Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 64 of 228
Found at i:19292401 original size:86 final size:87
Alignment explanation
Indices: 19292248--19292406 Score: 214
Period size: 86 Copynumber: 1.8 Consensus size: 87
19292238 TTTTTTGGCT
* * * * * * *
19292248 AACCTTTATACAAAGAGTTGGCTAAAGTGTATGTTGGCAAGTCTATCCCAATACTTAAGAAAGTG
1 AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAATG
19292313 TTGCCTTAAGTATGCATATCCC
66 TTGCCTTAAGTATGCATATCCC
*
19292335 AACCCTTATACAAAAAGTTGACCAAAG-GTATGTCGGCAAGTTTATCCCAACACTT-AGAAAAAT
1 AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAG-AAAAT
*
19292398 GTTGTCTTA
65 GTTGCCTTA
19292407 GGACTAGACA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 2 0.03
86 37 0.60
87 23 0.37
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (87 bp):
AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAATG
TTGCCTTAAGTATGCATATCCC
Found at i:19292654 original size:140 final size:140
Alignment explanation
Indices: 19292402--19292817 Score: 617
Period size: 140 Copynumber: 3.0 Consensus size: 140
19292392 AAAAATGTTG
*
19292402 TCTTAGGACTAGACAAAGCCAACTCTTATTTAA-CTGTTGCCTTAGGCATGCATACCCCAACCCT
1 TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGC-GTTGCCTTAGGCATGCATATCCCAACCCT
* * *
19292466 TATACAAAGTGTTGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCACCC
65 TATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
19292531 CAAAAGTGTCA
130 CAAAAGTGTCA
* * *
19292542 TCTTAGGACTACACAAAAGCC-ACTCTTATTTAAGCGTTGCCTAAGGCATACATATCCCAACCCT
1 TCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCT
* * *
19292606 TATACAAAGAGTTGGTCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
65 TATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
*
19292671 CAAAAGTGTCG
130 CAAAAGTGTCA
* * *
19292682 TCTTAGGACTAGACAAAGCCAACTTTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAACCCTT
1 TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
* * **
19292747 ATACAAAGAGTTGACCAAAGCGCATGTTGATTAGTCTATCCCAACACTTAGG-AA--GTCGCCCC
66 ATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCC
19292809 AAAAGTGTC
131 AAAAGTGTC
19292818 GTATTAAGAC
Statistics
Matches: 249, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
137 17 0.07
139 8 0.03
140 217 0.87
141 7 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (140 bp):
TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
ATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCC
AAAAGTGTCA
Found at i:19293285 original size:22 final size:22
Alignment explanation
Indices: 19293260--19293302 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19293250 ATAAGCTCCT
*
19293260 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
*
19293282 TTACATTTAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
19293303 GAATTAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:19293562 original size:51 final size:51
Alignment explanation
Indices: 19293497--19293599 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
19293487 CTTGGTATGA
*
19293497 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTTTATATGTTGTAG
1 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
* *
19293548 ATTTTATGACTTTATCTTTTATATGATAGTTTTATATTCTATATGTTGTAG
1 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
19293599 A
1 A
19293600 AATAGTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (51 bp):
ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
Found at i:19293677 original size:18 final size:18
Alignment explanation
Indices: 19293654--19293692 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19293644 TTAATTCTGT
*
19293654 ATAAT-AGCATTATTTAAA
1 ATAATAAGCA-TAATTAAA
19293672 ATAATAAGCATAATTAAA
1 ATAATAAGCATAATTAAA
19293690 ATA
1 ATA
19293693 TATCAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATAAGCATAATTAAA
Found at i:19299502 original size:26 final size:26
Alignment explanation
Indices: 19299454--19299522 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
19299444 CCTGTTATAT
*
19299454 GGCTTTTCGTGAGCTTTTCGATTAAA
1 GGCTTTTCGTGAGCTTCTCGATTAAA
* *
19299480 GGCTTTTTGTGAGCTTC-CTGATTAAT
1 GGCTTTTCGTGAGCTTCTC-GATTAAA
*
19299506 GGCTCTTCG-GAGCTTCT
1 GGCTTTTCGTGAGCTTCT
19299523 TGAAATGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
GGCTTTTCGTGAGCTTCTCGATTAAA
Found at i:19301737 original size:61 final size:60
Alignment explanation
Indices: 19301666--19301829 Score: 181
Period size: 61 Copynumber: 2.7 Consensus size: 60
19301656 TTTTTAATTG
** *
19301666 GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAATGTTTAGGGCTAAATAT-ATT
1 GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAAT-TGATT
* * * *
19301726 GAATTTTTTAGAATCAGAACTAAAATGACAAGTTTTGTAAACATTAAGGGCTAAATTGGTT
1 GAA-TTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAATTGATT
* * * *
19301787 GAATTTTTAGATTTAG-ACCAAATTGATAGAA-TGTGTAAACATT
1 GAATTTTTAGAATTAGAACTAAATTGACA-AATTTTGTAAACATT
19301830 GGAGGCTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 20 0.23
60 16 0.18
61 51 0.59
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (60 bp):
GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAATTGATT
Found at i:19309069 original size:21 final size:20
Alignment explanation
Indices: 19309037--19309077 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19309027 ATTAATGCTC
*
19309037 TAAAATTTTAAAAAAAAAAT
1 TAAAATTATAAAAAAAAAAT
*
19309057 TAAATATTATAAAAAATAAAT
1 TAAA-ATTATAAAAAAAAAAT
19309078 GTCTTAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATTATAAAAAAAAAAT
Found at i:19311983 original size:20 final size:20
Alignment explanation
Indices: 19311956--19312067 Score: 93
Period size: 20 Copynumber: 5.5 Consensus size: 20
19311946 AAAATGTATA
19311956 TGATTGCACTTCAGTGCCCC
1 TGATTGCACTTCAGTGCCCC
* *
19311976 TAATTGCACATTC-GTGCCCT
1 TGATTGCAC-TTCAGTGCCCC
* *
19311996 TGATTGTAC-TCTGGTGCCCC
1 TGATTGCACTTC-AGTGCCCC
* * *
19312016 TGATTGCACTCCGGTGCCCT
1 TGATTGCACTTCAGTGCCCC
* *
19312036 TGATTGCACTTTAGTTCCCTC
1 TGATTGCACTTCAGTGCCC-C
*
19312057 TAATTGCACTT
1 TGATTGCACTT
19312068 TTGTGCCCTT
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.03
20 57 0.78
21 14 0.19
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
TGATTGCACTTCAGTGCCCC
Found at i:19312013 original size:40 final size:39
Alignment explanation
Indices: 19311956--19312088 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
19311946 AAAATGTATA
19311956 TGATTGCACT-TCAGTGCCCCTAATTGCACATTCGTGCCCT
1 TGATTGCACTCT-AGTGCCCCTAATTGCAC-TTCGTGCCCT
* * * *
19311996 TGATTGTACTCTGGTGCCCCTGATTGCACTCCGGTGCCCT
1 TGATTGCACTCTAGTGCCCCTAATTGCACTTC-GTGCCCT
* * *
19312036 TGATTGCACTTTAGTTCCCTCTAATTGCACTTTTGTGCCCT
1 TGATTGCACTCTAGTGCCC-CTAATTGCAC-TTCGTGCCCT
*
19312077 TTATTTGCACTC
1 TGA-TTGCACTC
19312089 CCGTGCCTCT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.03
40 46 0.61
41 19 0.25
42 8 0.11
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (39 bp):
TGATTGCACTCTAGTGCCCCTAATTGCACTTCGTGCCCT
Found at i:19312064 original size:21 final size:21
Alignment explanation
Indices: 19311958--19312087 Score: 88
Period size: 20 Copynumber: 6.4 Consensus size: 21
19311948 AATGTATATG
*
19311958 ATTGCACTTCAGTGCCC-CTA
1 ATTGCACTTTAGTGCCCTCTA
* * *
19311978 ATTGCACATTCGTGCCCT-TG
1 ATTGCACTTTAGTGCCCTCTA
* * * *
19311998 ATTGTACTCTGGTGCCC-CTG
1 ATTGCACTTTAGTGCCCTCTA
*** *
19312018 ATTGCACTCCGGTGCCCT-TG
1 ATTGCACTTTAGTGCCCTCTA
*
19312038 ATTGCACTTTAGTTCCCTCTA
1 ATTGCACTTTAGTGCCCTCTA
* *
19312059 ATTGCACTTTTGTGCCCTTTA
1 ATTGCACTTTAGTGCCCTCTA
*
19312080 TTTGCACT
1 ATTGCACT
19312088 CCCGTGCCTC
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
20 61 0.70
21 26 0.30
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (21 bp):
ATTGCACTTTAGTGCCCTCTA
Found at i:19315792 original size:4 final size:4
Alignment explanation
Indices: 19315783--19315818 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
19315773 GACAACTCAT
*
19315783 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAT TAAC
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC
19315819 ATGTGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAC
Found at i:19316873 original size:51 final size:51
Alignment explanation
Indices: 19316814--19316934 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
19316804 ATACCCTTAA
* *
19316814 TAATTTATAAAAGTAAT-TATTTAAATGGTAATTTCACA-TTTTCTAATAT
1 TAATTTTTATAAGTAATATATTTAAATGGTAATTTCACATTTTTCTAATAT
*
19316863 TAATTTTTATAAGTAATAATATTTAAATGGTAATTTCACATTTTTTTAATAT
1 TAATTTTTATAAGTAAT-ATATTTAAATGGTAATTTCACATTTTTCTAATAT
19316915 TAATTTTTTGATAAGTAATA
1 TAA-TTTTT-ATAAGTAATA
19316935 ATAATACTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
49 15 0.23
51 21 0.33
52 13 0.20
53 6 0.09
54 9 0.14
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (51 bp):
TAATTTTTATAAGTAATATATTTAAATGGTAATTTCACATTTTTCTAATAT
Found at i:19317787 original size:18 final size:19
Alignment explanation
Indices: 19317748--19317787 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
19317738 GCTTAATTAA
*
19317748 TTTTTAATATTTTTTAATT
1 TTTTTAATATTGTTTAATT
19317767 TTTTATAATATTGTTT-ATT
1 TTTT-TAATATTGTTTAATT
19317786 TT
1 TT
19317788 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTAATATTGTTTAATT
Found at i:19324081 original size:30 final size:31
Alignment explanation
Indices: 19324013--19324081 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
19324003 AATTAAAAAG
19324013 ATAAAAATTAAATCCTCTTACTTTTCTGATT
1 ATAAAAATTAAATCCTCTTACTTTTCTGATT
19324044 ATAAAAATTAAATCCTCTTACTTTTCTGATT
1 ATAAAAATTAAATCCTCTTACTTTTCTGATT
19324075 -TAAAAAT
1 ATAAAAAT
19324082 ATCATTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAAAAATTAAATCCTCTTACTTTTCTGATT
Found at i:19334096 original size:5 final size:5
Alignment explanation
Indices: 19334086--19334148 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
19334076 AAGCAAAACG
* *
19334086 AAAGA AAAGAA AAAGA AAACA AAAG- GAAGA AATA-A CAAAGA AAAGA
1 AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA AA-AGA -AAAGA AAAGA
*
19334132 AAAGA ATA-A AAAGA AAA
1 AAAGA AAAGA AAAGA AAA
19334149 CAAGAACGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
4 6 0.13
5 31 0.67
6 9 0.20
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:19334117 original size:25 final size:24
Alignment explanation
Indices: 19334087--19334148 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
19334077 AGCAAAACGA
19334087 AAGAAAAGAAAAAGAAAACAAAAGG
1 AAGAAAAGAAAAAGAAAACAAAA-G
* *
19334112 AAGAAATA-ACAAAGAAAAGAAAAG
1 AAGAAA-AGAAAAAGAAAACAAAAG
*
19334136 AATAAAAAGAAAA
1 AA-GAAAAGAAAA
19334149 CAAGAACGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (24 bp):
AAGAAAAGAAAAAGAAAACAAAAG
Found at i:19334698 original size:133 final size:134
Alignment explanation
Indices: 19334551--19334927 Score: 462
Period size: 133 Copynumber: 2.8 Consensus size: 134
19334541 GCTTTTTCTT
*
19334551 AGAAACGCCGGTAAAGATAACGAATTTGAGGAAAAAATTTGAGCAAAACAGTACCGTTTTGTTGT
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTGT
19334616 TTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATT-GAAT-TAGCAGCGTT
65 TTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCAGCGTT
19334679 -TTCAGG
130 ATT--GG
* **
19334685 -GAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTG-GACAAAACGCTACCATTTTACTG
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAG-CAAAACG-TACCGTTTTGTTG
* * * * * * * **
19334748 CTTCATTTTATTTCTTTAATGGCGCATTGTAAAAGACG-CTGCAAATATTGGGATATAGTGGCGT
64 TTTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCAGCGT
19334812 TATTGG
129 TATTGG
* *
19334818 AGAAACGCCGGTAAAGATATCTAATTTGAGGAAAAATTTTGAGCAAAACGGTACCGTTTTGTTGT
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTGT
* * * *
19334883 TTCCTTTT-TATGCTTTAGTGGCGAAATGTTAAAAAACGCCGGAAA
65 TTCATTTTAT-TTCTTTAGTGGCGCATTG-TAAAAAACGCCGGAAA
19334928 CGGTTCAGAT
Statistics
Matches: 205, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
132 10 0.05
133 96 0.47
134 83 0.40
135 12 0.06
