Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 2 of 332
Found at i:453310 original size:13 final size:13
Alignment explanation
Indices: 453292--453323 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
453282 TTTCCAGCAA
453292 TTATGAATTTATT
1 TTATGAATTTATT
453305 TTATGAATTTATT
1 TTATGAATTTATT
*
453318 TGATGA
1 TTATGA
453324 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:453531 original size:50 final size:50
Alignment explanation
Indices: 453418--453659 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
453408 ATTTGGGTAA
* * *
453418 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
453474 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
453524 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
453574 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
453624 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
453660 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:453607 original size:100 final size:103
Alignment explanation
Indices: 453418--453667 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
453408 ATTTGGGTAA
453418 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
453483 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
453524 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
453586 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
453624 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
453668 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:460672 original size:29 final size:30
Alignment explanation
Indices: 460613--460670 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
460603 TCCGAGCCTT
*
460613 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
460643 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
460671 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:460900 original size:13 final size:13
Alignment explanation
Indices: 460882--460913 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
460872 TTTCCAGCAA
460882 TTATGAATTTATT
1 TTATGAATTTATT
460895 TTATGAATTTATT
1 TTATGAATTTATT
*
460908 TGATGA
1 TTATGA
460914 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:461121 original size:50 final size:50
Alignment explanation
Indices: 461008--461249 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
460998 ATTTGGGTAA
* * *
461008 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
461064 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
461114 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
461164 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
461214 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
461250 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:461197 original size:100 final size:103
Alignment explanation
Indices: 461008--461257 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
460998 ATTTGGGTAA
461008 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
461073 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
461114 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
461176 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
461214 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
461258 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:473326 original size:16 final size:17
Alignment explanation
Indices: 473297--473330 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
473287 TGGGCGGATG
473297 TTTCTTTGTTTTTCCTT
1 TTTCTTTGTTTTTCCTT
473314 TTTCTTT-TTTTTCCTT
1 TTTCTTTGTTTTTCCTT
473330 T
1 T
473331 CTATGAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTCTTTGTTTTTCCTT
Found at i:475036 original size:13 final size:13
Alignment explanation
Indices: 475018--475042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
475008 AAAGATCCTT
475018 TTAAAATTTATAC
1 TTAAAATTTATAC
475031 TTAAAATTTATA
1 TTAAAATTTATA
475043 TATGGATGTT
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAATTTATAC
Found at i:485896 original size:12 final size:11
Alignment explanation
Indices: 485854--485899 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
485844 CCGGTTAAAC
485854 TAAT-ATTTTT
1 TAATAATTTTT
485864 T--TAATTTTT
1 TAATAATTTTT
485873 T-ATAATTTTT
1 TAATAATTTTT
485883 TAATAATTTATT
1 TAATAATTT-TT
485895 TAATA
1 TAATA
485900 TAACTAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 10 0.31
11 7 0.22
12 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TAATAATTTTT
Found at i:493407 original size:29 final size:30
Alignment explanation
Indices: 493374--493431 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
493364 AGTTAGTATA
*
493374 GATAAAATTAT-ATTTTGACCTTTAAAAAT
1 GATAAAATTATGATTTAGACCTTTAAAAAT
* *
493403 GATAAAATTTTGATTTAGTCCTTTAAAAA
1 GATAAAATTATGATTTAGACCTTTAAAAA
493432 AATTATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (30 bp):
GATAAAATTATGATTTAGACCTTTAAAAAT
Found at i:509493 original size:16 final size:16
Alignment explanation
Indices: 509472--509503 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
509462 TAAGGGTTTG
509472 GGAGGGGCTATAGTAT
1 GGAGGGGCTATAGTAT
509488 GGAGGGGCTATAGTAT
1 GGAGGGGCTATAGTAT
509504 ACTGAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.25
Consensus pattern (16 bp):
GGAGGGGCTATAGTAT
Found at i:516056 original size:5 final size:5
Alignment explanation
Indices: 516046--516079 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
516036 GGGGTGAAAG
516046 GAAGA GAAGA GAAGA GAAGA GAAGA GAAG- GAAGA
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA
516080 AAAAGGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:517046 original size:11 final size:12
Alignment explanation
Indices: 517030--517059 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
517020 GGACATATTT
517030 TTATATTTAT-A
1 TTATATTTATAA
517041 TTATATTTATAA
1 TTATATTTATAA
517053 TTATATT
1 TTATATT
517060 GTAATTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATATTTATAA
Found at i:517066 original size:6 final size:6
Alignment explanation
