 GTGACGTTATGCATAATCATCATTCATAATATTATTAGGTAACAATATATTATGTCACTAAAAAT
1 GTGACGCTATGCATAATCATCATTCATAATATTATTAAGTAACAATATATTATGTCACTAAAAAT
*
10386772 GTGACTATATTTCTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAACTATC
66 GTGACAATATTTCTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAACTATC
* ** * *
10386837 AATAACGAAATCTTATTTAATTTAGTGACGTAATCAACTGTCATAGAATATAAATTGTAAA
131 AATAACAAAATCTTACATAATTTAGAGACATAATCAACTGTCATAGAATATAAATTGTAAA
* *
10386898 GTGACGCTATGCATAGAT-GTCATTCATAATATTATTAAGTAACATTTATATTATGTCACTAAAA
1 GTGACGCTATGCATA-ATCATCATTCATAATATTATTAAGTAACA-ATATATTATGTCACTAAAA
* * * * * *
10386962 GTTTGACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATTATCTT-TGACGATATAAA
64 ATGTGACAATAT-T-TCTCGTCACATATAAGTTGATTTTAATGCATTAT-TTGTGACAATATAAA
10387026 -TCATCAATAACAAAAT-TGTACATAATTTAGAGACATAAT
126 CT-ATCAATAACAAAATCT-TACATAATTTAGAGACATAAT
10387065 TAGTTGTCAT
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
191 38 0.26
192 29 0.20
193 3 0.02
194 72 0.50
195 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (191 bp):
GTGACGCTATGCATAATCATCATTCATAATATTATTAAGTAACAATATATTATGTCACTAAAAAT
GTGACAATATTTCTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAACTATC
AATAACAAAATCTTACATAATTTAGAGACATAATCAACTGTCATAGAATATAAATTGTAAA
Found at i:10390600 original size:19 final size:19
Alignment explanation
Indices: 10390576--10390615 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10390566 GGCACCTATA
*
10390576 ATTTTATCTTTTTAT-TTTT
1 ATTTTAT-TTTTGATATTTT
10390595 ATTTTATTTTTGATATTTT
1 ATTTTATTTTTGATATTTT
10390614 AT
1 AT
10390616 ATATGCGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (19 bp):
ATTTTATTTTTGATATTTT
Found at i:10397204 original size:19 final size:19
Alignment explanation
Indices: 10397182--10397220 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10397172 GTTTATCAGC
* *
10397182 AATTGTAAAGTTTTTATTT
1 AATTATAAACTTTTTATTT
*
10397201 AATTATGAACTTTTTATTT
1 AATTATAAACTTTTTATTT
10397220 A
1 A
10397221 TTTTGTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
AATTATAAACTTTTTATTT
Found at i:10397221 original size:23 final size:23
Alignment explanation
Indices: 10397194--10397268 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
10397184 TTGTAAAGTT
*
10397194 TTTATTTAATTATGAACTTTTTA
1 TTTATTTAATTATGAATTTTTTA
** * *
10397217 TTTATTTTGTTTCTTAATTTTTTA
1 TTTA-TTTAATTATGAATTTTTTA
10397241 -TTATTTAATTATTGAATTTTTTTA
1 TTTATTTAATTA-TGAA-TTTTTTA
10397265 TTTA
1 TTTA
10397269 GTTCTTTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
22 5 0.13
23 10 0.26
24 21 0.54
25 3 0.08
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTATTTAATTATGAATTTTTTA
Found at i:10397284 original size:46 final size:46
Alignment explanation
Indices: 10397195--10397285 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
10397185 TGTAAAGTTT
* *
10397195 TTATTTAATTATGAACTTTTTATTTATTTTGTTTCTTAATTTTTTA
1 TTATTTAATTATGAACTTTTTATTTATGTTCTTTCTTAATTTTTTA
*
10397241 TTATTTAATTATTGAATTTTTTTATTTA-GTTCTTT-TT-ATTTTTTA
1 TTATTTAATTA-TGAA-CTTTTTATTTATGTTCTTTCTTAATTTTTTA
10397286 GTTGTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
45 8 0.20
46 13 0.32
47 9 0.22
48 10 0.25
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.69
Consensus pattern (46 bp):
TTATTTAATTATGAACTTTTTATTTATGTTCTTTCTTAATTTTTTA
Found at i:10409810 original size:35 final size:34
Alignment explanation
Indices: 10409771--10409844 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 34
10409761 CTAAATTATT
10409771 ATTATTTTACTACACCCAAAAATCAAAACCTAATA
1 ATTATTTTA-TACACCCAAAAATCAAAACCTAATA
* *
10409806 ATTA---T-TACACCCAAAAATTAAATCCTAATA
1 ATTATTTTATACACCCAAAAATCAAAACCTAATA
10409836 ATTATTTTA
1 ATTATTTTA
10409845 GTGTATTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
