Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 89 of 121
Found at i:15035323 original size:3 final size:3
Alignment explanation
Indices: 15035315--15035358 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
15035305 AGTCATTTGA
* **
15035315 ATT ATT ATT ATT ACT ATT ACC ATT ATT ATT ATT AATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A
15035359 ACAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:15035674 original size:24 final size:24
Alignment explanation
Indices: 15035642--15035692 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
15035632 ACCGCGAATC
*
15035642 GAAATCATGCCCGGAGGTCTTATA
1 GAAATCATGCCCGGAGGTCTTACA
*
15035666 GAAATCATGCCCGGTGGTCTTACA
1 GAAATCATGCCCGGAGGTCTTACA
15035690 GAA
1 GAA
15035693 TTTACTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (24 bp):
GAAATCATGCCCGGAGGTCTTACA
Found at i:15035731 original size:111 final size:111
Alignment explanation
Indices: 15035574--15036002 Score: 402
Period size: 109 Copynumber: 3.9 Consensus size: 111
15035564 CCAAGAGATT
* * * * * * *
15035574 TTACAGAATCGACTGGAACGACACCGCAGGTC-AAAATTAAAGAATCGATCGGGATAATACCGCG
1 TTACAAAATCGACTGGGACAACACCACAAGTCGAGAATTAAAGAATCGATCGGGATAACACCGCG
*
15035638 AATCGAAATCATGCCCGGAGGTCTTATAGAAATCATGCCCGGTGGTC
66 AATCGAAATTATGCCCGGAGGTCTTATAGAAATCATGCCCGG-GGTC
* ** * *
15035685 TTACAGAATTTACTGGGACAACACCACAAGTCGAGAA-TAATA-AATCGATCAGGATAACATCGC
1 TTACAAAATCGACTGGGACAACACCACAAGTCGAGAATTAA-AGAATCGATCGGGATAACACCGC
* *
15035748 GAATCGAAATTATGCCCAGAGGTC-T-TAGAAATCATGCTCGGAGGTC
65 GAATCGAAATTATGCCCGGAGGTCTTATAGAAATCATGCCCGG-GGTC
* * * *
15035794 TTACAAAATCGACTGGGACAACATCGCAAGTCGA-AATTAAAGAATCGATCGAGATAACACTGCG
1 TTACAAAATCGACTGGGACAACACCACAAGTCGAGAATTAAAGAATCGATCGGGATAACACCGCG
* * * * * * * * *
15035858 AATCAAAATTATACCTGAAAGTTTTACAGAAATCATGTCCGGAGTC
66 AATCGAAATTATGCCCGGAGGTCTTATAGAAATCATGCCCGGGGTC
* * * * * * *
15035904 TTACAAAATCGACTGGGATAACACCATAAGTCGAGAAATTAAAAAAAATCAATTGGGAAAACACT
1 TTACAAAATCGACTGGGACAACACCACAAGTCGAG-AATT--AAAGAATCGATCGGGATAACACC
** * * *
15035969 GCGAATCGAAACCATGTCCAGAGGTCTTACAGAA
63 GCGAATCGAAATTATGCCCGGAGGTCTTATAGAA
15036003 TCGACTGAGA
Statistics
Matches: 255, Mismatches: 53, Indels: 17
0.78 0.16 0.05
Matches are distributed among these distances:
108 3 0.01
109 85 0.33
110 35 0.14
111 82 0.32
112 8 0.03
114 42 0.16
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (111 bp):
TTACAAAATCGACTGGGACAACACCACAAGTCGAGAATTAAAGAATCGATCGGGATAACACCGCG
AATCGAAATTATGCCCGGAGGTCTTATAGAAATCATGCCCGGGGTC
Found at i:15035784 original size:22 final size:22
Alignment explanation
Indices: 15035753--15035796 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15035743 ATCGCGAATC
*
15035753 GAAATTATGCCCAGAGGTCTTA
1 GAAATCATGCCCAGAGGTCTTA
* *
15035775 GAAATCATGCTCGGAGGTCTTA
1 GAAATCATGCCCAGAGGTCTTA
15035797 CAAAATCGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (22 bp):
GAAATCATGCCCAGAGGTCTTA
Found at i:15036735 original size:33 final size:33
Alignment explanation
Indices: 15036665--15036843 Score: 204
Period size: 33 Copynumber: 5.5 Consensus size: 33
15036655 TTAGGGCTAA
* * * *
15036665 ATAAACGGGGCTT-AAATTTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
* *
15036697 CTAAACTGGGCTTAAAACCTCATTTGA-GGCCAG
1 ATAAACTGGGCTTAAAACTTCA-TTGATGGCCAG
* *
15036730 ATAAACTGGGCTTAAAACTTTATTGATGGTCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
* * *
15036763 ATAAATTGGGCTT-AAA-TGTCATTGATGGTCAA
1 ATAAACTGGGCTTAAAACT-TCATTGATGGCCAG
*
15036795 ATAAACTGGGCTTAAAACTTCATTGATAGCCAG
1 ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
15036828 ATAAACTGGGCTTAAA
1 ATAAACTGGGCTTAAA
15036844 TTTTTTATTT
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
31 1 0.01
32 42 0.34
33 77 0.62
34 5 0.04
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAACTTCATTGATGGCCAG
Found at i:15036844 original size:65 final size:65
Alignment explanation
Indices: 15036663--15036844 Score: 217
Period size: 65 Copynumber: 2.8 Consensus size: 65
15036653 TTTTAGGGCT
* * * *
15036663 AAATAAACGGGGCTT-AAATTTTATTGA-AGGCCAGCTAAACTGGGCTTAAAACCTCATTTGAGG
1 AAATAAACTGGGCTTAAAACTTTATTGATA-GCCAGATAAACTGGGCTT-AAATCTCATTTGAGG
15036726 CC
64 CC
* * * * * *
15036728 AGATAAACTGGGCTTAAAACTTTATTGATGGTCAGATAAATTGGGCTTAAATGTCA-TTGATGGT
1 AAATAAACTGGGCTTAAAACTTTATTGATAGCCAGATAAACTGGGCTTAAATCTCATTTGA-GGC
15036792 C
65 C
*
15036793 AAATAAACTGGGCTTAAAACTTCATTGATAGCCAGATAAACTGGGCTTAAAT
1 AAATAAACTGGGCTTAAAACTTTATTGATAGCCAGATAAACTGGGCTTAAAT
15036845 TTTTTATTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
64 4 0.04
65 69 0.70
66 26 0.26
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (65 bp):
AAATAAACTGGGCTTAAAACTTTATTGATAGCCAGATAAACTGGGCTTAAATCTCATTTGAGGCC
Found at i:15044924 original size:29 final size:28
Alignment explanation
Indices: 15044861--15044925 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
15044851 TATGGTTCAA
15044861 AGGGTTTAGGATTTAATTTTAAGGTTTG
1 AGGGTTTAGGATTTAATTTTAAGGTTTG
** * * *
15044889 AAAGTTTGGGATTTCGATTTTAGGGTTTG
1 AGGGTTTAGGATTT-AATTTTAAGGTTTG
15044918 AGGGTTTA
1 AGGGTTTA
15044926 AGAATTAGTC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.45
Consensus pattern (28 bp):
AGGGTTTAGGATTTAATTTTAAGGTTTG
Found at i:15051361 original size:50 final size:49
Alignment explanation
Indices: 15051294--15051684 Score: 357
Period size: 50 Copynumber: 7.9 Consensus size: 49
15051284 ATTTTGAGAA
* *
15051294 AAGATGAGAAATTTAAAGTTGTTAAGCCTTTG-TTGAGAGGAGCTTTTCC
1 AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTT-AGAGGAGCTTTTCC
* * * * * *
15051343 AAGATGATGAATTTTAAAGTTGCTGAGCTTTTGGTTAGAAGAGCTTTT-C
1 AAGATGA-GAATTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTTTTCC
* * * * **
15051392 AAGATGATAAATTTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAACTTTTTT
1 AAGATGA-GAA--TTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTTTTCC
* * *
15051444 AAGATGA-ATTTTTAAAGTTGTAAAGCCTCTGCTTAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTTTTCC
* * * * *
15051492 AAGATGAG-ATTTTAAAATTGTTGAGCCTTTGCTTAGATGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTTTTCC
* * *
15051540 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCTTTTCTC
1 AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAG-CTTTTC-C
* * *
15051591 AAGATGA-ATTTTTAAAGTTG-TAGAGCCTCTGCTTAGAGAAGCTTTTTCTT
1 AAGATGAGAATTTTAAAGTTGTTA-AGCCTCTGCTTAGAGGAGC-TTTTC-C
* *
15051641 AAGATGA-ATTTTTAAAGTTG-TAGAGCCTTTGCTTAGAGGAGCTT
1 AAGATGAGAATTTTAAAGTTGTTA-AGCCTCTGCTTAGAGGAGCTT
15051685 AGAGAAGCTT
Statistics
Matches: 295, Mismatches: 36, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
48 83 0.28
49 50 0.17
50 115 0.39
51 40 0.14
52 7 0.02
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (49 bp):
AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTTTTCC
Found at i:15051471 original size:48 final size:48
Alignment explanation
Indices: 15051305--15051744 Score: 408
Period size: 48 Copynumber: 8.8 Consensus size: 48
15051295 AGATGAGAAA
* * * *
15051305 TTTAAAGTTGTTA-AGCCTTTG-TTGAGAGGAGCTTTTCCAAGATGATGAAT
1 TTTAAAGTTG-TAGAGCCTCTGCTT-AGAGAAGCTTTTTCAAGATGA--ATT
* * *
15051355 TTTAAAGTTGCT-GAGCTTTTGGTTAGA-AGAGC-TTTTCAAGATGATAAATTT
1 TTTAAAGTTG-TAGAGCCTCTGCTTAGAGA-AGCTTTTTCAAGATG---AA-TT
* * *
15051406 TTTAAAGTTGTTGAGCCTCTGCTTAGAGAAACTTTTTTAAGATGAATT
1 TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAGCTTTTTCAAGATGAATT
* *
15051454 TTTAAAGTTGTAAAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGA-T
1 TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAGCTTTTTCAAGATGA-ATT
* * *
15051502 TTTAAAATTGTTGAGCCTTTGCTTAGATG-AGCTTTTTCAAGATGAGATT
1 TTTAAAGTTGTAGAGCCTCTGCTTAGA-GAAGCTTTTTCAAGATGA-ATT
*
15051551 TTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCTTTTCTCAAGATGAATT
1 TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAG-CTTTT-TCAAGATGAATT
15051601 TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAGCTTTTTCTTAAGATGAATT
1 TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAGCTTTTTC--AAGATGAATT
*
15051651 TTTAAAGTTGTAGAGCCTTTGCTTAGAGGAGCTTAGAGAAGCTTTTTCAAGATGGATT
1 TTTAAAGTTGTAGAGCC--T-C-T------GCTTAGAGAAGCTTTTTCAAGATGAATT
* * *
15051709 TTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTT
1 TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAGCTTTT
15051745 CCAAAATGNN
Statistics
Matches: 336, Mismatches: 26, Indels: 58
0.80 0.06 0.14
Matches are distributed among these distances:
48 102 0.30
49 47 0.14
50 91 0.27
51 36 0.11
52 13 0.04
53 1 0.00
54 2 0.01
55 1 0.00
56 1 0.00
58 24 0.07
60 18 0.05
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (48 bp):
TTTAAAGTTGTAGAGCCTCTGCTTAGAGAAGCTTTTTCAAGATGAATT
Found at i:15051645 original size:197 final size:196
Alignment explanation
Indices: 15051294--15051684 Score: 533
Period size: 197 Copynumber: 2.0 Consensus size: 196
15051284 ATTTTGAGAA
*
15051294 AAGATGAGAAATTTAAAGTTGTTAAGCCTTTGTTGAGAGGAGCTTTTCCAAGATGATGAATTTTA
1 AAGATGAGAAATTTAAAATTGTTAAGCCTTTGTTGAGAGGAGCTTTTCCAAGATGATGAATTTTA
* * * *
15051359 AAGTTGCTGAGCTTTTGGTTAGAAGAGCTTTTCAAGATGATAAATTTTTTAAAGTTGTTGAGCCT
66 AAGTTGCTGAGCCTCTGCTTAGAAGAGCTTTTCAAGATG--AAATTTTTTAAAGTTGTAGAGCCT
15051424 CTGCTTAGAGAAACTTTTTTAAGATGAATTTTTAAAGTTGTAAAGCCTCTGCTTAGAGGAGCTTT
129 CTGCTTAGAGAAACTTTTTTAAGATGAATTTTTAAAGTTGTAAAGCCTCTGCTTAGAGGAGCTTT
15051489 TTC
194 TTC
* * * * *
15051492 AAGATGAG-ATTTTAAAATTGTTGAGCCTTTGCTT-AGATGAGCTTTTTCAAGATGA-GATTTTT
1 AAGATGAGAAATTTAAAATTGTTAAGCCTTTG-TTGAGAGGAGCTTTTCCAAGATGATGAATTTT
*
15051554 AAAGTTGTTGAGCCTCTGCTTAG-AGAAGCCTTTTCTCAAGATG-AA-TTTTTAAAGTTGTAGAG
65 AAAGTTGCTGAGCCTCTGCTTAGAAG-AG-C-TTT-TCAAGATGAAATTTTTTAAAGTTGTAGAG
* * *