Indices: 517057--517083 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
517047 TTATAATTAT
517057 ATTGTA ATTGTA ATTGTA ATTGTA ATT
1 ATTGTA ATTGTA ATTGTA ATTGTA ATT
517084 CTCTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTGTA
Found at i:517070 original size:17 final size:17
Alignment explanation
Indices: 517030--517083 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
517020 GGACATATTT
* * *
517030 TTATATTTATATTATAT
1 TTATAATTATATTGTAA
517047 TTATAATTATATTGTAA
1 TTATAATTATATTGTAA
* *
517064 TTGTAATTGTAATTGTAA
1 TTATAATTAT-ATTGTAA
517082 TT
1 TT
517084 CTCTCAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TTATAATTATATTGTAA
Found at i:522895 original size:17 final size:18
Alignment explanation
Indices: 522873--522911 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
522863 TTTGAAAACA
*
522873 AAAAATAT-CTTATAATT
1 AAAAATATACTTACAATT
522890 AAAAATATAACTTACAATT
1 AAAAATAT-ACTTACAATT
522909 AAA
1 AAA
522912 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATACTTACAATT
Found at i:523004 original size:15 final size:14
Alignment explanation
Indices: 522984--523021 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
522974 AAGATAGAAA
*
522984 ATTTAAATTTTATCT
1 ATTTAAATTTT-TAT
522999 ATTT-AATTTTTAT
1 ATTTAAATTTTTAT
523012 ATTTAAATTT
1 ATTTAAATTT
523022 ATATTAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 11 0.52
15 4 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTAAATTTTTAT
Found at i:538052 original size:47 final size:47
Alignment explanation
Indices: 537943--538053 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
537933 CCGGGATAAG
* * *
537943 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
537990 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
538037 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
538054 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:543317 original size:6 final size:6
Alignment explanation
Indices: 543306--543332 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
543296 TTTTGTTACT
543306 TGGCAG TGGCAG TGGCAG TGGCAG TGG
1 TGGCAG TGGCAG TGGCAG TGGCAG TGG
543333 GGGTTTCGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.52, T:0.19
Consensus pattern (6 bp):
TGGCAG
Found at i:544797 original size:87 final size:88
Alignment explanation
Indices: 544651--544830 Score: 353
Period size: 87 Copynumber: 2.1 Consensus size: 88
544641 ACCCAGTCAC
544651 ACAATTAGATAATGGTGTAGAAGTGTAGATACATAGATTACAATGTGGGTGATAAGCAAATTTTA
1 ACAATTAGATAATGGTGTAGAAGTGTAGATACATAGATTACAATGTGGGTGATAAGCAAATTTTA
544716 TGTAAAAAGCTCAT-AAAAAATA
66 TGTAAAAAGCTCATAAAAAAATA
544738 ACAATTAGATAATGGTGTAGAAGTGTAGATACATAGATTACAATGTGGGTGATAAGCAAATTTTA
1 ACAATTAGATAATGGTGTAGAAGTGTAGATACATAGATTACAATGTGGGTGATAAGCAAATTTTA
544803 TGTAAAAAGCTCATAAAAAAATA
66 TGTAAAAAGCTCATAAAAAAATA
544826 ACAAT
1 ACAAT
544831 GATGTTTTAG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 79 0.86
88 13 0.14
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (88 bp):
ACAATTAGATAATGGTGTAGAAGTGTAGATACATAGATTACAATGTGGGTGATAAGCAAATTTTA
TGTAAAAAGCTCATAAAAAAATA
Found at i:545574 original size:17 final size:17
Alignment explanation
Indices: 545555--545587 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
545545 AAATTTTATA
545555 AAAAT-CATAAAAAAAT
1 AAAATGCATAAAAAAAT
*
545571 AAAATGCATCAAAAAAT
1 AAAATGCATAAAAAAAT
545588 CCTTTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.70, C:0.09, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAATGCATAAAAAAAT
Found at i:545838 original size:9 final size:9
Alignment explanation
Indices: 545824--545909 Score: 61
Period size: 9 Copynumber: 9.2 Consensus size: 9
545814 TTCTTACAAA
545824 TTTATAAAT
1 TTTATAAAT
545833 TTTAT-AAT
1 TTTATAAAT
545841 TTTATAATAT
1 TTTATAA-AT
*
545851 TTCTATATAT
1 TT-TATAAAT
*
545861 TTTA-AATTT
1 TTTATAA-AT
* *
545870 TTTATGATT
1 TTTATAAAT
545879 TTTATAAAAT
1 TTTAT-AAAT
545889 TTTA-AAATT
1 TTTATAAA-T
545898 TTTAATAAAT
1 TTT-ATAAAT
545908 TT
1 TT
545910 ACGATTTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
8 12 0.19
9 24 0.39
10 19 0.31
11 7 0.11
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:545857 original size:28 final size:26
Alignment explanation
Indices: 545826--545904 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 26
545816 CTTACAAATT
545826 TATAAATTTTATAATTTTATAATATTTC
1 TATAAATTTTA-AATTTT-TAATATTTC
* * *
545854 TATATATTTTAAATTTTTTATGATTTT
1 TATAAATTTTAAATTTTTAAT-ATTTC
545881 TATAAAATTTTAAAATTTTTAATA
1 TAT-AAATTTT-AAATTTTTAATA
545905 AATTTACGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 17 0.40
29 10 0.23
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (26 bp):
TATAAATTTTAAATTTTTAATATTTC
Found at i:545910 original size:28 final size:27
Alignment explanation
Indices: 545821--545910 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 27
545811 ATTTTCTTAC
*
545821 AAATTTAT-AAATTTTATAA-TTTTAT
1 AAATTTATAAAATTTTAAAATTTTTAT
* * *
545846 AATATTTCTATATATTTTAAATTTTTTAT
1 AA-ATTTATA-AAATTTTAAAATTTTTAT
**
545875 GATTTTTATAAAATTTTAAAATTTTTAAT
1 -AAATTTATAAAATTTTAAAATTTTT-AT
545904 AAATTTA
1 AAATTTA
545911 CGATTTTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
25 2 0.04
26 5 0.10
28 27 0.56
29 13 0.27
30 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
AAATTTATAAAATTTTAAAATTTTTAT
Found at i:546112 original size:89 final size:91
Alignment explanation
Indices: 546014--546197 Score: 216
Period size: 93 Copynumber: 2.0 Consensus size: 91
546004 ATTTTTTCAT
* * *
546014 AAAAACAGGGGCTTAATTG-TTTTTCTT-GAAAA-GTTTGAGGGTGC-TTTTGATACATTTTGAA
1 AAAAACAGGGGCTTAATTGCTTTTTCTTAAAAAAGGTTTGAGGG-CCTTTTTAATACATTTTGAA
* *
546075 A-TTTCAAGTAACCAATTGAGTGAAAAA
65 AGTTT-AAGTAACCAAATGAATGAAAAA
* **
546102 AAAAAGCAGGGGCTTAATTGCTTTTTTTTAAAAAAAGGTTTGAGGGCCTTTTTAATGTATTTTGA
1 AAAAA-CAGGGGCTTAATTGCTTTTTCTT-AAAAAAGGTTTGAGGGCCTTTTTAATACATTTTGA
*
546167 AAGTTTAAGTACCCAAATGAATGAAAAA
64 AAGTTTAAGTAACCAAATGAATGAAAAA
546195 AAA
1 AAA
