Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 165 of 168
Found at i:49674521 original size:20 final size:20
Alignment explanation
Indices: 49674492--49674535 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
49674482 TTAAATAAAT
**
49674492 AATTAAAAATCCATAAAAA-
1 AATTAAAAATAAATAAAAAC
49674511 AATTAAAAAATAAATAAAAAC
1 AATT-AAAAATAAATAAAAAC
49674532 AATT
1 AATT
49674536 TATTAAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (20 bp):
AATTAAAAATAAATAAAAAC
Found at i:49674529 original size:19 final size:18
Alignment explanation
Indices: 49674483--49674530 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
49674473 CAATAATAAT
*
49674483 TAAATAAATAATTAAAAA
1 TAAATAAAAAATTAAAAA
**
49674501 TCCATAAAAAAATTAAAAAA
1 TAAAT-AAAAAATT-AAAAA
49674521 TAAATAAAAA
1 TAAATAAAAA
49674531 CAATTTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 3 0.13
19 12 0.52
20 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAATAAAAAATTAAAAA
Found at i:49677756 original size:21 final size:21
Alignment explanation
Indices: 49677730--49677775 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
49677720 TTGATCACAT
*
49677730 GCAATGATACTGACAATAATG
1 GCAATGATACAGACAATAATG
**
49677751 GCAATGATACAGACGTTAATG
1 GCAATGATACAGACAATAATG
49677772 GCAA
1 GCAA
49677776 ATCTGATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (21 bp):
GCAATGATACAGACAATAATG
Found at i:49683075 original size:105 final size:104
Alignment explanation
Indices: 49682513--49683075 Score: 615
Period size: 105 Copynumber: 5.4 Consensus size: 104
49682503 AAGAGTGTTG
* *** * * ** *
49682513 TATGTGACAACATCAAATTCAATACCTTGTTTTCTCATCATGCCAACAATAACTTCAGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGCCAACAATATCTTCAGCTTTAGA
* * * *
49682578 AACCAACCTTTCTTGCAAAGCGCATTGATCAATGTATTA
66 AACCATCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
* * * * * *
49682617 TACGTGACAACATCAGGCTCGATGCCTTGCTTTCTCATCGTGTCAACAATAACTTCAGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGCCAACAATATCTTCAGCTTTAGA
* * *
49682682 AACCAT-CCTGTCCTTGCAAAGCACATCAATCAATGTATTA
66 AACCATCCCT-T-CTTGCAAAGCGCATCGATCAATGTACTA
* * * * *
49682722 TACGTGACAACATTAGGCTCAATGCCTTGCTTTGTCATTCTGCCAACAATACCTTCGGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGCCAACAATATCTTCAGCTTTAGA
* * * *
49682787 AACCATTCCCTTCTTGCAGAGAGCATCGATGAATATACTA
66 AACCA-TCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
* * * * *
49682827 CATGTGACAACATCAAGCTTAATGCCTTGCTTTGTCATTGTGCCAACAATATCTTCAGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGCCAACAATATCTTCAGCTTTAGA
** * *
49682892 AACCATTCCCTTCTTGCAAAGCGGGTCAATCAATATACTA
66 AACCA-TCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
* ** **
49682932 TATGTGACAACATTAGGCTCAATGCCTTGCTTTTTCATTGTGCCAAGGATATCTTTGGCTTTAGA
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGCCAACAATATCTTCAGCTTTAGA
* * *
49682997 AACCACTCCCTTCTTGCAAAGGGCATCGATCAATGTAGTG
66 AACCA-TCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
** *
49683037 TATGTGATGACATTAGGCTTAATGCCTTGCTTTCTCATT
1 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATT
49683076 TTGAAGAAGA
Statistics
Matches: 391, Mismatches: 64, Indels: 7
0.85 0.14 0.02
Matches are distributed among these distances:
103 2 0.01
104 62 0.16
105 322 0.82
106 2 0.01
107 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (104 bp):
TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGCCAACAATATCTTCAGCTTTAGA
AACCATCCCTTCTTGCAAAGCGCATCGATCAATGTACTA
Found at i:49697760 original size:12 final size:12
Alignment explanation
Indices: 49697743--49697768 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49697733 CTCCTCAAGA
49697743 ATATAATTAAGG
1 ATATAATTAAGG
49697755 ATATAATTAAGG
1 ATATAATTAAGG
49697767 AT
1 AT
49697769 TAAATATTTG
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:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (12 bp):
ATATAATTAAGG
Found at i:49697839 original size:29 final size:31
Alignment explanation
Indices: 49697783--49697857 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
49697773 TATTTGATTC
49697783 ATATATAAACT-TTAATTTAACGTGTAATT-T
1 ATATATAAA-TATTAATTTAACGTGTAATTAT
49697813 AATATATAAATATTAATTTAA-GT-TAATTAT
1 -ATATATAAATATTAATTTAACGTGTAATTAT
*
49697843 ATATATAAAAATTAA
1 ATATATAAATATTAA
49697858 ATTGTGGTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 19 0.46
30 4 0.10
31 18 0.44
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (31 bp):
ATATATAAATATTAATTTAACGTGTAATTAT
Found at i:49701250 original size:23 final size:24
Alignment explanation
Indices: 49701206--49701250 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
49701196 TAAGCTTTAG
*
49701206 ATTTATATGTTGACATATAATTGT
1 ATTTATATGTTGACATAAAATTGT
49701230 ATTTATTATG-TG-CATAAAATT
1 ATTTA-TATGTTGACATAAAATT
49701251 TTGAATGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTATATGTTGACATAAAATTGT
Found at i:49712968 original size:17 final size:17
Alignment explanation
Indices: 49712948--49712980 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49712938 TATATGTGTA
49712948 AATGTATTATACTTATG
1 AATGTATTATACTTATG
*
49712965 AATGTATTGTACTTAT
1 AATGTATTATACTTAT
49712981 AATAGTAAAA
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:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
AATGTATTATACTTATG
Found at i:49715870 original size:3 final size:3
Alignment explanation
Indices: 49715864--49715914 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
49715854 ATACTACTAC
*
49715864 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49715912 TAA
1 TAA
49715915 AAAATTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49716679 original size:11 final size:11
Alignment explanation
Indices: 49716663--49716728 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
49716653 ACCACTTTAA
49716663 TTTTAAAATAT
1 TTTTAAAATAT
49716674 TTTTAAAATACT
1 TTTTAAAATA-T
*
49716686 TTTT--ATTAT
1 TTTTAAAATAT
49716695 TTTT--AA-A-
1 TTTTAAAATAT
49716702 TTTTAAAATAT
1 TTTTAAAATAT
49716713 TTTTAAAATACT
1 TTTTAAAATA-T
49716725 TTTT
1 TTTT
49716729 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 8 0.17
10 4 0.09
11 20 0.43
12 10 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:49716696 original size:21 final size:21
Alignment explanation
Indices: 49716671--49716743 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
49716661 AATTTTAAAA
49716671 TATTTTTAAAATACTTTTTAT
1 TATTTTTAAAATACTTTTTAT
** *
49716692 TATTTTT-AAAT--TTTAAAA
1 TATTTTTAAAATACTTTTTAT
49716710 TATTTTTAAAATACTTTTT-T
1 TATTTTTAAAATACTTTTTAT
49716730 TAATTTTTAAAATA
1 T-ATTTTTAAAATA
49716744 ATGGTATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 11 0.26
19 4 0.10
20 5 0.12
21 22 0.52
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTTAAAATACTTTTTAT
Found at i:49716711 original size:39 final size:39
Alignment explanation
Indices: 49716661--49716740 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
49716651 GCACCACTTT
49716661 AATTTTAAAATATTTTTAAAATACTTTTTATT-ATTTTTA
1 AATTTTAAAATATTTTTAAAATACTTTTT-TTAATTTTTA
49716700 AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTA
1 AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTA
49716739 AA
1 AA
49716741 ATAATGGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (39 bp):
AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTA
Found at i:49716753 original size:22 final size:21
Alignment explanation
Indices: 49716711--49716753 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49716701 ATTTTAAAAT
* * *
49716711 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAATGTATTTA
49716732 ATTTTTAAAATAATGGTATTTA
1 ATTTTTAAAATAAT-GTATTTA
49716754 TTAAAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTTAAAATAATGTATTTA
Found at i:49716763 original size:17 final size:17
Alignment explanation
Indices: 49716732--49716764 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49716722 ACTTTTTTTA
49716732 ATTTTTAAAATAATGGT
1 ATTTTTAAAATAATGGT
49716749 ATTTATTAAAA-AATGG
1 ATTT-TTAAAATAATGG
49716765 GCCGGGCCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
ATTTTTAAAATAATGGT
Found at i:49719221 original size:105 final size:105
Alignment explanation
Indices: 49719057--49719276 Score: 244
Period size: 105 Copynumber: 2.1 Consensus size: 105
49719047 ATTTAATGTA
* * ** *
49719057 TTGCTTTCTCATTGTGTCAACAATATCTTCAACTTAAGAAATCAACATTTTCTTACAAAGCGCAT
1 TTGCTTTCTCATTGTGCCAACAATATCTTCAACTTAAGAAACCAACATTAACTTACAAAGAGCAT
* *
49719122 CAATCAATATACTATATGTGACAATATTAGGCACGATGCC
66 CAATCAATATACTATACGTGACAACATTAGGCACGATGCC
* * * * * * *
49719162 TTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATC-TCTAACTTGCAAAGAGTA
1 TTGCTTTCTCATTGTGCCAACAATATCTTCAACTTAAGAAACCAACAT-TAACTTACAAAGAGCA
* * ***
49719226 TCGATGAATATACTATACGTGACAACATTAGGCTTAATGCC
65 TCAATCAATATACTATACGTGACAACATTAGGCACGATGCC
*
49719267 TTGTTTTCTC
1 TTGCTTTCTC
49719277 TTATCTGTTT
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
104 1 0.01
105 92 0.99
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (105 bp):
TTGCTTTCTCATTGTGCCAACAATATCTTCAACTTAAGAAACCAACATTAACTTACAAAGAGCAT
CAATCAATATACTATACGTGACAACATTAGGCACGATGCC
Found at i:49723122 original size:14 final size:14
Alignment explanation
Indices: 49723103--49723130 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49723093 GCGTGTAACT
49723103 TTTGTTGATGTACA
1 TTTGTTGATGTACA
49723117 TTTGTTGATGTACA
1 TTTGTTGATGTACA