136 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (134 bp):
AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAACGTACCGTTTTGTTGTT
TCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCAGCGTTA
TTGG
Found at i:19338795 original size:522 final size:510
Alignment explanation
Indices: 19337823--19338853 Score: 1681
Period size: 522 Copynumber: 2.0 Consensus size: 510
19337813 CATCTTAAGC
*
19337823 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTTAT
1 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTGAT
** * * * *
19337888 TTCTTATTGGTTTAGGGTTTTCGGTGTGTTATCTGTGTTTATGGTTTTCGGTGTGTTCGACCGTT
66 TTCTTATTGGTTTAGGGTACTAGGTATATTATCTGTGTTTAGGGTTTTCGGTGTGTTCGACCGTT
19337953 TTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTTTA
131 TTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTTTA
19338018 ATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATTGC
196 ATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATTGC
19338083 TCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTTGT
261 TCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTTGT
* * *
19338148 TGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTGTAGGGTTTAATTTATT
326 TGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTGATGTCTACTGTAAGGTTTAATTTATT
19338213 AGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAAGTAATGAAATGGATT
391 AGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAAGTAATGAAATGGATT
* *
19338278 TTTAAGTTGAATTTTATTAAGCAATGTTGTTTTTTAGTATGATTTTTAAGTTCGG
456 TTTAAGTTGAATTTTATTAAGCAATGTTATTTTTTAGTATGATTTCTAAGTTCGG
* *
19338333 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTGCT
1 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTGAT
*
19338398 TTCTTATTGG-TT-GGTGATACTAGGATTAAAAAAAAATATTCTCTGTGTTTAGGGTTTTCGGTG
66 TTCTTATTGGTTTAGG-G-TACTAGG--T--------ATATTATCTGTGTTTAGGGTTTTCGGTG
*
19338461 TGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTT
119 TGTTCGACCGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTT
* *
19338526 GTGAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTGTTTTTTTTTCTCCAGTTTTTGGTCA
184 GTGAATGGTTTAATTTGTTAGGAACTGATTTTAACTTATG--TTTTTTTCTCCAGTTTTTGGTCA
* *
19338591 ATCCATTTCATTGCT-TTCATTTTAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTG
247 ATCCATTTCATTGCTCGT-ATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTG
* *
19338655 TTACTGTTTATTTGTTGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTTATGTCTACTTT
311 TTACTGTTTATTTGTTGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTGATGTCTACTGT
* *
19338720 AAGGTTTAATTTATTAGTTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAG
376 AAGGTTTAATTTATTAGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAA
*
19338785 GTAATGAAATGGATTTTTAAGTTGAATTTTATTAAGCCATGTTATTTTTTAGTATGATTTCTAAG
441 GTAATGAAATGGATTTTTAAGTTGAATTTTATTAAGCAATGTTATTTTTTAGTATGATTTCTAAG
19338850 TTCG
506 TTCG
19338854 ATATATATAC
Statistics
Matches: 481, Mismatches: 25, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
508 2 0.00
509 3 0.01
510 76 0.16
512 1 0.00
520 126 0.26
521 1 0.00
522 272 0.57
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (510 bp):
TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTGAT
TTCTTATTGGTTTAGGGTACTAGGTATATTATCTGTGTTTAGGGTTTTCGGTGTGTTCGACCGTT
TTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTTTA
ATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATTGC
TCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTTGT
TGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTGATGTCTACTGTAAGGTTTAATTTATT
AGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAAGTAATGAAATGGATT
TTTAAGTTGAATTTTATTAAGCAATGTTATTTTTTAGTATGATTTCTAAGTTCGG
Found at i:19339287 original size:39 final size:39
Alignment explanation
Indices: 19339244--19339324 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
19339234 CCAAAAACGC
*
19339244 AATATATTTCGGTTTGCAATACTATATCGTAAATATTAA
1 AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
*
19339283 AATATATTTCAGTTTGCAATACTATATCGTAAATATTTA
1 AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
19339322 AAT
1 AAT
19339325 TTATATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (39 bp):
AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
Found at i:19339584 original size:17 final size:17
Alignment explanation
Indices: 19339564--19339613 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
19339554 TTAATATCTA
19339564 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
19339581 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
19339595 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
19339611 TAT
1 TAT
19339614 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:19339600 original size:13 final size:13
Alignment explanation
Indices: 19339582--19339609 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19339572 TTCTAAATTT
19339582 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
19339595 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
19339608 AT
1 AT
19339610 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:19339640 original size:15 final size:15
Alignment explanation
Indices: 19339605--19339643 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
19339595 ATAAGTTTTC
*
19339605 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
19339620 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
19339636 TAAATTTA
1 TAAATTTA
19339644 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:19339656 original size:62 final size:61
Alignment explanation
Indices: 19339575--19339724 Score: 210
Period size: 62 Copynumber: 2.4 Consensus size: 61
19339565 ATAAGTTTTC
* *
19339575 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
** * * *
19339636 TAAATTTACTTCGTTTTCTAAATAGGTGTTCTAAATTTGTTAGTAATAAAATTTATTAGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
* *
19339698 TAATTTTATAAGTTTTCTACATAAGTT
1 TAAATTTATAAGTTTTCTAAATAAGTT
19339725 ACATAATACA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
61 22 0.29
62 53 0.71
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
Found at i:19339752 original size:34 final size:34
Alignment explanation
Indices: 19339714--19339778 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
19339704 TATAAGTTTT
* * *
19339714 CTACATAAGTTACATAATACACCACTTATATAAC
1 CTACAAAACTTACATAATACACAACTTATATAAC
* *
19339748 CTACAAAACTTATATAATACATAACTTATAT
1 CTACAAAACTTACATAATACACAACTTATAT
19339779 TTAAGCTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (34 bp):
CTACAAAACTTACATAATACACAACTTATATAAC
Found at i:19339758 original size:18 final size:16
Alignment explanation
Indices: 19339727--19339778 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
19339717 CATAAGTTAC
**
19339727 ATAATACACCACTTAT
1 ATAATACAAAACTTAT
19339743 ATAACCTACAAAACTTAT
1 ATAA--TACAAAACTTAT
*
19339761 ATAATACATAACTTAT
1 ATAATACAAAACTTAT
19339777 AT
1 AT
19339779 TTAAGCTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATACAAAACTTAT
Found at i:19339793 original size:21 final size:21
Alignment explanation
Indices: 19339765--19339821 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
19339755 ACTTATATAA
*
19339765 TACATAACTTATAT-TTAAGCT
1 TACATAACTTATATAATAA-CT
* *
19339786 TGCATAACTTACATAATAACT
1 TACATAACTTATATAATAACT
19339807 TACATAACTTATATA
1 TACATAACTTATATA
19339822 TAATAACATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (21 bp):
TACATAACTTATATAATAACT
Found at i:19339806 original size:12 final size:12
Alignment explanation
Indices: 19339789--19339846 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
19339779 TTAAGCTTGC
19339789 ATAACTTACATA
1 ATAACTTACATA
19339801 ATAACTTAC---
1 ATAACTTACATA
*
19339810 ATAACTTATAT-
1 ATAACTTACATA
*
19339821 ATAA-TAACATA
1 ATAACTTACATA
*
19339832 ATAAATTACATA
1 ATAACTTACATA
19339844 ATA
1 ATA
19339847 CTTTATGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.21
10 4 0.11
11 8 0.21
12 18 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:19339899 original size:12 final size:12
Alignment explanation
Indices: 19339884--19339908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19339874 ATAAGCTTGC
19339884 ATAACTTACATA
1 ATAACTTACATA
19339896 ATAACTTACATA
1 ATAACTTACATA
19339908 A
1 A
19339909 CTTACATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:19339956 original size:95 final size:92
Alignment explanation
Indices: 19339757--19339930 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 92
19339747 CCTACAAAAC
* *
19339757 TTATATAATACATAACTTATATTTAAGCTTGCATAACTTACATAATAACTTACATAACTTATATA
1 TTATATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTACATA
19339822 TAATAACATAATAAATTACATAATACT
66 TAATAACATAATAAATTACATAATACT
*
19339849 TTATGTTATAATACATAACTTGTATATAAGCTTGCATAACTTACATAATAACTTACATAACTTAC
1 TTA---TATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTAC
19339914 ATATAATAACATAATAA
63 ATATAATAACATAATAA
19339931 TTGGGTTCGT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 3 0.04
95 73 0.96
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.37
Consensus pattern (92 bp):
TTATATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTACATA
TAATAACATAATAAATTACATAATACT
Found at i:19340073 original size:9 final size:9
Alignment explanation
Indices: 19340042--19340571 Score: 551
Period size: 9 Copynumber: 60.2 Consensus size: 9
19340032 CATATATAGA
19340042 AACTTACAT
1 AACTTACAT
*
19340051 AAATTA-ATT
1 AACTTACA-T
19340060 AACTTACAT
1 AACTTACAT
19340069 AACTTACAT
1 AACTTACAT
19340078 AACTTACAT
1 AACTTACAT
*
19340087 AAATTACAT
1 AACTTACAT
* *
19340096 AAATTAAAT
1 AACTTACAT
19340105 AACTTACAT
1 AACTTACAT
19340114 AACTTACAT
1 AACTTACAT
19340123 AACTTACAT
1 AACTTACAT
19340132 AACTTACAT
1 AACTTACAT
* *
19340141 AAATTAAAT
1 AACTTACAT
19340150 AACTTACAT
1 AACTTACAT
19340159 AACTTACAT
1 AACTTACAT
19340168 GAA-TTGA-AT
1 -AACTT-ACAT
19340177 AACTTACAT
1 AACTTACAT
*
19340186 AAAC-TAAAT
1 -AACTTACAT
19340195 AACTTACAT
1 AACTTACAT
19340204 AACTTACAT
1 AACTTACAT
* *
19340213 AAATTAAAT
1 AACTTACAT
19340222 AACTTACAT
1 AACTTACAT
*
19340231 AAATTGA-AT
1 AACTT-ACAT
19340240 AACTTACAT
1 AACTTACAT
19340249 AACTTACAT
1 AACTTACAT
* *
19340258 AAATTAAAT
1 AACTTACAT
19340267 AACTTACAT
1 AACTTACAT
19340276 AACTTACAT
1 AACTTACAT
* *
19340285 AAATTAAAT
1 AACTTACAT
19340294 AACTTACAT
1 AACTTACAT
* *
19340303 AAATTAAAT
1 AACTTACAT
*
19340312 AACTTAAAT
1 AACTTACAT
19340321 AACTTACAT
1 AACTTACAT
19340330 AACTTACAT
1 AACTTACAT
19340339 AACTTACAT
1 AACTTACAT
* *
19340348 AAATTAAAT
1 AACTTACAT
19340357 AACTTACAT
1 AACTTACAT
19340366 AACTTACAT
1 AACTTACAT
* *
19340375 AAATTAAAT
1 AACTTACAT
19340384 AACTTACAT
1 AACTTACAT
19340393 AACTTACAT
1 AACTTACAT
19340402 AACTTACAT
1 AACTTACAT
* *
19340411 AAATTAAAT
1 AACTTACAT
19340420 AACTTACAT
1 AACTTACAT
*
19340429 AACCTACAT
1 AACTTACAT
19340438 AACTTACAT
1 AACTTACAT
*
19340447 TA--TACAT
1 AACTTACAT
*
19340454 AACCTT-CTT
1 AA-CTTACAT
19340463 AACTTACAT
1 AACTTACAT
* *
19340472 TA--TACAC
1 AACTTACAT
*
19340479 AACTGACAT
1 AACTTACAT
19340488 AA-TTA-AT
1 AACTTACAT
* *
19340495 -ATTATACAC
1 AACT-TACAT
19340504 AACTTACAT
1 AACTTACAT
19340513 AA--TACAT
1 AACTTACAT
*
19340520 TACTTACAT
1 AACTTACAT
*
19340529 TACTTACAGT
1 AACTTACA-T
19340539 -ACTTACAT
1 AACTTACAT
19340547 AA--TACAT
1 AACTTACAT
19340554 AA--TACAT
1 AACTTACAT
19340561 AACTTACAT
1 AACTTACAT
19340570 AA
1 AA
19340572 TACATAAAAA
Statistics
Matches: 437, Mismatches: 58, Indels: 52
0.80 0.11 0.10
Matches are distributed among these distances:
6 1 0.00
7 34 0.08
8 16 0.04
9 374 0.86
10 12 0.03
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:19340554 original size:7 final size:7
Alignment explanation
Indices: 19340542--19340578 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
19340532 TTACAGTACT
19340542 TACATAA
1 TACATAA
19340549 TACATAA
1 TACATAA
19340556 TACATAA
1 TACATAA
19340563 CTTACATAA
1 --TACATAA
19340572 TACATAA
1 TACATAA
19340579 AAATATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:19346412 original size:21 final size:21