546198 GAGGAGTTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
88 5 0.06
89 14 0.17
90 7 0.09
92 5 0.06
93 46 0.57
94 3 0.04
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (91 bp):
AAAAACAGGGGCTTAATTGCTTTTTCTTAAAAAAGGTTTGAGGGCCTTTTTAATACATTTTGAAA
GTTTAAGTAACCAAATGAATGAAAAA
Found at i:549620 original size:17 final size:17
Alignment explanation
Indices: 549598--549632 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
549588 AATAAATCAT
549598 TAAAAAT-TTATAAAAAA
1 TAAAAATATTA-AAAAAA
549615 TAAAAATATTAAAAAAA
1 TAAAAATATTAAAAAAA
549632 T
1 T
549633 TGGTTCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATATTAAAAAAA
Found at i:550345 original size:16 final size:16
Alignment explanation
Indices: 550324--550355 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
550314 CTCCCCTTAT
550324 TATATATGTATATGAA
1 TATATATGTATATGAA
*
550340 TATATATGTATTTGAA
1 TATATATGTATATGAA
550356 CTTCATGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
TATATATGTATATGAA
Found at i:551248 original size:73 final size:73
Alignment explanation
Indices: 551129--551314 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
551119 TATTATTATT
*
551129 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
551194 ATTTTAAG
66 ATTTTAAG
551202 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
551267 ATTTTAAG
66 ATTTTAAG
551275 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
551315 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:555537 original size:3 final size:3
Alignment explanation
Indices: 555529--555554 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
555519 ATCACATGTT
555529 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
555555 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:555674 original size:73 final size:73
Alignment explanation
Indices: 555555--555740 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
555545 TATTATTATT
* *
555555 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGATGATTT
555620 ATTTTAAG
66 ATTTTAAG
555628 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGATGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGATGATTT
555693 ATTTTAAG
66 ATTTTAAG
555701 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
555741 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGATGATTT
ATTTTAAG
Found at i:559132 original size:18 final size:21
Alignment explanation
Indices: 559109--559148 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
559099 TAAGTTTTCT
559109 AAAAAT-TTAAA-TAT-ATTA
1 AAAAATGTTAAAGTATAATTA
559127 AAAAATGTTAAAGTATAATTA
1 AAAAATGTTAAAGTATAATTA
559148 A
1 A
559149 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 3 0.16
21 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAATGTTAAAGTATAATTA
Found at i:559170 original size:17 final size:17
Alignment explanation
Indices: 559150--559182 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
559140 TATAATTAAT
559150 TTTAAAATTTTAATATG
1 TTTAAAATTTTAATATG
559167 TTTAAAATTTTAATAT
1 TTTAAAATTTTAATAT
559183 ACTTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAAAATTTTAATATG
Found at i:559188 original size:17 final size:17
Alignment explanation
Indices: 559151--559188 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
559141 ATAATTAATT
**
559151 TTAAAATTTTAATATGT
1 TTAAAATTTTAATATAC
559168 TTAAAATTTTAATATAC
1 TTAAAATTTTAATATAC
559185 TTAA
1 TTAA
559189 TATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAAATTTTAATATAC
Found at i:559295 original size:19 final size:19
Alignment explanation
Indices: 559273--559377 Score: 53
Period size: 17 Copynumber: 5.8 Consensus size: 19
559263 TAAATCTATT
559273 AAAATTTTAAATATATTAA
1 AAAATTTTAAATATATTAA
* *
559292 AAAATGTT-AA-GTA-TAA
1 AAAATTTTAAATATATTAA
* *
559308 CAAATTTTAAA-ATTTTAA
1 AAAATTTTAAATATATTAA
* * *
559326 TATA-TTTAATATATTTTTAA
1 AAAATTTTAA-ATA-TATTAA
*
559346 AAAA--TTAAATATTTTAA
1 AAAATTTTAAATATATTAA
* *
559363 AAAATGTTAAGTATA
1 AAAATTTTAAATATA
559378 ACTAATTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
16 9 0.13
17 20 0.30
18 11 0.16
19 19 0.28
20 8 0.12
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (19 bp):
AAAATTTTAAATATATTAA
Found at i:559319 original size:71 final size:72
Alignment explanation
Indices: 559238--559390 Score: 186
Period size: 71 Copynumber: 2.2 Consensus size: 72
559228 AATATAGTTA
**
559238 AAATTTTAAAAAACTTAAAATAAATTAA-AT-CTATTAAAATTTTAAATATATTAAAAAATGTTA
1 AAATTTTAAAAAACTTAAAAT-AATTAATATACTATTAAAAAATTAAATATATTAAAAAATGTTA
559301 AGTATAAC
65 AGTATAAC
** * * * * *
559309 AAATTTT-AAAATTTTAATATATTTAATATATTTTTAAAAAATTAAATATTTTAAAAAATGTTAA
1 AAATTTTAAAAAACTTAAAATAATTAATATACTATTAAAAAATTAAATATATTAAAAAATGTTAA
559373 GTATAAC
66 GTATAAC
*
559380 TAATTTTAAAA
1 AAATTTTAAAA
559391 TTTTAATATA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
69 5 0.07
70 12 0.17
71 49 0.71
72 3 0.04
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (72 bp):
AAATTTTAAAAAACTTAAAATAATTAATATACTATTAAAAAATTAAATATATTAAAAAATGTTAA
GTATAAC
Found at i:559359 original size:18 final size:18
Alignment explanation
Indices: 559331--559367 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
559321 TTTAATATAT
559331 TTAATATATTTTTAAAAAA
1 TTAATATA-TTTTAAAAAA
559350 TTAA-ATATTTTAAAAAA
1 TTAATATATTTTAAAAAA
559367 T
1 T
559368 GTTAAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 3 0.17
19 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATATATTTTAAAAAA
Found at i:559391 original size:71 final size:71
Alignment explanation
Indices: 559279--559422 Score: 252
Period size: 71 Copynumber: 2.0 Consensus size: 71
559269 TATTAAAATT
*
559279 TTAAATATATTAAAAAATGTTAAGTATAACAAATTTTAAAATTTTAATATATTTAATATATTTTT
1 TTAAATATATTAAAAAATGTTAAGTATAACAAATTTTAAAATTTTAATATATTCAATATATTTTT
559344 AAAAAA
66 AAAAAA
* *
559350 TTAAATATTTTAAAAAATGTTAAGTATAACTAATTTTAAAATTTTAATATATTCAATATATTTTT
1 TTAAATATATTAAAAAATGTTAAGTATAACAAATTTTAAAATTTTAATATATTCAATATATTTTT
*
559415 TAAAAA