30 27 0.82
32 1 0.03
33 1 0.03
35 4 0.12
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (34 bp):
ATTATTTTATACACCCAAAAATCAAAACCTAATA
Found at i:10409815 original size:30 final size:30
Alignment explanation
Indices: 10409781--10409841 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
10409771 ATTATTTTAC
10409781 TACACCCAAAAATCAAAACCTAATAATTAT
1 TACACCCAAAAATCAAAACCTAATAATTAT
* *
10409811 TACACCCAAAAATTAAATCCTAATAATTAT
1 TACACCCAAAAATCAAAACCTAATAATTAT
10409841 T
1 T
10409842 TTAGTGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (30 bp):
TACACCCAAAAATCAAAACCTAATAATTAT
Found at i:10410114 original size:51 final size:52
Alignment explanation
Indices: 10410018--10410119 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
10410008 AACGAGTAAC
*
10410018 GAGTCGAGCAACAAATTTTTCTTAACAAGTCCGAGTCGAGTAAAATTTTAAT
1 GAGTCGAGCAACAAATTTTTCTTAACAAGTCCGAGTCAAGTAAAATTTTAAT
* *
10410070 GAGTCGAGCAATAAATTTTT-TTAACGAG-CACGAGTCAAGTAAAATTTTAA
1 GAGTCGAGCAACAAATTTTTCTTAACAAGTC-CGAGTCAAGTAAAATTTTAA
10410120 AAAACTTAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 1 0.02
51 26 0.57
52 19 0.41
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (52 bp):
GAGTCGAGCAACAAATTTTTCTTAACAAGTCCGAGTCAAGTAAAATTTTAAT
Found at i:10410721 original size:42 final size:42
Alignment explanation
Indices: 10410669--10410750 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
10410659 TGTTGAATGT
* *
10410669 GATAAGATAAAATCTGATTCCAAAATCTCAAATGACTATTGC
1 GATAAGATAAAATATGATTCCAAAATCTCAAACGACTATTGC
*
10410711 GATATGATAAAATATGATTCCAAAATCTCAAACGACTATT
1 GATAAGATAAAATATGATTCCAAAATCTCAAACGACTATT
10410751 ATATCTCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (42 bp):
GATAAGATAAAATATGATTCCAAAATCTCAAACGACTATTGC
Found at i:10412675 original size:109 final size:111
Alignment explanation
Indices: 10412431--10412682 Score: 300
Period size: 109 Copynumber: 2.3 Consensus size: 111
10412421 ATCACTACAT
*
10412431 ATGACCAAAATGAAAAACATGCTTAAA-TAAGAGGGACTAAAAAAGAAATATTCCAATAAATATA
1 ATGACCAAAGTGAAAAACATGC-TAAACTAAGAGGGACTAAAAAAGAAATATTCCAATAAATATA
* *
10412495 TAATATGCATGAAAAAAGGGGTAAATAACAAATTTGGTCCTCGCATG
65 TAACATACATGAAAAAAGGGGTAAATAACAAATTTGGTCCTCGCATG
* * * * *
10412542 -TGACCAAAGTGTAAAAACACGCTAAACTATGGGGGACT-AAATAGAAAATATTCTAATAAATAT
1 ATGACCAAAGTG-AAAAACATGCTAAACTAAGAGGGACTAAAAAAG-AAATATTCCAATAAATAT
** * *
10412605 ATAACATACATG-AAAAA-GGGTAAATAATGATTTTGGTCCTCGTA-G
64 ATAACATACATGAAAAAAGGGGTAAATAACAAATTTGGTCCTCGCATG
*
10412650 ATGACCAAAGTGCAAAAACGTGCTAAACCTAAG
1 ATGACCAAAGTG-AAAAACATGCTAAA-CTAAG
10412683 GGACTTAAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
108 1 0.01
109 46 0.38
110 28 0.23
111 45 0.38
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (111 bp):
ATGACCAAAGTGAAAAACATGCTAAACTAAGAGGGACTAAAAAAGAAATATTCCAATAAATATAT
AACATACATGAAAAAAGGGGTAAATAACAAATTTGGTCCTCGCATG
Found at i:10413667 original size:13 final size:14
Alignment explanation
Indices: 10413639--10413673 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
10413629 AATAACAGTT
10413639 ATAATAATTAAATA
1 ATAATAATTAAATA
10413653 ATAATAATT-AATA
1 ATAATAATTAAATA
10413666 ATAATAAT
1 ATAATAAT
10413674 ATTATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATTAAATA
Found at i:10415323 original size:197 final size:198
Alignment explanation
Indices: 10414780--10415405 Score: 874
Period size: 197 Copynumber: 3.2 Consensus size: 198
10414770 AGGATTTAAG
* *
10414780 CATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAAGTAAGAAACTTTGG-AAATCA
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTAAGAAACTTTGGAAAATCA
* * * *
10414844 -TTTATTACTTTTCAAAAAAATCAATTTTCAGAAAAGATTTAAGTGAGAGACTTTGGAAATCATT
66 TTTTCTTACTTTTCAAAAAAATTAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCATT
* * * *
10414908 TTCTCCTTTTTTGAAAAT-ATTGTGAAAACATCCTACCCAAAGGTCTTATAGATGACCCAAAAGA
131 TTCTCATTTTTCGAAAATCA-TGTGAAAACATCCTACCCGAAGGTCTTATAGATG-GCCAAAAGA
*
10414972 TTTAAG-
194 CTT--GT
* * *
10414978 CATCATGCTTGAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACCTT-GAAAATCA
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTAAGAAACTTTGGAAAATCA
** * *
10415042 TTTTCTTACTTTTCAAAAAAATTAATTTTCAGAAAAGATTTAAATGAGAAAAATTAGAAATCGTT
66 TTTTCTTACTTTTCAAAAAAATTAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCATT
* *
10415107 TTCTCATTTTTCGAAAATCATGTGAAAACATCATGCCCGAAGGTCTTATAGATGGCACAAAAGAC
131 TTCTCATTTTTCGAAAATCATGTGAAAACATCCTACCCGAAGGTCTTATAGATGGC-CAAAAGAC
10415172 TTGT
195 TTGT
*
10415176 CATCTTGCTCGAAAGACTTA-TAGATGACCCGAAGGACTTACTAAGTAAGAAACTTTGGAAAAT-
1 CATCATGCTCGAAAGACTTACT-GATGACCCGAAGGACTTACTAAGTAAGAAACTTTGGAAAATC
*
10415239 ATTTTCTTACTTTTC-AAAAAATTAATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAATCAT
65 ATTTTCTTACTTTTCAAAAAAATTAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCAT
* * *
10415303 TTTCTCATTTTTCGAAAATCATGTGAAAACATCCTTCTCGAAGGTCTTATAGATGGCCCAAAGAA
130 TTTCTCATTTTTCGAAAATCATGTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCAAAAG-A
*
10415368 CTTAT
194 CTTGT
*
10415373 CATCTTGCTCGAAAGACTTA-TAGATGACCCGAA
1 CATCATGCTCGAAAGACTTACT-GATGACCCGAA
10415406 TGATTTAAGC
Statistics
Matches: 388, Mismatches: 32, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
196 5 0.01
197 139 0.36
198 125 0.32
199 118 0.30
200 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (198 bp):
CATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTAAGAAACTTTGGAAAATCA
TTTTCTTACTTTTCAAAAAAATTAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCATT
TTCTCATTTTTCGAAAATCATGTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCAAAAGACT
TGT
Found at i:10415461 original size:42 final size:41
Alignment explanation
Indices: 10415339--10415461 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 41
10415329 AAACATCCTT
* * * * *
10415339 CTCGAAGGTCTTATAGATGGCCC-AAAGAACTTATCATCTTG
1 CTCGAAAGACTTATAGATGACCCGAATG-ACTTATCATCATG
* *
10415380 CTCGAAAGACTTATAGATGACCCGAATGATTTAAGCATCATG
1 CTCGAAAGACTTATAGATGACCCGAATGACTT-ATCATCATG
* *
10415422 CTTGAAAGACTTATTGATGACCCGAATGACTTACTCATCA
1 CTCGAAAGACTTATAGATGACCCGAATGACTTA-TCATCA
10415462 AAAAACCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 24 0.35
42 44 0.65
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (41 bp):
CTCGAAAGACTTATAGATGACCCGAATGACTTATCATCATG
Found at i:10421538 original size:2 final size:2
Alignment explanation
Indices: 10421531--10421560 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10421521 GATGTATTTA
10421531 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
10421561 GTTCGAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10428329 original size:3 final size:3
Alignment explanation
Indices: 10428321--10428370 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10428311 GGATTTTAAC
10428321 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10428369 AT
1 AT
10428371 ATATATGTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10430745 original size:21 final size:21
Alignment explanation
Indices: 10430706--10430761 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
10430696 TTGTCTGCAA
10430706 TCCTTGAATCATTA-TTCTTAGC
1 TCCTT-AAT-ATTAGTTCTTAGC
10430728 TCCTTAATATTAGTTCTTAGC
1 TCCTTAATATTAGTTCTTAGC
10430749 T--TTAATACTTAGT
1 TCCTTAATA-TTAGT
10430762 AGGATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.19
20 9 0.28
21 12 0.38
22 5 0.16
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (21 bp):
TCCTTAATATTAGTTCTTAGC
Found at i:10434240 original size:109 final size:110