49723131 GAGACAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TTTGTTGATGTACA
Found at i:49726393 original size:30 final size:31
Alignment explanation
Indices: 49726329--49726395 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
49726319 TTAATAAATA
*
49726329 AAAAAT-ATATAAATGTATTAGATATTAAAT
1 AAAAATAATATAAATGTATTAGATATTAAAG
** *
49726359 AAAAATAATATAAATGTA-TATTTATTTAAG
1 AAAAATAATATAAATGTATTAGATATTAAAG
49726389 AAAAATA
1 AAAAATA
49726396 TAGGTGGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (31 bp):
AAAAATAATATAAATGTATTAGATATTAAAG
Found at i:49727225 original size:18 final size:18
Alignment explanation
Indices: 49727199--49727247 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
49727189 TAATTTTTTT
*
49727199 ATATTTTGGGCTTACATA
1 ATATATTGGGCTTACATA
* * *
49727217 ATATATTGGACCTATATA
1 ATATATTGGGCTTACATA
49727235 ATATATTGGGCTT
1 ATATATTGGGCTT
49727248 GTAATACTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (18 bp):
ATATATTGGGCTTACATA
Found at i:49727551 original size:17 final size:17
Alignment explanation
Indices: 49727529--49727575 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
49727519 AACATGTCAA
** *
49727529 AATAATCATCATTTAGG
1 AATAATCATCATCCAAG
*
49727546 AATAATTATCATCCAAG
1 AATAATCATCATCCAAG
49727563 AATAATCATCATC
1 AATAATCATCATC
49727576 TTATGTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (17 bp):
AATAATCATCATCCAAG
Found at i:49733343 original size:27 final size:27
Alignment explanation
Indices: 49733312--49733365 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
49733302 AGAATAGGAA
49733312 AGATATATAATATATTCCTAAATATAT
1 AGATATATAATATATTCCTAAATATAT
49733339 AGATATATAATATATTCCTAAATATAT
1 AGATATATAATATATTCCTAAATATAT
49733366 GCCTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (27 bp):
AGATATATAATATATTCCTAAATATAT
Found at i:49733377 original size:27 final size:27
Alignment explanation
Indices: 49733320--49733378 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
49733310 AAAGATATAT
* *
49733320 AATATATTCCTAAATATATAGATATAT
1 AATATATTCCTAAATATATAGATAAAA
*
49733347 AATATATTCCTAAATATAT-GCCTAAAA
1 AATATATTCCTAAATATATAG-ATAAAA
49733374 AATAT
1 AATAT
49733379 CCCACAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (27 bp):
AATATATTCCTAAATATATAGATAAAA
Found at i:49734423 original size:24 final size:24
Alignment explanation
Indices: 49734374--49734424 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
49734364 GCTAAAATCG
**
49734374 ATTTAAATAATAAAATATTTTTAA
1 ATTTAAATAATAAAATATTTAAAA
* *
49734398 ATTTAATTATTAAAATATTTAAAA
1 ATTTAAATAATAAAATATTTAAAA
49734422 ATT
1 ATT
49734425 AATATAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTAAATAATAAAATATTTAAAA
Found at i:49744140 original size:80 final size:81
Alignment explanation
Indices: 49743983--49744145 Score: 233
Period size: 80 Copynumber: 2.0 Consensus size: 81
49743973 CAAGAGCTTC
* * *
49743983 AAAATTTTGCAAGTACAAGTTAAATCATCGCTTAAAAGACTTAAATATTCAATTTAATAATTCAG
1 AAAATTTTGCAAGTACAAGTCAAATCACCGCTTAAAAGACTTAAATAGTCAATTTAATAATTCAG
49744048 TATCTTTTCCAAATTT
66 TATCTTTTCCAAATTT
* * *
49744064 AAAATTTTGCAAGTACAAGTCAAATCACCG-TCT-AAAGACTTCAATAGTCAATTTAATATTTTA
1 AAAATTTTGCAAGTACAAGTCAAATCACCGCT-TAAAAGACTTAAATAGTCAATTTAATAATTCA
49744127 GTAT-TTTTCCCAAATTT
65 GTATCTTTT-CCAAATTT
49744144 AA
1 AA
49744146 TACATGAGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
79 4 0.05
80 41 0.55
81 29 0.39
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTTTGCAAGTACAAGTCAAATCACCGCTTAAAAGACTTAAATAGTCAATTTAATAATTCAG
TATCTTTTCCAAATTT
Found at i:49745638 original size:31 final size:31
Alignment explanation
Indices: 49745603--49745667 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
49745593 TATAAGATGA
* * * * *
49745603 TCACTGAATTATTTAAAAGTTTTCATTTAAG
1 TCACTAAACTATTCAAAAGTTGTCACTTAAG
49745634 TCACTAAACTATTCAAAAGTTGTCACTTAAG
1 TCACTAAACTATTCAAAAGTTGTCACTTAAG
49745665 TCA
1 TCA
49745668 TTGGATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTGTCACTTAAG
Found at i:49771715 original size:18 final size:18
Alignment explanation
Indices: 49771692--49771728 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49771682 GCCGTTTCAC
*
49771692 CATCATAATCTTCTTCTT
1 CATCATAATCTTCATCTT
*
49771710 CATCATCATCTTCATCTT
1 CATCATAATCTTCATCTT
49771728 C
1 C
49771729 GTTGTTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (18 bp):
CATCATAATCTTCATCTT
Found at i:49780473 original size:38 final size:35
Alignment explanation
Indices: 49780392--49780475 Score: 89
Period size: 38 Copynumber: 2.3 Consensus size: 35
49780382 ATTTTATTAC
*
49780392 AATA-AAATATTTATTATATTTATTTGTATTTTTA
1 AATATAAATATTTATTATATTTATTAGTATTTTTA
* *
49780426 ATATAATAAATCATTTATTATATTTATAATAGTGTTTTTT
1 A-AT-ATAAAT-ATTTATTATATTTAT--TAGTATTTTTA
49780466 AATATAAATA
1 AATATAAATA
49780476 CTTTTTAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
34 1 0.02
35 2 0.05
36 1 0.02
37 5 0.12
38 21 0.51
39 2 0.05
40 9 0.22
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (35 bp):
AATATAAATATTTATTATATTTATTAGTATTTTTA
Found at i:49781273 original size:14 final size:15
Alignment explanation
Indices: 49781242--49781289 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
49781232 TCAAACCGAA
*
49781242 TTTTATTTTTAATAAT
1 TTTTAATTTT-ATAAT
49781258 TTTTAATTTT-TAA-
1 TTTTAATTTTATAAT
*
49781271 TTTTATTTTTATAAT
1 TTTTAATTTTATAAT
49781286 TTTT
1 TTTT
49781290 TAATAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 9 0.32
14 6 0.21
15 4 0.14
16 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTAATTTTATAAT
Found at i:49781302 original size:29 final size:29
Alignment explanation
Indices: 49781240--49781302 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
49781230 AATCAAACCG
**
49781240 AATTTTATTTTTAATAATTTTTAATTTTT
1 AATTTTATTTTTAATAATTTTTAATAATT
49781269 AATTTTATTTTT-ATAATTTTTTAATAATT
1 AATTTTATTTTTAATAA-TTTTTAATAATT
*
49781298 CATTT
1 AATTT
49781303 GATCGATCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
AATTTTATTTTTAATAATTTTTAATAATT
Found at i:49784268 original size:219 final size:220
Alignment explanation
Indices: 49783888--49784333 Score: 885
Period size: 219 Copynumber: 2.0 Consensus size: 220
49783878 CTGTCTCCAT
49783888 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
1 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
49783953 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
66 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
49784018 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTTATACTTAAGAACTAGGAACTCAAAA
131 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTTATACTTAAGAACTAGGAACTCAAAA
49784083 TTCAATAATCAACATATACAATAAA
196 TTCAATAATCAACATATACAATAAA
49784108 TTAATGACAAAAAATGGTCAG-AAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
1 TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
49784172 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
66 AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
49784237 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTTATACTTAAGAACTAGGAACTCAAAA
131 AACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTTATACTTAAGAACTAGGAACTCAAAA
49784302 TTCAATAATCAACATATACAATAAA
196 TTCAATAATCAACATATACAATAAA
49784327 TTAATGA
1 TTAATGA
49784334 AGAAAGGAAG
Statistics
Matches: 226, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
219 205 0.91
220 21 0.09
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (220 bp):
TTAATGACAAAAAATGGTCAGAAAAAAAATCACAAAATATGATTTTCATCTTCTTCAAAAGTACT
AAAACCATATAAATAATTATAACACATTAAAGCTAAAAACAATCAAAGTCCCACCTGCATCTTTA
AACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTTATACTTAAGAACTAGGAACTCAAAA
TTCAATAATCAACATATACAATAAA
Found at i:49784564 original size:195 final size:198
Alignment explanation
Indices: 49784212--49784611 Score: 560
Period size: 195 Copynumber: 2.0 Consensus size: 198
49784202 AGCTAAAAAC
***
49784212 AATCAAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAATTTTTTAAAAAATACCTTTACTT
1 AATCAAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTTAAAAAATACCTTTACTT
* *
49784277 ATACTTAAGAACTAGGAACTCAAAATTCAATAATCAACATATACAATAAATTAATGAAGAAAGGA
66 ATACTTAAGAACTACGAACTCAAAATT--AT-ATCAACATATACAATAAATTAATAAAGAAAGGA
49784342 AGAAAAACCCAGAAATTCAATCACAAAAAA-AGAGCTAAAAAAGCATCAAAACTAAAATAATAAT
128 AGAAAAACCCAGAAATTCAATCACAAAAAAGAGAGCTAAAAAAGCATCAAAA-T-AAA-AATAAT
49784406 AACTGGATT
190 AACTGGATT
* * * *
49784415 AATCAAAGTTCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTT-AAAGATCCCTTTATTT
1 AATCAAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTTAAAAAATACCTTTACTT
* * * * * *
49784479 CTACTTAATAACTACGAATTCAAAA-T-T-T-AACATATACAATAATTTGATAAAGAAATGAAGA
66 ATACTTAAGAACTACGAACTCAAAATTATATCAACATATACAATAAATTAATAAAGAAAGGAAGA
*
49784540 AAAACCCAGAAATTCAATCACAAAAAAGAGAGCTAAAAAAGCATCAAAATTAAAATAATAACTGG
131 AAAACCCAGAAATTCAATCACAAAAAAGAGAGCTAAAAAAGCATCAAAATAAAAATAATAACTGG
49784605 ATT
196 ATT
49784608 AATC
1 AATC
49784612 GAAGATTAAA
Statistics
Matches: 180, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
193 19 0.11
194 2 0.01
195 57 0.32
196 22 0.12
198 1 0.01
201 1 0.01
202 34 0.19
203 44 0.24
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (198 bp):
AATCAAAGTCCCACCTGCATCTTTAAACTCCAAATGGGGAAAAAATTTAAAAAATACCTTTACTT
ATACTTAAGAACTACGAACTCAAAATTATATCAACATATACAATAAATTAATAAAGAAAGGAAGA
AAAACCCAGAAATTCAATCACAAAAAAGAGAGCTAAAAAAGCATCAAAATAAAAATAATAACTGG
ATT