Alignment explanation
Indices: 19346386--19346436 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
19346376 CTATAACTTA
* *
19346386 AAGCAGATGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
19346407 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
19346428 AAGCAGAGG
1 AAGCAGAGG
19346437 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:19346887 original size:41 final size:42
Alignment explanation
Indices: 19346833--19346993 Score: 227
Period size: 42 Copynumber: 3.9 Consensus size: 42
19346823 GTGCTCATAT
* *
19346833 AAAAAACACCGCTAAAGAACATGTTCTTTAGAGGCGCTTAA-
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
* *
19346874 AAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCACTTAAG
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
* * *
19346916 GAAAAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAG
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
*
19346958 GAAAAACGCCGCTAAAGATA-ATGTTCTTTAGCGGCG
1 AAAAAACGCCGCTAAAGA-ACATGTTCTTTAGCGGCG
19346994 TTTTTAGTTG
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
41 38 0.35
42 69 0.64
43 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
Found at i:19347012 original size:83 final size:81
Alignment explanation
Indices: 19346835--19346992 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 81
19346825 GCTCATATAA
*
19346835 AAAACACCGCTAAAGAACATGTTCTTTAGAGGCGCTTAAAAAAAACGCCGCTAAAGAACATGTTC
1 AAAA-ACCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAACGCCGCTAAAGAACATGTTC
*
19346900 TTTAGTGGCACTTAAGG
65 TTTAGCGGCACTTAAGG
* *
19346917 AAAAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGGAAAAACGCCGCTAAAGATA-ATG
1 AAAAA--CCGCTAAAGAACATGATCTTTAGAGGCGCTTAA-AAAAAACGCCGCTAAAGA-ACATG
19346981 TTCTTTAGCGGC
62 TTCTTTAGCGGC
19346993 GTTTTTAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
81 1 0.01
82 4 0.06
83 31 0.46
84 31 0.46
85 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (81 bp):
AAAAACCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAACGCCGCTAAAGAACATGTTCT
TTAGCGGCACTTAAGG
Found at i:19352600 original size:42 final size:42
Alignment explanation
Indices: 19352554--19352755 Score: 309
Period size: 42 Copynumber: 4.8 Consensus size: 42
19352544 TAGAAAAAAA
*
19352554 CGCCGCTAAAGAAGATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
19352596 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTACTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
19352638 AGCCGCTAAAGAACATGGTCTTTAAC-G-GTATTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGT-TTTTTTCTAAG
* *
19352679 CACCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
19352721 CGCCGCTAAAGAACATAGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
19352756 ATACAAAAAC
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
40 2 0.01
41 33 0.23
42 106 0.74
43 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:19352618 original size:84 final size:83
Alignment explanation
Indices: 19352512--19352708 Score: 245
Period size: 84 Copynumber: 2.4 Consensus size: 83
19352502 CAAACAAAAA
* * * *
19352512 CACCGCTAAAGACCATGATCTTTAGCGGTGCTT-AGAAAAAAACGCCGCTAAAGAAGATGGTCTT
1 CACCGCTAAAGAACATGGTCTTTAGCGGCGCTTCAGAAAAAAA-GCCGCTAAAGAACATGGTCTT
*
19352576 TAGCGGCGT-TTTTTTCTAAG
65 TAAC-G-GTATTTTTTCTAAG
* * ** ** *
19352596 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTACTAAGAGCCGCTAAAGAACATGGTCTTT
1 CACCGCTAAAGAACATGGTCTTTAGCGGCGCTTCAGAAAAAAAGCCGCTAAAGAACATGGTCTTT
19352661 AACGGTATTTTTTCTAAG
66 AACGGTATTTTTTCTAAG
19352679 CACCGCTAAAGAACATGGTCTTTAGCGGCG
1 CACCGCTAAAGAACATGGTCTTTAGCGGCG
19352709 TTTCTTTCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
82 2 0.02
83 41 0.42
84 51 0.52
85 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (83 bp):
CACCGCTAAAGAACATGGTCTTTAGCGGCGCTTCAGAAAAAAAGCCGCTAAAGAACATGGTCTTT
AACGGTATTTTTTCTAAG
Found at i:19352706 original size:83 final size:84
Alignment explanation
Indices: 19352555--19352755 Score: 316
Period size: 83 Copynumber: 2.4 Consensus size: 84
19352545 AGAAAAAAAC
* * *
19352555 GCCGCTAAAGAAGATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
1 GCCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGGTCTTTA
19352620 GCGGCGTTTCTTACTAAGA
66 GCGGCGTTTCTTACTAAGA
19352639 GCCGCTAAAGAACATGGTCTTTAAC-G-GTATTTTTTCTAAGCACCGCTAAAGAACATGGTCTTT
1 GCCGCTAAAGAACATGGTCTTTAACGGCGT-TTTTTTCTAAGCACCGCTAAAGAACATGGTCTTT
* *
19352702 AGCGGCGTTTCTTTCTAAGC
65 AGCGGCGTTTCTTACTAAGA
* *
19352722 GCCGCTAAAGAACATAGTCTTTAGCGGCGTTTTT
1 GCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
19352756 ATACAAAAAC
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
82 2 0.02
83 75 0.70
84 28 0.26
85 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (84 bp):
GCCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGGTCTTTA
GCGGCGTTTCTTACTAAGA
Found at i:19353083 original size:21 final size:21
Alignment explanation
Indices: 19353057--19353106 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
19353047 TTATACTCTG
* *
19353057 CTCTGCTTCTCTCGTTG-CAGC
1 CTCTGCTTCCCTCGCTGTC-GC
19353078 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
19353099 CTCTGCTT
1 CTCTGCTT
19353107 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.42, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:19358620 original size:16 final size:16
Alignment explanation
Indices: 19358599--19358944 Score: 194
Period size: 16 Copynumber: 21.5 Consensus size: 16
19358589 TGATATATAT
* *
19358599 TTATGTATTAGGTAAA
1 TTATGTATTATGTAAG
19358615 TTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
19358633 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
19358649 TTATGTATAATATTAATTAAG
1 TTATGTAT--TA-T--GTAAG
*
19358670 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
*
19358686 TTATGTATTATGTAAT
1 TTATGTATTATGTAAG
19358702 TTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAAG
19358718 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
*
19358732 TTATGTATTTTATGTATAATA
1 TTATGTA--TTATG--TAA-G
* *
19358753 TTAAGTAAGTTGTGT-A-
1 TTATGT-A-TTATGTAAG
*
19358769 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
*
19358785 TTATGTATAACTTGTAA-
1 TTATGTATTA--TGTAAG
*
19358802 TTAAG--TTATGTATA-
1 TTATGTATTATGTA-AG
*
19358816 ATAT-TAATTAATGTAAG
1 TTATGT-ATT-ATGTAAG
*
19358833 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
19358849 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
19358863 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
*
19358877 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
19358893 TTATGTATAATAT-TAA-
1 TTATGTAT--TATGTAAG
*
19358909 TTAAG--TTATGT-A-
1 TTATGTATTATGTAAG
*
19358921 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
19358937 TTATGTAT
1 TTATGTAT
19358945 AATATTAATT
Statistics
Matches: 266, Mismatches: 27, Indels: 74
0.72 0.07 0.20
Matches are distributed among these distances:
12 8 0.03
13 5 0.02
14 56 0.21
15 5 0.02
16 114 0.43
17 20 0.08
18 32 0.12
19 5 0.02
21 20 0.08
22 1 0.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:19358628 original size:25 final size:24
Alignment explanation
Indices: 19358599--19358899 Score: 191
Period size: 25 Copynumber: 12.9 Consensus size: 24
19358589 TGATATATAT
*
19358599 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGT-AATTATGTAAG
19358624 TTATGTAAGTTATGT-ATTATGTAAG
1 TTATGT-A-TTATGTAATTATGTAAG
*
19358649 TTATGTA-TA-AT-ATTAAT-TAAG
1 TTATGTATTATGTAATT-ATGTAAG
*
19358670 TTGTGTATTATGTAAGTTATGT-A-
1 TTATGTATTATGTAA-TTATGTAAG
19358693 TTATGTAATTTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAA-TTATGTAAG
**
19358718 TTATGTATTATGT-ATTATGTATT
1 TTATGTATTATGTAATTATGTAAG
* *
19358741 TTATGTA-TA-AT-ATTAAGTAAG
1 TTATGTATTATGTAATTATGTAAG
* *
19358762 TTGTGTATTATGT-ATTATGTATG
1 TTATGTATTATGTAATTATGTAAG
*
19358785 TTATGTATAACTTGT-A--AT-TAAG
1 TTATGTATTA--TGTAATTATGTAAG
19358807 TTATGTATAATAT-TAATTAATGTAAG
1 TTATGTAT--TATGTAATT-ATGTAAG
*
19358833 TTGTGTATTATGTAAGTTATGT-A-
1 TTATGTATTATGTAA-TTATGTAAG
19358856 TTATGTATTATGT-ATTATGT-A-
1 TTATGTATTATGTAATTATGTAAG
*
19358877 TTATGTATTATGTATGTTATGTA
1 TTATGTATTATGTA-ATTATGTA
19358900 TAATATTAAT
Statistics
Matches: 227, Mismatches: 21, Indels: 57
0.74 0.07 0.19
Matches are distributed among these distances:
21 55 0.24
22 25 0.11
23 56 0.25
24 12 0.05
25 60 0.26
26 14 0.06
27 5 0.02
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
TTATGTATTATGTAATTATGTAAG
Found at i:19358645 original size:7 final size:7
Alignment explanation
Indices: 19358599--19358935 Score: 156
Period size: 7 Copynumber: 44.1 Consensus size: 7
19358589 TGATATATAT
19358599 TTATGTA
1 TTATGTA
*
19358606 TTAGGTAAA
1 TTATGT--A
19358615 TTATGTAA
1 TTATGT-A
19358623 GTTATGTAA
1 -TTATGT-A
19358632 GTTATGTA
1 -TTATGTA
19358640 TTATGTAA
1 TTATGT-A
19358648 GTTATGTA
1 -TTATGTA
*
19358656 -TA-ATA
1 TTATGTA
19358661 TTAAT-TAA
1 TT-ATGT-A
*
19358669 GTTGTGTA
1 -TTATGTA
19358677 TTATGTAA
1 TTATGT-A
19358685 GTTATGTA
1 -TTATGTA
19358693 TTATGTAA
1 TTATGT-A
19358701 TTTATGTAA
1 -TTATGT-A
19358710 GTTATGTA
1 -TTATGTA
19358718 TTATGTA
1 TTATGTA
19358725 TTATGTA
1 TTATGTA
19358732 TTATGTA
1 TTATGTA
19358739 TT-T-TA
1 TTATGTA
*
19358744 TGTATAATA
1 T-TAT-GTA
*
19358753 TTAAGTAA
1 TTATGT-A
*
19358761 GTTGTGTA
1 -TTATGTA
19358769 TTATGTA
1 TTATGTA
19358776 TTATGTA
1 TTATGTA
19358783 TGTTATGTA
1 --TTATGTA
*
19358792 TAACTTGTAA
1 TTA--TGT-A
*
19358802 TTAAG--
1 TTATGTA
19358807 TTATGTA
1 TTATGTA
19358814 TAATAT-TAA
1 T--TATGT-A
19358823 TTAATGTAA
1 TT-ATGT-A
*
19358832 GTTGTGTA
1 -TTATGTA
19358840 TTATGTAA
1 TTATGT-A
19358848 GTTATGTA
1 -TTATGTA
19358856 TTATGTA
1 TTATGTA
19358863 TTATGTA
1 TTATGTA
19358870 TTATGTA
1 TTATGTA
19358877 TTATGTA
1 TTATGTA
19358884 TTATGTA
1 TTATGTA
19358891 TGTTATGTA
1 --TTATGTA
*
19358900 -TA-ATA
1 TTATGTA
19358905 TTAAT-TAA
1 TT-ATGT-A
19358913 GTTATGTA
1 -TTATGTA
19358921 TTATGTA
1 TTATGTA
19358928 TTATGTA
1 TTATGTA
19358935 T
1 T
19358936 GTTATGTATA
Statistics
Matches: 268, Mismatches: 18, Indels: 88
0.72 0.05 0.24
Matches are distributed among these distances:
5 11 0.04
6 8 0.03
7 123 0.46
8 27 0.10
9 94 0.35
10 5 0.02
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (7 bp):
TTATGTA
Found at i:19358886 original size:44 final size:45
Alignment explanation
Indices: 19358600--19358982 Score: 247
Period size: 44 Copynumber: 8.5 Consensus size: 45
19358590 GATATATATT
*
19358600 TATGTATTAGGTAAATTATGTAAGTTATGTAAGTTATGTATTATGTAAGT
1 TATGTATTATGT--ATTATGTAAGTTATGT-A-TTATGTATTATGT-AGT
* *
19358650 TATGTA-TA-ATATTAAT-TAAGTTGTGTATTATGTAAGTTATGTA-T
1 TATGTATTATGTATT-ATGTAAGTTATGTATTATGT-A-TTATGTAGT
*
19358694 TATGTAATTTATGTAAGTTATGT-A-TTATGTATTATGTATTATGTATTT
1 TATGT-A-TTATGT-A-TTATGTAAGTTATGTATTATGTATTATGTA-GT
* * *
19358742 TATGTA-TA-ATATTAAGTAAGTTGTGTATTATGTATTATGTATGT
1 TATGTATTATGTATTATGTAAGTTATGTATTATGTATTATGTA-GT
* *
19358786 TATGTATAACTTGTA--AT-TAAGTTATGTA-TA---A-TAT-TAAT
1 TATGTATTA--TGTATTATGTAAGTTATGTATTATGTATTATGTAGT
*
19358824 TAATGTAAGTTGTGTATTATGTAAGTTATGTATTATGTATTATGTA-T
1 T-ATGT-A-TTATGTATTATGTAAGTTATGTATTATGTATTATGTAGT
* *
19358871 TATGTATTATGTATTATGTATGTTATGTA-TA-ATATTAAT-TAAGT
1 TATGTATTATGTATTATGTAAGTTATGTATTATGTATT-ATGT-AGT
* *
19358915 TATGTATTATGTATTATGTATGTTATGTA-TA-ATATTAAT-TAAGT
1 TATGTATTATGTATTATGTAAGTTATGTATTATGTATT-ATGT-AGT
* *
19358959 TGTGTATTATGTATTATGCAAGTT
1 TATGTATTATGTATTATGTAAGTT
19358983 TTATTTATTA
Statistics
Matches: 279, Mismatches: 21, Indels: 72
0.75 0.06 0.19
Matches are distributed among these distances:
38 2 0.01
39 10 0.04
40 4 0.01
41 4 0.01
42 21 0.08
43 9 0.03
44 130 0.47
45 18 0.06
46 31 0.11
47 11 0.04
48 24 0.09
49 6 0.02
50 9 0.03
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.51
Consensus pattern (45 bp):
TATGTATTATGTATTATGTAAGTTATGTATTATGTATTATGTAGT
Found at i:19359542 original size:18 final size:18
Alignment explanation
Indices: 19359519--19359609 Score: 107
Period size: 18 Copynumber: 4.9 Consensus size: 18
19359509 AGCTAATTTT