Alignment explanation
Indices: 10434012--10434256 Score: 334
Period size: 109 Copynumber: 2.2 Consensus size: 110
10434002 TCACTACATA
* * * ** *
10434012 TGACCAAAATGCAAAAATACGCTTAAATAAAAGG-GACTAAACACCAAATATTCCAATAAATTTA
1 TGACCAAAGTGCAAAAACACGC-TAAATTATGGGAGACTAAACACCAAATATTCCAATAAATATA
* *
10434076 TAACATGCATGGAAAAAGTGTAAATAACATATTTGGTCCTCGCATG
65 TAACATACATGGAAAAAGGGTAAATAACATATTTGGTCCTCGCATG
* * *
10434122 TGACCAAAGTGTAAAAACGCGCTAAATTATGGGAGACTAAACATCAAATATTCCAATAAATATAT
1 TGACCAAAGTGCAAAAACACGCTAAATTATGGGAGACTAAACACCAAATATTCCAATAAATATAT
*
10434187 AACATACAT-GATAAAGGGTAAATAACGAT-TTTGGTCCTCGCATG
66 AACATACATGGAAAAAGGGTAAATAAC-ATATTTGGTCCTCGCATG
*
10434231 TGACCAAAGTGCAAAAATACGCTAAA
1 TGACCAAAGTGCAAAAACACGCTAAA
10434257 CCTATGGGGA
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
109 61 0.52
110 57 0.48
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.24
Consensus pattern (110 bp):
TGACCAAAGTGCAAAAACACGCTAAATTATGGGAGACTAAACACCAAATATTCCAATAAATATAT
AACATACATGGAAAAAGGGTAAATAACATATTTGGTCCTCGCATG
Found at i:10435182 original size:3 final size:3
Alignment explanation
Indices: 10435152--10435194 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
10435142 TGTCTGCCAA
* * * *
10435152 AAT AAT AAC AAT AAC AAT AAC AAC AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10435195 TTAACGAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:10435410 original size:30 final size:30
Alignment explanation
Indices: 10435352--10435410 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10435342 CATCACTCCA
* *
10435352 TAATCGAGAGACTTAATTAAATATTAGTTG
1 TAATCGAGAGACTTAATTAAACAATAGTTG
*
10435382 TAATCGAGATACTTAA-TAAACCAATAGTT
1 TAATCGAGAGACTTAATTAAA-CAATAGTT
10435411 ATAGTAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (30 bp):
TAATCGAGAGACTTAATTAAACAATAGTTG
Found at i:10443144 original size:17 final size:18
Alignment explanation
Indices: 10443122--10443166 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
10443112 CTTTAGATTA
10443122 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
10443139 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
10443157 TTTACTTTAA
1 TTTA-TTTAA
10443167 AAATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.52
18 7 0.28
19 5 0.20
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:10443237 original size:19 final size:20
Alignment explanation
Indices: 10443213--10443261 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
10443203 CTATTATTTA
*
10443213 TTATTTTATTATT-TCCCTT
1 TTATTTTATTATTATCCATT
*
10443232 TTA-TTTATTATTATCTATT
1 TTATTTTATTATTATCCATT
10443251 TTATTTTATTA
1 TTATTTTATTA
10443262 AATCTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTTATTATTATCCATT
Found at i:10446067 original size:5 final size:5
Alignment explanation
Indices: 10446054--10446196 Score: 139
Period size: 5 Copynumber: 28.0 Consensus size: 5
10446044 AGAGACAACC
*
10446054 ATTTC ATTTT A-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* * * *
10446103 ATTTT CGTTTT ATTTTT ATTTT ATTTT -TTTAGCA AATTT ATTTT CATTCT
1 ATTTT -ATTTT A-TTTT ATTTT ATTTT ATTT---T ATTTT ATTTT -ATTTT
* * *
10446153 A-TTT ATTTT ATTTT ATTTT ATTTT AATTA AATTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
10446197 TCTCTGAACA
Statistics
Matches: 116, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
4 10 0.09
5 91 0.78
6 13 0.11
8 2 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:10448973 original size:17 final size:18
Alignment explanation
Indices: 10448953--10448997 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
10448943 CATTAGATTA
10448953 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
10448970 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
10448988 TTTACTTTAA