15051616 CCTCTGCTTAGAGAAGCTTTTTCTTAAGATGAATTTTTAAAGTTGTAGAGCCTTTGCTTAGAGGA
126 CCTCTGCTTAGAGAAAC-TTTT-TTAAGATGAATTTTTAAAGTTGTAAAGCCTCTGCTTAGAGGA
15051681 GCTT
189 GCTT
15051685 AGAGAAGCTT
Statistics
Matches: 172, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
195 34 0.20
196 33 0.19
197 84 0.49
198 13 0.08
199 8 0.05
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (196 bp):
AAGATGAGAAATTTAAAATTGTTAAGCCTTTGTTGAGAGGAGCTTTTCCAAGATGATGAATTTTA
AAGTTGCTGAGCCTCTGCTTAGAAGAGCTTTTCAAGATGAAATTTTTTAAAGTTGTAGAGCCTCT
GCTTAGAGAAACTTTTTTAAGATGAATTTTTAAAGTTGTAAAGCCTCTGCTTAGAGGAGCTTTTT
C
Found at i:15051717 original size:58 final size:59
Alignment explanation
Indices: 15051621--15051742 Score: 192
Period size: 58 Copynumber: 2.1 Consensus size: 59
15051611 TAGAGCCTCT
* *
15051621 GCTTAGAGAAGCTTTTTCTTAAGATGAATTTTTAAAGTTGTAGAGCCTTTGCTTAGAGGA
1 GCTTAGAGAAGCTTTTTC-TAAGATGAATTTTTAAAGTTATAGAGCCTCTGCTTAGAGGA
* *
15051681 GCTTAGAGAAGCTTTTTC-AAGATGGATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGA
1 GCTTAGAGAAGCTTTTTCTAAGATGAATTTTTAAAGTTATAGAGCCTCTGCTTAGAGGA
15051739 GCTT
1 GCTT
15051743 TTCCAAAATG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 40 0.69
60 18 0.31
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (59 bp):
GCTTAGAGAAGCTTTTTCTAAGATGAATTTTTAAAGTTATAGAGCCTCTGCTTAGAGGA
Found at i:15060122 original size:32 final size:31
Alignment explanation
Indices: 15060051--15060136 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 31
15060041 AAAAAATAAA
*
15060051 AAATTTAAGCCCAGTTTATCTGGCCATCAATG
1 AAATTTAAG-CCAGTTTATCTAGCCATCAATG
*
15060083 ACATTTAAGCCAGTTTATCTAGCCATCAAT-
1 AAATTTAAGCCAGTTTATCTAGCCATCAATG
15060113 AAAGTTTTAAGCCTAGTTTATCTA
1 AAA--TTTAAGCC-AGTTTATCTA
15060137 AAAGGTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
30 2 0.04
31 20 0.42
32 16 0.33
33 10 0.21
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (31 bp):
AAATTTAAGCCAGTTTATCTAGCCATCAATG
Found at i:15061021 original size:111 final size:110
Alignment explanation
Indices: 15060868--15061260 Score: 402
Period size: 111 Copynumber: 3.5 Consensus size: 110
15060858 ATCGATTTTT
* * *
15060868 TTTAATTTCTCGACTTACGGTGTTATCCCAGTCGATTTTGTAAGACCTCCGGGCATGATTTTTGT
1 TTTAATTT-T-GACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTTTGT
* * *
15060933 AAAACTTTTAGGCATAATTTCGATTCACAGTGTTATCCCGATCGATTC
64 AAGAC-TTCAGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTC
** ** *
15060981 TTTAATTTCAACTTGCAATGTTGTCCCAGTCGATTTTGTAAGACCTCCGGGCATGA--TTTGTAA
1 TTTAATTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTTTGTAA
* * *
15061044 GACCTCCGGACATAATTTCGATTCGCAGTGTTATCCTGATCGATT-
66 GACTTCAGG-CATAATTTCGATTCACAGTGTTATCCTGATCGATTC
* * ** * *
15061089 TATT-ATTCTTGACTTGTGGTGTTGTCCCAATAAATTCTGTAAGACCAT-CAGGCATGATTTCTG
1 T-TTAATT-TTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACC-TCCGGGCATGATTTTTG
* * *
15061152 TAAGACCTCCAGGCATGATTTCGATTCTC-GATGTTATCCTGATCGATTC
63 TAAGA-CTTCAGGCATAATTTCGATTCACAG-TGTTATCCTGATCGATTC
* * * * * *
15061201 TTTAATTTTGACCTGCGGTGTTGTTCCAGTCGATTCTGTAAAATCTCTGGGCATAATTTT
1 TTTAATTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTT
15061261 GATTCGCGGT
Statistics
Matches: 229, Mismatches: 40, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
108 7 0.03
109 81 0.35
110 3 0.01
111 122 0.53
112 8 0.03
113 8 0.03
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (110 bp):
TTTAATTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTTTGTAA
GACTTCAGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTC
Found at i:15061041 original size:22 final size:22
Alignment explanation
Indices: 15061015--15061061 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
15061005 CCCAGTCGAT
* *
15061015 TTTGTAAGACCTCCGGGCATGA
1 TTTGTAAGACCTCCGGACATAA
15061037 TTTGTAAGACCTCCGGACATAA
1 TTTGTAAGACCTCCGGACATAA
15061059 TTT
1 TTT
15061062 CGATTCGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (22 bp):
TTTGTAAGACCTCCGGACATAA
Found at i:15061086 original size:109 final size:109
Alignment explanation
Indices: 15060810--15061259 Score: 399
Period size: 111 Copynumber: 4.0 Consensus size: 109
15060800 TGTCTCAGTC
* ** * * ** *
15060810 GATTCTGTAAGACCTTCGGACATGGTTTCAATTCGCAGTATTATCCAAATCGATTTTTTTTAATT
1 GATT-TGTAAGACCTCCGG-CATAATTTCGATTCGCAGTGTTATCCTGATCGA--TTCTTTAA-T
* * *
15060875 TCTCGACTTACGGTGTTATCCCAGTCGATTTTGTAAGACCTCCGGGCAT
61 TCTCGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCAT
* * ** * *
15060924 GATTTTTGTAAAACTTTTAGGCATAATTTCGATTCACAGTGTTATCCCGATCGATTCTTTAATT-
1 GA--TTTGTAAGAC-CTCCGGCATAATTTCGATTCGCAGTGTTATCCTGATCGATTCTTTAATTC
* ** *
15060988 TCAACTTGCAATGTTGTCCCAGTCGATTTTGTAAGACCTCCGGGCAT
63 TCGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCAT
15061035 GATTTGTAAGACCTCCGGACATAATTTCGATTCGCAGTGTTATCCTGATCGATT-TATT-ATTCT
1 GATTTGTAAGACCTCCGG-CATAATTTCGATTCGCAGTGTTATCCTGATCGATTCT-TTAATTCT
* * * ** *
15061098 TGACTTGTGGTGTTGTCCCAATAAATTCTGTAAGACCAT-CAGGCAT
64 CGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACC-TCCGGGCAT
* *
15061144 GATTTCTGTAAGACCTCCAGGCATGATTTCGATTCTC-GATGTTATCCTGATCGATTCTTTAATT
1 GA-TT-TGTAAGACCTCC-GGCATAATTTCGATTCGCAG-TGTTATCCTGATCGATTCTTTAATT
* * * * * *
15061208 -TTGACCTGCGGTGTTGTTCCAGTCGATTCTGTAAAATCTCTGGGCAT
62 CTCGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCAT
*
15061255 AATTT
1 GATTT
15061260 TGATTCGCGG
Statistics
Matches: 277, Mismatches: 45, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
108 7 0.03
109 82 0.30
110 7 0.03
111 125 0.45
112 8 0.03
113 7 0.03
114 2 0.01
115 33 0.12
116 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (109 bp):
GATTTGTAAGACCTCCGGCATAATTTCGATTCGCAGTGTTATCCTGATCGATTCTTTAATTCTCG
ACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGGGCAT
Found at i:15061155 original size:24 final size:24
Alignment explanation
Indices: 15061123--15061173 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
15061113 TCCCAATAAA
15061123 TTCTGTAAGACCAT-CAGGCATGAT
1 TTCTGTAAGACC-TCCAGGCATGAT
15061147 TTCTGTAAGACCTCCAGGCATGAT
1 TTCTGTAAGACCTCCAGGCATGAT
15061171 TTC
1 TTC
15061174 GATTCTCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (24 bp):
TTCTGTAAGACCTCCAGGCATGAT
Found at i:15061201 original size:220 final size:223
Alignment explanation
Indices: 15060810--15061259 Score: 505
Period size: 220 Copynumber: 2.0 Consensus size: 223
15060800 TGTCTCAGTC
* ** *
15060810 GATTCTGTAAGACCTTCGGACATGGTTTCAATTCGCAGTATTATCCAAATCGATTTTTTTTAATT
1 GATT-TGTAAGACCTCCGGACATAATTTCAATTCGCAGTATTATCCAAATCGA-TTTTATTAATT
* ** * * * *
15060875 TCTCGACTTACGGTGTTATCCCAGTCGATTTTGTAAGACCTCCGGGCATGATTTTTGTAAAACTT
64 TCTCGACTTACGGTGTTATCCCAATAAATTCTGTAAGACCTCCAGGCATGATTTCTGTAAAACCT
** *
15060940 TTAGGCATAATTTCGATTCACAGTGTTATCCCGATCGATTCTTTAATTTCAACTTGCAATGTTGT
129 CCAGGCATAATTTCGATTCACAGTGTTATCCCGATCGATTCTTTAATTTCAACCTGCAATGTTGT
* *
15061005 CCCAGTCGATTTTGTAAGACCTCCGGGCAT
194 CCCAGTCGATTCTGTAAAACCTCCGGGCAT
* * **
15061035 GATTTGTAAGACCTCCGGACATAATTTCGATTCGCAGTGTTATCCTGATCGA-TTTATT-A-TTC
1 GATTTGTAAGACCTCCGGACATAATTTCAATTCGCAGTATTATCCAAATCGATTTTATTAATTTC
* ** * *
15061097 TTGACTTGTGGTGTTGTCCCAATAAATTCTGTAAGACCAT-CAGGCATGATTTCTGTAAGACCTC
66 TCGACTTACGGTGTTATCCCAATAAATTCTGTAAGACC-TCCAGGCATGATTTCTGTAAAACCTC
* * * ** **
15061161 CAGGCATGATTTCGATTCTC-GATGTTATCCTGATCGATTCTTTAATTTTGACCTGCGGTGTTGT
130 CAGGCATAATTTCGATTCACAG-TGTTATCCCGATCGATTCTTTAATTTCAACCTGCAATGTTGT
* * *
15061225 TCCAGTCGATTCTGTAAAATCTCTGGGCAT
194 CCCAGTCGATTCTGTAAAACCTCCGGGCAT
*
15061255 AATTT
1 GATTT
15061260 TGATTCGCGG
Statistics
Matches: 187, Mismatches: 36, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
219 1 0.01
220 134 0.72
221 2 0.01
222 5 0.03
224 41 0.22
225 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (223 bp):
GATTTGTAAGACCTCCGGACATAATTTCAATTCGCAGTATTATCCAAATCGATTTTATTAATTTC
TCGACTTACGGTGTTATCCCAATAAATTCTGTAAGACCTCCAGGCATGATTTCTGTAAAACCTCC
AGGCATAATTTCGATTCACAGTGTTATCCCGATCGATTCTTTAATTTCAACCTGCAATGTTGTCC
CAGTCGATTCTGTAAAACCTCCGGGCAT
Found at i:15061868 original size:42 final size:42
Alignment explanation
Indices: 15061799--15061889 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
15061789 AAATCAAAAC
* *
15061799 CCTAAAATTAAAACCTAAACTTGCCAAACCCTAAAACTAAACT
1 CCTAAAATTAAAACCTAAACCTGCCAAACCCAAAAACTAAA-T
*
15061842 CC-AAAATTAAACCCTAAACCCT-CCAAACCCAAAAACTAAAT
1 CCTAAAATTAAAACCTAAA-CCTGCCAAACCCAAAAACTAAAT
15061883 CCTAAAA
1 CCTAAAA
15061890 ACCTCTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 3 0.07
42 36 0.84
43 4 0.09
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.18
Consensus pattern (42 bp):
CCTAAAATTAAAACCTAAACCTGCCAAACCCAAAAACTAAAT
Found at i:15061967 original size:60 final size:60
Alignment explanation
Indices: 15061856--15061968 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
15061846 AATTAAACCC
* *
15061856 TAAACCCTCCAAACCCAAAAACTAAATCCTAAAAACCTCTAAACCCCGAAGTTGAAATCT
1 TAAACCCTCCAAACCCAAAAACTAAACCCTAAAAACCTATAAACCCCGAAGTTGAAATCT
* ** ** * *
15061916 TAAACCCTCTAAACCTTAAAACTAAACCCTAAAGCCCTATAAATCCTGAAGTT
1 TAAACCCTCCAAACCCAAAAACTAAACCCTAAAAACCTATAAACCCCGAAGTT
15061969 AAAACCCTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.43, C:0.30, G:0.05, T:0.21
Consensus pattern (60 bp):
TAAACCCTCCAAACCCAAAAACTAAACCCTAAAAACCTATAAACCCCGAAGTTGAAATCT
Found at i:15062045 original size:85 final size:85
Alignment explanation
Indices: 15061968--15062131 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 85
15061958 ATCCTGAAGT
** * * * *
15061968 TAAAACCCTAACCCTAAAATTGAAACCCCAAAACCAAAACTCTAAATTAAAACCCTAAAACTTTC
1 TAAAACCCTAACCCTAAAATCAAAACCACAAAACCAAAACCCTAAATTAAAACCCTAAAACCTCC
15062033 GAAACCTAAAATCAGGACAC
66 GAAACCTAAAATCAGGACAC