19359519 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
19359537 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
19359557 TAAACTTT-AGTAA-GTAATA
1 T--A-TTTAAGTAATGTAATA
19359576 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
19359594 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
19359610 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
16 3 0.05
17 11 0.17
18 32 0.49
19 3 0.05
20 3 0.05
21 4 0.06
22 6 0.09
23 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:19359608 original size:39 final size:40
Alignment explanation
Indices: 19359521--19359595 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
19359511 CTAATTTTTA
19359521 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTTATAAAC
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAG-TATAAAC
19359562 TTT-AGTAA-GTAATATATTTAAGTAATGTAA-TATA
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATA
19359596 TTTTAGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
37 4 0.12
39 22 0.65
40 5 0.15
41 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (40 bp):
TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATAAAC
Found at i:19362774 original size:114 final size:114
Alignment explanation
Indices: 19362574--19362902 Score: 586
Period size: 114 Copynumber: 2.9 Consensus size: 114
19362564 TTTAAATCCT
* *
19362574 TGAGCATTAGCGGCGCTTACCTAGAAACGCCGCTAAATCCCCGACAGCTCAGAAAACGACGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
19362639 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * *
19362688 TGAGCATTAGAGGCGCTTACCTGGAAATGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
19362753 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
*
19362802 TGAGCATTAGCGGCGCTTACTTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
19362867 TGGTCTTAGGTATTTTTGCGGCGCTTTCTCAAAAAC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAAC
19362903 AGAAAATCAA
Statistics
Matches: 204, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 204 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
Found at i:19366854 original size:40 final size:41
Alignment explanation
Indices: 19366634--19366850 Score: 300
Period size: 40 Copynumber: 5.4 Consensus size: 41
19366624 TAGAAAAAAA
* *
19366634 CGCCGCT-AAGAACATG-GCTTTAGCGGTGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
* *
19366673 CGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTGTTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCTAAG
* *
19366715 CGCCTCTAAAGAACATGGTCTTTAGCGGCG-TTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
*
19366755 CGCCGCTAAAGAACATGGTC-TTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
* * *
19366795 CGCCGCTAAAGAATATTATCTTTAGCGGTGTTTTTTCT-AG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
19366835 CGCCGCTAAAGAACAT
1 CGCCGCTAAAGAACAT
19366851 TATCCGCTAA
Statistics
Matches: 159, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 16 0.10
40 77 0.48
41 34 0.21
42 32 0.20
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
Found at i:19377288 original size:7 final size:7
Alignment explanation
Indices: 19377272--19377552 Score: 102
Period size: 7 Copynumber: 38.4 Consensus size: 7
19377262 NNNNNNNTTA
19377272 ATGTATT
1 ATGTATT
*
19377279 ATGTAAT
1 ATGTATT
19377286 ATGTAAGTT
1 ATGT-A-TT
19377295 ATGTATT
1 ATGTATT
19377302 ATGT-TT
1 ATGTATT
19377308 ATGTATT
1 ATGTATT
19377315 ATGTTATT
1 ATG-TATT
*
19377323 -TTTATT
1 ATGTATT
*
19377329 ATAATATT
1 AT-GTATT
*
19377337 AAGTAAGTT
1 ATGT-A-TT
*
19377346 GTGTATT
1 ATGTATT
19377353 ATGTATT
1 ATGTATT
19377360 ATGTATGTT
1 ATGTA--TT
19377369 ATGTA-T
1 ATGTATT
19377375 ACTTGTAATT
1 A--TGT-ATT
*
19377385 AAGTTATGT
1 ATG-TAT-T
*
19377394 ATAATATT
1 AT-GTATT
*
19377402 AAT-AAGTT
1 -ATGTA-TT
*
19377410 GTGTATT
1 ATGTATT
19377417 ATGTATT
1 ATGTATT
*
19377424 GTGTATT
1 ATGTATT
19377431 ATGTAAGTT
1 ATGT-A-TT
19377440 ATGTA-T
1 ATGTATT
19377446 -T-TATT
1 ATGTATT
19377451 ATGTATT
1 ATGTATT
* *
19377458 ATTTTTTT
1 A-TGTATT
*
19377466 ATGTTTT
1 ATGTATT
19377473 ATGTA-T
1 ATGTATT
*
19377479 A-ATATT
1 ATGTATT
19377485 AT-TAAGTT
1 ATGT-A-TT
19377493 ATGTATT
1 ATGTATT
19377500 ATGTATT
1 ATGTATT
19377507 ATGTATGTT
1 ATGTA--TT
19377516 ATGTA-T
1 ATGTATT
*
19377522 A-ATATT
1 ATGTATT
19377528 AT-TAAGTT
1 ATGT-A-TT
*
19377536 GTGTATT
1 ATGTATT
19377543 ATGTATT
1 ATGTATT
19377550 ATG
1 ATG
19377553 CAAGTTTATT
Statistics
Matches: 210, Mismatches: 26, Indels: 76
0.67 0.08 0.24
Matches are distributed among these distances:
4 2 0.01
5 6 0.03
6 24 0.11
7 97 0.46
8 39 0.19
9 40 0.19
10 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.54
Consensus pattern (7 bp):
ATGTATT
Found at i:19377311 original size:13 final size:13
Alignment explanation
Indices: 19377293--19377319 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19377283 AATATGTAAG
19377293 TTATGTATTATGT
1 TTATGTATTATGT
19377306 TTATGTATTATGT
1 TTATGTATTATGT
19377319 T
1 T
19377320 ATTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (13 bp):
TTATGTATTATGT
Found at i:19377458 original size:27 final size:25
Alignment explanation
Indices: 19377420--19377519 Score: 80
Period size: 27 Copynumber: 3.9 Consensus size: 25
19377410 GTGTATTATG
*
19377420 TATTGTGTATTATGTAAGTTATGTATT
1 TATTATGTATTAT-TAAGTTATGT-TT
***
19377447 TATTATGTATTATTTTTTTATGTTT
1 TATTATGTATTATTAAGTTATGTTT
*
19377472 TATGTATAATATTATTAAGTTATG---
1 TAT-TAT-GTATTATTAAGTTATGTTT
*
19377496 TATTATGTATTATGTATGTTATGT
1 TATTATGTATTAT-TAAGTTATGT
19377520 ATAATATTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
22 6 0.10
23 11 0.19
24 3 0.05
25 5 0.08
26 10 0.17
27 24 0.41
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (25 bp):
TATTATGTATTATTAAGTTATGTTT
Found at i:19378113 original size:18 final size:18
Alignment explanation
Indices: 19378090--19378180 Score: 107
Period size: 18 Copynumber: 4.9 Consensus size: 18
19378080 AGCTAATTTT
19378090 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
19378108 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
19378128 TAAACTTT-AGTAA-GTAATA
1 T--A-TTTAAGTAATGTAATA
19378147 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
19378165 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
19378181 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
16 3 0.05
17 11 0.17
18 32 0.49
19 3 0.05
20 3 0.05
21 4 0.06
22 6 0.09
23 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:19378179 original size:39 final size:40
Alignment explanation
Indices: 19378092--19378166 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
19378082 CTAATTTTTA
19378092 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTTATAAAC
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAG-TATAAAC
19378133 TTT-AGTAA-GTAATATATTTAAGTAATGTAA-TATA
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATA
19378167 TTTTAGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
37 4 0.12
39 22 0.65
40 5 0.15
41 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (40 bp):
TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATAAAC
Found at i:19380898 original size:7 final size:7
Alignment explanation
Indices: 19380825--19380901 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
19380815 TCCAAATCCA
19380825 TAACCCTC
1 TAACCC-C
19380833 TAACCCC
1 TAACCCC
*
19380840 TTACCCC
1 TAACCCC
19380847 TAAATCCCC
1 T-AA-CCCC
*
19380856 TAACCCT
1 TAACCCC
** *
19380863 TAAAGCA
1 TAACCCC
*
19380870 TAACCCT
1 TAACCCC
*
19380877 TAACCGC
1 TAACCCC
19380884 TAACCCCC
1 TAA-CCCC
19380892 TAACCCC
1 TAACCCC
19380899 TAA
1 TAA
19380902 ACATTAAATC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
7 34 0.63
8 15 0.28
9 5 0.09
ACGTcount: A:0.31, C:0.45, G:0.03, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:19380901 original size:15 final size:14
Alignment explanation
Indices: 19380825--19380901 Score: 55
Period size: 15 Copynumber: 5.2 Consensus size: 14
19380815 TCCAAATCCA
19380825 TAACCCTCTAACCCC
1 TAACCC-CTAACCCC
*
19380840 TTACCCCTAAATCCCC
1 TAACCCCT-AA-CCCC
* ** *
19380856 TAACCCTTAAAGCA
1 TAACCCCTAACCCC
* *
19380870 TAACCCTTAACCGC
1 TAACCCCTAACCCC
19380884 TAACCCCCTAACCCC
1 TAA-CCCCTAACCCC
19380899 TAA
1 TAA
19380902 ACATTAAATC
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
14 16 0.34
15 21 0.45
16 10 0.21
ACGTcount: A:0.31, C:0.45, G:0.03, T:0.21
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:19381322 original size:114 final size:114
Alignment explanation
Indices: 19381122--19381449 Score: 577
Period size: 114 Copynumber: 2.9 Consensus size: 114
19381112 TTTAAATCCT
* *
19381122 TGAGCATTAGCGGCGCTTACCTAGAAACGCCGCTAAATCCCCGACAGCTCAGAAAACGACGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
19381187 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * *
19381236 TGAGCATTAGAGGCGCTTACCTGGAAATGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
19381301 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
*
19381350 TGAGCATTAGCGGCGCTTACTTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
19381415 TGGTCTTAGGTA-TTTTGCGGCGCTTTCTCAAAAAC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAAC
19381450 AGAAAATCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
113 22 0.11
114 181 0.89
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
Found at i:19385298 original size:42 final size:41
Alignment explanation
Indices: 19385202--19385444 Score: 369
Period size: 41 Copynumber: 5.9 Consensus size: 41
19385192 TAGAAAAAAA
* *
19385202 CGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
* *
19385243 CGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTGTTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCTAAG
* *
19385285 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCTAAG
*
19385327 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
* * *
19385368 CGCCGCTAAAGAATATTATCTTTAGCGGTGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
*
19385409 CGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
19385445 TTCTAACTGA
Statistics
Matches: 185, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
41 114 0.62
42 66 0.36
43 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
Found at i:19385392 original size:125 final size:125
Alignment explanation
Indices: 19385202--19385450 Score: 401
Period size: 125 Copynumber: 2.0 Consensus size: 125
19385192 TAGAAAAAAA
* *
19385202 CGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTTTTCTAAGCGCCGCTAAAGAACATGATTTTTA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* * *
19385267 GCGGCGTTTTTGTTTAAGCGCCTCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTTCTAAG
66 GCGGCGTTTTT-TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAAG
* *
19385327 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAATATTATCTTTA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* *
19385392 GCGGTGTTTTTTCTAAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTTTTCTAA
66 GCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAA
19385451 CTGATGTTCT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 32 0.28
125 82 0.72
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (125 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
GCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAAG
Found at i:19385816 original size:21 final size:21
Alignment explanation
Indices: 19385790--19385839 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
19385780 TTTTGCTCTG
*
19385790 CTCTGCTTCTCTCGCTG-CAGC
1 CTCTGCTTCCCTCGCTGTC-GC
19385811 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
19385832 CTCTGCTT
1 CTCTGCTT
19385840 TAAGTTGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:19391365 original size:9 final size:9
Alignment explanation
Indices: 19391348--19391620 Score: 216
Period size: 9 Copynumber: 31.4 Consensus size: 9
19391338 TATGTATTAA
*
19391348 GTAAATTAT
1 GTAAGTTAT
19391357 GTAAGTTAT
1 GTAAGTTAT
*
19391366 GTACGTGTA-
1 GTAAGT-TAT
19391375 -TAAGTTAT
1 GTAAGTTAT
19391383 GTAAGTTAT
1 GTAAGTTAT
*