1 TTTA-TTTAA
10448998 AAACAACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.52
18 7 0.28
19 5 0.20
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:10449070 original size:20 final size:20
Alignment explanation
Indices: 10449045--10449094 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
10449035 CTATTATTTA
* *
10449045 TTATTTTATTATTTTCCCTT
1 TTATTTTATTATTATCCATT
*
10449065 TTA-TTTATTATTATCTATT
1 TTATTTTATTATTATCCATT
10449084 TTATTTTATTA
1 TTATTTTATTA
10449095 AATCTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTATTATTATCCATT
Found at i:10449085 original size:19 final size:19
Alignment explanation
Indices: 10449036--10449094 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
10449026 ATTTCACTAC
* *
10449036 TATTATTTATTAT-TTTAT
1 TATTATCTATTTTATTTAT
* **
10449054 TATTTTCCCTTTTATTTAT
1 TATTATCTATTTTATTTAT
10449073 TATTATCTATTTTATTTTAT
1 TATTATCTATTTTA-TTTAT
10449093 TA
1 TA
10449095 AATCTTTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 8 0.26
19 16 0.52
20 7 0.23
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATCTATTTTATTTAT
Found at i:10453783 original size:41 final size:41
Alignment explanation
Indices: 10453737--10453817 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
10453727 ACACTGAAGG
*
10453737 AGGATGATTGCATTTAATCCATATTCATTCACCAAGCAAGA
1 AGGATGATTGCATTTAATCCAAATTCATTCACCAAGCAAGA
10453778 AGGATGATTGCATTTAATCCAAATTCATTCACCAAGCAAG
1 AGGATGATTGCATTTAATCCAAATTCATTCACCAAGCAAG
10453818 TTCATGCAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (41 bp):
AGGATGATTGCATTTAATCCAAATTCATTCACCAAGCAAGA
Found at i:10455797 original size:3 final size:3
Alignment explanation
Indices: 10455718--10455784 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
10455708 TTCATTTGAA
* *
10455718 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT AAT TAT TAT AAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10455762 TAT TAT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
10455785 ATAAATATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.05
3 51 0.93
4 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10457342 original size:18 final size:19
Alignment explanation
Indices: 10457321--10457356 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10457311 TTTAAATAAG
*
10457321 ATAT-TATTTTTATAAATT
1 ATATCTATTTTAATAAATT
10457339 ATATCTATTTTAATAAAT
1 ATATCTATTTTAATAAAT
10457357 GCTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATCTATTTTAATAAATT
Found at i:10459708 original size:14 final size:15
Alignment explanation
Indices: 10459679--10459708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10459669 GGGAATTCTT
10459679 TTACAAATGTGGTGA
1 TTACAAATGTGGTGA
10459694 TTACAAATG-GGTGA
1 TTACAAATGTGGTGA
10459708 T
1 T
10459709 GCTGCTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
TTACAAATGTGGTGA
Found at i:10461308 original size:15 final size:15
Alignment explanation
Indices: 10461288--10461319 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10461278 GATCAATACC
10461288 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
10461303 TTTTGCATACATTCA
1 TTTTGCATACATGCA
10461318 TT
1 TT
10461320 ATTCATTGCA
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:10468606 original size:9 final size:9
Alignment explanation
Indices: 10468588--10468626 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
10468578 ATTATGCTTG
10468588 AAGAAAAAA
1 AAGAAAAAA
*
10468597 AAGAATAAA
1 AAGAAAAAA
*
10468606 ATGAAGAAAA
1 AAGAA-AAAA
10468616 AAGAAAAAA
1 AAGAAAAAA
10468625 AA
1 AA
10468627 AGAGAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:10468612 original size:12 final size:11
Alignment explanation
Indices: 10468586--10468657 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 11