* * * *
15062053 TAAAACCCTAACCCTAAAATCAAAACCACTAAACTAAAACCCTAAATTGAAACCTTAAAACCTCC
1 TAAAACCCTAACCCTAAAATCAAAACCACAAAACCAAAACCCTAAATTAAAACCCTAAAACCTCC
*
15062118 GAACCCTAAAATCA
66 GAAACCTAAAATCA
15062132 AAACCCTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (85 bp):
TAAAACCCTAACCCTAAAATCAAAACCACAAAACCAAAACCCTAAATTAAAACCCTAAAACCTCC
GAAACCTAAAATCAGGACAC
Found at i:15062079 original size:14 final size:14
Alignment explanation
Indices: 15061977--15062172 Score: 80
Period size: 14 Copynumber: 13.9 Consensus size: 14
15061967 TTAAAACCCT
**
15061977 AACCCTAAAATTGA
1 AACCCTAAAATCAA
* *
15061991 AACCCCAAAACCAA
1 AACCCTAAAATCAA
* *
15062005 AACTCT-AAATTAA
1 AACCCTAAAATCAA
*
15062018 AACCCTAAAACTTTCGA
1 AACCCTAAAA---TCAA
*
15062035 AA-CCTAAAATCAG
1 AACCCTAAAATCAA
* * * **
15062048 GACACTAAAACCCT
1 AACCCTAAAATCAA
15062062 AACCCTAAAATCAA
1 AACCCTAAAATCAA
*
15062076 AACCACTAAACT-AA
1 AACC-CTAAAATCAA
**
15062090 AACCCT-AAATTGA
1 AACCCTAAAATCAA
* **
15062103 AACCTTAAAACCTCCG
1 AACCCTAAAA--TCAA
15062119 AACCCTAAAATCAA
1 AACCCTAAAATCAA
*
15062133 AACCCT-TAATCCAA
1 AACCCTAAAAT-CAA
*
15062147 AATCCTAAAATCCAA
1 AACCCTAAAAT-CAA
*
15062162 AA-TCTAAAATC
1 AACCCTAAAATC
15062173 CTAAAATCCA
Statistics
Matches: 133, Mismatches: 37, Indels: 25
0.68 0.19 0.13
Matches are distributed among these distances:
12 3 0.02
13 25 0.19
14 69 0.52
15 15 0.11
16 17 0.13
17 4 0.03
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.18
Consensus pattern (14 bp):
AACCCTAAAATCAA
Found at i:15062156 original size:22 final size:22
Alignment explanation
Indices: 15062131--15062214 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
15062121 CCCTAAAATC
**
15062131 AAAACCCTTAATCCAAAATCCT
1 AAAACCCAAAATCCAAAATCCT
* *
15062153 AAAATCCAAAATCTAAAATCCT
1 AAAACCCAAAATCCAAAATCCT
* *
15062175 AAAATCCAAAATCCTAAA-CTCT
1 AAAACCCAAAATCCAAAATC-CT
* *
15062197 CAAAGCCAAAATCTCAAA
1 AAAACCCAAAATC-CAAA
15062215 CTCTCAAAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 1 0.02
22 47 0.92
23 3 0.06
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.20
Consensus pattern (22 bp):
AAAACCCAAAATCCAAAATCCT
Found at i:15062163 original size:7 final size:7
Alignment explanation
Indices: 15062140--15062188 Score: 71
Period size: 7 Copynumber: 6.7 Consensus size: 7
15062130 CAAAACCCTT
15062140 AATCCAA
1 AATCCAA
15062147 AATCCTAA
1 AATCC-AA
15062155 AATCCAA
1 AATCCAA
*
15062162 AATCTAA
1 AATCCAA
15062169 AATCCTAA
1 AATCC-AA
15062177 AATCCAA
1 AATCCAA
15062184 AATCC
1 AATCC
15062189 TAAACTCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 24 0.63
8 14 0.37
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (7 bp):
AATCCAA
Found at i:15062192 original size:15 final size:15
Alignment explanation
Indices: 15062122--15062188 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
15062112 ACCTCCGAAC
*
15062122 CCTAAAAT-CAAAAC
1 CCTAAAATCCAAAAT
*
15062136 CCT-TAATCCAAAAT
1 CCTAAAATCCAAAAT
15062150 CCTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
15062165 -CTAAAATCCTAAAAT
1 CCTAAAATCC-AAAAT
15062180 CC-AAAATCC
1 CCTAAAATCC
15062189 TAAACTCTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 3 0.07
14 20 0.43
15 22 0.48
16 1 0.02
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
CCTAAAATCCAAAAT
Found at i:15062215 original size:22 final size:22
Alignment explanation
Indices: 15062158--15062229 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
15062148 ATCCTAAAAT
* * *
15062158 CCAAAATCT-AAAATCCTAAAAT
1 CCAAAATCTCAAACT-CTCAAAG
15062180 CCAAAATC-CTAAACTCTCAAAG
1 CCAAAATCTC-AAACTCTCAAAG
15062202 CCAAAATCTCAAACTCTCAAAG
1 CCAAAATCTCAAACTCTCAAAG
15062224 CCAAAA
1 CCAAAA
15062230 CCCTAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 39 0.89
23 5 0.11
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.18
Consensus pattern (22 bp):
CCAAAATCTCAAACTCTCAAAG
Found at i:15064429 original size:4 final size:4
Alignment explanation
Indices: 15064422--15064506 Score: 77
Period size: 4 Copynumber: 21.5 Consensus size: 4
15064412 GTATGTATTT
* * * * *
15064422 ATAA AT-A A-AA ATAA ATAA ACAA TTAA ACAA ATCA ATTA A-AA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
15064467 ATAA ATAA ATAA TTTAA CATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA -ATAA -ATAA ATAA ATAA ATAA ATAA AT
15064507 GCTAGAATTC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
3 6 0.09
4 53 0.82
5 6 0.09
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:15064488 original size:22 final size:22
Alignment explanation
Indices: 15064422--15064505 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
15064412 GTATGTATTT
* *
15064422 ATAAATAAA-AATAAATAAACAA
1 ATAAATAAATAATTAA-AAATAA
* *
15064444 TTAAACAAATCAATTAAAAATAA
1 ATAAATAAAT-AATTAAAAATAA
* *
15064467 ATAAATAAATAATTTAACATAA
1 ATAAATAAATAATTAAAAATAA
*
15064489 ATAAATAAATAAATAAA
1 ATAAATAAATAATTAAA
15064506 TGCTAGAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 32 0.64
23 13 0.26
24 5 0.10
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
ATAAATAAATAATTAAAAATAA
Found at i:15064880 original size:20 final size:19
Alignment explanation
Indices: 15064852--15064900 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
15064842 ATCCGATTCT
* *
15064852 AAAATATTCAACTAATTGTC
1 AAAAAATTCAAAT-ATTGTC
* *
15064872 AAAAAATTCAAATTTTTTC
1 AAAAAATTCAAATATTGTC
15064891 AAAAAATTCA
1 AAAAAATTCA
15064901 CCAACCCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAAATTCAAATATTGTC
Found at i:15065017 original size:9 final size:9
Alignment explanation
Indices: 15065003--15065045 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
15064993 TTATTCAATA
*
15065003 AAAAATTTC
1 AAAAATTCC
*
15065012 AAAAATTCT
1 AAAAATTCC
15065021 AACATAATTCC
1 AA-A-AATTCC
15065032 AAAAATTCC
1 AAAAATTCC
15065041 AAAAA
1 AAAAA
15065046 AGTCTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 20 0.69
10 2 0.07
11 7 0.24
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAATTCC
Found at i:15065082 original size:19 final size:19
Alignment explanation
Indices: 15065060--15065111 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
15065050 TAAAAAGGCT
*
15065060 CAAAACTCCAAAAATTTTC
1 CAAAACTCCAAAAATTTCC
*
15065079 CAAAA-TCCACAAA-TTCC
1 CAAAACTCCAAAAATTTCC
*
15065096 CACAAACTTCAAAAAT
1 CA-AAACTCCAAAAAT
15065112 CAATTTCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (19 bp):
CAAAACTCCAAAAATTTCC
Found at i:15068334 original size:17 final size:17
Alignment explanation
Indices: 15068312--15068344 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15068302 TTTGTTTATA
15068312 ATTAT-ATATAATATTTT
1 ATTATAATAT-ATATTTT
15068329 ATTATAATATATATTT
1 ATTATAATATATATTT
15068345 GATAAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATAATATATATTTT
Found at i:15068712 original size:25 final size:26
Alignment explanation
Indices: 15068672--15068720 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
15068662 AAATTTTTAG
*
15068672 TTAAATAAATGGATAAAAACATATAT
1 TTAAATAAATGAATAAAAACATATAT
*
15068698 TTAAAT-AATGAATAAAAATATAT
1 TTAAATAAATGAATAAAAACATAT
15068721 TCAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
TTAAATAAATGAATAAAAACATATAT
Found at i:15072324 original size:22 final size:22
Alignment explanation
Indices: 15072294--15072338 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15072284 GACTCAAATC
* *
15072294 TTATAAGAGATTTGTTTGGGAT
1 TTATAAGAGATTTATTTGAGAT
*
15072316 TTATTAGAGATTTATTTGAGAT
1 TTATAAGAGATTTATTTGAGAT
15072338 T
1 T
15072339 GTCAGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATAAGAGATTTATTTGAGAT
Found at i:15072514 original size:52 final size:52
Alignment explanation
Indices: 15072365--15072519 Score: 177
Period size: 52 Copynumber: 3.0 Consensus size: 52
15072355 GGATAAGAAG
* * * ***
15072365 CTTACAAAAGAATAATTCTAAGA-TAAAGAGGATTCTTAATAAATAAGTTTGA
1 CTTACAAAAGAAAAATTCTAAAAGGAAAG-GGATTCTTAATAGGCAAGTTTGA
15072417 CTTACAAAAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGA
1 CTTACAAAAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGA
* ** * * * *
15072469 CTTATAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 CTTACAAAAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTG
15072520 TATGGTTATA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 85 0.96
53 4 0.04
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (52 bp):
CTTACAAAAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGA
Found at i:15073114 original size:26 final size:25
Alignment explanation
Indices: 15073084--15073155 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
15073074 AGAGTCAAAT
*
15073084 GTTCGAGATATGGGAAAGAGCTGA-T
1 GTTCGAGATATGGG-AAGAGCTGACA
* *
15073109 GATTCGAGACATGGGAAGAGTTGACA
1 G-TTCGAGATATGGGAAGAGCTGACA
*
15073135 GTTCGAGATATAGGAAGAGCT
1 GTTCGAGATATGGGAAGAGCT
15073156 TGGTTTGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 26 0.67
26 13 0.33
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.22
Consensus pattern (25 bp):
GTTCGAGATATGGGAAGAGCTGACA
Found at i:15073128 original size:51 final size:48
Alignment explanation
Indices: 15073073--15073175 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
15073063 GAAACGTGAA
*
15073073 AAGAG-TCAAATGTTCGAGATATGGGAAAGAGCTGATGATTCGAGACATGGG
1 AAGAGTTCAAA-GTTCGAGATATAGG-AAGAGCT--TGATTCGAGACATGGG
* * * *
15073124 AAGAGTTGACAGTTCGAGATATAGGAAGAGCTTGGTTTGAGACATGGG
1 AAGAGTTCAAAGTTCGAGATATAGGAAGAGCTTGATTCGAGACATGGG
15073172 AAGA
1 AAGA
15073176 AGTAAGCTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
48 18 0.39
50 7 0.15
51 18 0.39
52 3 0.07
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (48 bp):
AAGAGTTCAAAGTTCGAGATATAGGAAGAGCTTGATTCGAGACATGGG