19391392 GT-A-TTAA
1 GTAAGTTAT
*
19391399 GTAAGCTAT
1 GTAAGTTAT
*
19391408 GTAAGTTGT
1 GTAAGTTAT
19391417 GT-A-TTAT
1 GTAAGTTAT
19391424 GTAAGTTAT
1 GTAAGTTAT
19391433 GTAAGTTAT
1 GTAAGTTAT
** *
19391442 CAAAGTAAT
1 GTAAGTTAT
*
19391451 GTATGTTAT
1 GTAAGTTAT
19391460 GTAAG-T-T
1 GTAAGTTAT
19391467 GTAAGTTATT
1 GTAAGTTA-T
*
19391477 GTGTA-TTAT
1 GT-AAGTTAT
19391486 GTAAGTTAT
1 GTAAGTTAT
19391495 GTAAGTTAAAT
1 GTAAGTT--AT
19391506 GT-A-TTAT
1 GTAAGTTAT
*
19391513 GTAGGTTAT
1 GTAAGTTAT
* *
19391522 ATAAGTTGT
1 GTAAGTTAT
*
19391531 GTAAGATAT
1 GTAAGTTAT
*
19391540 TTAAGTTAT
1 GTAAGTTAT
* *
19391549 GTGAGTTTT
1 GTAAGTTAT
19391558 GT-A-TTAT
1 GTAAGTTAT
19391565 GTAAGTTAT
1 GTAAGTTAT
*
19391574 GTAAGTTTT
1 GTAAGTTAT
19391583 GT-A-TTAT
1 GTAAGTTAT
19391590 GTAAGTTAT
1 GTAAGTTAT
*
19391599 GTAGGTTAT
1 GTAAGTTAT
*
19391608 GTAAGTTTT
1 GTAAGTTAT
19391617 GTAA
1 GTAA
19391621 TGTACAAGTG
Statistics
Matches: 207, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
7 32 0.15
8 15 0.07
9 146 0.71
10 9 0.04
11 5 0.02
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:19391367 original size:25 final size:25
Alignment explanation
Indices: 19391337--19391441 Score: 133
Period size: 25 Copynumber: 4.2 Consensus size: 25
19391327 TGATATATAT
*
19391337 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
19391362 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
19391388 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
19391413 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
19391438 TTAT
1 TTAT
19391442 CAAAGTAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 44 0.64
26 19 0.28
27 2 0.03
28 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:19391437 original size:34 final size:34
Alignment explanation
Indices: 19391352--19391619 Score: 190
Period size: 34 Copynumber: 8.0 Consensus size: 34
19391342 TATTAAGTAA
*
19391352 ATTATGTAAGTTATGTACGTGTA--TAAGTTATGT
1 ATTATGTAAGTTATGTAAGT-TATGTAAGTTATGT
* * *
19391385 AAGTTATGT-A-TTAAGTAAGCTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
** *
19391419 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
19391453 ATGTTATGTAAG-T-TGTAAGTTAT-T--G---TGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
19391481 ATTATGTAAGTTATGTAAGTTAAATGT-A-TTATGT
1 ATTATGTAAGTTATGTAAGTT--ATGTAAGTTATGT
* * * *
19391515 AGGTTATATAAGTTGTGTAAGATATTTAAGTTATGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* *
19391551 GAGTTTTGT-A-TTATGTAAGTTATGTAAGTTTTGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* *
19391585 ATTATGTAAGTTATGTAGGTTATGTAAGTTTTGT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
19391619 A
1 A
19391620 ATGTACAAGT
Statistics
Matches: 188, Mismatches: 23, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
26 9 0.05
27 1 0.01
28 12 0.06
30 2 0.01
31 2 0.01
32 13 0.07
33 11 0.06
34 91 0.48
35 9 0.05
36 37 0.20
37 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (34 bp):
ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
Found at i:19391515 original size:62 final size:61
Alignment explanation
Indices: 19391413--19391530 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
19391403 GCTATGTAAG
* *
19391413 TTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTA
1 TTGTGTATTATGTAAGTTATGTAAGTTA-CAAAGTAATGTAGGTTATATAAGTTGTAAGTTA
*
19391475 TTGTGTATTATGTAAGTTATGTAAGTTA-AATGTATTATGTAGGTTATATAAGTTGT
1 TTGTGTATTATGTAAGTTATGTAAGTTACAAAGTA--ATGTAGGTTATATAAGTTGT
19391531 GTAAGATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 5 0.10
62 46 0.90
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (61 bp):
TTGTGTATTATGTAAGTTATGTAAGTTACAAAGTAATGTAGGTTATATAAGTTGTAAGTTA
Found at i:19391575 original size:25 final size:25
Alignment explanation
Indices: 19391541--19391610 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
19391531 GTAAGATATT
*
19391541 TAAGTTATGTGAGTTTTGTATTATG
1 TAAGTTATGTAAGTTTTGTATTATG
19391566 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGTTTTGTATTATG
* *
19391591 TAAGTTATGTAGGTTATGTA
1 TAAGTTATGTAAGTTTTGTA
19391611 AGTTTTGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (25 bp):
TAAGTTATGTAAGTTTTGTATTATG
Found at i:19391664 original size:25 final size:26
Alignment explanation
Indices: 19391636--19391684 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
19391626 AAGTGTCAGG
*
19391636 TTATTGTT-ATTAAATTTTAATAAGA
1 TTATTGTTAAATAAATTTTAATAAGA
*
19391661 TTATTGTTAAATATATTTTAATAA
1 TTATTGTTAAATAAATTTTAATAA
19391685 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAGA
Found at i:19392661 original size:31 final size:30
Alignment explanation
Indices: 19392619--19392718 Score: 157
Period size: 31 Copynumber: 3.3 Consensus size: 30
19392609 GAGCTCTTAG
19392619 CCATTTAGCAGCAGAAATCAATAGAAGGTA
1 CCATTTAGCAGCAGAAATCAATAGAAGGTA
19392649 CCATCTTAGCAGCAGAAATCAATAGAAGGTA
1 CCAT-TTAGCAGCAGAAATCAATAGAAGGTA
* *
19392680 CCA-TTAGCAGCAAAAACCAATAGAAGGTA
1 CCATTTAGCAGCAGAAATCAATAGAAGGTA
19392709 CCATCTTAGC
1 CCAT-TTAGC
19392719 TGCAAAAACC
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
29 27 0.42
30 4 0.06
31 34 0.52
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (30 bp):
CCATTTAGCAGCAGAAATCAATAGAAGGTA
Found at i:19392724 original size:31 final size:30
Alignment explanation
Indices: 19392619--19392731 Score: 156
Period size: 31 Copynumber: 3.7 Consensus size: 30
19392609 GAGCTCTTAG
* *
19392619 CCATTTAGCAGCAGAAATCAATAGAAGGTA
1 CCATTTAGCAGCAAAAACCAATAGAAGGTA
* *
19392649 CCATCTTAGCAGCAGAAATCAATAGAAGGTA
1 CCAT-TTAGCAGCAAAAACCAATAGAAGGTA
19392680 CCA-TTAGCAGCAAAAACCAATAGAAGGTA
1 CCATTTAGCAGCAAAAACCAATAGAAGGTA
*
19392709 CCATCTTAGCTGCAAAAACCAAT
1 CCAT-TTAGCAGCAAAAACCAAT
19392732 TAAAATCCAA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
29 27 0.35
30 4 0.05
31 46 0.60
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (30 bp):
CCATTTAGCAGCAAAAACCAATAGAAGGTA
Found at i:19393866 original size:185 final size:185
Alignment explanation
Indices: 19393554--19393929 Score: 752
Period size: 185 Copynumber: 2.0 Consensus size: 185
19393544 GGATTTAGTC
19393554 CAAAACTGATATATGTTTAAAACGACCCCGTTTTCTATTCCAACTTTTACGGCGCTTACAAGGAA
1 CAAAACTGATATATGTTTAAAACGACCCCGTTTTCTATTCCAACTTTTACGGCGCTTACAAGGAA
19393619 ATGCCACTAATTTTACAACTTTTACGGCGTTTTGAGAAAAAATACCACTAATATTTAATTCGTCA
66 ATGCCACTAATTTTACAACTTTTACGGCGTTTTGAGAAAAAATACCACTAATATTTAATTCGTCA
19393684 ATGAAACGATGCTATTTCGTTCAATTTTTATTATATTATCTGCAGCGTTTATTGA
131 ATGAAACGATGCTATTTCGTTCAATTTTTATTATATTATCTGCAGCGTTTATTGA
19393739 CAAAACTGATATATGTTTAAAACGACCCCGTTTTCTATTCCAACTTTTACGGCGCTTACAAGGAA
1 CAAAACTGATATATGTTTAAAACGACCCCGTTTTCTATTCCAACTTTTACGGCGCTTACAAGGAA
19393804 ATGCCACTAATTTTACAACTTTTACGGCGTTTTGAGAAAAAATACCACTAATATTTAATTCGTCA
66 ATGCCACTAATTTTACAACTTTTACGGCGTTTTGAGAAAAAATACCACTAATATTTAATTCGTCA
19393869 ATGAAACGATGCTATTTCGTTCAATTTTTATTATATTATCTGCAGCGTTTATTGA
131 ATGAAACGATGCTATTTCGTTCAATTTTTATTATATTATCTGCAGCGTTTATTGA
19393924 CAAAAC
1 CAAAAC
19393930 GTCACTAATA
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 191 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (185 bp):
CAAAACTGATATATGTTTAAAACGACCCCGTTTTCTATTCCAACTTTTACGGCGCTTACAAGGAA
ATGCCACTAATTTTACAACTTTTACGGCGTTTTGAGAAAAAATACCACTAATATTTAATTCGTCA
ATGAAACGATGCTATTTCGTTCAATTTTTATTATATTATCTGCAGCGTTTATTGA
Found at i:19395227 original size:38 final size:39
Alignment explanation
Indices: 19395153--19395238 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
19395143 CCAAATCCCT
* * *
19395153 AACCCATAACCCTTAAATCCTCCTTAACCCTTAAAGCATA
1 AACCC-TAACCCCTAAATCCTCCCTAACCCCTAAAGCATA
19395193 AACCCTAACCCCTAAAT-CTCCCTAACCCCTAAAGCATA
1 AACCCTAACCCCTAAATCCTCCCTAACCCCTAAAGCATA
*
19395231 ACCCCTAA
1 AACCCTAA
19395239 AAAATTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 26 0.62
39 11 0.26
40 5 0.12
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.21
Consensus pattern (39 bp):
AACCCTAACCCCTAAATCCTCCCTAACCCCTAAAGCATA
Found at i:19395563 original size:24 final size:22
Alignment explanation
Indices: 19395514--19395574 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
19395504 ACCGTTAAAA
19395514 CCCTAAACCCC-AAATCTCTAAC
1 CCCT-AACCCCTAAATCTCTAAC
19395536 CCCTAACCCCTAAATCCTCCTAAC
1 CCCTAACCCCTAAAT-CT-CTAAC
* *
19395560 CCCTAAACCTTAAAT
1 CCCTAACCCCTAAAT
19395575 ACCAAACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 8 0.24
23 2 0.06
24 18 0.53
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.21
Consensus pattern (22 bp):
CCCTAACCCCTAAATCTCTAAC
Found at i:19396065 original size:113 final size:114
Alignment explanation
Indices: 19395906--19396443 Score: 508
Period size: 113 Copynumber: 4.7 Consensus size: 114
19395896 CGCTACACCT
* * * *
19395906 AAAATGCCGCTAAATCCCCGAAAGGCTAAG-AAGCGGTGTCATTGGGCTTAGGTTTTCTTGCGGC
1 AAAACGCCGCTAAATCCCCGAAA-GCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTT-TTGCGGC
* * * *
19395970 GCTTTTTTAAAAACGCCACTAAAGCGCTGAGCATTAGCGGCACTTTTA-AA
64 GCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTTATTA
* *
19396020 AAAACGCCGCAAAAT-CCTGAAAGCAT-AGAAAACGGTGTCGTTGGGCTTAGGTTTTTTTTGCGG
1 AAAACGCCGCTAAATCCCCGAAAGC-TCAGAAAACGGTGTCGTTGGGCTTAGG--TTTTTTGCGG
* * * * * ** * *
19396083 TGCTATTCCAAAAATGCCGCTAAATCCCT--GCATTAGCGGTGCATCT-TTA
63 CGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTTATTA
* * *
19396132 GAAACGCCGCTAAATCCCCGAAAAGCTCAG-AAACGGTGTCGTTGTGCTTTGGTTTTCTTGCGGC
1 AAAACGCCGCTAAATCCCCG-AAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTT-TTGCGGC
* * * * * *
19396196 TCTCTTTCAAAAACACCGCTAAAGCCCTAAGCATTAGCGGC-GTGTTATTA
64 GCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTTATTA
* * * * *
19396246 AAAACGCCACT-AATGACTCGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAT-CCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTGCGGCG
* * * *
19396310 CTTTCTCAAAAATGCCGCTAAAGCCCTGAACATTAGCGGCGC-TTTATTA
65 CTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTTATTA
* ** * *
19396359 AAAACGCCGCTAAATCCCCGAAAGCTC-GATGAACGACGTCATTCGGCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAATCCCCGAAAGCTCAGA-AAACGGTGTCGTTGGGCTTAGGTTTTTTGCGGCG
*
19396423 CTTTCT-ATAAAACGCCGCTAA
65 CTTTTTCA-AAAACGCCGCTAA
19396444 TTCTTATTTT
Statistics
Matches: 345, Mismatches: 61, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
111 4 0.01
112 62 0.18
113 178 0.52
114 97 0.28
115 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (114 bp):
AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTGCGGCGC
TTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTTATTA
Found at i:19396511 original size:39 final size:39
Alignment explanation
Indices: 19396417--19396512 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
19396407 TAGGTTTTTT
* *
19396417 GCGGCGCTTTCTATAAAACGCCGCTAATTCTTATTTTCA
1 GCGGCGCTTTCAATAAAACGCCGCTAATTCTGATTTTCA
* *
19396456 GCGGCGTTTTCCATAAAACGCCGCTAATGATC-GATCTTT-A
1 GCGGCGCTTTCAATAAAACGCCGCTAAT--TCTGAT-TTTCA
19396496 GCGGCG-TTTCAATAAAA
1 GCGGCGCTTTCAATAAAA
19396513 AATGCCGCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 36 0.72
40 9 0.18
41 5 0.10
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (39 bp):
GCGGCGCTTTCAATAAAACGCCGCTAATTCTGATTTTCA
Found at i:19398269 original size:40 final size:40
Alignment explanation
Indices: 19398148--19398277 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
19398138 GACTTCGAGT
*
19398148 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATATATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGAT-TATC
* * * * * *
19398189 CGATGAGGCATTAGGTG-CAAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
*
19398226 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
*
19398266 CGATGAGGCACT
1 CGATGAGACACT
19398278 AAGTGCCAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
37 16 0.23
38 13 0.18
39 2 0.03
40 26 0.37
41 14 0.20
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:19399249 original size:48 final size:44
Alignment explanation
Indices: 19399189--19399369 Score: 149
Period size: 43 Copynumber: 4.1 Consensus size: 44