66 AAAAAA
559421 TT
1 TT
559423 TATTTAAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (71 bp):
TTAAATATATTAAAAAATGTTAAGTATAACAAATTTTAAAATTTTAATATATTCAATATATTTTT
AAAAAA
Found at i:559416 original size:21 final size:20
Alignment explanation
Indices: 559391--559460 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
559381 AATTTTAAAA
559391 TTTTAATATATTCAATATATT
1 TTTTAATATATT-AATATATT
* * * **
559412 TTTTAA-AAATTTATTTAAAA
1 TTTTAATATATTAATAT-ATT
*
559432 TTTTAATTTATTTAATATATT
1 TTTTAATATA-TTAATATATT
559453 TTTTAATA
1 TTTTAATA
559461 GGTAAAGAGA
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
19 3 0.09
20 11 0.32
21 15 0.44
22 5 0.15
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAATATATTAATATATT
Found at i:572222 original size:18 final size:18
Alignment explanation
Indices: 572199--572258 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
572189 AGATGTTCGA
*
572199 CTTGGATTTCTTTGAAAC
1 CTTGGATTTCTTAGAAAC
** *
572217 CTTGGATTTCCCAGAGAC
1 CTTGGATTTCTTAGAAAC
*
572235 CTTGGATTTCTTCGAAAC
1 CTTGGATTTCTTAGAAAC
572253 CTTGGA
1 CTTGGA
572259 GATCCTCAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (18 bp):
CTTGGATTTCTTAGAAAC
Found at i:575407 original size:14 final size:16
Alignment explanation
Indices: 575388--575421 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
575378 TGATGAGCTT
575388 CAGCTT-GTTCAA-AG
1 CAGCTTGGTTCAATAG
575402 CAGCTTGGTTCAATAG
1 CAGCTTGGTTCAATAG
575418 CAGC
1 CAGC
575422 CACATGAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 6 0.33
16 6 0.33
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (16 bp):
CAGCTTGGTTCAATAG
Found at i:583558 original size:32 final size:32
Alignment explanation
Indices: 583521--583585 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
583511 AATGCTTACC
583521 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
583553 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
583585 A
1 A
583586 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:587259 original size:119 final size:119
Alignment explanation
Indices: 587038--587542 Score: 821
Period size: 119 Copynumber: 4.2 Consensus size: 119
587028 TAAACTTGAG
* *
587038 ATAGCAGATTTGGCTCTCAGATGTTCTCAGATATAGCAGATCTAACCTTCAGACGTTTAGACTGA
1 ATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAGACTGA
* * *
587103 AGCAGATCCAAGATGATTTGGTATTCTTGTGTCTATAATAAACAAATCGAGGAC
66 AGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
* * * *
587157 ATAGTATATTTGACTCTCAGATGTTCTCAGATATAGTAGATCTAACCTTCAGATGTTTATACTGA
1 ATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAGACTGA
* *
587222 AGTAGATCCAAGATGATTTGGTATTCTTGTGTTTATAAGAAACAAATCGAGGAC
66 AGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
* * * *
587276 ATAGTAGATTTGGCTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATATTTAGACTGA
1 ATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAGACTGA
587341 AGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
66 AGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
* * * *
587395 ATAGCAGATTTGATTCTCAGGTGTTCTCAGATATAGCATATCTAACCTTCAGATGTTTATACTGA
1 ATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAGACTGA
*
587460 AACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
66 AGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
*
587514 ATAGCAGATTAGACTCTCAGATGTTCTCA
1 ATAGCAGATTTGACTCTCAGATGTTCTCA
587543 AACAGACTCA
Statistics
Matches: 357, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 357 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (119 bp):
ATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAGACTGA
AGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGAC
Found at i:587655 original size:83 final size:83
Alignment explanation
Indices: 587459--587667 Score: 321
Period size: 83 Copynumber: 2.5 Consensus size: 83
587449 GTTTATACTG
*
587459 AAACAGA-TCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGAT
1 AAACAGACT-CAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGAT
587523 TAGACTCTCAGATGTTCTC
65 TAGACTCTCAGATGTTCTC
* * *
587542 AAACAGACTCAAGATGGTTTGGCATTCTTGTGTTTACAAGGAACAAATTGAGGACATAGCAGATT
1 AAACAGACTCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATT
*
587607 TGACTCTCAGATGTTCTC
66 AGACTCTCAGATGTTCTC
* * **
587625 AAACAGACTCAAGATGATTTAGTATCCTTGTACTTACAAGGAA
1 AAACAGACTCAAGATGATTTGGTATTCTTGTGTTTACAAGGAA
587668 AACAAATCAA
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
83 113 0.99
84 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (83 bp):
AAACAGACTCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATT
AGACTCTCAGATGTTCTC
Found at i:589574 original size:5 final size:5
Alignment explanation
Indices: 589561--589701 Score: 61
Period size: 5 Copynumber: 29.8 Consensus size: 5
589551 GTTTTACATG
* * * *
589561 TTATT TTATA TTATA -TCTA TTATA TT-TC TTATA -TAT- TTATA TTACA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
* * * *
589607 TTTTA TTATA TAATA TT-TA TTATA TTTTA TT-TA TT-TA TTTTA TGTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T-TATA
* * ** *
589655 TCAT- GTATCA CCA-A TTATA TTAT- TTATGT TTATA TTATA -TATA TTAT
1 TTATA TTAT-A TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTAT
589702 TTTAAAAAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 26
0.68 0.14 0.17
Matches are distributed among these distances:
4 36 0.35
5 57 0.56
6 9 0.09
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:589587 original size:48 final size:46
Alignment explanation
Indices: 589490--589633 Score: 112
Period size: 48 Copynumber: 3.0 Consensus size: 46
589480 TTATTATTAT
* * *
589490 TTATATATTT-TATTATATTTTCACATATATTATATATTTATTGATTATTTA
1 TTATATATTTATATTACATTTT-A-TTATA-TA-ATATCTATT-A-TATTTA
* * * * *
589541 -TATATATATTGTTTTACATGTTATTTTATATTATATCTATTATATTTC
1 TTATATAT-TTATATTACATTTTATTATATA--ATATCTATTATATTTA
*
589589 TTATATATTTATATTACATTTTATTATATAATATTTATTATATTT
1 TTATATATTTATATTACATTTTATTATATAATATCTATTATATTT