Found at i:15073173 original size:23 final size:23
Alignment explanation
Indices: 15073084--15073175 Score: 78
Period size: 25 Copynumber: 3.8 Consensus size: 23
15073074 AGAGTCAAAT
* *
15073084 GTTCGAGATATGGGAAAGAGCTGA
1 GTTCGAGACATGGG-AAGAGTTGA
15073108 TGATTCGAGACATGGGAAGAGTTGACA
1 -G-TTCGAGACATGGGAAGAGTTG--A
* *
15073135 GTTCGAGATATAGGAAGAGCTTG-
1 GTTCGAGACATGGGAAGAG-TTGA
*
15073158 GTTTGAGACATGGGAAGA
1 GTTCGAGACATGGGAAGA
15073176 AGTAAGCTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
23 15 0.27
25 24 0.43
26 16 0.29
27 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.36, T:0.23
Consensus pattern (23 bp):
GTTCGAGACATGGGAAGAGTTGA
Found at i:15073568 original size:52 final size:52
Alignment explanation
Indices: 15073444--15073601 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 52
15073434 TGGACAAGAA
* * *
15073444 GACTTACAAAAGAAGAATTCTAAGA-TAAAGAGGATTTCTTAATAGGTAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGGAAAG-GGA-TTCTTAATAGGCAAGTTT
* * *
15073497 GACTTGCAAAAAAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
* * *
15073549 GACTTATAGAAGAAGAATTCTAAAAGGAGAA-AGATTCTTAATAGGCAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGGA-AAGGGATTCTTAATAGGCAAGTTT
15073601 G
1 G
15073602 TATGGTTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 61 0.67
53 26 0.29
54 4 0.04
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTACAAAAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:15074489 original size:11 final size:11
Alignment explanation
Indices: 15074471--15074510 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
15074461 AATCTTATAA
15074471 GAGATTTGTTT
1 GAGATTTGTTT
* * *
15074482 GTGATTTGCTA
1 GAGATTTGTTT
15074493 GAGATTTGTTT
1 GAGATTTGTTT
15074504 GAGATTT
1 GAGATTT
15074511 ATCAGATATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:15075525 original size:11 final size:11
Alignment explanation
Indices: 15075511--15075552 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
15075501 AATCTTATAA
*
15075511 GAGATTTATTT
1 GAGATTTGTTT
**
15075522 GAGATTTGTGA
1 GAGATTTGTTT
15075533 GAGATTTGTTT
1 GAGATTTGTTT
15075544 GAGATTTGT
1 GAGATTTGT
15075553 CAGATATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:15075537 original size:22 final size:22
Alignment explanation
Indices: 15075510--15075552 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15075500 AAATCTTATA
15075510 AGAGATTTATTTGAGATTTGTG
1 AGAGATTTATTTGAGATTTGTG
*
15075532 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTATTTGAGATTTGT
15075553 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTG
Found at i:15075719 original size:53 final size:51
Alignment explanation
Indices: 15075584--15075723 Score: 147
Period size: 53 Copynumber: 2.7 Consensus size: 51
15075574 AAAGACTTGT
* *
15075584 AAAAGAAGAATTCTAAGATAAAGAGAATTCTTAATAAGTAAGTTTGACTTGC
1 AAAAGAAGAATTCTAAGAGAAAG-GAATTCTTAATAAGTAAGTTTGACTTAC
* * * * *
15075636 AAAAGAAGAATTTTAAAAAGAAA-AATATTCTTAATAGGTAAATTTTGACTTAC
1 AAAAGAAGAATTCT-AAGAGAAAGGA-ATTCTTAATAAGT-AAGTTTGACTTAC
* *
15075689 AAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAAT
1 AAAAGAAGAATTCTAAGA-GAAAGGAATTCTTAAT
15075724 GGACAAGTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
51 1 0.01
52 28 0.39
53 42 0.59
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (51 bp):
AAAAGAAGAATTCTAAGAGAAAGGAATTCTTAATAAGTAAGTTTGACTTAC
Found at i:15076342 original size:25 final size:25
Alignment explanation
Indices: 15076300--15076368 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
15076290 AAAGTTAAAT
* **
15076300 GTTCGAGATATGGGAAGAGCTGAT-
1 GTTCGAGACATGAAAAGAGCTGATA
*
15076324 GATTCGAGACATGAAAAGAGTTGATA
1 G-TTCGAGACATGAAAAGAGCTGATA
* *
15076350 GTTCGAGATATGAGAAGAG
1 GTTCGAGACATGAAAAGAG
15076369 ATTGGTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.23
Consensus pattern (25 bp):
GTTCGAGACATGAAAAGAGCTGATA
Found at i:15076633 original size:11 final size:11
Alignment explanation
Indices: 15076619--15076649 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15076609 ATTTGTTTGG
15076619 GATTTGTTAAA
1 GATTTGTTAAA
*
15076630 GATTTGTTTAA
1 GATTTGTTAAA
15076641 GATTTGTTA
1 GATTTGTTA
15076650 GATATTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (11 bp):
GATTTGTTAAA
Found at i:15076634 original size:22 final size:22
Alignment explanation
Indices: 15076607--15076649 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15076597 ATCCTATAAG
**
15076607 AGATTTGTTTGGGATTTGTTAA
1 AGATTTGTTTAAGATTTGTTAA
15076629 AGATTTGTTTAAGATTTGTTA
1 AGATTTGTTTAAGATTTGTTA
15076650 GATATTGCTT
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:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
AGATTTGTTTAAGATTTGTTAA
Found at i:15076734 original size:52 final size:52
Alignment explanation
Indices: 15076672--15076830 Score: 164
Period size: 52 Copynumber: 3.0 Consensus size: 52
15076662 TGGACAAGAA
* * *
15076672 GACTTGCAAAAGAAAAATT-TTAA-GATAAAGAGAATTCTTAGTAGGTAAGTTT
1 GACTTACAAAAGAAAAATTCTAAATGA-AAAGAG-ATTCTTAATAGGTAAGTTT
*
15076724 GACTTACAAAAGAATAATTCTAAATGAAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTACAAAAGAAAAATTCTAAATGAAAAGAGATTCTTAATAGGTAAGTTT
* * * *
15076776 GACTTACATGAAGAGAAAGATTCTAAGAGGAGAA-AGATT-TTAATGGGTAAGTTT
1 GACTTACA--AA-AGAAAAATTCTAA-ATGAAAAGAGATTCTTAATAGGTAAGTTT
15076830 G
1 G
15076831 TATGGTTATA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
52 43 0.47
53 9 0.10
54 19 0.21
55 16 0.17
56 5 0.05
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (52 bp):
GACTTACAAAAGAAAAATTCTAAATGAAAAGAGATTCTTAATAGGTAAGTTT
Found at i:15077449 original size:25 final size:24
Alignment explanation
Indices: 15077380--15077460 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
15077370 GTTTGAAACG
** *
15077380 TGGGAAGAGTCAAATGTTCGAGATG
1 TGGGAAGAGTTGAA-GTTCGAGATA
* * *
15077405 TGGAAAGAGTTGATGATTCGAGACA
1 TGGGAAGAGTTGAAG-TTCGAGATA
15077430 TGGGAAGAGTTGACAGTTCGAGATA
1 TGGGAAGAGTTGA-AGTTCGAGATA
15077455 TGGGAA
1 TGGGAA
15077461 AAGCTTTGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.36, T:0.23
Consensus pattern (24 bp):
TGGGAAGAGTTGAAGTTCGAGATA
Found at i:15077722 original size:22 final size:22
Alignment explanation
Indices: 15077694--15077735 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15077684 AAATTAAATA
* *
15077694 AGAGATTTGTTTGTGATTTGGT
1 AGAGATTTATTTGAGATTTGGT
15077716 AGAGATTTATTTGAGATTTG
1 AGAGATTTATTTGAGATTTG
15077736 TCAGATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGGT
Found at i:15077847 original size:52 final size:52
Alignment explanation
Indices: 15077760--15077887 Score: 193
Period size: 52 Copynumber: 2.5 Consensus size: 52
15077750 ATGGACAAAG
* * *
15077760 AGACTTGCAAAAGAAGAATTCTAAGATAAAGAAGATTCTTAATAGGTAAATT
1 AGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAATT
*
15077812 AGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAGTT
1 AGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAATT
* * *
15077864 TGACTTACAGAAGAAGAATTCTAA
1 AGACTTGCAAAAGAAGAATTCTAA
15077888 GAGGAGAGAG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (52 bp):
AGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAATT
Found at i:15077900 original size:52 final size:52
Alignment explanation
Indices: 15077761--15077917 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
15077751 TGGACAAAGA
* * *
15077761 GACTTGCAAAAGAAGAATTCTAAGA-TAAAGAAGATTCTTAATAGGTAAATTA
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAG-AGATTCTTAATAGGTAAGTTT
* *
15077813 GACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
* * * * * * *
15077865 GACTTACAGAAGAAGAATTCTAAGAGGAGAGAGATTTTTAATGGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
15077917 G
1 G
15077918 TATGGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 87 0.97
53 3 0.03
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
Found at i:15078555 original size:25 final size:25
Alignment explanation
Indices: 15078492--15078557 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
15078482 GTCAAATGTA
* *
15078492 CGAGATGTGGGAAGAGCTGATGATT
1 CGAGATATGGGAAGAGCTGAAGATT
* * * *
15078517 CGAAACATGAGAAGAGTTGACAG-TT
1 CGAGATATGGGAAGAGCTGA-AGATT
15078542 CGAGATATGGGAAGAG
1 CGAGATATGGGAAGAG
15078558 ATTGGTTTGA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.36, T:0.20
Consensus pattern (25 bp):
CGAGATATGGGAAGAGCTGAAGATT
Found at i:15078821 original size:22 final size:22
Alignment explanation
Indices: 15078793--15078835 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15078783 AAATCCTATA
*
15078793 AGAGATTTATTTGGGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
15078815 AGAGATTTATTTGAGATTTGT
1 AGAGATTTATTTGAGATTTGT
15078836 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:15078998 original size:52 final size:51
Alignment explanation
Indices: 15078860--15079014 Score: 195
Period size: 51 Copynumber: 3.0 Consensus size: 51
15078850 TGGACAAGAA
* * *
15078860 GACTTACAAAAAAAAATTCTAAGA-TAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTACAAAGAAAAATTCTAAGAGGAAAG-AGATTCTTAATAGGCAAGTTT
* * * * *
15078911 GACTTGCAAAGAAGAATTCTAAAAGGAAAGGGATTCTTAATATGCAAGTTT
1 GACTTACAAAGAAAAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
* *
15078962 GACTTACAGAAGAAAAATTCTAAGAGGAGAGAGATTCTTAATGGGCAAGTTT
1 GACTTACA-AAGAAAAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
15079014 G
1 G
15079015 TATGATTATA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
51 45 0.52
52 42 0.48
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (51 bp):
GACTTACAAAGAAAAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:15081574 original size:23 final size:22