19399179 GCGCCGGAAA
19399189 AAACGCCGCTAAAAAACACATCGCTAACTTTAGCGGCGCTTTT-TCCAC
1 AAACGCCGCTAAAAAAC-CA---CTAACTTTAGCGGCGCTTTTCT-CAC
* *
19399237 AAACGCCGCT-AAAGACCACTACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAAAACCACTAACTTTAGCGGCGCTTTTCTCAC
* ** * * *
19399280 AAACGCCGCT-AAAGACCAAGACCTTTAGCTGTGCTTTT-TCCAC
1 AAACGCCGCTAAAAAACCACTAACTTTAGCGGCGCTTTTCT-CAC
* * * *
19399323 AAACGCCACT-AAAGACCAC-GACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAAACCACTAAC-TTTAGCGGCGCTTTTCTCAC
19399366 AAAC
1 AAAC
19399370 ACAGTTAAAG
Statistics
Matches: 116, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.02
43 96 0.83
44 1 0.01
46 2 0.02
47 5 0.04
48 10 0.09
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (44 bp):
AAACGCCGCTAAAAAACCACTAACTTTAGCGGCGCTTTTCTCAC
Found at i:19399264 original size:43 final size:43
Alignment explanation
Indices: 19399216--19399420 Score: 234
Period size: 43 Copynumber: 4.8 Consensus size: 43
19399206 ACATCGCTAA
*
19399216 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACTAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGAC
*
19399259 CTTTAGCGGCGC-TTTTCTCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAAGACCACGAC
* * *
19399302 CTTTAGCTGTGCTTTTTCCACAAACGCCACTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGAC
* * * * * ** *
19399345 TTTTAGCGGCGCTTTTCCCACAAACACAGTTAAAGAATA-AAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGAC
* ** *
19399387 CTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
19399421 AACATAATCT
Statistics
Matches: 135, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
42 33 0.24
43 97 0.72
44 5 0.04
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGAC
Found at i:19399379 original size:86 final size:85
Alignment explanation
Indices: 19399216--19399400 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 85
19399206 ACATCGCTAA
* * *
19399216 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACTACCTTTAGCGGCGCTTTTCTCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACA
* * *
19399281 AACGCCGCTAAAGACCAAGAC
66 AACACAGCTAAAGAACAA-AC
* * *
19399302 CTTTAGCTGTGCTTTTTCCACAAACGCCACTAAAGACCACGACTTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACA
* *
19399367 AACACAGTTAAAGAATAAAC
66 AACACAGCTAAAGAACAAAC
19399387 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
19399401 CTAGCAAAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 14 0.16
86 72 0.84
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACA
AACACAGCTAAAGAACAAAC
Found at i:19399466 original size:20 final size:19
Alignment explanation
Indices: 19399441--19399488 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
19399431 TTAAAAAAAA
19399441 TTATTTTAATCGA-ATAATAT
1 TTATTTTAAT-GATA-AATAT
*
19399461 TTATTTTTATGATAAATAT
1 TTATTTTAATGATAAATAT
19399480 TATATTTTA
1 T-TATTTTA
19399489 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTATTTTAATGATAAATAT
Found at i:19402323 original size:16 final size:16
Alignment explanation
Indices: 19402302--19402334 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19402292 CATTTGACTA
19402302 TAAACATTCTGCACTT
1 TAAACATTCTGCACTT
19402318 TAAACATTCTGCACTT
1 TAAACATTCTGCACTT
19402334 T
1 T
19402335 CTCTATGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAACATTCTGCACTT
Found at i:19402457 original size:21 final size:21
Alignment explanation
Indices: 19402433--19402474 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19402423 TTCAAAGAGT
19402433 TCAAACAAATTTCATGCCCTC
1 TCAAACAAATTTCATGCCCTC
19402454 TCAAACAAATTTCATGCCCTC
1 TCAAACAAATTTCATGCCCTC
19402475 CAAGCCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.29
Consensus pattern (21 bp):
TCAAACAAATTTCATGCCCTC
Found at i:19404209 original size:21 final size:22
Alignment explanation
Indices: 19404170--19404222 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
19404160 ATTTAACCCC
* *
19404170 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
19404192 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
19404213 T-AATCCCTAA
1 TAAATCCCTAA
19404223 TCCATAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Found at i:19405226 original size:114 final size:114
Alignment explanation
Indices: 19405027--19405728 Score: 1059
Period size: 114 Copynumber: 6.2 Consensus size: 114
19405017 CGCAACCGAT
*
19405027 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACT-AAACCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
*
19405091 AAACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* *
19405140 TGAGTATTAGAGGCGTTTCTGTAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* *
19405205 ACACTTCGGTGACATTAGTGGCGTTTTTTGAATAGCGCCACTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* *
19405254 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAACCCCAGACGACATCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* * *
19405319 ACACTTCGGTGACTTTAGTGGCATTTTTCTAATAGCGCCGCTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * * *
19405368 TGAGTATTAGCGGCGTTTCTACAAAAACT-CCGGAAAAACTAAAACCCAAATGACTTCGTTTGGA
1 TGAGTATTAGCGGCGTTTCTATAAAAA-TGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGA
* * *
19405432 GACACTTTGGTGACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATA
65 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * *
19405482 TGAGTATTAGCGACGTTTTGTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGA
1 TGAGTATTAGCGGCG-TTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGA
* *
19405547 GACACTTCTGTGACATTAGTGGCGTTTTTTGAATAGCGCCGCTAATAATA
65 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* *
19405597 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAACCCCAGACGACATCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* * * * *
19405662 ACACTTCGGTGACTTTAGTGGCATTTTTAGATTAGCGCCGCAAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
*
19405711 T-AGGTTTTAGCGGCGTTT
1 TGA-GTATTAGCGGCGTTT
19405729 TTGTTAAAGC
Statistics
Matches: 530, Mismatches: 54, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
113 38 0.07
114 392 0.74
115 100 0.19
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (114 bp):
TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
Found at i:19405700 original size:343 final size:341
Alignment explanation
Indices: 19405027--19405728 Score: 1165
Period size: 343 Copynumber: 2.1 Consensus size: 341
19405017 CGCAACCGAT
* *
19405027 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAACCCAGACGACGTCGTTTGGAGA
1 TGAGTATTAGCGGCGTTTCTACAAAAACGCCGCAAAAACTAAACCCAAACGACGTCGTTTGGAGA
* *
19405092 AACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATATGAGTATTAGAGGCGTT
66 AACTTCGGTGACATTAGTGGCGTTTTCCGAATAGCGCCGCTAATAATATGAGTATTAGAGACGTT
* *
19405157 TCTGTAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAGACACTTCGGTGACATTA
131 TCTGTAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGACATTA
19405222 GTGGCGTTTTTTGAATAGCGCCACTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATGCCGC
196 GTGGCGTTTTTTGAATAGCGCCACTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATGCCGC
**
19405287 AAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCATTTTTCTAAT
261 AAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCATTTTTAGAAT
*
19405352 AGCGCCGCTAATAATA
326 AGCGCCGCAAATAATA
* * * *
19405368 TGAGTATTAGCGGCGTTTCTACAAAAACTCCGGAAAAACTAAAACCCAAATGACTTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTACAAAAACGCCGCAAAAACT-AAACCCAAACGACGTCGTTTGGAG
* * * *
19405433 ACACTTTGGTGACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATATGAGTATTAGCGACGT
65 AAACTTCGGTGACATTAGTGGCGTTTTCCGAATAGCGCCGCTAATAATATGAGTATTAGAGACGT
*
19405498 TT-TGTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCTGTGACA
130 TTCTG--TAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGACA
*
19405562 TTAGTGGCGTTTTTTGAATAGCGCCGCTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATGC
193 TTAGTGGCGTTTTTTGAATAGCGCCACTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATGC
19405627 CGCAAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCATTTTTAG
258 CGCAAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCATTTTTAG
*
19405692 ATTAGCGCCGCAAATAATA
323 AATAGCGCCGCAAATAATA
*
19405711 T-AGGTTTTAGCGGCGTTT
1 TGA-GTATTAGCGGCGTTT
19405729 TTGTTAAAGC
Statistics
Matches: 336, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
341 39 0.12
342 83 0.25
343 214 0.64
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (341 bp):
TGAGTATTAGCGGCGTTTCTACAAAAACGCCGCAAAAACTAAACCCAAACGACGTCGTTTGGAGA
AACTTCGGTGACATTAGTGGCGTTTTCCGAATAGCGCCGCTAATAATATGAGTATTAGAGACGTT
TCTGTAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGACATTA
GTGGCGTTTTTTGAATAGCGCCACTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATGCCGC
AAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCATTTTTAGAAT
AGCGCCGCAAATAATA
Found at i:19406515 original size:14 final size:15
Alignment explanation
Indices: 19406489--19406519 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
19406479 GTACTATATA
19406489 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
19406504 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
19406518 TA
1 TA
19406520 AGGGTTGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:19406602 original size:15 final size:16
Alignment explanation
Indices: 19406582--19406620 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
19406572 ACGTTTGTGG
19406582 TTAAGAG-TTAGGGAT
1 TTAAGAGTTTAGGGAT
*
19406597 TTAAGAGGTTTAGGGTT
1 TTAAGA-GTTTAGGGAT
19406614 TTAAGAG
1 TTAAGAG
19406621 GGTCGGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (16 bp):
TTAAGAGTTTAGGGAT
Found at i:19406611 original size:17 final size:17
Alignment explanation
Indices: 19406589--19406621 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19406579 TGGTTAAGAG
19406589 TTAGGGATTTAAGAGGT
1 TTAGGGATTTAAGAGGT
*
19406606 TTAGGGTTTTAAGAGG
1 TTAGGGATTTAAGAGG
19406622 GTCGGGTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (17 bp):
TTAGGGATTTAAGAGGT
Found at i:19407884 original size:16 final size:16
Alignment explanation
Indices: 19407842--19407899 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
19407832 CCGTCGATCG
* *
19407842 TCTACCGTCGCATTCG
1 TCTACCGTCGCAATCC
*
19407858 TCGACCGTCGCAATCC
1 TCTACCGTCGCAATCC
* *
19407874 TCTACCATCGCACTCC
1 TCTACCGTCGCAATCC
*
19407890 TCTGCCGTCG
1 TCTACCGTCG
19407900 AAGAAATCGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.14, C:0.43, G:0.17, T:0.26
Consensus pattern (16 bp):
TCTACCGTCGCAATCC
Found at i:19407898 original size:32 final size:30
Alignment explanation
Indices: 19407828--19407900 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 30
19407818 AACCGTCCCT
* * * *
19407828 TCTGCCGTCGATCGTCTACCGTCGCATTCG
1 TCTGCCGTCGATCCTCTACCATCGCACTCC
19407858 TC-GACCGTCGCAATCCTCTACCATCGCACTCC
1 TCTG-CCGTCG--ATCCTCTACCATCGCACTCC
19407890 TCTGCCGTCGA
1 TCTGCCGTCGA
19407901 AGAAATCGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
29 1 0.03
30 9 0.26
32 24 0.69
33 1 0.03
ACGTcount: A:0.14, C:0.41, G:0.19, T:0.26
Consensus pattern (30 bp):
TCTGCCGTCGATCCTCTACCATCGCACTCC
Found at i:19408720 original size:9 final size:9
Alignment explanation
Indices: 19408706--19409102 Score: 82
Period size: 9 Copynumber: 40.8 Consensus size: 9
19408696 TTAATTAATA
19408706 TACATAAAT
1 TACATAAAT
*
19408715 TACATAAGT
1 TACATAAAT
19408724 TACATTAATATT
1 TACA-TAA-A-T
19408736 ATACATAAAT
1 -TACATAAAT
*
19408746 TACATAACT
1 TACATAAAT
*
19408755 TA-ATTAAT
1 TACATAAAT
*
19408763 TA-AT-ATT
1 TACATAAAT
*
19408770 ATACATAACT
1 -TACATAAAT
*
19408780 TGCATTAATATT
1 TACA-TAA-A-T
19408792 ATACATAAAT
1 -TACATAAAT
*
19408802 TACATAACT
1 TACATAAAT
*
19408811 TA-ATTAAT
1 TACATAAAT
*
19408819 TA-AT-ATT
1 TACATAAAT
*
19408826 ATACATAACT
1 -TACATAAAT
*
19408836 TACATTAGTATT
1 TACA-TA--AAT
19408848 ATACATAAAT
1 -TACATAAAT
*
19408858 TACATAACT
1 TACATAAAT
19408867 TA-ATTAATTAT
1 TACA-TAA--AT
19408878 TACACATAAAT
1 T--ACATAAAT
***
19408889 TACATTGCT
1 TACATAAAT
19408898 TACAGTAATATT