10468576 ATATTATGCT
10468586 TGAAGAAAAAA
1 TGAAGAAAAAA
10468597 --AAGAATAAAA
1 TGAAGAA-AAAA
10468607 TGAAGAAAAAA
1 TGAAGAAAAAA
10468618 -GAA-AAAAAA
1 TGAAGAAAAAA
* *
10468627 AG-AGAAGAAA
1 TGAAGAAAAAA
**
10468637 TGTTGAAAAAA
1 TGAAGAAAAAA
10468648 -GAA-AAAAAA
1 TGAAGAAAAAA
10468657 T
1 T
10468658 AGAAAAGGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
9 18 0.38
10 15 0.31
11 10 0.21
12 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (11 bp):
TGAAGAAAAAA
Found at i:10468616 original size:10 final size:10
Alignment explanation
Indices: 10468587--10468656 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
10468577 TATTATGCTT
10468587 GAAGAAAAAA
1 GAAGAAAAAA
10468597 -AAGAATAAAA
1 GAAGAA-AAAA
10468607 TGAAGAAAAAA
1 -GAAGAAAAAA
*
10468618 GAAAAAAAAA
1 GAAGAAAAAA
*
10468628 G-AGAAGAAAT
1 GAAGAA-AAAA
**
10468638 GTTGAAAAAA
1 GAAGAAAAAA
10468648 GAA-AAAAAA
1 GAAGAAAAAA
10468657 TAGAAAAGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 14 0.29
10 22 0.46
11 7 0.15
12 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (10 bp):
GAAGAAAAAA
Found at i:10468627 original size:21 final size:22
Alignment explanation
Indices: 10468586--10468636 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
10468576 ATATTATGCT
*
10468586 TGAAGAAAAAAAAGAATAAAA-
1 TGAAGAAAAAAAAGAAAAAAAG
10468607 TGAAGAAAAAAGAA-AAAAAAAG
1 TGAAGAAAAAA-AAGAAAAAAAG
*
10468629 AGAAGAAA
1 TGAAGAAA
10468637 TGTTGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (22 bp):
TGAAGAAAAAAAAGAAAAAAAG
Found at i:10468627 original size:30 final size:29
Alignment explanation
Indices: 10468591--10468663 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
10468581 ATGCTTGAAG
10468591 AAAAAAAAGAATAAAATGAAGAAAAAAGAA
1 AAAAAAAAGAA-AAAATGAAGAAAAAAGAA
* **
10468621 AAAAAAAGAGAAGAAATGTTGAAAAAAGAA
1 AAAAAAA-AGAAAAAATGAAGAAAAAAGAA
*
10468651 AAAAAATAGAAAA
1 AAAAAAAAGAAAA
10468664 GGAAGGTCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.14
30 28 0.76
31 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (29 bp):
AAAAAAAAGAAAAAATGAAGAAAAAAGAA
Found at i:10469033 original size:18 final size:18
Alignment explanation
Indices: 10469010--10469044 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10469000 CAAGTTTATC
10469010 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
10469028 TTTTTGAAATTCAATTT
1 TTTTTGAAATTCAATTT
10469045 GTTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:10470387 original size:113 final size:116
Alignment explanation
Indices: 10470195--10470989 Score: 835
Period size: 123 Copynumber: 6.7 Consensus size: 116
10470185 TCCATCATTC
* * *
10470195 GATAGATCAACATTTCCAGAAAGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAA-
1 GATACATCAAC-TTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * ** *
10470259 TTCCATAATGTGAAGAACTTGTTTAACCTTTTGC-TCAAAT-TCATCAC-TTGATG
64 TT-CATAATGAGAAGAACTTGTTCAACCTTTTGCAT-GACTCT-ATCACAGAGATA
*
10470312 GAT-CATC-A-TTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 GATACATCAACTTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* ** * * *
10470374 TCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTGA--AT-TCATC--A-TTC
65 TCATAATGAGAAGAACTTGTTC-AACCTTTTGCATGACTCTATCA-CAGAGATA
**
10470422 GATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCT----------GAAGAAGT
1 GATACATCAAC-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
10470477 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAATGAGATA
65 TCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCAC---A-GAGATA
* *
10470533 GATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAAGAAGAA
1 GAT--ACATCAAC-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
10470598 GTTTATAATGAGAAGATCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATA
63 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCAC---A-GAGATA
10470656 GATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 GAT--ACATCAAC-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
10470721 GTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATA
63 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCAC---A-GAGATA
* *
10470779 GATCAACATCAACTTTTCCAGATAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAA
1 GAT--ACATCAAC-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
10470844 GTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATA
63 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCAC---A-GAGATA
*
10470902 GATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
1 GAT--ACATCAAC-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
10470967 GTTCATAATGAGAAGAACTTGTT
63 GTTCATAATGAGAAGAACTTGTT
10470990 TAATTTTTTT
Statistics
Matches: 611, Mismatches: 36, Indels: 56
0.87 0.05 0.08
Matches are distributed among these distances:
102 12 0.02
103 27 0.04
104 2 0.00
105 3 0.00
110 5 0.01
111 10 0.02
112 2 0.00
113 135 0.22
114 22 0.04
115 2 0.00
116 3 0.00
117 3 0.00
123 385 0.63
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (116 bp):
GATACATCAACTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAGATA
Found at i:10470598 original size:123 final size:123
Alignment explanation
Indices: 10470469--10470989 Score: 961
Period size: 123 Copynumber: 4.2 Consensus size: 123
10470459 GAACTCATCT
*
10470469 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAATGAGATAG
1 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
*
10470534 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAAAACTCATCTGAAGAAGAAA
66 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
* *
10470592 GAAGAAGTTTATAATGAGAAGATCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
1 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
*
10470657 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
10470715 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
1 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
* * *
10470780 ATCAACATCAACTTTTCCAGATAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAA
66 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
10470838 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
1 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
10470903 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
66 ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
*
10470961 GAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAAGAAGTTCATAATGAGAAGAGCTTGTT
10470990 TAATTTTTTT
Statistics
Matches: 385, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 385 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (123 bp):
GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAG
ATCAACATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
Found at i:10472918 original size:18 final size:19
Alignment explanation
Indices: 10472897--10472932 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10472887 TTTAAATAAG
*
10472897 ATAT-TATTTTTATAAATT
1 ATATCTATTTTAATAAATT
10472915 ATATCTATTTTAATAAAT
1 ATATCTATTTTAATAAAT
10472933 GCTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATCTATTTTAATAAATT
Found at i:10477724 original size:3 final size:3
Alignment explanation
Indices: 10477716--10477806 Score: 148
Period size: 3 Copynumber: 30.0 Consensus size: 3
10477706 ATCTTTCTTT
10477716 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10477764 TTA TTA TTA TTT TTA TTA TTA TGT- TTA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA
10477807 ATATATTACA
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
2 1 0.01
3 78 0.94
4 4 0.05