Alignment explanation
Indices: 15081538--15081609 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
15081528 CCTTTTTTAT
15081538 TTTTTAATATTTTAAAATTATATA
1 TTTTTAATA-TTTAAAATTAT-TA
*
15081562 TTTTTAACATTTAAAATGT-TTA
1 TTTTTAATATTTAAAAT-TATTA
*
15081584 TTTTCTTATATTTAAAATTATT-
1 TTTT-TAATATTTAAAATTATTA
15081606 TTTT
1 TTTT
15081610 ATTTTTTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.26
23 22 0.52
24 9 0.21
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTTTAATATTTAAAATTATTA
Found at i:15085617 original size:21 final size:22
Alignment explanation
Indices: 15085593--15085633 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15085583 TTTAATTCGA
*
15085593 TTTAAAATTAATA-AAATATTT
1 TTTAAAATAAATATAAATATTT
*
15085614 TTTAATATAAATATAAATAT
1 TTTAAAATAAATATAAATAT
15085634 AAAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAAAATAAATATAAATATTT
Found at i:15085655 original size:12 final size:12
Alignment explanation
Indices: 15085618--15085658 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
15085608 ATATTTTTTA
*
15085618 ATATAAATATAA
1 ATATAAATATAT
15085630 ATATAAAATTATAT
1 ATAT-AAA-TATAT
15085644 ATATAAATATAT
1 ATATAAATATAT
15085656 ATA
1 ATA
15085659 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 12 0.46
13 6 0.23
14 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:15085664 original size:14 final size:14
Alignment explanation
Indices: 15085616--15085676 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 14
15085606 AAATATTTTT
*
15085616 TAATATAAATATAAA
1 TAAT-TAAATATATA
*
15085631 T-ATAAAAT-TATA
1 TAATTAAATATATA
15085643 T-ATATAAATATATA
1 TAAT-TAAATATATA
15085657 TAATTAAATA-A-A
1 TAATTAAATATATA
15085669 TAATTAAA
1 TAATTAAA
15085677 AAATATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 15 0.38
13 9 0.22
14 13 0.32
15 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATTAAATATATA
Found at i:15086187 original size:23 final size:24
Alignment explanation
Indices: 15086141--15086194 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
15086131 ATTTTAAAAT
**
15086141 TTTAATTATAATTCATATTGATATA
1 TTTAA-TATAATTCATATAAATATA
*
15086166 TTTAATATAA-TCATATAAATATT
1 TTTAATATAATTCATATAAATATA
15086189 TTTAAT
1 TTTAAT
15086195 TATTTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 16 0.62
24 5 0.19
25 5 0.19
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAATATAATTCATATAAATATA
Found at i:15086189 original size:21 final size:25
Alignment explanation
Indices: 15086137--15086189 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
15086127 AAATATTTTA
15086137 AAAT-TTTAATTATAATTCATATTG
1 AAATATTTAATTATAATTCATATTG
*
15086161 ATATATTTAA-TATAA-TCATA-T-
1 AAATATTTAATTATAATTCATATTG
15086182 AAATATTT
1 AAATATTT
15086190 TTAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 5 0.19
24 8 0.31
25 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
AAATATTTAATTATAATTCATATTG
Found at i:15089954 original size:34 final size:32
Alignment explanation
Indices: 15089908--15089970 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 32
15089898 TTATAATACA
15089908 TAATTTTATATAAAATAAT-TAAATATATAAATTT
1 TAATTTTATAT--AAT-ATGTAAATATATAAATTT
15089942 TAATATTT-TATAATATGTAAATATATAAA
1 TAAT-TTTATATAATATGTAAATATATAAA
15089971 ATAATTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
31 2 0.07
32 15 0.56
34 7 0.26
35 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (32 bp):
TAATTTTATATAATATGTAAATATATAAATTT
Found at i:15091575 original size:18 final size:17
Alignment explanation
Indices: 15091552--15091619 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 17
15091542 CTATATCATT
15091552 TAATTTAAAATATTAATA
1 TAATTTAAAAT-TTAATA
15091570 TAATTTAAAATTTTAATAA
1 TAATTTAAAA-TTTAAT-A
15091589 TAAATATATATAAATTTAATA
1 T-AAT-T-TA-AAATTTAATA
*
15091610 AAATTTAAAA
1 TAATTTAAAA
15091620 ATATATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
17 3 0.07
18 17 0.40
19 4 0.09
20 6 0.14
21 2 0.05
22 8 0.19
23 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTAAAATTTAATA
Found at i:15091696 original size:29 final size:30
Alignment explanation
Indices: 15091628--15091692 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 30
15091618 AAATATATTT
15091628 TATAT-TTTTAT-TAATATAAATCATAACA
1 TATATATTTTATATAATATAAATCATAACA
15091656 TA-ATA-TTTATATAAGTAT-AAT-ATAA-A
1 TATATATTTTATATAA-TATAAATCATAACA
15091682 TATATATTTTA
1 TATATATTTTA
15091693 ATATTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
26 3 0.09
27 14 0.44
28 12 0.38
29 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
TATATATTTTATATAATATAAATCATAACA
Found at i:15092351 original size:18 final size:18
Alignment explanation
Indices: 15092328--15092363 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15092318 ATAAAAATGA
15092328 TATATTTTT-TCTTTACAT
1 TATATTTTTAT-TTTACAT
15092346 TATATTTTTATTTTACAT
1 TATATTTTTATTTTACAT
15092364 CATCTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTTTTATTTTACAT
Found at i:15093934 original size:13 final size:13
Alignment explanation
Indices: 15093916--15093940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15093906 TTAGTTTTTA
15093916 TTTAAAATAAAAT
1 TTTAAAATAAAAT
15093929 TTTAAAATAAAA
1 TTTAAAATAAAA
15093941 AACAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTTAAAATAAAAT
Found at i:15095184 original size:14 final size:15
Alignment explanation
Indices: 15095159--15095187 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15095149 TGGATTTAGA
15095159 TATTTTTATTAATTT
1 TATTTTTATTAATTT
15095174 TATTTTT-TTAATTT
1 TATTTTTATTAATTT
15095188 CAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTATTAATTT
Found at i:15098507 original size:52 final size:52
Alignment explanation
Indices: 15098421--15098565 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 52
15098411 TATAACCATA
* ** *
15098421 CAAACTTGCCCATTAAGAATCTCTCACCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
15098473 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCATCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
*
15098525 CAAACTTACCTATTAAGAATTCTCTTT-CTCTTAGAATTCTT
1 CAAACTTGCCTATTAAGAA-TCTCTTTCCTCTTAGAATTCTT
15098566 TTTTTGCAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 75 0.91
53 7 0.09
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:15098901 original size:25 final size:25
Alignment explanation
Indices: 15098826--15098911 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
15098816 TAAGCTTACT
*
15098826 TCTTCCCATATCTCAAACCA--AGC
1 TCTTCCCATATCTCGAACCATCAGC
** *
15098849 TCTTCCCATATCTCGAACTGTCAAC
1 TCTTCCCATATCTCGAACCATCAGC
* *
15098874 TCTTCCCATGTCTCGAACCATCGGC
1 TCTTCCCATATCTCGAACCATCAGC
* *
15098899 TCTTTCCACATCT
1 TCTTCCCATATCT
15098912 TGAATCTTCA
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 17 0.35
25 32 0.65
ACGTcount: A:0.22, C:0.38, G:0.08, T:0.31
Consensus pattern (25 bp):
TCTTCCCATATCTCGAACCATCAGC
Found at i:15098926 original size:50 final size:48
Alignment explanation
Indices: 15098826--15098928 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 48
15098816 TAAGCTTACT
*
15098826 TCTTCCCATATCTCAAACCAAGCTCTTCCCATATCTCGAACTGTCAAC
1 TCTTCCCATATCTCAAACCAAGCTCTTCCCACATCTCGAACTGTCAAC
* * * * *
15098874 TCTTCCCATGTCTCGAACCATCGGCTCTTTCCACATCTTGAATCT-TCAAC
1 TCTTCCCATATCTCAAACCA--AGCTCTTCCCACATCTCGAA-CTGTCAAC
15098924 TCTTC
1 TCTTC
15098929 TTACGTTTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 18 0.39
50 26 0.57
51 2 0.04
ACGTcount: A:0.22, C:0.37, G:0.08, T:0.33
Consensus pattern (48 bp):
TCTTCCCATATCTCAAACCAAGCTCTTCCCACATCTCGAACTGTCAAC
Found at i:15099539 original size:52 final size:52
Alignment explanation
Indices: 15099449--15099604 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
15099439 TATAACCATA
* * ** *
15099449 CAAACTTGCCCATTAAGAATCCCTCACCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* * *
15099501 CAAACTTACCTATTAAGAATCCCTTTCCTTTTAAAATTCATCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
*
15099553 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTT-TTTTGCAAGT
1 CAAACTTACCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCTTGCAAGT
15099604 C
1 C
15099605 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
51 10 0.11
52 77 0.85
53 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:15100659 original size:24 final size:24
Alignment explanation
Indices: 15100631--15100680 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
15100621 TTATATTATC
* *
15100631 ATTAAAATTTATATTTGATACATT
1 ATTAAAATATAAATTTGATACATT
* *
15100655 ATTAATATATAAATTTTATACATT
1 ATTAAAATATAAATTTGATACATT
15100679 AT
1 AT
15100681 CAATAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAAAATATAAATTTGATACATT
Found at i:15101059 original size:30 final size:29
Alignment explanation
Indices: 15100962--15101059 Score: 79
Period size: 30 Copynumber: 3.3 Consensus size: 29
15100952 TATTACACTC
** *
15100962 AAATAAGCCCTTAAAATTTAATTTGCATCT
1 AAATAAGCCCTTAACTTTTAATTTG-TTCT
* * * * * *
15100992 AAATAAACTCATAACTTTTAACTTATATCC
1 AAATAAGCCCTTAACTTTTAATTTGT-TCT
*
15101022 AATTAAGCCCTTAACTTTTAATTTGTTCAT
1 AAATAAGCCCTTAACTTTTAATTTGTTC-T
15101052 AAATAAGC
1 AAATAAGC
15101060 TTTTAATATA
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
29 2 0.04
30 47 0.96
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (29 bp):
AAATAAGCCCTTAACTTTTAATTTGTTCT
Found at i:15101322 original size:116 final size:115
Alignment explanation
Indices: 15101025--15101354 Score: 529
Period size: 115 Copynumber: 2.9 Consensus size: 115
15101015 TATATCCAAT
* *
15101025 TAAGCCCTTAACTTTTAATTTG-TTCATAAATAAGCTTTTAATATAAATAAATTTTTTGTTTGAA