Found at i:49785184 original size:11 final size:11
Alignment explanation
Indices: 49785158--49785189 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
49785148 TTTTATCATT
49785158 TAATT-TTAAA
1 TAATTATTAAA
49785168 -AATTATTAAA
1 TAATTATTAAA
49785178 TAATTATTAAA
1 TAATTATTAAA
49785189 T
1 T
49785190 TATTTAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.20
10 5 0.25
11 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTATTAAA
Found at i:49785197 original size:16 final size:17
Alignment explanation
Indices: 49785155--49785210 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
49785145 TATTTTTATC
49785155 ATTTAATT-TTAAAAATT
1 ATTTAATTATT-AAAATT
49785172 ATTAAATAATTATT-AAATT
1 ATT---TAATTATTAAAATT
*
49785191 ATTTAATTGTTAAAATT
1 ATTTAATTATTAAAATT
49785208 ATT
1 ATT
49785211 ATTGTATAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 7 0.21
17 11 0.33
19 8 0.24
20 5 0.15
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTAATTATTAAAATT
Found at i:49789437 original size:2 final size:2
Alignment explanation
Indices: 49789430--49789465 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49789420 AGTTTTCCTC
49789430 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
49789466 TTATTAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:49791070 original size:37 final size:38
Alignment explanation
Indices: 49790968--49791082 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 38
49790958 ATTTCATGTA
**
49790968 TTATTATTTATTGTATGCTATTTTTAAACATATATTTCAT
1 TTATTATTTATTGTATATTATTTTTAAACA-ATATTT-AT
* * * *
49791008 ATATTA-TTA-T-TA-ATCAATTTCAAACAATATTT-T
1 TTATTATTTATTGTATATTATTTTTAAACAATATTTAT
49791041 TTATTATTTATTGTATATTATTTTTAAAC-ATATTTAT
1 TTATTATTTATTGTATATTATTTTTAAACAATATTTAT
49791078 ATTAT
1 -TTAT
49791083 AAATACGTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
33 6 0.10
34 3 0.05
35 7 0.12
36 17 0.29
37 13 0.22
38 5 0.08
39 3 0.05
40 5 0.08
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.57
Consensus pattern (38 bp):
TTATTATTTATTGTATATTATTTTTAAACAATATTTAT
Found at i:49791717 original size:22 final size:22
Alignment explanation
Indices: 49791692--49791756 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
49791682 AATGCTTGTT
49791692 TAAAGGATGATAATATGTTGAA
1 TAAAGGATGATAATATGTTGAA
* **
49791714 TAAA--A--ACAA-ATGCTTGTT
1 TAAAGGATGATAATATG-TTGAA
49791732 TAAAGGATGATAATATGTTGAA
1 TAAAGGATGATAATATGTTGAA
49791754 TAA
1 TAA
49791757 TATGAATACA
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
17 3 0.10
18 10 0.32
20 2 0.06
22 13 0.42
23 3 0.10
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.32
Consensus pattern (22 bp):
TAAAGGATGATAATATGTTGAA
Found at i:49791729 original size:40 final size:40
Alignment explanation
Indices: 49791674--49791756 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
49791664 CTTTTATGAG
49791674 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
1 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
49791714 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
1 TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
49791754 TAA
1 TAA
49791757 TATGAATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.33
Consensus pattern (40 bp):
TAAAAACAAATGCTTGTTTAAAGGATGATAATATGTTGAA
Found at i:49792539 original size:31 final size:31
Alignment explanation
Indices: 49792497--49792559 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
49792487 ATGAGTCAAG
*
49792497 TAAAAGAAATGTTGCCAAACTTGCTCACTCA
1 TAAAAGAAATGTTGCCAAACTTGCTCAATCA
* * *
49792528 TAAAAGGAATGTTGCTAAACTTGGTCAATCA
1 TAAAAGAAATGTTGCCAAACTTGCTCAATCA
49792559 T
1 T
49792560 TTCTAAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (31 bp):
TAAAAGAAATGTTGCCAAACTTGCTCAATCA
Found at i:49796119 original size:110 final size:110
Alignment explanation
Indices: 49795922--49796135 Score: 374
Period size: 110 Copynumber: 1.9 Consensus size: 110
49795912 TATGCTTGAA
*
49795922 CCACTAGTACTGACCACATCAGGAAAATGATTTTGCCAGTTGAGTGGAACGGGGAAAATTTGTCA
1 CCACTAGTACTGACCACATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
*
49795987 TCTAAGATTTAACAGAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
66 TCTAAGATTTAACACAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
*
49796032 CCACTAGTACTGACCGCATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
1 CCACTAGTACTGACCACATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
* * *
49796097 TCTAAGATTTAATACAGTACTCTTCCTCCCCTTTCCCTT
66 TCTAAGATTTAACACAGCACTCTTCCTCCCCTTCCCCTT
49796136 TCACTTCCTG
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 98 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (110 bp):
CCACTAGTACTGACCACATCAGGAAAATGATTTTGCCAGTTGAGTGGAACAGGGAAAATTTGTCA
TCTAAGATTTAACACAGCACTCTTCCTCCCCTTCCCCTTCCCCTT
Found at i:49805993 original size:9 final size:9
Alignment explanation
Indices: 49805975--49806005 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49805965 TTTGGTTAAA
*
49805975 AATTAACCG
1 AATTACCCG
49805984 AATTACCCG
1 AATTACCCG
49805993 AATTACCCG
1 AATTACCCG
49806002 AATT
1 AATT
49806006 GAATCACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:49806092 original size:37 final size:37
Alignment explanation
Indices: 49806004--49806078 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
49805994 ATTACCCGAA
* * *
49806004 TTGAATCACTACATAATTAAAAATATTACGTAAGTCT
1 TTGAATTACTACATAATTAAAAACATTACATAAGTCT
*
49806041 TTGAATTACTACATAATTAAAAACATTACATAATTCT
1 TTGAATTACTACATAATTAAAAACATTACATAAGTCT
49806078 T
1 T
49806079 GAAATTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.37
Consensus pattern (37 bp):
TTGAATTACTACATAATTAAAAACATTACATAAGTCT
Found at i:49806252 original size:38 final size:39
Alignment explanation
Indices: 49806208--49806285 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
49806198 ACTTAAGAGT
*
49806208 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
49806246 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
49806285 T
1 T
49806286 TGGGTTGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:49806284 original size:13 final size:13
Alignment explanation
Indices: 49806266--49806290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49806256 TTTTAGTTTT
49806266 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
49806279 ATTGGGTTGGGT
1 ATTGGGTTGGGT
49806291 TGGATAATTT
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:49811783 original size:24 final size:23
Alignment explanation
Indices: 49811745--49811791 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
49811735 TCACCCAATT
* *
49811745 ATAAATATATATAAAATGTATAAA
1 ATAAATAAATAT-AAATGGATAAA
*
49811769 ATAAATAAATTTAAATGGATAAA
1 ATAAATAAATATAAATGGATAAA
49811792 TCTCTTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (23 bp):
ATAAATAAATATAAATGGATAAA
Found at i:49812599 original size:24 final size:23
Alignment explanation
Indices: 49812555--49812607 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
49812545 AATATCTAAC
* *
49812555 AAATTTAAAAAATGTTTAATTTT
1 AAATTTAAAAAATATTCAATTTT
*
49812578 AAATTTCAATAAATATTCAA--TT
1 AAATTT-AAAAAATATTCAATTTT
49812600 AAATTTAA
1 AAATTTAA
49812608 TTTAAACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 8 0.31
23 6 0.23
24 10 0.38
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTTAAAAAATATTCAATTTT
Found at i:49821808 original size:34 final size:34
Alignment explanation
Indices: 49821770--49821842 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
49821760 GCCCGGCCCG
49821770 AATATAATAAATATATTTT-TATTTTTAATTTTAA
1 AATATAATAAATATATTTTAT-TTTTTAATTTTAA
*
49821804 AATATAATAAATATATTTTATTTTTTATTTTTAA
1 AATATAATAAATATATTTTATTTTTTAATTTTAA
49821838 AATAT
1 AATAT
49821843 TCTTTTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
AATATAATAAATATATTTTATTTTTTAATTTTAA
Found at i:49821869 original size:24 final size:27
Alignment explanation
Indices: 49821819--49821871 Score: 85
Period size: 24 Copynumber: 2.1 Consensus size: 27
49821809 AATAAATATA
49821819 TTTTATTTTTTATTTTTAAAATATTCT
1 TTTTATTTTTTATTTTTAAAATATTCT
49821846 TTTTA-TTTTTA-TTTT-AAATATTCT
1 TTTTATTTTTTATTTTTAAAATATTCT
49821870 TT
1 TT
49821872 GTGTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 11 0.42
25 4 0.15
26 6 0.23
27 5 0.19
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTATTTTTTATTTTTAAAATATTCT
Found at i:49823584 original size:30 final size:31
Alignment explanation
Indices: 49823544--49823606 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
49823534 TTTTAAAATA
49823544 AAAATAAATAAAAATTTTAACGAAAAAGACT
1 AAAATAAATAAAAATTTTAACGAAAAAGACT
49823575 AAAA-AAATAAAAATTTTAACGAAAAAGACT
1 AAAATAAATAAAAATTTTAACGAAAAAGACT
49823605 AA
1 AA
49823607 TTTATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (31 bp):
AAAATAAATAAAAATTTTAACGAAAAAGACT
Found at i:49823867 original size:42 final size:42
Alignment explanation
Indices: 49823807--49823906 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
49823797 TTTCCGCGAA
*
49823807 ATCGCGTCCACGTAAGCGCAATGTCAGGGTAAATGTCAGGAC
1 ATCGCGTCCACGTCAGCGCAATGTCAGGGTAAATGTCAGGAC
* *
49823849 ATCGCGTCCACGTCAGCGCGATGTCAGGGTACATGTCAGGAC
1 ATCGCGTCCACGTCAGCGCAATGTCAGGGTAAATGTCAGGAC
*
49823891 ATCGCGTCCATGTCAG
1 ATCGCGTCCACGTCAG
49823907 AGTGATTTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (42 bp):
ATCGCGTCCACGTCAGCGCAATGTCAGGGTAAATGTCAGGAC
Found at i:49823904 original size:19 final size:19
Alignment explanation