589634 TATTTATTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
46 14 0.18
48 23 0.30
49 10 0.13
50 19 0.25
51 3 0.04
52 8 0.10
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (46 bp):
TTATATATTTATATTACATTTTATTATATAATATCTATTATATTTA
Found at i:589701 original size:20 final size:19
Alignment explanation
Indices: 589561--589705 Score: 61
Period size: 19 Copynumber: 7.4 Consensus size: 19
589551 GTTTTACATG
589561 TTATTTTATATTATATCTAT
1 TTATTTTATATTATAT-TAT
589581 TATATTTCT-TA-TATATTTAT
1 T-TATTT-TATATTATA-TTAT
*
589601 ATTACATTTTAT-TATATAATAT
1 -TT--ATTTTATAT-TATATTAT
* *
589623 TTATTATATTTTAT-TTAT
1 TTATTTTATATTATATTAT
* *
589641 TTATTTTAT-GTATATCAT
1 TTATTTTATATTATATTAT
* ***
589659 GTATCACCA-ATTATATTAT
1 TTAT-TTTATATTATATTAT
589678 TTATGTTTATATTATA-TAT
1 TTAT-TTTATATTATATTAT
589697 ATTATTTTA
1 -TTATTTTA
589706 AAAAATGTAA
Statistics
Matches: 93, Mismatches: 17, Indels: 31
0.66 0.12 0.22
Matches are distributed among these distances:
17 3 0.03
18 17 0.18
19 28 0.30
20 20 0.22
21 12 0.13
22 9 0.10
23 4 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATTTTATATTATATTAT
Found at i:596367 original size:21 final size:21
Alignment explanation
Indices: 596343--596383 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
596333 TATATGTATA
596343 AAATAATAAAAAATAAAATAT
1 AAATAATAAAAAATAAAATAT
* **
596364 AAATAGTTTAAAATAAAATA
1 AAATAATAAAAAATAAAATA
596384 ATGTATATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATAAAAAATAAAATAT
Found at i:598501 original size:39 final size:39
Alignment explanation
Indices: 598457--598683 Score: 323
Period size: 39 Copynumber: 6.1 Consensus size: 39
598447 AATTATATTA
* *
598457 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
598496 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
598535 CCAGCACGAAGCCTGCGGG----T----C---TTCATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
598563 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
598602 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
598641 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
598680 CCAG
1 CCAG
598684 TGTCTTGCTT
Statistics
Matches: 169, Mismatches: 8, Indels: 22
0.85 0.04 0.11
Matches are distributed among these distances:
28 25 0.15
31 1 0.01
32 1 0.01
35 1 0.01
36 1 0.01
39 140 0.83
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:598570 original size:28 final size:28
Alignment explanation
Indices: 598530--598585 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
598520 AGCCCGGATA
598530 CATTTCCAGCACGAAGCCTGCGGGTCTT
1 CATTTCCAGCACGAAGCCTGCGGGTCTT
598558 CATTTCCAGCACGAAGCCTGCGGGTCTT
1 CATTTCCAGCACGAAGCCTGCGGGTCTT
598586 TAGCCCGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (28 bp):
CATTTCCAGCACGAAGCCTGCGGGTCTT
Found at i:598599 original size:67 final size:70
Alignment explanation
Indices: 598489--598683 Score: 270
Period size: 67 Copynumber: 2.7 Consensus size: 70
598479 TTAGCTCGGA
* *
598489 TACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
1 TACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGG
598554 -T-C-
66 TTCCG
*
598556 TTCATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGG
1 TACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGG
598621 ACTTTAGCCCGG
66 ---TT---CC-G
598633 ATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAG
1 -TACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAG
598684 TGTCTTGCTT
Statistics
Matches: 113, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
67 62 0.55
71 1 0.01
75 1 0.01
78 49 0.43
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (70 bp):
TACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGG
TTCCG
Found at i:598642 original size:106 final size:106
Alignment explanation
Indices: 598457--598663 Score: 378
Period size: 106 Copynumber: 2.0 Consensus size: 106
598447 AATTATATTA
* *
598457 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAG
598522 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTCATTT
66 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTCATTT
* *
598563 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAG
598628 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTT
66 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTT
598664 TAGCCCGGAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (106 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTAG
CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTCATTT
Found at i:601622 original size:23 final size:22
Alignment explanation
Indices: 601596--601643 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
601586 ACAATGAGGC
601596 TTTGGTAAAAATTATA-AATTTAT
1 TTTGGTAAAAATT-TAGAA-TTAT
* *
601619 TTTGTTAAATATTTAGAATTAT
1 TTTGGTAAAAATTTAGAATTAT
601641 TTT
1 TTT
601644 AAATTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (22 bp):
TTTGGTAAAAATTTAGAATTAT
Found at i:607552 original size:22 final size:22
Alignment explanation
Indices: 607521--607594 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
607511 TTTCTTTTTA
*
607521 AAAAAAATAT-TAATACAATAT
1 AAAATAATATATAATACAATAT
* *
607542 -AAATAATATATATATGCCATAT
1 AAAATAATATATA-ATACAATAT
*
607564 AAAATAATATAATAATA-TATGAT
1 AAAATAATAT-ATAATACAAT-AT
607587 AAAATAAT
1 AAAATAAT
607595 GTATTTTCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.19
21 2 0.05
22 9 0.21
23 21 0.49
24 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (22 bp):
AAAATAATATATAATACAATAT
Found at i:609462 original size:20 final size:20
Alignment explanation
Indices: 609437--609477 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
609427 GATAAATTTA
609437 TACATAGAATACTTGCCATT
1 TACATAGAATACTTGCCATT
609457 TACATAGAATACTTGCCATT
1 TACATAGAATACTTGCCATT
609477 T
1 T
609478 GTATATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TACATAGAATACTTGCCATT
Found at i:611304 original size:30 final size:30
Alignment explanation
Indices: 611243--611304 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
611233 TTAATAGGGT