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10477819 original size:13 final size:13
Alignment explanation
Indices: 10477721--10477826 Score: 64
Period size: 12 Copynumber: 8.5 Consensus size: 13
10477711 TCTTTTTATT
*
10477721 ATTATTATTATT-
1 ATTATTATCATTA
*
10477733 ATTATTATTATT-
1 ATTATTATCATTA
*
10477745 ATTATTATTATT-
1 ATTATTATCATTA
*
10477757 ATTATTATTATT-
1 ATTATTATCATTA
* *
10477769 ATTATTTTTATT-
1 ATTATTATCATTA
*
10477781 ATTATGT-TTATTA
1 ATTAT-TATCATTA
*
10477794 ATTATTATTATTA
1 ATTATTATCATTA
10477807 ATATATTA-CATTA
1 AT-TATTATCATTA
10477820 CATTATT
1 -ATTATT
10477827 TTTGCAGTCC
Statistics
Matches: 87, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
12 58 0.67
13 22 0.25
14 7 0.08
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (13 bp):
ATTATTATCATTA
Found at i:10479308 original size:28 final size:27
Alignment explanation
Indices: 10479277--10479351 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
10479267 GTTTAACCCT
* *
10479277 TTAAGTTTCTGTATTTGTATTTTGGTCC
1 TTAAGTTTCTAT-TTTGTATTTTAGTCC
*
10479305 TTAAGTTTCTATTTTTTATTTTAGTCC
1 TTAAGTTTCTATTTTGTATTTTAGTCC
* *
10479332 TCTATGTTGCTATTTT-TATT
1 T-TAAGTTTCTATTTTGTATT
10479352 GTTTTAGTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.44
28 23 0.56
ACGTcount: A:0.16, C:0.11, G:0.12, T:0.61
Consensus pattern (27 bp):
TTAAGTTTCTATTTTGTATTTTAGTCC
Found at i:10479466 original size:30 final size:29
Alignment explanation
Indices: 10479428--10479489 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
10479418 ATTTTAATCC
*
10479428 TTTAGGTTTTAGACCC-TTAAGTTTATGTT
1 TTTAGGTTTCA-ACCCTTTAAGTTTATGTT
*
10479457 TTTACGGTTTCAACCCTTTAAGTTTTTGTT
1 TTTA-GGTTTCAACCCTTTAAGTTTATGTT
10479487 TTT
1 TTT
10479490 TTAACATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.55
Consensus pattern (29 bp):
TTTAGGTTTCAACCCTTTAAGTTTATGTT
Found at i:10480205 original size:19 final size:19
Alignment explanation
Indices: 10480166--10480205 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10480156 TTTCCCTAAC
*
10480166 ATTAATTAATTTGAATCAA
1 ATTAATTAATTTCAATCAA
10480185 ATTAATTATATTTCAAT-AA
1 ATTAATTA-ATTTCAATCAA
10480204 AT
1 AT
10480206 GGACCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTAATTAATTTCAATCAA
Found at i:10480404 original size:16 final size:17
Alignment explanation
Indices: 10480366--10480406 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10480356 AACGCACACC
10480366 ATTTTTGTCTTAAAAATG
1 ATTTTT-TCTTAAAAATG
*
10480384 ATTTTTTCTTAAAATTG
1 ATTTTTTCTTAAAAATG
10480401 -TTTTTT
1 ATTTTTT
10480407 AAAATGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 10 0.45
18 6 0.27
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (17 bp):
ATTTTTTCTTAAAAATG
Found at i:10480417 original size:15 final size:15
Alignment explanation
Indices: 10480378--10480420 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
10480368 TTTTGTCTTA
*
10480378 AAAATGATTTTTTCTT
1 AAAATGATGTTTT-TT
10480394 AAAAT--TGTTTTTT
1 AAAATGATGTTTTTT
10480407 AAAATGATGTTTTT
1 AAAATGATGTTTTT
10480421 AGGTATTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 7 0.29
16 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (15 bp):
AAAATGATGTTTTTT
Found at i:10480420 original size:16 final size:17
Alignment explanation
Indices: 10480368--10480420 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
10480358 CGCACACCAT
10480368 TTTTGTCTTAAAAATGAT-
1 TTTT-TCTT-AAAATGATG
10480386 TTTTTCTTAAAAT--TG
1 TTTTTCTTAAAATGATG
10480401 -TTTT-TTAAAATGATG
1 TTTTTCTTAAAATGATG
10480416 TTTTT
1 TTTTT
10480421 AGGTATTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 7 0.23
14 5 0.16
15 2 0.06
16 9 0.29
17 4 0.13
18 4 0.13
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTTTCTTAAAATGATG
Done.