Indices: 49823839--49823906 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
49823829 GTCAGGGTAA
49823839 ATGTCAGGACATCGCGTCC
1 ATGTCAGGACATCGCGTCC
* * *
49823858 ACGTCAGCG-CGATGTCAGGGTAC
1 ATGTCAG-GAC-A--TC-GCGTCC
49823881 ATGTCAGGACATCGCGTCC
1 ATGTCAGGACATCGCGTCC
49823900 ATGTCAG
1 ATGTCAG
49823907 AGTGATTTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 18 0.49
20 4 0.11
22 4 0.11
23 11 0.30
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.21
Consensus pattern (19 bp):
ATGTCAGGACATCGCGTCC
Found at i:49836925 original size:292 final size:281
Alignment explanation
Indices: 49836328--49837452 Score: 1376
Period size: 270 Copynumber: 4.0 Consensus size: 281
49836318 AAATCCCAAA
* * * *
49836328 AGTATAATTGGTGCATAACAATATAGATTAGCAGTCAGGTTAGCAATTTAAACCCTAATAAGAAA
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTAA-AAAAAA
* * * * * * *
49836393 ACTCATAAAGGTCAATTCTTTTTTTCACAATCTTCGATCCTTCATTCAAACAAATCTCCCAAACC
65 AATCATAAAGGT-AAATCCTTTTTTCACATTCTTCGATCCCTCATTCAAACCAATCTCCTAAACC
* *
49836458 CCAAAACTAAT-AAATCACCATTAAAAAAGTAC--AAAAAAAAACAATTACTTTGAACTTA--AA
129 CC-AAACTAATAAAAAC-CCATTAAACAAGTACAAAAAAAAAAACAATTACTTTGAACTTATTAA
* * *
49836518 CACA-TAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACTTTAAAGCAAAATACCTTGAGG
192 AACACTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGG
* * * *
49836582 GTCTGATTGGAGTAGTAGATGGAGA
257 GTCTGATTGGAGGAGTGGATGAAGG
* * * *
49836607 AGTGTAACTGGTGCATAGCAAAATAAATTAACAGTCAGGTTAACAATTTAAACCCTAGCAAAAAA
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCT---AAAAAA
* *
49836672 ATAAATCGTATAGGTAAATCCTTTTTTCACATTCTTCGATCCCTCATTCAACGCAACCAATCTCC
63 A-AAATCATAAAGGTAAATCCTTTTTTCACATTCTTCGATCCCTCATTC-A---AACCAATCTCC
*
49836737 TAAAGCCCAAACTAAT-AAAACCCATTAAACAAGTACAAAAAAAAAAACAATTACTTTGAACTTA
123 TAAACCCCAAACTAATAAAAACCCATTAAACAAGTACAAAAAAAAAAACAATTACTTTGAACTT-
*
49836801 AAAGTTAAAACACTGAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACAGTT-AAGCAAAAT
187 --A-TTAAAACACTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACA-TTAAAGCAAAAT
49836865 ACCTCGAGGGTCTGATTGGAGGAGTGGATGAAGG
248 ACCTCGAGGGTCTGATTGGAGGAGTGGATGAAGG
49836899 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCT---------
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTAAAAAAAAA
*
49836955 A--AT-AA--T---T-CTTTTATTCACATTCTTCGATCCCTCATTCAAACCAATCTCCTACACCC
66 ATCATAAAGGTAAATCCTTTT-TTCACATTCTTCGATCCCTCATTCAAACCAATCTCCTAAACCC
49837011 CAAACTAATAAAAACCCATTAAACAAGTACAAAAAAAAAAAAACAATTACTTTGAACTTAAAAGT
130 CAAACTAATAAAAACCCATTAAACAAGTAC--AAAAAAAAAAACAATTACTTTGAACTT---A-T
* *
49837076 TAAAACACTAAAAAAAAATCAAATTAGAATCATTAAAAGAACAAACATTAAAGCAAAATACCTGG
189 TAAAACACTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCG
*
49837141 AGGGCCTGATTGGAGGAGTGGATGAAGG
254 AGGGTCTGATTGGAGGAGTGGATGAAGG
* *
49837169 AGTATAACTGGTGCATAACAAAATAAACTAGCAGTCAGGTTAGCAATTTAAACCCTAATAAAAAA
1 AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTAAAAAAAAA
* * **
49837234 ACCATAAAAGTCGATCCTTTTTTTTCACATTCTTCGATCCCTCATTCAATACAACCAATCTCCTA
66 ATCATAAAGGTAAATCC--TTTTTTCACATTCTTCGATCCCTCATTC---A-AACCAATCTCCTA
* *
49837299 AACCCCAAACTAATAAAAACCCATTAAAGAAGTACAAAAAAAAAAAC-ATTACTTCGAAC---TT
125 AACCCCAAACTAATAAAAACCCATTAAACAAGTACAAAAAAAAAAACAATTACTTTGAACTTATT
* * *
49837360 -AAACACTGAAAAAAAATCAAATTAGAACCGTTAAAAGAACAAGCATTAAAGCAAAATACCTCGA
190 AAAACACTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGA
49837424 GGGTCTGATTGGAGGAGTGGATGAAGG
255 GGGTCTGATTGGAGGAGTGGATGAAGG
49837451 AG
1 AG
49837453 GAGGAGGGCG
Statistics
Matches: 749, Mismatches: 50, Indels: 91
0.84 0.06 0.10
Matches are distributed among these distances:
267 25 0.03
268 20 0.03
269 2 0.00
270 180 0.24
271 25 0.03
274 1 0.00
276 1 0.00
277 1 0.00
279 51 0.07
281 36 0.05
282 102 0.14
283 16 0.02
284 13 0.02
285 41 0.05
287 1 0.00
288 2 0.00
289 24 0.03
290 15 0.02
291 17 0.02
292 128 0.17
293 48 0.06
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (281 bp):
AGTATAACTGGTGCATAACAAAATAAATTAGCAGTCAGGTTAGCAATTTAAACCCTAAAAAAAAA
ATCATAAAGGTAAATCCTTTTTTCACATTCTTCGATCCCTCATTCAAACCAATCTCCTAAACCCC
AAACTAATAAAAACCCATTAAACAAGTACAAAAAAAAAAACAATTACTTTGAACTTATTAAAACA
CTAAAAAAAAATCAAATTAGAACCATTAAAAGAACAAACATTAAAGCAAAATACCTCGAGGGTCT
GATTGGAGGAGTGGATGAAGG
Found at i:49840724 original size:31 final size:32
Alignment explanation
Indices: 49840677--49840736 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
49840667 CAAATTTAGC
*
49840677 AAGTAATAAATATTTAAA-TAAAATTTTAAAA
1 AAGTAAAAAATATTTAAATTAAAATTTTAAAA
* *
49840708 AAGTAAAAAATGTTTAAATTATAATTTTA
1 AAGTAAAAAATATTTAAATTAAAATTTTA
49840737 GTATTCGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (32 bp):
AAGTAAAAAATATTTAAATTAAAATTTTAAAA
Found at i:49843097 original size:24 final size:23
Alignment explanation
Indices: 49843064--49843108 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
49843054 ATGTTTGGTT
*
49843064 AAAATTGGGTTAATTTTTTTTTG
1 AAAATTGGGTTAAATTTTTTTTG
49843087 AAAATATGGGTTAAATTTTTTT
1 AAAAT-TGGGTTAAATTTTTTT
49843109 GGAATATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (23 bp):
AAAATTGGGTTAAATTTTTTTTG
Found at i:49843114 original size:22 final size:24
Alignment explanation
Indices: 49843064--49843119 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
49843054 ATGTTTGGTT
*
49843064 AAAAT-TGGGTTAATTTTTTTTTG
1 AAAATATGGGTTAATATTTTTTTG
49843087 AAAATATGGGTTAA-ATTTTTTTG
1 AAAATATGGGTTAATATTTTTTTG
*
49843110 -GAATATGGGT
1 AAAATATGGGT
49843120 GGGTTTGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 13 0.43
24 8 0.27
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (24 bp):
AAAATATGGGTTAATATTTTTTTG
Found at i:49843905 original size:11 final size:11
Alignment explanation
Indices: 49843889--49843915 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49843879 ACGTTTAATG
49843889 TAAAATAAACA
1 TAAAATAAACA
49843900 TAAAATAAACA
1 TAAAATAAACA
49843911 TAAAA
1 TAAAA
49843916 ATCAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAACA
Found at i:49848665 original size:16 final size:16
Alignment explanation
Indices: 49848644--49848677 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49848634 ATATATATTC
*
49848644 TTTTGAGATTAAGAGA
1 TTTTGAGATTAAAAGA
*
49848660 TTTTGATATTAAAAGA
1 TTTTGAGATTAAAAGA
49848676 TT
1 TT
49848678 GTCCTTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (16 bp):
TTTTGAGATTAAAAGA
Found at i:49851329 original size:29 final size:30
Alignment explanation
Indices: 49851270--49851330 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
49851260 TAAAATTAAA
***
49851270 AACTTTTGGATAGTTAAGTGACCATTTTGT
1 AACTTTTGGATAGTTAAGTGACCAAAATGT
* *
49851300 AACTTTTTGA-AGTTGAGTGACCAAAATGT
1 AACTTTTGGATAGTTAAGTGACCAAAATGT
49851329 AA
1 AA
49851331 ATTTACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (30 bp):
AACTTTTGGATAGTTAAGTGACCAAAATGT
Found at i:49856857 original size:19 final size:19
Alignment explanation
Indices: 49856815--49856873 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
49856805 ATTTTTTAAA
* *
49856815 ATTTAAAAAATTCAAAAACAT
1 ATTTTAAAAATT-AAAAA-TT
49856836 ATTTTAAAAATTAAAAATT
1 ATTTTAAAAATTAAAAATT
*
49856855 ATTAT-AAAATTATAAAATT
1 ATTTTAAAAATTA-AAAATT
49856874 TATAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.21
19 11 0.32
20 5 0.15
21 11 0.32
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTTAAAAATTAAAAATT
Found at i:49856878 original size:17 final size:17
Alignment explanation
Indices: 49856836--49856880 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
49856826 TCAAAAACAT
49856836 ATTTTA-AAAATTAAAA
1 ATTTTATAAAATTAAAA
49856852 ATTATTATAAAATTATAAA
1 ATT-TTATAAAATTA-AAA
49856871 A-TTTATAAAA
1 ATTTTATAAAA
49856881 GAAAATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 11 0.42
18 8 0.31
19 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTTATAAAATTAAAA
Found at i:49863585 original size:2 final size:2
Alignment explanation
Indices: 49863548--49863573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49863538 TCATACTAGT
49863548 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
49863574 ACTCTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49867284 original size:26 final size:26
Alignment explanation
Indices: 49867253--49867304 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
49867243 TCGAAAGAAG
*
49867253 AGTCGATTCCAAGAAAACATTGAAAA
1 AGTCGATTCCAAGAAAACATCGAAAA
49867279 AGTCGATTCCAAGAAAACATCGAAAA
1 AGTCGATTCCAAGAAAACATCGAAAA
49867305 CCCAAGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (26 bp):
AGTCGATTCCAAGAAAACATCGAAAA
Found at i:49879205 original size:142 final size:135
Alignment explanation
Indices: 49878972--49879414 Score: 421
Period size: 142 Copynumber: 3.2 Consensus size: 135
49878962 TTGGGGTGAT
* ** * * *
49878972 TAATGTCTATGTTACAAGACTCTGGTTTGTTTTTCTTTCAAAAAAG--T-CGTCATAGCTGAACC
1 TAATGTCGATGTTACTCGACTCGGGTTTGTTTTTCTTTCAAAAAAGTATATGTCATAGCCGAACC
* * * * *
49879034 TCATAGTTTAGGGAATAGGGTGCTACACTTGTAAACCTATGGAATTGGTGATTGATTACAGTTTG
66 TCATAGTTTTGGGACTA-GGTGTTACACTTGTAAACCTACGGAATTGATGATTGATTACAG-TTG
49879099 AGTAATCAA
129 -G-AATCAA
* *
49879108 T-ATTTGCGATTGATTACTCGATTCGGGTTTGTTTTTCTTTCAAAAAAGTTATATGTCATAGCCG
1 TAATGT-CGA-TG-TTACTCGACTCGGGTTTGTTTTTCTTTCAAAAAAG-TATATGTCATAGCCG
* *
49879172 AACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTGAACCTACGGAATTGATGATTGATTACCA
62 AACCTCATAGTTTTGGGACTAG-GTGTTACACTTGTAAACCTACGGAATTGATGATTGATTA-CA
* * *