1 TAAGCCCTTAACTTTTAATTTGTTTC-TAAATAAACTCTTAATATAAATAAATTTTTTGTTTGAA
15101089 ATAAGAGCCTAGTTAGATACAAATCAAAAGATAAAGTTTATTTGGGTATAA
65 ATAAGAGCCTAGTTAGATACAAATCAAAAGATAAAGTTTATTTGGGTATAA
* *
15101140 TAAGCCCTTAACTTTTAATTTGTTTCTAAACAAACTCTTAATATAAATAAATATTTTGTTTGAAA
1 TAAGCCCTTAACTTTTAATTTGTTTCTAAATAAACTCTTAATATAAATAAATTTTTTGTTTGAAA
*
15101205 TAA-AGGCCTAGTTAGATACAAATCAAAAGGTAAAGTTTATTTGGGTATAA
66 TAAGA-GCCTAGTTAGATACAAATCAAAAGATAAAGTTTATTTGGGTATAA
*
15101255 TAAGCCCTTTAATTTTTAATTTGTTTCTAAATAAACTCTTAATATAAATAAATTTTTTGTTTGAA
1 TAAGCCC-TTAACTTTTAATTTGTTTCTAAATAAACTCTTAATATAAATAAATTTTTTGTTTGAA
* * * *
15101320 ATACGAGCCAAATTAAATACAAATCAAAAGATAAA
65 ATAAGAGCCTAGTTAGATACAAATCAAAAGATAAA
15101355 AAATTTATTT
Statistics
Matches: 198, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
114 1 0.01
115 111 0.56
116 85 0.43
117 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (115 bp):
TAAGCCCTTAACTTTTAATTTGTTTCTAAATAAACTCTTAATATAAATAAATTTTTTGTTTGAAA
TAAGAGCCTAGTTAGATACAAATCAAAAGATAAAGTTTATTTGGGTATAA
Found at i:15103090 original size:2 final size:2
Alignment explanation
Indices: 15103030--15103075 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
15103020 ACCTGGATGC
* *
15103030 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A- AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15103071 AT AT A
1 AT AT A
15103076 CACACGTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:15106718 original size:8 final size:8
Alignment explanation
Indices: 15106668--15106730 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
15106658 TATGGTATAC
15106668 TATTATTAA
1 TATTATT-A
*
15106677 TATTACTAA
1 TATTA-TTA
15106686 TATTA-TA
1 TATTATTA
*
15106693 TTATTAGTA
1 -TATTATTA
15106702 TATTATTA
1 TATTATTA
15106710 TATT-TT-
1 TATTATTA
*
15106716 TATTATTG
1 TATTATTA
15106724 TATTATT
1 TATTATT
15106731 TTTATTTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
6 4 0.09
7 5 0.11
8 23 0.50
9 13 0.28
10 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:15106729 original size:11 final size:11
Alignment explanation
Indices: 15106640--15106735 Score: 52
Period size: 11 Copynumber: 8.3 Consensus size: 11
15106630 TATTGTAGTA
*
15106640 TATATTA-TAA
1 TATATTATTAT
*
15106650 TATAATATTAT
1 TATATTATTAT
*
15106661 GGTATACTATTAT
1 --TATATTATTAT
15106674 TAATATTACTAATAT
1 T-ATATTA-T--TAT
*
15106689 TATATTATTAG
1 TATATTATTAT
15106700 TATATTATTA-
1 TATATTATTAT
*
15106710 TATTTTTATTAT
1 TA-TATTATTAT
* *
15106722 TGTATTATTTT
1 TATATTATTAT
15106733 TAT
1 TAT
15106736 TTTCATCTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
10 8 0.12
11 31 0.46
12 6 0.09
13 12 0.18
14 6 0.09
15 4 0.06
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (11 bp):
TATATTATTAT
Found at i:15106750 original size:18 final size:18
Alignment explanation
Indices: 15106729--15106768 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
15106719 TATTGTATTA
15106729 TTTTTATTTTC-ATCTTT
1 TTTTTATTTTCTATCTTT
* *
15106746 TTTTTCTTTTCTTTCTTT
1 TTTTTATTTTCTATCTTT
15106764 TTTTT
1 TTTTT
15106769 TCCTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTCTATCTTT
Found at i:15107603 original size:18 final size:18
Alignment explanation
Indices: 15107576--15107622 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15107566 TGATCGCATG
* *
15107576 TTTTTTTTTTTCATTTTA
1 TTTTTATTTTTCATTTGA
*
15107594 TTTTTATTTTTTGATTTGA
1 TTTTTA-TTTTTCATTTGA
15107613 -TTTTATTTTT
1 TTTTTATTTTT
15107623 AACTCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (18 bp):
TTTTTATTTTTCATTTGA
Found at i:15119919 original size:13 final size:13
Alignment explanation
Indices: 15119883--15119926 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
15119873 TTTATTTTTT
15119883 TATTATAGTAT-A
1 TATTATAGTATAA
*
15119895 TATTATAATATAA
1 TATTATAGTATAA
* *
15119908 TATTATGGTATAT
1 TATTATAGTATAA
15119921 TATTAT
1 TATTAT
15119927 TATTATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
TATTATAGTATAA
Found at i:15120525 original size:20 final size:20
Alignment explanation
Indices: 15120498--15120549 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
15120488 TGCGAGATTC
15120498 CAAC-AAGATTTCCAAAATT
1 CAACAAAGATTTCCAAAATT
* *
15120517 CAACAAAGATTTCTAGAATT
1 CAACAAAGATTTCCAAAATT
* *
15120537 CGACAAAGTTTTC
1 CAACAAAGATTTC
15120550 AAATTCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (20 bp):
CAACAAAGATTTCCAAAATT
Found at i:15124334 original size:42 final size:43
Alignment explanation
Indices: 15124134--15124420 Score: 267
Period size: 43 Copynumber: 6.7 Consensus size: 43
15124124 AGGTTTAACA
* * * * *
15124134 TTTTGAAAAATAGA-AAAGCTCCTCTCAACAAAGGCTAAATGAC
1 TTTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCT-CATGAC
* * **
15124177 TTTTAAAAAATAAATAAAGCTCCTCTAAATAAAGGCTCACAAC
1 TTTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCTCATGAC
* * * *
15124220 TTTTAATAAATAAATAAAGTTCCTCTAAATAGAGGCTTATGAC
1 TTTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCTCATGAC
* *
15124263 TGTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCT-ATGGC
1 TTTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCTCATGAC
* * * * **
15124305 TTTTGATAAATAAATAAGGCTCTTTTAAATAGAGGCTCACAAC
1 TTTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCTCATGAC
* * * * * *
15124348 TTTT-AAAAATAAAT-AAGATTCTTCTTAACAAAGGTTCATGAC
1 TTTTGATAAATAAATAAAG-CTCCTCTAAATAAAGGCTCATGAC
* *
15124390 TTTTGATAAATAAATAAGGCTTCTCTAAATA
1 TTTTGATAAATAAATAAAGCTCCTCTAAATA
15124421 GAGGTTAAAC
Statistics
Matches: 196, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.01
42 65 0.33
43 107 0.55
44 22 0.11
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (43 bp):
TTTTGATAAATAAATAAAGCTCCTCTAAATAAAGGCTCATGAC
Found at i:15125474 original size:10 final size:9
Alignment explanation
Indices: 15125433--15125482 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
15125423 CCTTTTTTAA
*
15125433 TTTTCCTTT
1 TTTTCTTTT
15125442 TTTTCTCTTT
1 TTTTCT-TTT
*
15125452 TTTTCTATT
1 TTTTCTTTT
15125461 TTTTCTTTT
1 TTTTCTTTT
15125470 ATTTT-TTTT
1 -TTTTCTTTT
15125479 TTTT
1 TTTT
15125483 TTAAGCGTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 4 0.11
9 19 0.53
10 13 0.36
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:15125484 original size:10 final size:10
Alignment explanation
Indices: 15125439--15125484 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
15125429 TTAATTTTCC
*
15125439 TTTTTTTCTC
1 TTTTTTTCTT
15125449 TTTTTTTC-T
1 TTTTTTTCTT
*
15125458 ATTTTTTCTT
1 TTTTTTTCTT
15125468 TTATTTTT-TT
1 TT-TTTTTCTT
15125478 TTTTTTT
1 TTTTTTT
15125485 AAGCGTAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 12 0.39
10 14 0.45
11 5 0.16
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:15134572 original size:10 final size:10
Alignment explanation
Indices: 15134557--15134586 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15134547 ATTAATGTTT
15134557 TATTTTTTTC
1 TATTTTTTTC
15134567 TATTTTTTT-
1 TATTTTTTTC
15134576 TATTTTTTTC
1 TATTTTTTTC
15134586 T
1 T
15134587 CTAATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (10 bp):
TATTTTTTTC
Found at i:15134584 original size:9 final size:9
Alignment explanation
Indices: 15134554--15134584 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15134544 ATTATTAATG
15134554 TTTTATTTT
1 TTTTATTTT
15134563 TTTCTATTTT
1 TTT-TATTTT
15134573 TTTTATTTT
1 TTTTATTTT
15134582 TTT
1 TTT
15134585 CTCTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTATTTT
Found at i:15134594 original size:19 final size:19
Alignment explanation
Indices: 15134549--15134595 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15134539 AAAAAATTAT
15134549 TAATGTTTTATTTTTTTCTA
1 TAAT-TTTTATTTTTTTCTA
** *
15134569 TTTTTTTTATTTTTTTCTC
1 TAATTTTTATTTTTTTCTA
15134588 TAATTTTT
1 TAATTTTT
15134596 CTTAAAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TAATTTTTATTTTTTTCTA
Found at i:15137460 original size:3 final size:3
Alignment explanation
Indices: 15137452--15137478 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15137442 AACAAAAGAT
15137452 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
15137479 CATTGAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15139046 original size:23 final size:24
Alignment explanation
Indices: 15139016--15139070 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
15139006 AAAAGTCTTT
15139016 TCTTCTTTT-TTCTCTCTT-TTCTA
1 TCTTCTTTTATTCTC-CTTCTTCTA
*
15139039 TCTTCTTTTATTTTCCTTCTTCTA
1 TCTTCTTTTATTCTCCTTCTTCTA
15139063 TCTCTCTT
1 TCT-TCTT
15139071 CACTTGATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 12 0.43
24 12 0.43
25 4 0.14
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTCTTTTATTCTCCTTCTTCTA
Found at i:15139052 original size:26 final size:24
Alignment explanation
Indices: 15139015--15139071 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
15139005 CAAAAGTCTT
*
15139015 TTCTTCTTTTTTCTCTCTTTTCTATC
1 TTCTTCTTTTTTC-CT-TCTTCTATC
15139041 TTCTT-TTATTTTCCTTCTTCTATC
1 TTCTTCTT-TTTTCCTTCTTCTATC
15139065 TCTCTTC
1 T-TCTTC
15139072 ACTTGATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 9 0.33
25 8 0.30
26 10 0.37
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (24 bp):
TTCTTCTTTTTTCCTTCTTCTATC
Found at i:15140905 original size:3 final size:3
Alignment explanation
Indices: 15140897--15140930 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15140887 GACTTTTAAC
15140897 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15140931 ATTTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15143934 original size:15 final size:15
Alignment explanation
Indices: 15143914--15143945 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15143904 TATAGTACTT