**
611243 ATTCAAATCACTTTTCAAATTTCACTTTCA
1 ATTCAAATCACTTTTCAAATTTCACAATCA
* *
611273 ATTCAAAATCACTTTTCCATTTTCA-AATCA
1 ATTC-AAATCACTTTTCAAATTTCACAATCA
611303 AT
1 AT
611305 ATACAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTCAAATCACTTTTCAAATTTCACAATCA
Found at i:612072 original size:11 final size:10
Alignment explanation
Indices: 612049--612142 Score: 52
Period size: 10 Copynumber: 9.2 Consensus size: 10
612039 TTTTCTATGC
612049 TTTGTTTCTT
1 TTTGTTTCTT
612059 TTTGTTTCCTT
1 TTTGTTT-CTT
*
612070 TTTCTTTCTT
1 TTTGTTTCTT
*
612080 TTAT-TTGAGCTT
1 TT-TGTT--TCTT
*
612092 TCTGTTTCTT
1 TTTGTTTCTT
* *
612102 TTCT-ATGC--
1 TT-TGTTTCTT
612110 TTTGTTTCTT
1 TTTGTTTCTT
612120 TTTGTTTCCTT
1 TTTGTTT-CTT
*
612131 TTTCTTTCTT
1 TTTGTTTCTT
612141 TT
1 TT
612143 ATTTGAGCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
7 1 0.02
8 4 0.06
10 32 0.50
11 21 0.33
12 6 0.09
ACGTcount: A:0.03, C:0.16, G:0.09, T:0.72
Consensus pattern (10 bp):
TTTGTTTCTT
Found at i:612099 original size:22 final size:21
Alignment explanation
Indices: 612074--612163 Score: 71
Period size: 22 Copynumber: 4.3 Consensus size: 21
612064 TTCCTTTTTC
612074 TTTCTTTTATTTGAGCTTTCTG
1 TTTCTTTTATTT-AGCTTTCTG
* *
612096 TTTCTTTTCTAT-GC-TT-TG
1 TTTCTTTTATTTAGCTTTCTG
** * *
612114 TTTCTTTT-TGTTTCCTTTTTC
1 TTTCTTTTAT-TTAGCTTTCTG
612135 TTTCTTTTATTTGAGCTTTCTG
1 TTTCTTTTATTT-AGCTTTCTG
612157 TTTCTTT
1 TTTCTTT
612164 CCTTTTGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
17 1 0.02
18 11 0.21
19 3 0.06
20 4 0.08
21 11 0.21
22 23 0.43
ACGTcount: A:0.06, C:0.16, G:0.10, T:0.69
Consensus pattern (21 bp):
TTTCTTTTATTTAGCTTTCTG
Found at i:612107 original size:61 final size:61
Alignment explanation
Indices: 612036--612182 Score: 258
Period size: 61 Copynumber: 2.4 Consensus size: 61
612026 GCTTCTGTTC
612036 TTCTTTTCTATGCTTTGTTTCTTTTTGTTTCCTTTTTCTTTCTTTTATTTGAGCTTTCTGT
1 TTCTTTTCTATGCTTTGTTTCTTTTTGTTTCCTTTTTCTTTCTTTTATTTGAGCTTTCTGT
612097 TTCTTTTCTATGCTTTGTTTCTTTTTGTTTCCTTTTTCTTTCTTTTATTTGAGCTTTCTGT
1 TTCTTTTCTATGCTTTGTTTCTTTTTGTTTCCTTTTTCTTTCTTTTATTTGAGCTTTCTGT
* * *
612158 TTCTTTCCTTTTGTTTTGTTTCTTT
1 TTCTTTTC-TATGCTTTGTTTCTTT
612183 ATTTTACTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
61 68 0.83
62 14 0.17
ACGTcount: A:0.04, C:0.16, G:0.10, T:0.70
Consensus pattern (61 bp):
TTCTTTTCTATGCTTTGTTTCTTTTTGTTTCCTTTTTCTTTCTTTTATTTGAGCTTTCTGT
Found at i:612211 original size:3 final size:3
Alignment explanation
Indices: 612203--612240 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
612193 ATGTTTTGTT
612203 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
612241 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:612245 original size:3 final size:3
Alignment explanation
Indices: 612239--612266 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
612229 AATAATAATA
612239 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
612267 CTACTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:612357 original size:3 final size:3
Alignment explanation
Indices: 612349--612380 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
612339 TGTCTTTATT
612349 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
612381 TATCATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:622468 original size:14 final size:15
Alignment explanation
Indices: 622449--622508 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
622439 TTTTGTTTCC
*
622449 TTTTGTTCCTTT-TT
1 TTTTGTTTCTTTATT
* *
622463 TTTTG-TGCTTTCTAT
1 TTTTGTTTCTTTAT-T
*
622478 TTTTGTTTCTTT-TC
1 TTTTGTTTCTTTATT
622492 TTTTGTTTCTTTATT
1 TTTTGTTTCTTTATT
622507 TT
1 TT
622509 ACGTTATGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.13
14 18 0.47
15 10 0.26
16 5 0.13
ACGTcount: A:0.03, C:0.12, G:0.08, T:0.77
Consensus pattern (15 bp):
TTTTGTTTCTTTATT
Found at i:624188 original size:19 final size:19
Alignment explanation
Indices: 624164--624202 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
624154 TATTTTGTTA
624164 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
624183 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
624202 T
1 T
624203 AACTTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:624209 original size:19 final size:19
Alignment explanation
Indices: 624167--624211 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
624157 TTTGTTATTT
*
624167 ATTTTTATTTCATCTTTTT
1 ATTTTTATTTCATCTTTTA
624186 ATTTTTATTTCATC-TTTA
1 ATTTTTATTTCATCTTTTA
624204 ACTTTTTA
1 A-TTTTTA
624212 CTTTTTACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTATTTCATCTTTTA
Found at i:628710 original size:34 final size:34
Alignment explanation
Indices: 628667--628735 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
628657 ATGTAACAAA
628667 TGAATAAGTCTATAAAAAGTTCTAGTATTTATTC
1 TGAATAAGTCTATAAAAAGTTCTAGTATTTATTC
628701 TGAATAAGTCTATAAAAAGTTCTAGTATTTATTC
1 TGAATAAGTCTATAAAAAGTTCTAGTATTTATTC
628735 T
1 T
628736 ACTTGGGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.42
Consensus pattern (34 bp):
TGAATAAGTCTATAAAAAGTTCTAGTATTTATTC
Found at i:631048 original size:42 final size:42
Alignment explanation
Indices: 630987--631099 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
630977 TCGTTTTCTC
** * *
630987 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
631029 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
631071 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
631100 GAATCATATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:631137 original size:46 final size:47
Alignment explanation
Indices: 631028--631189 Score: 156
Period size: 47 Copynumber: 3.6 Consensus size: 47
631018 CTTCACATAA
* * * **
631028 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT-----
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCATATATCACAC
* * * *
631070 TGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCATATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCATATATCACAC
* * *
631116 TGATGCCATATCCCAAATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCATATATCACAC
* *
631163 CGATGCCATATCTCAGATATGGTCTTA
1 TGATGCCATATCCCAGATATGGTCTTA
631190 TACGGATATC
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 9 0.09
42 30 0.29
46 26 0.25
47 37 0.36
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGAAGCATATATCACAC
Found at i:631246 original size:31 final size:31
Alignment explanation
Indices: 631211--631421 Score: 350
Period size: 31 Copynumber: 6.8 Consensus size: 31
631201 CTTGTCACTT
* *
631211 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
631242 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
631273 GTAGCCGGAGCTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
631304 GTAGCCGGAGCTACCAATTTTCATTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
631335 GTAGCAGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
631366 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
631397 GTAGCCGGAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
631422 TGTCATTTGT
Statistics
Matches: 170, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 170 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:631500 original size:50 final size:50
Alignment explanation
Indices: 631397--631573 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
631387 CACTGATCAG
* * * * *
631397 GTAGCCGGAGCTACCACTTTTCACTTGTCATTTGTCCCTGATCAGATAGGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
631448 GTAGCAGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
631498 GTAGCCGAAGCTA-CTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
631548 GTAGCCGAAGCGATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
631574 ATTGCCATGG
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 90 0.79
51 23 0.20
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:634079 original size:93 final size:93
Alignment explanation
Indices: 633967--634139 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
633957 CGCCCATAAG
*
633967 CGAACTCGGACTCAACTCAACGAGCTAGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
634032 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
634060 CGAACTCGGACTCAACTCAACGAGTTTGGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
634125 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
634140 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:634131 original size:46 final size:46
Alignment explanation
Indices: 633960--634129 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
633950 TGTAACCCGC
* *
633960 CCATAAGCGAACTCGGACTCAACTCAACGAGCTAGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTAGGACTTTCGCAT
* * *
634006 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTAGGA---CT--TTCGCAT
* * *
634056 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACTTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTAGGACTTTCGCAT
*
634099 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
634130 TTCGGATGCC
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 57 0.55
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTAGGACTTTCGCAT
Found at i:637505 original size:18 final size:18
Alignment explanation
Indices: 637480--637539 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
637470 AGATGTTCGA
637480 CTTGGATTTCTCCGAAAC
1 CTTGGATTTCTCCGAAAC
* * *
637498 CATGGATTTC-CCAGAGAT
1 CTTGGATTTCTCC-GAAAC
637516 CTTGGATTTCTCCGAAAC
1 CTTGGATTTCTCCGAAAC
637534 CTTGGA
1 CTTGGA
637540 GATCCTCGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (18 bp):
CTTGGATTTCTCCGAAAC
Found at i:637630 original size:18 final size:18
Alignment explanation
Indices: 637607--637643 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
637597 ACGGCTTGAC
637607 TGTTCCGGTTATTTGGTT
1 TGTTCCGGTTATTTGGTT
637625 TGTTCCGGTTATTTGGTT
1 TGTTCCGGTTATTTGGTT
637643 T
1 T
637644 ATGAAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.11, G:0.27, T:0.57
Consensus pattern (18 bp):
TGTTCCGGTTATTTGGTT
Found at i:639713 original size:43 final size:43
Alignment explanation
Indices: 639665--639747 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
639655 TTAATTGGGA
639665 AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAAGT
1 AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAAGT
* * *
639708 AAATAGTTCCCTTATTCTAGTAAACTACTAACAGATAAAA
1 AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
639748 TAAAAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (43 bp):
AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAAGT
Found at i:639755 original size:43 final size:43
Alignment explanation
Indices: 639663--639755 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
639653 TCTTAATTGG
639663 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* * * *
639706 GTAAATAGTTCCCTTATTCTAGTAAACTACTAACAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
639750 -AAAATA
1 GAAAATA
639756 TTTCTAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.29
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:639799 original size:19 final size:18
Alignment explanation
Indices: 639777--639816 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
639767 TGAATAAAAC
639777 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
639796 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
639814 TTA
1 TTA
639817 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:642356 original size:36 final size:36
Alignment explanation
Indices: 642316--642387 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
642306 AAATATTTGA
642316 AAGAGAAATTTAGCTGCAGACTAATTAGTTAAGATG
1 AAGAGAAATTTAGCTGCAGACTAATTAGTTAAGATG
642352 AAGAGAAATTTAGCTGCAGACTAATTAGTTAAGATG
1 AAGAGAAATTTAGCTGCAGACTAATTAGTTAAGATG
642388 GTATCTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (36 bp):
AAGAGAAATTTAGCTGCAGACTAATTAGTTAAGATG
Found at i:644651 original size:12 final size:12
Alignment explanation
Indices: 644634--644667 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
644624 CAACATCTAC