1 TACA-TAA-A-T
19408910 ATACATAAAT
1 -TACATAAAT
*
19408920 TACATAACT
1 TACATAAAT
*
19408929 TA-ATTAAT
1 TACATAAAT
*
19408937 TA-AT-ATT
1 TACATAAAT
*
19408944 ATACATAACT
1 -TACATAAAT
*
19408954 TACATAACT
1 TACATAAAT
*
19408963 TAC--AACT
1 TACATAAAT
*
19408970 TACATAACT
1 TACATAAAT
19408979 TACATTTTTATAAT
1 TACA----TA-AAT
*
19408993 TATTCTTAAAT
1 TA--CATAAAT
*
19409004 TACATAACT
1 TACATAAAT
19409013 TACATTAATATT
1 TACA-TAA-A-T
19409025 ATACATAAAT
1 -TACATAAAT
*
19409035 TACATAACT
1 TACATAAAT
*
19409044 TA-ATTAAT
1 TACATAAAT
19409052 ATACATAAAT
1 -TACATAAAT
19409062 TACATAACTAAT
1 TACAT-A--AAT
19409074 TACATTAATATT
1 TACA-TAA-A-T
19409086 ATACATAAAT
1 -TACATAAAT
19409096 TACATAA
1 TACATAA
19409103 CTTTGTTAAT
Statistics
Matches: 296, Mismatches: 39, Indels: 106
0.67 0.09 0.24
Matches are distributed among these distances:
7 13 0.04
8 35 0.12
9 130 0.44
10 32 0.11
11 16 0.05
12 34 0.11
13 30 0.10
14 5 0.02
16 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (9 bp):
TACATAAAT
Found at i:19408786 original size:56 final size:56
Alignment explanation
Indices: 19408715--19409189 Score: 555
Period size: 56 Copynumber: 8.2 Consensus size: 56
19408705 ATACATAAAT
*
19408715 TACATAAGTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
*
19408771 TACATAACTTGCATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * *
19408827 TACATAACTTACATTAGTATTATACATAAATTACATAACTTAATTAATTATTACACATAAA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATT-A--ATTA-ATAT-TA
** *
19408888 TTACATTGCTTACAGTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
1 -TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
** * * * * *
19408945 TACATAACTTACA-TAACTTACAACTTACATAACTTACAT--TTTTA-TAATTATTCTTAAA
1 TACATAACTTACATTAA--TATTA--TACATAAATTACATAACTTAATTAATTAATATT--A
*
19409003 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATATACATA-AA
1 -TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAAT-TA-ATATTA
**
19409061 TTACATAACTAATTACATTAATATTATACATAAATTACATAACTTTGTTAATTAATATTA
1 -TACATAAC---TTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * *
19409121 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
19409177 TACATAACTTACA
1 TACATAACTTACA
19409190 ACTTACATAA
Statistics
Matches: 361, Mismatches: 35, Indels: 46
0.82 0.08 0.10
Matches are distributed among these distances:
55 3 0.01
56 188 0.52
57 8 0.02
58 20 0.06
59 49 0.14
60 11 0.03
61 41 0.11
62 41 0.11
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.41
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
Found at i:19408847 original size:22 final size:22
Alignment explanation
Indices: 19408812--19408862 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
19408802 TACATAACTT
19408812 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
* *
19408833 ACTTACATTAGTATTATACATA
1 AATTACATTAATATTATACATA
19408855 AATTACAT
1 AATTACAT
19408863 AACTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:19408971 original size:16 final size:16
Alignment explanation
Indices: 19408950--19408982 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19408940 TATTATACAT
19408950 AACTTACATAACTTAC
1 AACTTACATAACTTAC
19408966 AACTTACATAACTTAC
1 AACTTACATAACTTAC
19408982 A
1 A
19408983 TTTTTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:19408995 original size:50 final size:50
Alignment explanation
Indices: 19408919--19409016 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
19408909 TATACATAAA
*
19408919 TTACATAACTTAATTAATTAATATTATACATAACTTACATAACTTACAAC
1 TTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTACAAC
* * *
19408969 TTACATAACTTACATT--TTTATAATTATTCTTAAATTACATAACTTACA
1 TTACATAACTTA-ATTAATTAAT-ATTATACATAAATTACATAACTTACA
19409017 TTAATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 4 0.10
50 35 0.83
51 3 0.07
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (50 bp):
TTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTACAAC
Found at i:19409007 original size:34 final size:31
Alignment explanation
Indices: 19408969--19409197 Score: 194
Period size: 34 Copynumber: 7.5 Consensus size: 31
19408959 AACTTACAAC
* * *
19408969 TTACATAACTTACATTTTTATAATTATTCTTAAA
1 TTACATAACTTACA--TTAAT-ATTATACATAAA
19409003 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
19409034 TTACATAACTTA-ATT-A-A-TATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
19409061 TTACATAACTAATTACATTAATATTATACATAAA
1 TTACATAAC---TTACATTAATATTATACATAAA
** * *
19409095 TTACATAACTT-TGTT-A-ATTA-ATAT-TA
1 TTACATAACTTACATTAATATTATACATAAA
*
19409121 -TACATAACTTACATTAATATTATACTTAAA
1 TTACATAACTTACATTAATATTATACATAAA
* * *
19409151 TTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTA---CATTAATATTATACATAAA
19409185 TTAC--AACTTACAT
1 TTACATAACTTACAT
19409198 AACTTACATT
Statistics
Matches: 161, Mismatches: 18, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
25 10 0.06
26 3 0.02
27 23 0.14
28 9 0.06
29 6 0.04
30 9 0.06
31 37 0.23
32 10 0.06
33 1 0.01
34 53 0.33
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (31 bp):
TTACATAACTTACATTAATATTATACATAAA
Found at i:19409048 original size:13 final size:13
Alignment explanation
Indices: 19409032--19409078 Score: 53
Period size: 12 Copynumber: 3.6 Consensus size: 13
19409022 ATTATACATA
19409032 AATTACATAACTT
1 AATTACATAACTT
*
19409045 AATTA-ATATACATA
1 AATTACATA-AC-TT
19409059 AATTACATAAC-T
1 AATTACATAACTT
19409071 AATTACAT
1 AATTACAT
19409079 TAATATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 8 0.28
15 3 0.10
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTACATAACTT
Found at i:19409099 original size:22 final size:22
Alignment explanation
Indices: 19409004--19409156 Score: 77
Period size: 22 Copynumber: 6.6 Consensus size: 22
19408994 ATTCTTAAAT
*
19409004 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
*
19409026 TACATAAATTACATAACTTAATTAATA
1 TACATAAATTAC---A-TTAA-TATTA
*
19409053 TACATAAATTACA-TAACTAAT-
1 TACATAAATTACATTAA-TATTA
19409074 TACATTAATATTATACA-TAA-A-T-
1 TACA-TAA-A-T-TACATTAATATTA
*
19409096 TACATAACTTTGTTA-ATTAATATTA
1 TACATAA----ATTACATTAATATTA
*
19409121 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
*
19409143 TACTTAAATTACAT
1 TACATAAATTACAT
19409157 AAGTTAGTTA
Statistics
Matches: 107, Mismatches: 7, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
21 11 0.10
22 53 0.50
23 4 0.04
24 4 0.04
25 15 0.14
26 4 0.04
27 16 0.15
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.41
Consensus pattern (22 bp):
TACATAAATTACATTAATATTA
Found at i:19409264 original size:34 final size:32
Alignment explanation
Indices: 19409226--19409337 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 32
19409216 TATTCGTAAA
19409226 TTACATAACTTACTTAATTTTCATAATAAATAAC
1 TTACATAACTTACTTAATTTT-ATAAT-AATAAC
* * *
19409260 TTACATAACTTACATTAATATTATACT--TAAA
1 TTACATAACTTAC-TTAATTTTATAATAATAAC
* * * *
19409291 TTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTACTTAATT-TTATAATA-ATAAC
19409325 TTACATAACTTAC
1 TTACATAACTTAC
19409338 AACTTACCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
30 5 0.08
31 18 0.30
34 31 0.51
35 7 0.11
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (32 bp):
TTACATAACTTACTTAATTTTATAATAATAAC
Found at i:19409265 original size:140 final size:143
Alignment explanation
Indices: 19409121--19409419 Score: 516
Period size: 140 Copynumber: 2.1 Consensus size: 143
19409111 ATTAATATTA
19409121 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
19409186 TAC-AACTT-AC-A-TAACTTACATTTTTTTAATTATTCGTAAATTACATAACTTACTTAATTTT
66 TACAAACTTAACTACTAACTTACATTTTTTTAATTATTCGTAAATTACATAACTTACTTAA-TTT
19409247 CATAATAAATAACT
130 CATAATAAATAACT
19409261 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
19409326 TACATAACTTACAACTTACCTAACTTACATTTTTTTAATTATTCGTAAATTACATAACTTACTTA
66 TACA-AACTT--AAC-TA-CTAACTTACATTTTTTTAATTATTCGTAAATTACATAACTTACTTA
19409391 ATTTCATAATAAATAACT
126 ATTTCATAATAAATAACT
19409409 TACATAACTTA
1 TACATAACTTA
19409420 TATGACTTAC
Statistics
Matches: 150, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
140 68 0.45
142 5 0.03
145 2 0.01
147 1 0.01
148 28 0.19
149 46 0.31
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (143 bp):
TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
TACAAACTTAACTACTAACTTACATTTTTTTAATTATTCGTAAATTACATAACTTACTTAATTTC
ATAATAAATAACT
Found at i:19409267 original size:9 final size:9
Alignment explanation
Indices: 19409226--19409441 Score: 80
Period size: 9 Copynumber: 24.8 Consensus size: 9
19409216 TATTCGTAAA
19409226 TTACATAAC
1 TTACATAAC
* *
19409235 TTACTTAAT
1 TTACATAAC
*
19409244 TTTCATAA-
1 TTACATAAC
*
19409252 -TAAATAAC
1 TTACATAAC
19409260 TTACATAAC
1 TTACATAAC
*
19409269 TTACATTAATAT
1 TTACA-T-A-AC
* *
19409281 TATACTTAAA
1 T-TACATAAC
*
19409291 TTACATAAG
1 TTACATAAC
**
19409300 TTAGTTAA-
1 TTACATAAC
*
19409308 TTA-AT-AT
1 TTACATAAC
19409315 TATACATAAC
1 T-TACATAAC
19409325 TTACATAAC
1 TTACATAAC
19409334 TTAC--AAC
1 TTACATAAC
*
19409341 TTACCTAAC
1 TTACATAAC
***
19409350 TTACATTTTT
1 TTACA-TAAC
*
19409360 TTA-ATTA-
1 TTACATAAC
* *
19409367 TT-CGTAAA
1 TTACATAAC
19409375 TTACATAAC
1 TTACATAAC
*
19409384 TTACTTAA-
1 TTACATAAC
*
19409392 TTTCATAA-
1 TTACATAAC
*
19409400 -TAAATAAC
1 TTACATAAC
19409408 TTACATAAC
1 TTACATAAC
* *
19409417 TTATATGAC
1 TTACATAAC
19409426 TTACATAAC
1 TTACATAAC
19409435 TTACATA
1 TTACATA
19409442 GCATAATTTT
Statistics
Matches: 154, Mismatches: 35, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
6 1 0.01
7 23 0.15
8 15 0.10
9 98 0.64
10 9 0.06
11 2 0.01
12 3 0.02
13 3 0.02
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (9 bp):
TTACATAAC
Found at i:19409343 original size:16 final size:16
Alignment explanation
Indices: 19409322--19409354 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19409312 TATTATACAT
19409322 AACTTACATAACTTAC
1 AACTTACATAACTTAC
*
19409338 AACTTACCTAACTTAC
1 AACTTACATAACTTAC
19409354 A
1 A
19409355 TTTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:19409472 original size:25 final size:25
Alignment explanation
Indices: 19409443--19409498 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
19409433 ACTTACATAG
* *
19409443 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
19409468 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
19409493 CATAAT
1 CATAAT
19409499 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:19409498 original size:16 final size:16
Alignment explanation
Indices: 19409479--19409512 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19409469 ATAATTTGGG
19409479 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
19409495 TAATACATAACTTACA
1 TAATAAATAACTTACA
19409511 TA
1 TA
19409513 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:19415095 original size:66 final size:66
Alignment explanation
Indices: 19414955--19415124 Score: 191
Period size: 66 Copynumber: 2.6 Consensus size: 66
19414945 AGCAAATTAC
* * * *
19414955 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
19415020 T
66 T
* * *
19415021 ACAACTTAAAGCAGATGCAGCAGCGAGTGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTTCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
19415085 C-
65 CT
* * * * * *
19415086 AGTAGCTTAAAACAGATGCGGCAGCAAGAGAAGCAGAGG
1 A-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
19415125 CGGCAGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.94
67 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:19415122 original size:21 final size:21
Alignment explanation
Indices: 19415098--19415207 Score: 67
Period size: 21 Copynumber: 5.2 Consensus size: 21
19415088 TAGCTTAAAA
*
19415098 CAGATGCGGCAGCAAGAGAAG
1 CAGAGGCGGCAGCAAGAGAAG
*
19415119 CAGAGGCGGCAGCGAGAGAAG
1 CAGAGGCGGCAGCAAGAGAAG
* * * * * * *
19415140 TACAGGCTGTAACGAGGGAAG
1 CAGAGGCGGCAGCAAGAGAAG
*** *
19415161 CAGAGGCTATAGCAAGGGAAG
1 CAGAGGCGGCAGCAAGAGAAG
* * * *
19415182 TAGAGGCTGCAGCGAGGGAAG
1 CAGAGGCGGCAGCAAGAGAAG
19415203 CAGAG
1 CAGAG