15143914 TATGACATACATTGG
1 TATGACATACATTGG
*
15143929 TATGACTTACATTGG
1 TATGACATACATTGG
15143944 TA
1 TA
15143946 AAACAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (15 bp):
TATGACATACATTGG
Found at i:15148806 original size:15 final size:15
Alignment explanation
Indices: 15148786--15148815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15148776 CAAGTGGAAA
*
15148786 GATTTTCATGAATTG
1 GATTTTCAAGAATTG
15148801 GATTTTCAAGAATTG
1 GATTTTCAAGAATTG
15148816 ATGCATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
GATTTTCAAGAATTG
Found at i:15161853 original size:153 final size:153
Alignment explanation
Indices: 15161575--15161880 Score: 540
Period size: 153 Copynumber: 2.0 Consensus size: 153
15161565 CTTGTGAGCG
* * *
15161575 AGTGTTGTAACAATGACGAGTGGTCTGATCTATGTTTTCTTGATGGCCTAACTATCCTTGCATCT
1 AGTGTTGTAACAATGACGAGTGGTCTGATCTATATTTTCTTGATGGCCTAACTACCCTTGCACCT
15161640 AATTGAGTTAAAGGAAACTCTTTGAGATTTGTTATTTTAAGGTCTCTTTCTTTTAGTCACGATGT
66 AATTGAGTTAAAGGAAACTCTTTGAGATTTGTTATTTTAAGGTCTCTTTCTTTTAGTCACGATGT
15161705 ATTTTTTATTTTAAAATGAAACA
131 ATTTTTTATTTTAAAATGAAACA
*
15161728 AGTGTTGTAACGATGACGAGTGGTCTGATCTATATTTTCTTGATGGCCTAACTACCCTTGCACCT
1 AGTGTTGTAACAATGACGAGTGGTCTGATCTATATTTTCTTGATGGCCTAACTACCCTTGCACCT
* * *
15161793 GATTGAGTTAAAGGAAACTTTTTGAGATTTGTTATTTTGAGGTCTCTTTCTTTTAGTCACGATGT
66 AATTGAGTTAAAGGAAACTCTTTGAGATTTGTTATTTTAAGGTCTCTTTCTTTTAGTCACGATGT
*
15161858 ATTTTTTATTTTGAAATGAAACA
131 ATTTTTTATTTTAAAATGAAACA
15161881 CACATGTGAT
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 145 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (153 bp):
AGTGTTGTAACAATGACGAGTGGTCTGATCTATATTTTCTTGATGGCCTAACTACCCTTGCACCT
AATTGAGTTAAAGGAAACTCTTTGAGATTTGTTATTTTAAGGTCTCTTTCTTTTAGTCACGATGT
ATTTTTTATTTTAAAATGAAACA
Found at i:15168638 original size:21 final size:18
Alignment explanation
Indices: 15168612--15168652 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
15168602 TTTTCATTCA
15168612 TCAAATCATCAAATTTCTTTT
1 TCAAATCA--AAATTT-TTTT
15168633 TCAAATCAAAATTTTTTT
1 TCAAATCAAAATTTTTTT
15168651 TC
1 TC
15168653 TAAAAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
21 8 0.40
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
TCAAATCAAAATTTTTTT
Found at i:15171734 original size:14 final size:14
Alignment explanation
Indices: 15171717--15171743 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15171707 AATATTTTTT
15171717 AAAAAATTAATTTC
1 AAAAAATTAATTTC
15171731 AAAAAATTAATTT
1 AAAAAATTAATTT
15171744 TAAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAAATTAATTTC
Found at i:15172944 original size:24 final size:24
Alignment explanation
Indices: 15172913--15172961 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
15172903 TGATCCTCAC
*
15172913 CAGCAGCAACGCTAGGTTTAGATG
1 CAGCAGCAACGCTAGGTCTAGATG
15172937 CAGCAGCAACGCTAGGTCTAGATG
1 CAGCAGCAACGCTAGGTCTAGATG
15172961 C
1 C
15172962 TTAATCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (24 bp):
CAGCAGCAACGCTAGGTCTAGATG
Found at i:15172994 original size:2 final size:2
Alignment explanation
Indices: 15172987--15173039 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
15172977 GATGAATCTA
15172987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15173028 AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT
15173040 TACAGAATAC
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:15173479 original size:56 final size:57
Alignment explanation
Indices: 15173337--15173487 Score: 175
Period size: 56 Copynumber: 2.6 Consensus size: 57
15173327 TAAACCATTT
*
15173337 ATATATCTCTTTTTAAATTTAAAAATATATATAATTTAGATATATCTTTAACAATCTAGA
1 ATATATCTC-TTTTAAATTT-AAAA-ATATATAATTTAAATATATCTTTAACAATCTAGA
* * *
15173397 TATATGATCCCTTTTTAA---AAATATATATAATTTAAATATATCTTTAACAATCTAG-
1 -ATAT-ATCTCTTTTAAATTTAAAAATATATAATTTAAATATATCTTTAACAATCTAGA
*
15173452 ATATATCTGTTTTAAATTTAAAAATATATATATTTA
1 ATATATCTCTTTTAAATTTAAAAATATATA-ATTTA
15173488 TTTTTATACA
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
53 9 0.12
54 4 0.05
56 42 0.55
57 8 0.10
61 10 0.13
62 4 0.05
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (57 bp):
ATATATCTCTTTTAAATTTAAAAATATATAATTTAAATATATCTTTAACAATCTAGA
Found at i:15183800 original size:13 final size:12
Alignment explanation
Indices: 15183768--15183802 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
15183758 ATAATAATCA
15183768 ATAAAAATAATT
1 ATAAAAATAATT
15183780 ATACAAAATAATT
1 ATA-AAAATAATT
15183793 ATGAAAAATA
1 AT-AAAAATA
15183803 TATTTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 17 0.81
14 1 0.05
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
ATAAAAATAATT
Found at i:15184153 original size:52 final size:51
Alignment explanation
Indices: 15184067--15184170 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 51
15184057 TGGACAAGAA
* *
15184067 GACTTGTAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATA-ACAAGTTT
* *
15184119 GACTTGCAGAAGAAGAATTCTAAGA-AGAGAAGGATTCTTAATAACAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAG-AGGATTCTTAATAACAAGTTT
15184170 G
1 G
15184171 TATGGTTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
51 11 0.23
52 36 0.77
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (51 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAACAAGTTT
Found at i:15184410 original size:35 final size:35
Alignment explanation
Indices: 15184362--15184429 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
15184352 TGATGTATGA
* * *
15184362 GTGCATATAGGTATGTATTTGGTTGTGTTGAGAGG
1 GTGCACATAGGTATATATTTGGTTGGGTTGAGAGG
* * *
15184397 GTGCACATGGGTATATGTTTGTTTGGGTTGAGA
1 GTGCACATAGGTATATATTTGGTTGGGTTGAGA
15184430 ATACTCTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.19, C:0.04, G:0.37, T:0.40
Consensus pattern (35 bp):
GTGCACATAGGTATATATTTGGTTGGGTTGAGAGG
Found at i:15196028 original size:21 final size:20
Alignment explanation
Indices: 15195999--15196037 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15195989 TTGTTACTAT
15195999 TTATTTGTTTCATTTGTGCC
1 TTATTTGTTTCATTTGTGCC
*
15196019 TTATATTGTTTGATTTGTG
1 TTAT-TTGTTTCATTTGTG
15196038 TTATTAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.62
Consensus pattern (20 bp):
TTATTTGTTTCATTTGTGCC
Found at i:15212963 original size:21 final size:22
Alignment explanation
Indices: 15212922--15212963 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
15212912 TAAACAAAAC
*
15212922 AAAAATTTGACTATTTGTTTGT
1 AAAAATTTGACTATTTATTTGT
15212944 AAAAA-TTG-CTATTTAATTTG
1 AAAAATTTGACTATTT-ATTTG
15212964 ATTTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (22 bp):
AAAAATTTGACTATTTATTTGT
Found at i:15214065 original size:24 final size:27
Alignment explanation
Indices: 15214031--15214084 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
15214021 GAAAATTAAC
15214031 ATTGAAA-T-TATTCTTTTT-TATATA
1 ATTGAAATTATATTCTTTTTATATATA
* *
15214055 ATTGAAGTTATATTCTTTTTATATTTA
1 ATTGAAATTATATTCTTTTTATATATA
15214082 ATT
1 ATT
15214085 TACTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 1 0.04
26 10 0.40
27 8 0.32
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (27 bp):
ATTGAAATTATATTCTTTTTATATATA
Found at i:15217662 original size:8 final size:8
Alignment explanation
Indices: 15217649--15217710 Score: 72
Period size: 8 Copynumber: 7.8 Consensus size: 8
15217639 CATTCACTTT
*
15217649 TTTTTTTA
1 TTTTTTCA
**
15217657 TTTTTTTG
1 TTTTTTCA
15217665 TT-TTTCA
1 TTTTTTCA
15217672 TTTTTTCA
1 TTTTTTCA
15217680 TTTTTTTCA
1 -TTTTTTCA
*
15217689 TCTTTTCA
1 TTTTTTCA
15217697 TTTTTTCA
1 TTTTTTCA
15217705 TTTTTT
1 TTTTTT
15217711 TCAAGCATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
7 5 0.11
8 34 0.72
9 8 0.17
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:15217703 original size:25 final size:24
Alignment explanation
Indices: 15217649--15217713 Score: 96
Period size: 25 Copynumber: 2.7 Consensus size: 24
15217639 CATTCACTTT
* *
15217649 TTTTTTTATTTTTTT-GTTTTTCA
1 TTTTTTCATTTTTTTCATTTTTCA
15217672 TTTTTTCATTTTTTTCATCTTTTCA
1 TTTTTTCATTTTTTTCAT-TTTTCA
15217697 TTTTTTCATTTTTTTCA
1 TTTTTTCATTTTTTTCA
15217714 AGCATAGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 14 0.37
24 1 0.03
25 23 0.61
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTCATTTTTTTCATTTTTCA
Found at i:15217713 original size:17 final size:17
Alignment explanation
Indices: 15217648--15217710 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
15217638 TCATTCACTT
*
15217648 TTTTTTTTATTTTTT--
1 TTTTTTTCATTTTTTCA
*
15217663 TGTTTTTCATTTTTTCA
1 TTTTTTTCATTTTTTCA
*
15217680 TTTTTTTCATCTTTTCA
1 TTTTTTTCATTTTTTCA
15217697 -TTTTTTCATTTTTT
1 TTTTTTTCATTTTTT
15217711 TCAAGCATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.32
16 13 0.32
17 15 0.37
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTTCATTTTTTCA
Found at i:15224482 original size:58 final size:58
Alignment explanation
Indices: 15224355--15224866 Score: 665
Period size: 58 Copynumber: 8.7 Consensus size: 58
15224345 TCTTGTGCAG
* *
15224355 GGAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT-GAAAC-TTTATTTTCAA
*
15224415 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT-GAAACTTTATTTTCAA
15224473 GGAAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTC-CCAAAAATATTTTTTT-GAAACTTT-ATTTTCAA
*** * *
15224533 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAACTTTATTTTCAA
*
15224591 GGAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTT-ATTTTCAA
* ** * * *
15224650 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATCCTTTTTTGAAAATTTGTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAACTTTATTTTCAA
* *