49879237 GTTGGGATGAT
125 GTTGGAATCAA
* * * * * *
49879248 TAATGTCTATGTTACTTGACTCGGGTTTGTTTTTCTTT-GAAAAGGATACATGTCATAGCGGAAC
1 TAATGTCGATGTTACTCGACTCGGGTTTGTTTTTCTTTCAAAAAAG-TATATGTCATAGCCGAAC
* * * *
49879312 CTCGTAGTTTTGGGACTAGG-GTTACACTTGTAAAACTACAGAATTGATGATTGATTACCAATTG
65 CTCATAGTTTTGGGACTAGGTGTTACACTTGTAAACCTACGGAATTGATGATTGATTA-CAGTTG
* * *
49879376 GAGTGAT
129 GAATCAA
* * *
49879383 TAATGTCTATGCTACTCAGACTCGGATTTGTT
1 TAATGTCGATGTTACTC-GACTCGGGTTTGTT
49879415 CTGTCTCTAC
Statistics
Matches: 258, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
135 63 0.24
136 17 0.07
137 40 0.16
138 56 0.22
139 2 0.01
140 6 0.02
141 6 0.02
142 65 0.25
143 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (135 bp):
TAATGTCGATGTTACTCGACTCGGGTTTGTTTTTCTTTCAAAAAAGTATATGTCATAGCCGAACC
TCATAGTTTTGGGACTAGGTGTTACACTTGTAAACCTACGGAATTGATGATTGATTACAGTTGGA
ATCAA
Found at i:49879371 original size:135 final size:133
Alignment explanation
Indices: 49878948--49879414 Score: 476
Period size: 135 Copynumber: 3.4 Consensus size: 133
49878938 TTAATATTTG
* * * *
49878948 TGATTGATTACC-GATTGGGGTGATTAATGTCTATGTTACAAGACTCTGGTTTGTTTTTCTTTCA
1 TGATTGATTACCAG-TTGGAGTGATTAATGTCTATGTTACTAGACTCGGGTTTGTTTTTCTTTAA
* * * * *
49879012 AAA-A-AGTCGTCATAGCTGAACCTCATAGTTTAGGGAATAGGGTGCTACACTTGTAAACCTATG
65 AAAGATAAT-GTCATAGCCGAACCTCATAGTTTTGGGACTAGGGT--TACACTTGTAAACCTACG
*
49879075 GAATTGG
127 GAATTGA
* * * * * * *
49879082 TGATTGATTA-CAGTTTGAGTAATCAATATTTGCGATTGATTACTCGATTCGGGTTTGTTTTTCT
1 TGATTGATTACCAGTTGGAGTGAT-TA-ATGT-CTA-TG-TTACTAGACTCGGGTTTGTTTTTCT
* * *
49879146 TTCAAAAAAGTTATATGTCATAGCCGAACCTCATAGTTTTCGGACTAGAGTGTTACACTTGTGAA
61 TT--AAAAAGATA-ATGTCATAGCCGAACCTCATAGTTTTGGGACTAG-G-GTTACACTTGTAAA
49879211 CCTACGGAATTGA
121 CCTACGGAATTGA
*
49879224 TGATTGATTACCAGTTGG-GATGATTAATGTCTATGTTACTTGACTCGGGTTTGTTTTTCTTTGA
1 TGATTGATTACCAGTTGGAG-TGATTAATGTCTATGTTACTAGACTCGGGTTTGTTTTTCTTT-A
* * * * *
49879288 AAAGGATACATGTCATAGCGGAACCTCGTAGTTTTGGGACTAGGGTTACACTTGTAAAACTACAG
64 AAAAGATA-ATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGGTTACACTTGTAAACCTACGG
49879353 AATTGA
128 AATTGA
* * *
49879359 TGATTGATTACCAATTGGAGTGATTAATGTCTATGCTACTCAGACTCGGATTTGTT
1 TGATTGATTACCAGTTGGAGTGATTAATGTCTATGTTACT-AGACTCGGGTTTGTT
49879415 CTGTCTCTAC
Statistics
Matches: 275, Mismatches: 41, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
133 8 0.03
134 12 0.04
135 63 0.23
136 17 0.06
137 40 0.15
138 48 0.17
139 2 0.01
140 6 0.02
141 3 0.01
142 63 0.23
143 11 0.04
144 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (133 bp):
TGATTGATTACCAGTTGGAGTGATTAATGTCTATGTTACTAGACTCGGGTTTGTTTTTCTTTAAA
AAGATAATGTCATAGCCGAACCTCATAGTTTTGGGACTAGGGTTACACTTGTAAACCTACGGAAT
TGA
Found at i:49879975 original size:95 final size:95
Alignment explanation
Indices: 49879814--49880003 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
49879804 ACTGAAAACC
*
49879814 GAAAACCGAAGGAAACCGAAATGTTTGATTCGGTTTCAGTTCGGTTTTCATATTTCAGTATATGA
1 GAAAACCGAAGGAAACCGAAATGTTTGATTCAGTTTCAGTTCGGTTTTCATATTTCAGTATATGA
49879879 TTTGCAACAGTAGCTAATACATGTTTCTCT
66 TTTGCAACAGTAGCTAATACATGTTTCTCT
49879909 GAAAACCGAAGGAAACCGAAATGTTTGATTCAGTTTCAGTTCGGTTTTCATATTTCAGTATATGA
1 GAAAACCGAAGGAAACCGAAATGTTTGATTCAGTTTCAGTTCGGTTTTCATATTTCAGTATATGA
49879974 TTTGCAACAGTAGCTAATACATGTTTCTCT
66 TTTGCAACAGTAGCTAATACATGTTTCTCT
49880004 CTATTACCAC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (95 bp):
GAAAACCGAAGGAAACCGAAATGTTTGATTCAGTTTCAGTTCGGTTTTCATATTTCAGTATATGA
TTTGCAACAGTAGCTAATACATGTTTCTCT
Found at i:49882364 original size:21 final size:21
Alignment explanation
Indices: 49882338--49882390 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
49882328 TTTGGGAACA
49882338 TCACAAGCTGGAGCAGCTTGT
1 TCACAAGCTGGAGCAGCTTGT
49882359 TCACAAGCTGGAGCAGCTTGT
1 TCACAAGCTGGAGCAGCTTGT
*
49882380 TCACGAGCTGG
1 TCACAAGCTGG
49882391 TGTGCAGACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (21 bp):
TCACAAGCTGGAGCAGCTTGT
Found at i:49895391 original size:19 final size:19
Alignment explanation
Indices: 49895367--49895404 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49895357 GGAGGAGAAA
49895367 AGTAAGAACAGCTTCATTT
1 AGTAAGAACAGCTTCATTT
49895386 AGTAAGAACAGCTTCATTT
1 AGTAAGAACAGCTTCATTT
49895405 GGCGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
AGTAAGAACAGCTTCATTT
Found at i:49898262 original size:52 final size:52
Alignment explanation
Indices: 49898184--49898283 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
49898174 CCAGTTAAGC
49898184 ATATTGATACGGAGAAATGCATGTAAAGGCTTCATCATATGGACTATGGACT
1 ATATTGATACGGAGAAATGCATGTAAAGGCTTCATCATATGGACTATGGACT
49898236 ATATTGATACGGAGAAATGCATGTAAAGGCTTCATCATATGGACTATG
1 ATATTGATACGGAGAAATGCATGTAAAGGCTTCATCATATGGACTATG
49898284 TTACCCGAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (52 bp):
ATATTGATACGGAGAAATGCATGTAAAGGCTTCATCATATGGACTATGGACT
Found at i:49904980 original size:18 final size:18
Alignment explanation
Indices: 49904959--49905002 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
49904949 AAAATACCTC
49904959 TTTTT-TAATTTATAACTA
1 TTTTTATAATTTA-AACTA
*
49904977 TTTTTATATTTTAAACTA
1 TTTTTATAATTTAAACTA
*
49904995 ATTTTATA
1 TTTTTATA
49905003 GGATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTTAAACTA
Found at i:49942901 original size:54 final size:54
Alignment explanation
Indices: 49942819--49942976 Score: 235
Period size: 54 Copynumber: 2.9 Consensus size: 54
49942809 AAATTTAACC
* * *
49942819 CACATCTCGAAAGATAAACACCTTAATTACCAAGCTATCACGGGTTTACAAACT
1 CACATCTAGAAAGATAAACACCTTAATTACCAGGCTATCACGGGTTCACAAACT
** * *
49942873 CACATCTAGAAAGATAAACACCTTAATTATGAGGCTATCACGGATTCATAAACT
1 CACATCTAGAAAGATAAACACCTTAATTACCAGGCTATCACGGGTTCACAAACT
* *
49942927 CACGTCTGGAAAGATAAACACCTTAATTACCAGGCTATCACGGGTTCACA
1 CACATCTAGAAAGATAAACACCTTAATTACCAGGCTATCACGGGTTCACA
49942977 CATTATTTTC
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (54 bp):
CACATCTAGAAAGATAAACACCTTAATTACCAGGCTATCACGGGTTCACAAACT
Found at i:49946157 original size:23 final size:25
Alignment explanation
Indices: 49946124--49946174 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
49946114 TCTTTTAAAC
49946124 TTTTATGAA-TTTTAAGAA-TATATA
1 TTTTATGAATTTTTAAGAATTA-ATA
49946148 TTTTA-GAATTTTTAAGAATTAATA
1 TTTTATGAATTTTTAAGAATTAATA
49946172 TTT
1 TTT
49946175 CTAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 3 0.12
24 20 0.80
25 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTTATGAATTTTTAAGAATTAATA
Found at i:49948935 original size:42 final size:42
Alignment explanation
Indices: 49948874--49948955 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
49948864 TTAAAAAAAT
** *
49948874 GACCAATTTGTTCTATAATCTAACGTATAGGGACTAATTTAG
1 GACCAATTTACTCTATAATCTAACGTATAGGGACCAATTTAG
*
49948916 GACCAATTTACTCTTTAATCTAACGTATAGGGACCAATTT
1 GACCAATTTACTCTATAATCTAACGTATAGGGACCAATTT
49948956 GTCATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (42 bp):
GACCAATTTACTCTATAATCTAACGTATAGGGACCAATTTAG
Found at i:49965356 original size:107 final size:107
Alignment explanation
Indices: 49965161--49965363 Score: 262
Period size: 107 Copynumber: 1.9 Consensus size: 107
49965151 TTTTAAATTA
* ** * * **
49965161 ATCCGATATCTTTATATGAAACAAATTTGGCATGCAAACTCTATATGAGTATCATATAAAATATG
1 ATCCAATATCTTTATATGAAACAAATTTAACATACAAACTCTATATGAATAAAATATAAAATATG
** *
49965226 ACGGTTAAATCATTATGACATTAATGGTAAATTTTCGAATCG
66 ACGGTTAAATCATTAAAACATTAATGATAAATTTTCGAATCG
* * * *
49965268 ATCCAATATCTTTATATGAAACAAATTTAACGTACATACTTTATATGAATAAAATATGAAATATG
1 ATCCAATATCTTTATATGAAACAAATTTAACATACAAACTCTATATGAATAAAATATAAAATATG
* *
49965333 ACGGTTAAATTATTAAAATATTAATGATAAA
66 ACGGTTAAATCATTAAAACATTAATGATAAA
49965364 AAAAATAAGA
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
107 80 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (107 bp):
ATCCAATATCTTTATATGAAACAAATTTAACATACAAACTCTATATGAATAAAATATAAAATATG
ACGGTTAAATCATTAAAACATTAATGATAAATTTTCGAATCG
Found at i:49966151 original size:24 final size:24
Alignment explanation
Indices: 49966124--49966203 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
49966114 CCAAATTTTC
* *
49966124 CACCACCACTAGCTCTTCCACCTG
1 CACCACCTCTAGCTCCTCCACCTG
* * *
49966148 CACCTCCTCCAGCTCCTCCACCTA
1 CACCACCTCTAGCTCCTCCACCTG
* * * *
49966172 CGCCTCCTCTAGCACCACCACCTG
1 CACCACCTCTAGCTCCTCCACCTG
49966196 CACCACCT
1 CACCACCT
49966204 TTGACTCCTC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.19, C:0.55, G:0.07, T:0.19
Consensus pattern (24 bp):
CACCACCTCTAGCTCCTCCACCTG
Found at i:49966248 original size:18 final size:18
Alignment explanation
Indices: 49966225--49966337 Score: 73
Period size: 18 Copynumber: 6.3 Consensus size: 18
49966215 TTGGACACCT
* **
49966225 GCACCAGCTCCACCTTTA
1 GCACCAGCACCACCACTA
*
49966243 GCACCACCACCACCACTA
1 GCACCAGCACCACCACTA
* **
49966261 GCACCAGCACCAGCACCC
1 GCACCAGCACCACCACTA
* * * * *
49966279 CCACTAGCTCCACCTCCA
1 GCACCAGCACCACCACTA
* * *
49966297 GCACTAGCACTAGCACTA
1 GCACCAGCACCACCACTA
* *
49966315 GCACCAGCACCAGCACCA
1 GCACCAGCACCACCACTA
49966333 GCACC
1 GCACC
49966338 CCCACTAGCT
Statistics
Matches: 72, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 72 1.00
ACGTcount: A:0.28, C:0.50, G:0.12, T:0.10
Consensus pattern (18 bp):
GCACCAGCACCACCACTA
Found at i:49966265 original size:12 final size:12
Alignment explanation
Indices: 49966250--49966366 Score: 90
Period size: 12 Copynumber: 9.8 Consensus size: 12