19415208 CAGCGTGAAA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.42, T:0.07
Consensus pattern (21 bp):
CAGAGGCGGCAGCAAGAGAAG
Found at i:19415606 original size:44 final size:43
Alignment explanation
Indices: 19415558--19415767 Score: 231
Period size: 43 Copynumber: 4.8 Consensus size: 43
19415548 AGGTGTTGGC
* * * *
19415558 CTTTAGTGGCGTTTTTTGGTAAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * *
19415602 CTTTAGCGGCGTTTGTGGAAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAGATCAGGGT
* * *
19415646 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * * *** * *
19415689 CTTTTGTGGTGTTTGTGGTCGAGGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
*
19415732 CTTTTGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA
19415768 CCCTAAACTT
Statistics
Matches: 136, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
43 87 0.64
44 49 0.36
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
Found at i:19415869 original size:43 final size:44
Alignment explanation
Indices: 19415751--19415871 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 44
19415741 CGTTTGTGGG
* * * ** * *
19415751 AAAAGCGCCGCTAAAGACCCTAAACTTTAGCAAC-ACTTGTCGC
1 AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGACTTCTCGA
*
19415794 AAAAACGCCGCTAAAGACCCTGATCTTCAGCGGCGAC-TCTCGA
1 AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGACTTCTCGA
*
19415837 AAAAATGCCGCTAAAGACCCTGATCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCG
19415872 CTGTCATTAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 65 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (44 bp):
AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGACTTCTCGA
Found at i:19415965 original size:22 final size:21
Alignment explanation
Indices: 19415932--19415976 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
19415922 ATTTGCGGCG
*
19415932 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
19415953 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
19415975 CT
1 CT
19415977 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:19416232 original size:41 final size:41
Alignment explanation
Indices: 19416175--19416375 Score: 278
Period size: 41 Copynumber: 4.9 Consensus size: 41
19416165 TTTTATTATT
*
19416175 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
19416216 ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * ** *
19416257 ATTAGCAGCGCTTTTTTAAAAAAACCG-TGAAAGTCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCT-AAAGGCCCGAGC
* *
19416298 ATTAGCAGCGCTTTCTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
19416339 ATTAGCGGCGTTTTTTTAAAAACGCCGCTAAATGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
19416376 TAAAAACTCA
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 140 0.99
42 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:19420674 original size:14 final size:14
Alignment explanation
Indices: 19420637--19420674 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
19420627 CTAGAAAAGT
19420637 AAGTCATTTTCTAG
1 AAGTCATTTTCTAG
* *
19420651 AAAT-ATTTTCTGG
1 AAGTCATTTTCTAG
19420664 AAGTCATTTTC
1 AAGTCATTTTC
19420675 AATGAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (14 bp):
AAGTCATTTTCTAG
Found at i:19421544 original size:20 final size:20
Alignment explanation
Indices: 19421489--19421551 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
19421479 TATTTTTTTA
19421489 ATTTAAAAA-ATTTTAAAAT
1 ATTTAAAAATATTTTAAAAT
* * *
19421508 ATATATAACTATTTTAAAAT
1 ATTTAAAAATATTTTAAAAT
* *
19421528 TTTTAAAAATATATTAAAAAT
1 ATTTAAAAATAT-TTTAAAAT
19421549 ATT
1 ATT
19421552 ATATTTTACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 6 0.18
20 18 0.55
21 9 0.27
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAAAAATATTTTAAAAT
Found at i:19424412 original size:22 final size:21
Alignment explanation
Indices: 19424361--19424408 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19424351 TAAACATGAC
*
19424361 ATAAAATATCAAAAATAAATA
1 ATAAAATAACAAAAATAAATA
19424382 ATAAAATAACAAGAAATAAA-A
1 ATAAAATAACAA-AAATAAATA
19424403 ATAAAA
1 ATAAAA
19424409 ATAAAATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (21 bp):
ATAAAATAACAAAAATAAATA
Found at i:19427311 original size:43 final size:43
Alignment explanation
Indices: 19427221--19427320 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
19427211 TTTGTCTTGG
* *
19427221 TGTGGTTGCTTCCACGTTGCTTCCTTTTTTGTCTGGATATAAA
1 TGTGGTTGCTTCCACCTTGCTTCCTTTTTTGTCTGGATACAAA
* * *
19427264 TGTGGTTAG-TTCCACCTTGCTTCCTTTTTTGTTTGGATGCAAT
1 TGTGGTT-GCTTCCACCTTGCTTCCTTTTTTGTCTGGATACAAA
*
19427307 TGTGGTTTCTTCCA
1 TGTGGTTGCTTCCA
19427321 TGTAATTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 48 0.98
44 1 0.02
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (43 bp):
TGTGGTTGCTTCCACCTTGCTTCCTTTTTTGTCTGGATACAAA
Found at i:19434432 original size:14 final size:14
Alignment explanation
Indices: 19434413--19434447 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
19434403 GGTCTAAGAA
*
19434413 ATGGGCCAAACTTG
1 ATGGGCCAAACCTG
19434427 ATGGGCCAAACCTG
1 ATGGGCCAAACCTG
19434441 ATGGGCC
1 ATGGGCC
19434448 TGCTAGAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.17
Consensus pattern (14 bp):
ATGGGCCAAACCTG
Found at i:19441524 original size:39 final size:40
Alignment explanation
Indices: 19441481--19441563 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
19441471 TATGGTTTTT
*
19441481 GAATCCACA-CCAGATATTTTATTGTGTTTTTCTAAATAA
1 GAATCCACATCCAGATATTTTACTGTGTTTTTCTAAATAA
* *
19441520 GAAT-CATATTCAGATATTTTACTGTGTTTTTCTAAATAA
1 GAATCCACATCCAGATATTTTACTGTGTTTTTCTAAATAA
19441559 GAATC
1 GAATC
19441564 ATATTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 3 0.08
39 36 0.92
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (40 bp):
GAATCCACATCCAGATATTTTACTGTGTTTTTCTAAATAA
Found at i:19441564 original size:39 final size:39
Alignment explanation
Indices: 19441491--19441568 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
19441481 GAATCCACAC
*
19441491 CAGATATTTTATTGTGTTTTTCTAAATAAGAATCATATT
1 CAGATATTTTACTGTGTTTTTCTAAATAAGAATCATATT
19441530 CAGATATTTTACTGTGTTTTTCTAAATAAGAATCATATT
1 CAGATATTTTACTGTGTTTTTCTAAATAAGAATCATATT
19441569 TTTTTATAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.47
Consensus pattern (39 bp):
CAGATATTTTACTGTGTTTTTCTAAATAAGAATCATATT
Found at i:19442833 original size:378 final size:378
Alignment explanation
Indices: 19442135--19442886 Score: 1216
Period size: 378 Copynumber: 2.0 Consensus size: 378
19442125 ACTTGACTTT
*
19442135 TTAGTTGAAAATGATGTTTACTTACATTTCCTAAAAAATTTTACTTTGTAGCGGAAATTCTTGGA
1 TTAGTTGAAAATGATGTTTACTTACATTTCCTAAAAAAGTTTACTTTGTAGCGGAAATTCTTGGA
* * *
19442200 TCGTTATGTTTTAGAAAACCCAAGTTTACTTTCTCAAAAATAGTTGTTTTGCAAGAAACCGTCAT
66 TCGTTATGTTTTAGAAAAACCAAGTTTACTTTCTCAAAAACAGATGTTTTGCAAGAAACCGTCAT
* *
19442265 TTTCGATAAAACGCTTTTAAAAATATCACACAAAAATATAGTATAAAATCCCAAAACCAAAACAG
131 TTTCGATAAAACGCTTTTAAAAATATCACACAAAAATAGAGAATAAAATCCCAAAACCAAAACAG
*
19442330 TCCAAAATAGTCCAAATATTACAAAACGCTTAAACCCAAATTTAAAATAATCAAACAACACAAAT
196 TCCAAAATAGTCCAAATATTACAAAACGCTTAAACCCAAATTTAAAATAATCAAACAAAACAAAT
* * *
19442395 TTATTGTAACCGAGCTCCCGTGGCACCGACCCGCCTAAGTCTGAGGATTACCTGAAAATATCAGT
261 TTATTGTAACCAAGCTCCCGTGGCACCGACCAGCCTAAGTCTGAGGATTACCTAAAAATATCAGT
19442460 CAAACAGAATATGAGTTTTCGAAACTCAGTGTGTAACATACAATTTAAAAAAA
326 CAAACAGAATATGAGTTTTCGAAACTCAGTGTGTAACATACAATTTAAAAAAA
* *
19442513 TTAGTTGAAAATGATGTTTACTTACATTTCCTAAAAACGTTTACTTTGTAGTGGAAATTCTTGGA
1 TTAGTTGAAAATGATGTTTACTTACATTTCCTAAAAAAGTTTACTTTGTAGCGGAAATTCTTGGA
* * * * * *
19442578 TCGTTATGTTTTGGAAAAACGAAGTTTATTTTCTCGAAAACAGATGTTTTGCAGGAAACTGTCAT
66 TCGTTATGTTTTAGAAAAACCAAGTTTACTTTCTCAAAAACAGATGTTTTGCAAGAAACCGTCAT
* * * * * *
19442643 TTTTGATAAAGCGCTTTTAACAATATCACATAAAAATAGAGAATAAAATCTCAAAACCAAAGCAG
131 TTTCGATAAAACGCTTTTAAAAATATCACACAAAAATAGAGAATAAAATCCCAAAACCAAAACAG
* * *
19442708 TCCAAAATAGTCTAAATATTACAAAATGCTTAAACCCAAATTTAAAATAATCAAACAAAACATAT
196 TCCAAAATAGTCCAAATATTACAAAACGCTTAAACCCAAATTTAAAATAATCAAACAAAACAAAT
* * * * *
19442773 TTATTGTAACCAAGCTCCTGTGGCACTGACCAGCCTAAGTTTGAGTATTACTTAAAAATATCAGT
261 TTATTGTAACCAAGCTCCCGTGGCACCGACCAGCCTAAGTCTGAGGATTACCTAAAAATATCAGT
19442838 CAAACAGAATATGAGTTTTCGAAACTCAGTGTGTAACATACAATTTAAA
326 CAAACAGAATATGAGTTTTCGAAACTCAGTGTGTAACATACAATTTAAA
19442887 CAAACTGATT
Statistics
Matches: 342, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
378 342 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (378 bp):
TTAGTTGAAAATGATGTTTACTTACATTTCCTAAAAAAGTTTACTTTGTAGCGGAAATTCTTGGA
TCGTTATGTTTTAGAAAAACCAAGTTTACTTTCTCAAAAACAGATGTTTTGCAAGAAACCGTCAT
TTTCGATAAAACGCTTTTAAAAATATCACACAAAAATAGAGAATAAAATCCCAAAACCAAAACAG
TCCAAAATAGTCCAAATATTACAAAACGCTTAAACCCAAATTTAAAATAATCAAACAAAACAAAT
TTATTGTAACCAAGCTCCCGTGGCACCGACCAGCCTAAGTCTGAGGATTACCTAAAAATATCAGT
CAAACAGAATATGAGTTTTCGAAACTCAGTGTGTAACATACAATTTAAAAAAA
Found at i:19445624 original size:17 final size:18
Alignment explanation
Indices: 19445593--19445627 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19445583 ATTGGGCCGA
19445593 AATGGGCTATGTGGGCCC
1 AATGGGCTATGTGGGCCC
19445611 AATGGGCT-TGTGGGCCC
1 AATGGGCTATGTGGGCCC
19445628 TACATGGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.23, G:0.40, T:0.23
Consensus pattern (18 bp):
AATGGGCTATGTGGGCCC
Found at i:19455278 original size:29 final size:27
Alignment explanation
Indices: 19455246--19455299 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 27
19455236 CTATTATATA
*
19455246 ATAATGATAATAGTTATATAATAATAGTT
1 ATAATGATAATA--AATATAATAATAGTT
19455275 ATAATGATAATAAATATAATAATAG
1 ATAATGATAATAAATATAATAATAG
19455300 AATAGTAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (27 bp):
ATAATGATAATAAATATAATAATAGTT
Found at i:19459825 original size:41 final size:42
Alignment explanation
Indices: 19459768--19459855 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 42
19459758 AAAATACCGT
**
19459768 AAAAGGTTAGAGCTATAGCAGTGTTTCT-TTATAAACGCCAC
1 AAAAGGTTAGAGCTATAGCAGCATTTCTATTATAAACGCCAC
* * * *
19459809 AAAAGGTTAGGGCTATAGCGGCATTTTTATTATAAATGCCAC
1 AAAAGGTTAGAGCTATAGCAGCATTTCTATTATAAACGCCAC
19459851 AAAAG
1 AAAAG
19459856 AAAGAAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 23 0.57
42 17 0.43
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (42 bp):
AAAAGGTTAGAGCTATAGCAGCATTTCTATTATAAACGCCAC
Found at i:19459987 original size:27 final size:27
Alignment explanation
Indices: 19459949--19460038 Score: 180
Period size: 27 Copynumber: 3.3 Consensus size: 27
19459939 CTTTTTTTCA
19459949 CCCAAATCAGTTCCCACCTCCCCCTCC
1 CCCAAATCAGTTCCCACCTCCCCCTCC
19459976 CCCAAATCAGTTCCCACCTCCCCCTCC
1 CCCAAATCAGTTCCCACCTCCCCCTCC
19460003 CCCAAATCAGTTCCCACCTCCCCCTCC
1 CCCAAATCAGTTCCCACCTCCCCCTCC
19460030 CCCAAATCA
1 CCCAAATCA
19460039 TTTTTCCCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.21, C:0.58, G:0.03, T:0.18
Consensus pattern (27 bp):
CCCAAATCAGTTCCCACCTCCCCCTCC
Found at i:19460906 original size:12 final size:12
Alignment explanation
Indices: 19460889--19460914 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19460879 GTAAAAAAGA
19460889 TGATTGGAATAG
1 TGATTGGAATAG
19460901 TGATTGGAATAG
1 TGATTGGAATAG
19460913 TG
1 TG
19460915 TTAAGAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (12 bp):
TGATTGGAATAG
Found at i:19464360 original size:43 final size:42
Alignment explanation
Indices: 19464312--19464452 Score: 192
Period size: 43 Copynumber: 3.3 Consensus size: 42
19464302 TCTGATATGG
* * * *
19464312 TCTTTAGCGACGCTTCTACTAAAAACGTCACTATAGAACATGA
1 TCTTTAGCGGCGCTTCTACTAAAAAC-ACGCTAAAGAACATGA
*
19464355 TCTTTAGCGGCGCTTCTACTAAAAACACTGCTAAAGAACATTA
1 TCTTTAGCGGCGCTTCTACTAAAAACAC-GCTAAAGAACATGA
*
19464398 TCTTTAGTGGCGCTTCTACTAAAAACACCGCTAAAGAACATGA
1 TCTTTAGCGGCGCTTCTACTAAAAACA-CGCTAAAGAACATGA
*
19464441 TCTTTAGTGGCG
1 TCTTTAGCGGCG
19464453 TTTTAATAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 87 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTCTACTAAAAACACGCTAAAGAACATGA
Done.