15224708 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTT-ATTTTCAA
* ** * * *
15224767 GGAAAATTGATACTTTCAAC-TTTTCCTTAAAAACCTGTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAACTTTATTTTCAA
* *
15224825 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
15224867 TCGATTTTTA
Statistics
Matches: 396, Mismatches: 45, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
57 5 0.01
58 187 0.47
59 116 0.29
60 88 0.22
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTATTTTCAA
Found at i:15224656 original size:117 final size:118
Alignment explanation
Indices: 15224355--15224866 Score: 820
Period size: 117 Copynumber: 4.4 Consensus size: 118
15224345 TCTTGTGCAG
* * *
15224355 GGAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTTATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAA
* *
15224420 ATTGATACTTTCAACTTTTTCC-CAAAAAT-ATTTTTTTAGAAATTTATTTTTAA
66 ATTGATACTTTCAAC-TTTTCCTCAAAAATCCTTTTTTGA-AAATTTATTTTTAA
15224473 GGAAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTTC-CCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAA
* *
15224537 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAATTTTATTTTTAA
65 AATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
* *
15224591 GGAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTT-GAAACTTTGATTTTCAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAA
*
15224655 ATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTGTTTTTAA
66 ATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
*
15224708 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTCTTTGGAAACTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAA
*
15224772 ATTGATACTTTCAACTTTTCCTTAAAAA-CCTGTTTTTGAAAATTTATTTTTAA
66 ATTGATACTTTCAACTTTTCCTCAAAAATCCT-TTTTTGAAAATTTATTTTTAA
* *
15224825 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
15224867 TCGATTTTTA
Statistics
Matches: 367, Mismatches: 20, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
116 8 0.02
117 216 0.59
118 132 0.36
119 11 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
Found at i:15224918 original size:24 final size:22
Alignment explanation
Indices: 15224891--15224974 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 22
15224881 AAGAAAATAG
15224891 AATAATAAAAAAAATAAAAGTGAA
1 AATAA-AAAAAAAATAAAAGT-AA
*
15224915 AATAAATAAAAAAAT-AAAGAAA
1 AATAAA-AAAAAAATAAAAGTAA
* *
15224937 AAGTAAAACAAAAATAAAAATAA
1 AA-TAAAAAAAAAATAAAAGTAA
15224960 AATAAAGATAAAAAA
1 AATAAA-A-AAAAAA
15224975 GAATATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
22 15 0.30
23 17 0.34
24 18 0.36
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.14
Consensus pattern (22 bp):
AATAAAAAAAAAATAAAAGTAA
Found at i:15224928 original size:12 final size:12
Alignment explanation
Indices: 15224913--15225043 Score: 63
Period size: 12 Copynumber: 10.4 Consensus size: 12
15224903 AATAAAAGTG
15224913 AAAATAAATAAA
1 AAAATAAATAAA
*
15224925 AAAATAAA-GAA
1 AAAATAAATAAA
* *
15224936 AAAGTAAA-ACA
1 AAAATAAATAAA
*
15224947 AAAATAAA-AAT
1 AAAATAAATAAA
*
15224958 AAAATAAAGATAA
1 AAAATAAATA-AA
*
15224971 AAAAGAATATTAAA
1 AAAATAA-A-TAAA
15224985 TAAACCTCTAATAAAT-AA
1 -AAA-----A-TAAATAAA
15225003 AAAATAAATAAA
1 AAAATAAATAAA
*
15225015 AAAACAAATAAA
1 AAAATAAATAAA
*
15225027 CAAATAAATAAA
1 AAAATAAATAAA
*
15225039 TAAAT
1 AAAAT
15225044 TCAAAAAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
11 31 0.34
12 37 0.40
13 7 0.08
14 3 0.03
15 4 0.04
17 3 0.03
18 2 0.02
19 1 0.01
20 2 0.02
21 2 0.02
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:15224937 original size:11 final size:11
Alignment explanation
Indices: 15224899--15224973 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
15224889 AGAATAATAA
15224899 AAAAAATAAAAG
1 AAAAAAT-AAAG
** *
15224911 TGAAAATAAATA
1 AAAAAATAAA-G
15224923 AAAAAATAAAG
1 AAAAAATAAAG
*
15224934 AAAAAGTAAA-
1 AAAAAATAAAG
15224944 ACAAAAATAAA-
1 A-AAAAATAAAG
15224955 AATAAAATAAAG
1 AA-AAAATAAAG
15224967 ATAAAAA
1 A-AAAAA
15224974 AGAATATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
10 2 0.04
11 29 0.58
12 18 0.36
13 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (11 bp):
AAAAAATAAAG
Found at i:15224938 original size:29 final size:29
Alignment explanation
Indices: 15224883--15224966 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 29
15224873 TTTATTTAAA
*
15224883 GAAAATAGAATAATAAAAA-AAATAAAAGT
1 GAAAATA-AATAATAAAAATAAAAAAAAGT
15224912 GAAAATAAATAA-AAAAATAAAGAAAAAGT
1 GAAAATAAATAATAAAAATAAA-AAAAAGT
* *
15224941 -AAAACAAA-AATAAAAATAAAATAAAG
1 GAAAATAAATAATAAAAATAAAAAAAAG
15224967 ATAAAAAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
27 12 0.24
28 24 0.49
29 13 0.27
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.14
Consensus pattern (29 bp):
GAAAATAAATAATAAAAATAAAAAAAAGT
Found at i:15224944 original size:6 final size:5
Alignment explanation
Indices: 15224894--15224972 Score: 51
Period size: 5 Copynumber: 15.4 Consensus size: 5
15224884 AAAATAGAAT
15224894 AATAA AA-AA AATAA AAGTGAA AAT-A AAT-A AA-AA AATAA AGA-AA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA A-ATAA
*
15224937 AAGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AA-TAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
15224973 AAGAATATTA
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
4 15 0.25
5 21 0.34
6 21 0.34
7 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:15224944 original size:17 final size:16
Alignment explanation
Indices: 15224879--15224972 Score: 52
Period size: 17 Copynumber: 5.6 Consensus size: 16
15224869 GATTTTTATT
15224879 TAAAG-AAAATAGAATAA
1 TAAAGAAAAATA-AA-AA
*
15224896 TAAA-AAAAATAAAAG
1 TAAAGAAAAATAAAAA
*
15224911 TGAAA-ATAAATAAAAAAA
1 T-AAAGA-AAA-ATAAAAA
15224929 TAAAGAAAAAGTAAAACA
1 TAAAGAAAAA-TAAAA-A
* *
15224947 AAAATAAAAAT-AAAA
1 TAAAGAAAAATAAAAA
15224962 TAAAGATAAAA
1 TAAAGA-AAAA
15224973 AAGAATATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.11
16 14 0.23
17 24 0.39
18 16 0.26
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (16 bp):
TAAAGAAAAATAAAAA
Found at i:15224973 original size:17 final size:17
Alignment explanation
Indices: 15224900--15224973 Score: 71
Period size: 17 Copynumber: 4.3 Consensus size: 17
15224890 GAATAATAAA
15224900 AAAAATAAAAGTGAAA-AT
1 AAAAATAAAA-T-AAAGAT
*
15224918 AAATAAAAAAATAAAGA-
1 AAA-AATAAAATAAAGAT
* * *
15224935 AAAAGTAAAACAAAAAT
1 AAAAATAAAATAAAGAT
15224952 AAAAATAAAATAAAGAT
1 AAAAATAAAATAAAGAT
15224969 AAAAA
1 AAAAA
15224974 AGAATATTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
16 9 0.20
17 25 0.56
18 5 0.11
19 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAAATAAAATAAAGAT
Found at i:15225001 original size:4 final size:4
Alignment explanation
Indices: 15224994--15225043 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
15224984 ATAAACCTCT
* * *
15224994 AATA AATA AA-A AATA AATA AAAA AACA AATA AACA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
15225041 AAT
1 AAT
15225044 TCAAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 3 0.08
4 37 0.93
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:15225940 original size:22 final size:20
Alignment explanation
Indices: 15225852--15225943 Score: 71
Period size: 22 Copynumber: 4.3 Consensus size: 20
15225842 AATTTTCAGC
*
15225852 CAGATAAATAAAAAAAATAA
1 CAGATAAATAAAAAAATTAA
* * *
15225872 -AAAAAAATCAAACGAAAATAAA
1 CAGATAAAT-AAA--AAAATTAA
15225894 TCAGATAAATAAAAAAATTAA
1 -CAGATAAATAAAAAAATTAA
15225915 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAA-TAAAA--AAATTAA
15225937 CAGATAA
1 CAGATAA
15225944 TACATAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
19 6 0.11
20 11 0.19
21 12 0.21
22 16 0.28
23 6 0.11
24 6 0.11
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (20 bp):
CAGATAAATAAAAAAATTAA
Found at i:15226069 original size:6 final size:6
Alignment explanation
Indices: 15226058--15226129 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
15226048 ATACATATAT
* * * * *
15226058 AAAATA ATAATA AAAATA AAAATA CAAA-A AAAATG TAAATA CAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
15226104 AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
15226130 TGAAAGAGGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
5 13 0.24
6 41 0.76
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:15226076 original size:17 final size:17
Alignment explanation
Indices: 15226069--15226129 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
15226059 AAATAATAAT
15226069 AAAAATAAAAATACAAA
1 AAAAATAAAAATACAAA
**
15226086 AAAAATGTAAATACAAA
1 AAAAATAAAAATACAAA
15226103 AAAAATAAAAATA-AAA
1 AAAAATAAAAATACAAA
15226119 ATAAAATAAAA
1 A-AAAATAAAA
15226130 TGAAAGAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.10
17 35 0.90
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAATACAAA
Found at i:15226108 original size:11 final size:10
Alignment explanation
Indices: 15226014--15226129 Score: 54
Period size: 11 Copynumber: 10.6 Consensus size: 10
15226004 AATACCTAAG
15226014 ATAAAAAAATA
1 ATAAAAAAA-A
*
15226025 ATAAAAGAAA
1 ATAAAAAAAA
*
15226035 AGAAAAAAAA
1 ATAAAAAAAA
* * * *
15226045 TATATACATAT
1 -ATAAAAAAAA
*
15226056 ATAAAATAATA
1 ATAAAA-AAAA
15226067 ATAAAAATAAAA
1 AT-AAAA-AAAA
15226079 ATACAAAAAAA
1 ATA-AAAAAAA
15226090 ATGTAAATACAAAA
1 A--TAAA-A-AAAA
*
15226104 A-AAATAAAA
1 ATAAAAAAAA
15226113 ATAAAAATAAA
1 ATAAAAA-AAA
15226124 ATAAAA
1 ATAAAA
15226130 TGAAAGAGGA
Statistics
Matches: 79, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
9 5 0.06
10 17 0.22
11 34 0.43
12 15 0.19
13 3 0.04
14 5 0.06
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (10 bp):
ATAAAAAAAA
Done.