49966240 TTAGCACCAC
49966250 CACCACCACTAG
1 CACCACCACTAG
* *
49966262 CACCAGCACCAG
1 CACCACCACTAG
*
49966274 CACCCCCACTAG
1 CACCACCACTAG
* * *
49966286 CTCCACCTCCAG
1 CACCACCACTAG
* *
49966298 CACTAGCACTAG
1 CACCACCACTAG
* * *
49966310 CACTAGCACCAG
1 CACCACCACTAG
* *
49966322 CACCAGCACCAG
1 CACCACCACTAG
*
49966334 CACCCCCACTAG
1 CACCACCACTAG
* *
49966346 CTCCACCGCTAG
1 CACCACCACTAG
49966358 CACCACCAC
1 CACCACCAC
49966367 CACCACCTAA
Statistics
Matches: 81, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 81 1.00
ACGTcount: A:0.28, C:0.51, G:0.12, T:0.09
Consensus pattern (12 bp):
CACCACCACTAG
Found at i:49966269 original size:24 final size:24
Alignment explanation
Indices: 49966244--49966373 Score: 116
Period size: 24 Copynumber: 5.4 Consensus size: 24
49966234 CCACCTTTAG
* *
49966244 CACCACCACCACCACTAGCACCAG
1 CACCAGCACCACCACTAGCACCAC
* *
49966268 CACCAGCACCCCCACTAGCTCCAC
1 CACCAGCACCACCACTAGCACCAC
* * * * *
49966292 CTCCAGCACTAGCACTAGCACTAG
1 CACCAGCACCACCACTAGCACCAC
* * *
49966316 CACCAGCACCAGCACCAGCACCCC
1 CACCAGCACCACCACTAGCACCAC
* * *
49966340 CACTAGCTCCACCGCTAGCACCAC
1 CACCAGCACCACCACTAGCACCAC
*
49966364 CACCACCACC
1 CACCAGCACC
49966374 TAATCCACCC
Statistics
Matches: 80, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.28, C:0.53, G:0.11, T:0.08
Consensus pattern (24 bp):
CACCAGCACCACCACTAGCACCAC
Found at i:49966271 original size:42 final size:42
Alignment explanation
Indices: 49966220--49966366 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 42
49966210 CCTCCTTGGA
* * **
49966220 CACCTGCACCAGCTCCACCTTTAGCACCACCACCACCACTAG
1 CACCAGCACCAGCACCACCACTAGCACCACCACCACCACTAG
* * * *
49966262 CACCAGCACCAGCACCCCCACTAGCTCCACCTCCAGCACTAG
1 CACCAGCACCAGCACCACCACTAGCACCACCACCACCACTAG
* * * * * *
49966304 CACTAGCACTAGCACCAGCACCAGCACCAGCACCCCCACTAG
1 CACCAGCACCAGCACCACCACTAGCACCACCACCACCACTAG
* * * *
49966346 CTCCACCGCTAGCACCACCAC
1 CACCAGCACCAGCACCACCAC
49966367 CACCACCTAA
Statistics
Matches: 82, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.27, C:0.51, G:0.12, T:0.10
Consensus pattern (42 bp):
CACCAGCACCAGCACCACCACTAGCACCACCACCACCACTAG
Found at i:49966298 original size:30 final size:30
Alignment explanation
Indices: 49966262--49966372 Score: 123
Period size: 30 Copynumber: 3.7 Consensus size: 30
49966252 CCACCACTAG
*
49966262 CACCAGCACCAGCACCCCCACTAGCTCCAC
1 CACCAGCACCAGCACCACCACTAGCTCCAC
* * * * * *
49966292 CTCCAGCACTAGCACTAGCACTAGCACCAG
1 CACCAGCACCAGCACCACCACTAGCTCCAC
*
49966322 CACCAGCACCAGCACCCCCACTAGCTCCAC
1 CACCAGCACCAGCACCACCACTAGCTCCAC
* * *
49966352 CGCTAGCACCACCACCACCAC
1 CACCAGCACCAGCACCACCAC
49966373 CTAATCCACC
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.28, C:0.52, G:0.12, T:0.08
Consensus pattern (30 bp):
CACCAGCACCAGCACCACCACTAGCTCCAC
Found at i:49966305 original size:6 final size:6
Alignment explanation
Indices: 49966294--49966337 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
49966284 AGCTCCACCT
* * *
49966294 CCAGCA CTAGCA CTAGCA CTAGCA CCAGCA CCAGCA CCAGCA CC
1 CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CC
49966338 CCCACTAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.32, C:0.45, G:0.16, T:0.07
Consensus pattern (6 bp):
CCAGCA
Found at i:49966550 original size:78 final size:78
Alignment explanation
Indices: 49966333--49966534 Score: 379
Period size: 78 Copynumber: 2.6 Consensus size: 78
49966323 ACCAGCACCA
*
49966333 GCACCCCCACTAGCTCCACCGCTAGCACCACCACCACCACCTAATCCACCCCCACCGCCGCCACC
1 GCACCCCCACCAGCTCCACCGCTAGCACCACCACCACCACCTAATCCACCCCCACCGCCGCCACC
49966398 GAGCCCTCCTCCT
66 GAGCCCTCCTCCT
49966411 GCACCCCCACCAGCTCCACCGCTAGCACCACCACCACCACCTAATCCACCCCCACCGCCGCCACC
1 GCACCCCCACCAGCTCCACCGCTAGCACCACCACCACCACCTAATCCACCCCCACCGCCGCCACC
49966476 GAGCCCTCCTCCT
66 GAGCCCTCCTCCT
*
49966489 GCACCCCCACCAGCTCCACCTCTAGCACCACCACCACCA-CTAATCC
1 GCACCCCCACCAGCTCCACCGCTAGCACCACCACCACCACCTAATCC
49966535 CTACTCCAAA
Statistics
Matches: 122, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
77 7 0.06
78 115 0.94
ACGTcount: A:0.22, C:0.59, G:0.09, T:0.10
Consensus pattern (78 bp):
GCACCCCCACCAGCTCCACCGCTAGCACCACCACCACCACCTAATCCACCCCCACCGCCGCCACC
GAGCCCTCCTCCT
Found at i:49968006 original size:2 final size:2
Alignment explanation
Indices: 49967999--49968024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49967989 TAACTTTTAA
49967999 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
49968025 TATTTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49969615 original size:27 final size:29
Alignment explanation
Indices: 49969584--49969639 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
49969574 TTTATTTAAT
*
49969584 TTATATAATATAATACAAT-ATAT-TATA
1 TTATATAATATAATAAAATAATATATATA
*
49969611 TTATATTATATAATAAAATAATATATATA
1 TTATATAATATAATAAAATAATATATATA
49969640 AAACATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.68
28 4 0.16
29 4 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TTATATAATATAATAAAATAATATATATA
Found at i:49970134 original size:59 final size:58
Alignment explanation
Indices: 49969999--49970153 Score: 229
Period size: 58 Copynumber: 2.7 Consensus size: 58
49969989 TTTTGGCTGT
* *
49969999 CCAACTATGAAAAGTTACAAACTAGTTACTCAACTATTAGTAAAAAAAATTTGACCAC
1 CCAACTATGAAAAGTTACAAACTGGTCACTCAACTATTAGTAAAAAAAATTTGACCAC
* * *
49970057 TCAACTATGAAAAGTTACAAGCTGGTCACTCAACTATTAGTAAAAAAAATTTTGATCAC
1 CCAACTATGAAAAGTTACAAACTGGTCACTCAACTATTAGTAAAAAAAA-TTTGACCAC
* * *
49970116 CCAACTATGAAAAATTACAAAATGGTCACCCAACTATT
1 CCAACTATGAAAAGTTACAAACTGGTCACTCAACTATT
49970154 CAATTTTGTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 45 0.52
59 41 0.48
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (58 bp):
CCAACTATGAAAAGTTACAAACTGGTCACTCAACTATTAGTAAAAAAAATTTGACCAC
Found at i:49970424 original size:17 final size:17
Alignment explanation
Indices: 49970399--49970436 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49970389 TCTCTTTTTC
*
49970399 TTTTTCTTT-TTTTTCAG
1 TTTTACTTTATTTTT-AG
49970416 TTTTACTTTATTTTTAG
1 TTTTACTTTATTTTTAG
49970433 TTTT
1 TTTT
49970437 TACTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTACTTTATTTTTAG
Found at i:49970437 original size:18 final size:18
Alignment explanation
Indices: 49970399--49970440 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
49970389 TCTCTTTTTC
49970399 TTTTT-CTTTTTTTTCAG
1 TTTTTACTTTTTTTTCAG
49970416 -TTTTACTTTATTTTT-AG
1 TTTTTACTTT-TTTTTCAG
49970433 TTTTTACT
1 TTTTTACT
49970441 ATTAAAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 12 0.55
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTACTTTTTTTTCAG
Found at i:49971288 original size:3 final size:3
Alignment explanation
Indices: 49971273--49971388 Score: 83
Period size: 3 Copynumber: 35.7 Consensus size: 3
49971263 TCCAATTCCT
* *
49971273 CCA CCA GCA CCA CCA CCGAA TCCA CCA CCA CCA CCA CCA CCA -AA CCCA
1 CCA CCA CCA CCA CCA CC--A -CCA CCA CCA CCA CCA CCA CCA CCA -CCA
*
49971321 CCA CCA CCA CCA CCA CCGAA TCCA CCA CCA CCA CCGAA TCCA CCA CCT
1 CCA CCA CCA CCA CCA CC--A -CCA CCA CCA CCA CC--A -CCA CCA CCA
*
49971369 CCA CCT CCA CC- CGCA CCA CC
1 CCA CCA CCA CCA C-CA CCA CC
49971389 TCCAATTCCT
Statistics
Matches: 92, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
2 2 0.02
3 76 0.83
4 5 0.05
5 3 0.03
6 6 0.07
ACGTcount: A:0.31, C:0.60, G:0.04, T:0.04
Consensus pattern (3 bp):
CCA
Found at i:49971303 original size:18 final size:18
Alignment explanation
Indices: 49971280--49971373 Score: 112
Period size: 18 Copynumber: 5.6 Consensus size: 18
49971270 CCTCCACCAG
49971280 CACCACCACCGAATCCAC
1 CACCACCACCGAATCCAC
49971298 CACCACCACC--A-CCAC
1 CACCACCACCGAATCCAC
*
49971313 CA-AACCCACC--A-CCAC
1 CACCA-CCACCGAATCCAC
49971328 CACCACCACCGAATCCAC
1 CACCACCACCGAATCCAC
49971346 CACCACCACCGAATCCAC
1 CACCACCACCGAATCCAC
*
49971364 CACCTCCACC
1 CACCACCACC
49971374 TCCACCCGCA
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.01
15 23 0.34
16 2 0.03
17 1 0.01
18 41 0.60
ACGTcount: A:0.33, C:0.60, G:0.03, T:0.04
Consensus pattern (18 bp):
CACCACCACCGAATCCAC
Found at i:49971379 original size:24 final size:24
Alignment explanation
Indices: 49971273--49971355 Score: 139
Period size: 24 Copynumber: 3.5 Consensus size: 24
49971263 TCCAATTCCT
*
49971273 CCACCAGCACCACCACCGAATCCA
1 CCACCACCACCACCACCGAATCCA
* *
49971297 CCACCACCACCACCACCAAACCCA
1 CCACCACCACCACCACCGAATCCA
49971321 CCACCACCACCACCACCGAATCCA
1 CCACCACCACCACCACCGAATCCA
49971345 CCACCACCACC
1 CCACCACCACC
49971356 GAATCCACCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.34, C:0.60, G:0.04, T:0.02
Consensus pattern (24 bp):
CCACCACCACCACCACCGAATCCA
Found at i:49971415 original size:42 final size:42
Alignment explanation
Indices: 49971359--49971476 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
49971349 CACCACCGAA
* * * * **
49971359 TCCACCACCTCCACCTCCACCCGCACCACCTCCAATTCCTCC
1 TCCAACACCACCACCTGCACCCGCACCACCACCAAGCCCTCC
* *
49971401 TCCAACTCCACCACCTGCACCAC-CCCCACCACCAAGCCCTCC
1 TCCAACACCACCACCTGCACC-CGCACCACCACCAAGCCCTCC
* * *
49971443 TCCAACACCGCCACCTGCTCCAGCACCACCACCA
1 TCCAACACCACCACCTGCACCCGCACCACCACCA
49971477 GCTCCAGCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.60, G:0.05, T:0.12
Consensus pattern (42 bp):
TCCAACACCACCACCTGCACCCGCACCACCACCAAGCCCTCC
Found at i:49971463 original size:18 final size:18
Alignment explanation
Indices: 49971442--49971500 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
49971432 CCAAGCCCTC
* * *
49971442 CTCCAACACCGCCACCTG
1 CTCCAGCACCACCACCAG
49971460 CTCCAGCACCACCACCAG
1 CTCCAGCACCACCACCAG
49971478 CTCCAGCACCACCACCAG
1 CTCCAGCACCACCACCAG
49971496 CTCCA
1 CTCCA
49971501 CCTCCTAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.25, C:0.56, G:0.10, T:0.08
Consensus pattern (18 bp):
CTCCAGCACCACCACCAG
Found at i:49971536 original size:54 final size:54
Alignment explanation
Indices: 49971478--49971708 Score: 272
Period size: 48 Copynumber: 4.5 Consensus size: 54
49971468 CCACCACCAG
49971478 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTC
* * *
49971532 CTCCAGCACCCCCACCGGCTCCTCCTCCTAAA-C--CACCA---CCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTC
*
49971580 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTC
* * * *
49971634 CTCCAGCACCACCACCTA-ATCCACC-CC--CACCGCCGCCACCG--AA-CCCTC
1 CTCCAGCACCACCACC-AGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTC
* *
49971682 CTCCTGCACCCCCACCAGCTCCACCTC
1 CTCCAGCACCACCACCAGCTCCACCTC
49971709 TAGCACCACC
Statistics
Matches: 153, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
47 1 0.01
48 64 0.42
49 4 0.03
51 19 0.12
53 3 0.02
54 61 0.40
55 1 0.01
ACGTcount: A:0.22, C:0.58, G:0.10, T:0.10
Consensus pattern (54 bp):
CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTC
Found at i:49971673 original size:102 final size:102
Alignment explanation
Indices: 49971478--49971708 Score: 322
Period size: 102 Copynumber: 2.3 Consensus size: 102
49971468 CCACCACCAG
*
49971478 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTCCTCCAGCACCC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTCCTCCAGCACCA
** * *
49971543 CCACCGGCTCCTCCTCCTAAACCACCACC-AAGCCCTC
66 CCACCGAATCCACCTCCCAAACCACCACCGAA-CCCTC
*
49971580 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCA
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTCCTCCAGCACCA
* ** *
49971645 CCACCTAATCCACC-CCCACCGCCGCCACCGAACCCTC
66 CCACCGAATCCACCTCCCA-AACCACCACCGAACCCTC
* *
49971682 CTCCTGCACCCCCACCAGCTCCACCTC
1 CTCCAGCACCACCACCAGCTCCACCTC
49971709 TAGCACCACC
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
101 3 0.03
102 110 0.96
103 2 0.02
ACGTcount: A:0.22, C:0.58, G:0.10, T:0.10
Consensus pattern (102 bp):
CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCACCGCCAAGCCCTCCTCCAGCACCA
CCACCGAATCCACCTCCCAAACCACCACCGAACCCTC
Found at i:49973764 original size:9 final size:9
Alignment explanation
Indices: 49973729--49973832 Score: 50
Period size: 9 Copynumber: 11.2 Consensus size: 9
49973719 TCCTCCAATT
49973729 CCTCCACCA
1 CCTCCACCA
* *
49973738 GCACCACCA
1 CCTCCACCA
49973747 CCGAATCCACCA
1 CC---TCCACCA
49973759 CCTCCACCTA
1 CCTCCACC-A
* *
49973769 -CACCTCCA
1 CCTCCACCA
49973777 CC-CGCACCA
1 CCTC-CACCA
***
49973786 CCTCCAATT
1 CCTCCACCA
*
49973795 CCTCCTCCA
1 CCTCCACCA
*
49973804 ACTCCACCA
1 CCTCCACCA
*
49973813 CCTGCACCA
1 CCTCCACCA
*
49973822 CCCCCACCA
1 CCTCCACCA
49973831 CC
1 CC
49973833 AAGCCCTCCT
Statistics
Matches: 68, Mismatches: 20, Indels: 14
0.67 0.20 0.14
Matches are distributed among these distances:
8 2 0.03
9 56 0.82
10 2 0.03
12 8 0.12
ACGTcount: A:0.24, C:0.61, G:0.04, T:0.12
Consensus pattern (9 bp):
CCTCCACCA
Found at i:49973856 original size:42 final size:42
Alignment explanation
Indices: 49973781--49973875 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
49973771 CCTCCACCCG
* ** *
49973781 CACCACCTCCAATTCCTCCTCCAACTCCACCACCTGCACCAC
1 CACCACCACCAAGCCCTCCTCCAACACCACCACCTGCACCAC
* * * * *
49973823 CCCCACCACCAAGCCCTCCTCCAAGACCGCCACCTGCTCCAG
1 CACCACCACCAAGCCCTCCTCCAACACCACCACCTGCACCAC
49973865 CACCACCACCA
1 CACCACCACCA
49973876 GCTCCACCTC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.58, G:0.06, T:0.12
Consensus pattern (42 bp):
CACCACCACCAAGCCCTCCTCCAACACCACCACCTGCACCAC
Found at i:49973921 original size:24 final size:24
Alignment explanation
Indices: 49973894--49974128 Score: 133
Period size: 24 Copynumber: 9.5 Consensus size: 24
49973884 TCCTAAACCG
*
49973894 GCACCCCCGCCAAGCCCTCCTCCA
1 GCACCCCCACCAAGCCCTCCTCCA
*
49973918 GCACCCCCACC-GGCTCCTCCTCCTA
1 GCACCCCCACCAAGC-CCTCCTCC-A
* *
49973943 -AACCACCACCAAGCCCTCCTCCA
1 GCACCCCCACCAAGCCCTCCTCCA
* * *
49973966 GCACCACCACC-CGCTCCACCTCCTAAACCG
1 GCACCCCCACCAAG---C-CCTCCT---CCA
*
49973996 GCACCCCCGCCAAGCCCTCCTCCA
1 GCACCCCCACCAAGCCCTCCTCCA
* *
49974020 GCACCACCACCTAATCCAC-CC-CCA
1 GCACCCCCACC-AAGCC-CTCCTCCA
* * * * *
49974044 CCGCCGCCACCGAGCCCTCCTCCT
1 GCACCCCCACCAAGCCCTCCTCCA
*
49974068 GCACCCCCACC-AGCTCCACCTCCTA
1 GCACCCCCACCAAGC-CCTCCTCC-A
* *
49974093 -AACCACCACCAAGCCCTCCTCCA
1 GCACCCCCACCAAGCCCTCCTCCA
*
49974116 GCACCACCACCAA
1 GCACCCCCACCAA
49974129 AACCACCACC
Statistics
Matches: 161, Mismatches: 30, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.01
23 13 0.08
24 108 0.67
25 12 0.07
26 2 0.01
27 12 0.07
28 1 0.01
30 11 0.07
31 1 0.01
ACGTcount: A:0.22, C:0.59, G:0.09, T:0.10
Consensus pattern (24 bp):
GCACCCCCACCAAGCCCTCCTCCA
Found at i:49973982 original size:102 final size:102
Alignment explanation
Indices: 49973859--49974140 Score: 353
Period size: 102 Copynumber: 2.8 Consensus size: 102
49973849 CCGCCACCTG
*
49973859 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCA
** * *
49973924 CCACCGGCTCCTCCTCCTA-AACCACCACCAAGCCCTC
66 CCACCGAATCCACC-CCCACAACCACCACCAAGCCCTC
*
49973961 CTCCAGCACCACCACCCGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCA
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCA
* ** * *
49974026 CCACCTAATCCACCCCCACCGCCGCCACCGAGCCCTC
66 CCACCGAATCCACCCCCACAACCACCACCAAGCCCTC
* * *
49974063 CTCCTGCACCCCCACCAGCTCCACCTCCTAAA-C--CA---CCACCAAGCCCTCCTCCAGCACCA
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCA
* *
49974122 CCACCAAAACCACCACCCA
66 CCACCGAATCCACC-CCCA
49974141 AATTCTCCTT
Statistics
Matches: 161, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
96 35 0.22
97 4 0.02
99 2 0.01
101 4 0.02
102 116 0.72
ACGTcount: A:0.23, C:0.59, G:0.09, T:0.10
Consensus pattern (102 bp):
CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTCCTCCAGCACCA
CCACCGAATCCACCCCCACAACCACCACCAAGCCCTC
Found at i:49974135 original size:48 final size:48
Alignment explanation
Indices: 49973859--49974127 Score: 272
Period size: 48 Copynumber: 5.4 Consensus size: 48
49973849 CCGCCACCTG
*
49973859 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAA-C--CA---CCACCAAGCCCTC
* * *
49973913 CTCCAGCACCCCCACCGGCTCCTCCTCCTAAACCACCACCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCACCACCAAGCCCTC
* *
49973961 CTCCAGCACCACCACCCGCTCCACCTCCTAAACCGGCACCCCCGCCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAA-C--CA---CCACCAAGCCCTC
* * ** * *
49974015 CTCCAGCACCACCACCTA-ATCCACC-CCCACCGCCGCCACCGAGCCCTC
1 CTCCAGCACCACCACC-AGCTCCACCTCCTA-AACCACCACCAAGCCCTC
* *
49974063 CTCCTGCACCCCCACCAGCTCCACCTCCTAAACCACCACCAAGCCCTC
1 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCACCACCAAGCCCTC
49974111 CTCCAGCACCACCACCA
1 CTCCAGCACCACCACCA
49974128 AAACCACCAC
Statistics
Matches: 179, Mismatches: 26, Indels: 26
0.77 0.11 0.11
Matches are distributed among these distances:
47 1 0.01
48 101 0.56
49 4 0.02
51 5 0.03
53 5 0.03
54 63 0.35
ACGTcount: A:0.22, C:0.59, G:0.09, T:0.10
Consensus pattern (48 bp):
CTCCAGCACCACCACCAGCTCCACCTCCTAAACCACCACCAAGCCCTC
Found at i:49985059 original size:18 final size:18
Alignment explanation
Indices: 49985007--49985061 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
49984997 TTATTATATT
49985007 ATTTTAAT-TTTTTATAAA
1 ATTTTAATATTTTT-TAAA
* **
49985025 A-TTTAAGATTAAATTAAA
1 ATTTTAATATT-TTTTAAA
49985043 ATTTTAATATTTTTTAAA
1 ATTTTAATATTTTTTAAA
49985061 A
1 A
49985062 AATTAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 5 0.18
18 14 0.50
19 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTTAATATTTTTTAAA
Found at i:49985091 original size:31 final size:31
Alignment explanation
Indices: 49985032--49985091 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
49985022 AAAATTTAAG
* * * *
49985032 ATTAAATTAAAATTTTAATATTTTTTAAAAA
1 ATTAAATAAAAAATTTAATATATATTAAAAA
*
49985063 ATTAAATAAAAAATTTACTATATATTAAA
1 ATTAAATAAAAAATTTAATATATATTAAA
49985092 TTATAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
ATTAAATAAAAAATTTAATATATATTAAAAA
Found at i:49985110 original size:83 final size:83
Alignment explanation
Indices: 49985015--49985196 Score: 355
Period size: 83 Copynumber: 2.2 Consensus size: 83
49985005 TTATTTTAAT
*
49985015 TTTTTATAAAATTTAAGATTAAATTAAAATTTTAATATTTTTTAAAAAATTAAATAAAAAATTTA
1 TTTTTATAAAATTTAAGATTAAATTAAAATTTTAATATTTTTAAAAAAATTAAATAAAAAATTTA
49985080 CTATATATTAAATTATAA
66 CTATATATTAAATTATAA
49985098 TTTTTATAAAATTTAAGATTAAATTAAAATTTTAATATTTTTAAAAAAATTAAATAAAAAATTTA
1 TTTTTATAAAATTTAAGATTAAATTAAAATTTTAATATTTTTAAAAAAATTAAATAAAAAATTTA
49985163 CTATATATTAAATTATAA
66 CTATATATTAAATTATAA
49985181 TTTTTATAAAATTTAA
1 TTTTTATAAAATTTAA
49985197 AAATTTAAAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 98 1.00
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (83 bp):
TTTTTATAAAATTTAAGATTAAATTAAAATTTTAATATTTTTAAAAAAATTAAATAAAAAATTTA
CTATATATTAAATTATAA
Found at i:49985174 original size:32 final size:31
Alignment explanation
Indices: 49985115--49985174 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
49985105 AAAATTTAAG
* * *
49985115 ATTAAATTAAAATTTTAATATTTTTAAAAAA
1 ATTAAATAAAAAATTTAATATTATTAAAAAA
*
49985146 ATTAAATAAAAAATTTACTATATATTAAA
1 ATTAAATAAAAAATTTAATAT-TATTAAA
49985175 TTATAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
ATTAAATAAAAAATTTAATATTATTAAAAAA
Found at i:49985420 original size:6 final size:6
Alignment explanation
Indices: 49985370--49985420 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
49985360 ATATTATAAC
* * * * *
49985370 ATATTT ATTTTT A-ATTT TTAATT ATAATT ATAATT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
49985417 ATAT
1 ATAT
49985421 AAAAAAACTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 3 0.08
6 35 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATATTT
Found at i:49987404 original size:15 final size:16
Alignment explanation
Indices: 49987376--49987411 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
49987366 CACGATTAAG
49987376 AAATAAACAATAATAA
1 AAATAAACAATAATAA
49987392 AAATAAA-AATAATAA
1 AAATAAACAATAATAA
49987407 AAATA
1 AAATA
49987412 TATTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAACAATAATAA
Found at i:49988887 original size:21 final size:21
Alignment explanation
Indices: 49988863--49988902 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49988853 TCCCATTTTG
*
49988863 AAAATCTGTATTTTTTTATAT
1 AAAATCTGTACTTTTTTATAT
* *
49988884 AAAATTTTTACTTTTTTAT
1 AAAATCTGTACTTTTTTAT
49988903 GATTATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
AAAATCTGTACTTTTTTATAT
Found at i:49996164 original size:16 final size:18
Alignment explanation
Indices: 49996132--49996164 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49996122 ATTAATAAAA
49996132 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
49996150 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
49996165 TTACGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:49996729 original size:2 final size:2
Alignment explanation
Indices: 49996718--49996761 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
49996708 GGGTATTCTT
49996718 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49996759 TA T
1 TA T
49996762 GTATGTATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50014712 original size:43 final size:43
Alignment explanation
Indices: 50014663--50014744 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
50014653 AAGAAGTTGG
50014663 TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAAGATT
1 TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAAGATT
*
50014706 TTGCAGGGATGTTATGGCGGAGAGAGATAAGAGTAAGAA
1 TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAA
50014745 AGAAAAGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.22
Consensus pattern (43 bp):
TTGCAGGGATGTTATGGCAGAGAGAGATAAGAGTAAGAAGATT
Found at i:50019911 original size:17 final size:17
Alignment explanation
Indices: 50019861--50019918 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
50019851 GGGTGAGAAG
*
50019861 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GAGGG-AAA
*
50019880 TAAAAAGTTT-TGGGAAA
1 T-AAAAGTTTGAGGGAAA
50019897 TAAAAGTTTGAGGGAAA
1 TAAAAGTTTGAGGGAAA
50019914 GTAAA
1 -TAAA
50019919 TAGGGGGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 7 0.21
19 1 0.03
20 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTGAGGGAAA
Found at i:50026431 original size:19 final size:19
Alignment explanation
Indices: 50026396--50026445 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
50026386 TCAATAAATT
*
50026396 TTTAAATTTTTTGATTAAA
1 TTTAAATTATTTGATTAAA
50026415 TTTAAATATATTT-ATT-AA
1 TTTAAAT-TATTTGATTAAA
*
50026433 TTAAAAATTATTT
1 TT-TAAATTATTT
50026446 TTTTAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.33
19 14 0.52
20 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAAATTATTTGATTAAA
Found at i:50027258 original size:8 final size:7
Alignment explanation
Indices: 50027221--50027256 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
50027211 AAATAATAAA
*
50027221 TATTTCT
1 TATTTTT
*
50027228 TATATTT
1 TATTTTT
50027235 TATTTTT
1 TATTTTT
50027242 TATTTTT
1 TATTTTT
50027249 TATTTTT
1 TATTTTT
50027256 T
1 T
50027257 TAAGAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:50037884 original size:22 final size:22
Alignment explanation
Indices: 50037858--50037901 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50037848 AATTTAATCC
50037858 TTTAAAAATTATAAAATTACAT
1 TTTAAAAATTATAAAATTACAT
***
50037880 TTTAATTCTTATAAAATTACAT
1 TTTAAAAATTATAAAATTACAT
50037902 AACACAATTT
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:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAAAAATTATAAAATTACAT
Found at i:50038047 original size:13 final size:13
Alignment explanation
Indices: 50038029--50038054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50038019 CAAATTGAAC
50038029 AAAGTTTTGCTTG
1 AAAGTTTTGCTTG
50038042 AAAGTTTTGCTTG
1 AAAGTTTTGCTTG
50038055 TTGATAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AAAGTTTTGCTTG
Found at i:50039584 original size:10 final size:10
Alignment explanation
Indices: 50039569--50039616 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
50039559 AACATAATCC
50039569 TTTCTCTCAA
1 TTTCTCTCAA
*
50039579 TTTCTCTCTAG
1 TTTCTCTC-AA
50039590 TATTCTCTCAA
1 T-TTCTCTCAA
50039601 TTTCCTCTCAA
1 TTT-CTCTCAA
*
50039612 ATTCT
1 TTTCT
50039617 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 12 0.38
11 13 0.41
12 7 0.22
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.50
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:50043162 original size:125 final size:125
Alignment explanation
Indices: 50042940--50043227 Score: 468
Period size: 125 Copynumber: 2.3 Consensus size: 125
50042930 AAACATGCTT
*
50042940 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAAAGCATCCTGCT
*
50043005 TAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAGC
66 TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
* *
50043065 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAAAGCATCCTGCT
* *
50043130 TAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGAGC
66 TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
* * * **
50043190 TACTGTAGTAAAAAACGCGTCCAAGTATGAGCGATTTC
1 TACTGTAG-CAAAAGCGCGTCCACGTGGGAGCGATTTC
50043228 CTTAAAAAAT
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 127 0.84
126 24 0.16
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAAAGCATCCTGCT
TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
Found at i:50043416 original size:15 final size:16
Alignment explanation
Indices: 50043396--50043425 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50043386 TTTATTCTCT
50043396 AAAACCCT-AAACCTA
1 AAAACCCTGAAACCTA
50043411 AAAACCCTGAAACCT
1 AAAACCCTGAAACCT
50043426 TGACCCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAACCCTGAAACCTA
Found at i:50057522 original size:17 final size:17
Alignment explanation
Indices: 50057472--50057522 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
50057462 ATTATGATAT
*
50057472 TTTTAAATTTAAATT-A
1 TTTTAAATTTGAATTAA
*
50057488 TTTTAGATTTGAGA-TAA
1 TTTTAAATTTGA-ATTAA
*
50057505 TTTTAAATATGAATTAA
1 TTTTAAATTTGAATTAA
50057522 T
1 T
50057523 ATAAATTCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TTTTAAATTTGAATTAA
Found at i:50059817 original size:18 final size:18
Alignment explanation
Indices: 50059794--50059849 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
50059784 TGGACATAAA
*
50059794 TTAAAAAGTATATATTTT
1 TTAAAAAGTATAAATTTT
* *
50059812 TTAAAAA-TAAAAATTAAT
1 TTAAAAAGTATAAATT-TT
50059830 TTAAAAATGTATAAATTTT
1 TTAAAAA-GTATAAATTTT
50059849 T
1 T
50059850 CGACAAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.20
18 15 0.50
19 2 0.07
20 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (18 bp):
TTAAAAAGTATAAATTTT
Found at i:50060657 original size:60 final size:60
Alignment explanation
Indices: 50060586--50060704 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
50060576 ATACTAAACT
* * * * *
50060586 AAACACGACAATTTATAGCATAATCCTAAATTAATAATAATTTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTAC
*
50060646 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAAATTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTA
50060705 TAAAAAAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTAC
Found at i:50060868 original size:27 final size:27
Alignment explanation
Indices: 50060838--50060891 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
50060828 AGGGGGGAGG
* * * *
50060838 CAGTGGCGCTTACCTGTCAGGCGCGAC
1 CAGTAGCGCCTACCTGACAAGCGCGAC
*
50060865 CAGTAGCGCCTATCTGACAAGCGCGAC
1 CAGTAGCGCCTACCTGACAAGCGCGAC
50060892 TGGTCTCGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (27 bp):
CAGTAGCGCCTACCTGACAAGCGCGAC
Found at i:50061024 original size:21 final size:20
Alignment explanation
Indices: 50060973--50061024 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
50060963 TTTAATAAAA
* *
50060973 ATAAAATAATAATATTTTAT
1 ATAAAAAAAAAATATTTTAT
* *
50060993 TTAAAGTAAAAAATATTTTAAT
1 ATAAA-AAAAAAATATTTT-AT
50061015 ATAAAAAAAA
1 ATAAAAAAAA
50061025 GTAATTGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.17
21 14 0.58
22 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAAAAAAAATATTTTAT
Found at i:50061423 original size:3 final size:3
Alignment explanation
Indices: 50061415--50061460 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
50061405 ATACCATCTA
50061415 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50061461 TTAACAATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.