644634 GCCGCCGCAGCT
1 GCCGCCGCAGCT
*
644646 GCCGCCGCTGCT
1 GCCGCCGCAGCT
*
644658 GCCTCCGCAG
1 GCCGCCGCAG
644668 ACCGTCGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.50, G:0.32, T:0.12
Consensus pattern (12 bp):
GCCGCCGCAGCT
Found at i:644839 original size:18 final size:18
Alignment explanation
Indices: 644813--644885 Score: 65
Period size: 18 Copynumber: 4.1 Consensus size: 18
644803 ATGATGATCC
* *
644813 TAACGAAAATAATATTAG
1 TAACAAAAATAATAATAG
* *
644831 TAACAAAAATCATAATAT
1 TAACAAAAATAATAATAG
* * * *
644849 TAATATAAATAATCATAT
1 TAACAAAAATAATAATAG
*
644867 TAATAAAAATAATAATAG
1 TAACAAAAATAATAATAG
644885 T
1 T
644886 GGAAACGAGA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (18 bp):
TAACAAAAATAATAATAG
Found at i:665673 original size:20 final size:20
Alignment explanation
Indices: 665650--665687 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
665640 TAAATATAAG
665650 AAACTGAAA-AATTTTAATGA
1 AAACT-AAACAATTTTAATGA
*
665670 AAACTAAACCATTTTAAT
1 AAACTAAACAATTTTAAT
665688 ACAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
AAACTAAACAATTTTAATGA
Found at i:677295 original size:18 final size:18
Alignment explanation
Indices: 677272--677309 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
677262 TAAATTTTAC
677272 TTTATATTAATTATAATT
1 TTTATATTAATTATAATT
677290 TTTATATTAATTATAATT
1 TTTATATTAATTATAATT
677308 TT
1 TT
677310 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTAATTATAATT
Found at i:677478 original size:34 final size:34
Alignment explanation
Indices: 677435--677504 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
677425 CCTGCCCCCA
677435 GAAGATTTGCTTTTGCACATTTGCACCTAAATTT
1 GAAGATTTGCTTTTGCACATTTGCACCTAAATTT
677469 GAAGATTTGCTTTTGCACATTTGCACCTAAATTT
1 GAAGATTTGCTTTTGCACATTTGCACCTAAATTT
677503 GA
1 GA
677505 CAATTAAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (34 bp):
GAAGATTTGCTTTTGCACATTTGCACCTAAATTT
Found at i:685668 original size:21 final size:21
Alignment explanation
Indices: 685642--685682 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
685632 AGACGAGCAA
* *
685642 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
685663 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
685683 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:694650 original size:32 final size:30
Alignment explanation
Indices: 694614--694679 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
694604 TAAAGAGAAT
*
694614 TTTTAAAAAATTTGAAGGGTCATAATTAAAA
1 TTTTAAAAAATTTGAAGGGT-ATAATGAAAA
** *
694645 GTTTTAAAATTTTTTAAGGGTATAATGAAAA
1 -TTTTAAAAAATTTGAAGGGTATAATGAAAA
694676 TTTT
1 TTTT
694680 CCTAATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.13
31 9 0.30
32 17 0.57
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTTAAAAAATTTGAAGGGTATAATGAAAA
Found at i:696631 original size:3 final size:3
Alignment explanation
Indices: 696623--696664 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
696613 CAATAAATAC
696623 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
696665 TCCATGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:697246 original size:29 final size:31
Alignment explanation
Indices: 697188--697251 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
697178 ATAATTCTAA
* **
697188 CATTTTTAAAGGGTTTAAACTGAATTTTTTT
1 CATTTTTAAAGGGTCTAAACTGAAAATTTTT
697219 CATTTTT-AAGGG-CTAAACTGAAAATTTTT
1 CATTTTTAAAGGGTCTAAACTGAAAATTTTT
697248 -ATTT
1 CATTT
697252 ATATTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 14 0.47
30 5 0.17
31 7 0.23
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (31 bp):
CATTTTTAAAGGGTCTAAACTGAAAATTTTT
Found at i:702774 original size:29 final size:30
Alignment explanation
Indices: 702742--702799 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
702732 GCGCTCTCTA
702742 ATTATTACCACATT-AGTGCTCTCCGTTCT
1 ATTATTACCACATTAAGTGCTCTCCGTTCT
* * *
702771 ATTATTAGCACGTTAAGTGCTCTCTGTTC
1 ATTATTACCACATTAAGTGCTCTCCGTTC
702800 GCTTGTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (30 bp):
ATTATTACCACATTAAGTGCTCTCCGTTCT
Found at i:704237 original size:17 final size:17
Alignment explanation
Indices: 704208--704241 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
704198 TTAATAATTT
704208 TATTTGTTTTTTGAAAA
1 TATTTGTTTTTTGAAAA
704225 TATTT-TTTATTTGAAAA
1 TATTTGTTT-TTTGAAAA
704242 ACCAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTTGTTTTTTGAAAA
Found at i:707931 original size:7 final size:7
Alignment explanation
Indices: 707919--707965 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
707909 GCCAGGTTGG
*
707919 TCCGAGT
1 TCCGAGA
707926 TCCGAGA
1 TCCGAGA
707933 TCCGAGA
1 TCCGAGA
707940 TCCGAGA
1 TCCGAGA
707947 TCCGAGA
1 TCCGAGA
707954 TCCGAGA
1 TCCGAGA
707961 TCCGA
1 TCCGA
707966 TTTTAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.17
Consensus pattern (7 bp):
TCCGAGA
Found at i:715467 original size:20 final size:20
Alignment explanation
Indices: 715431--715469 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
715421 AAATTAAAAA
*
715431 GATTAAGAAAAGCAAAAAGT
1 GATTAAGAAAAGAAAAAAGT
715451 GATTGAAGAAAA-AAAAAAG
1 GATT-AAGAAAAGAAAAAAG
715470 ATGGTGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.13
Consensus pattern (20 bp):
GATTAAGAAAAGAAAAAAGT
Found at i:720944 original size:2 final size:2
Alignment explanation
Indices: 720899--720927 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
720889 TTTACGCACC
720899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
720928 ATGATGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:731882 original size:130 final size:130
Alignment explanation
Indices: 731696--731941 Score: 359
Period size: 130 Copynumber: 1.9 Consensus size: 130
731686 ATATGAATGA
* *
731696 AAATTTGAAGGGATAGTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCAC
1 AAATTTGAAGGGATAGTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCAC
* * * *
731761 GATTCCGCGAATTGCCAAATATCGGATCTCATCTTCGTTTTGAAGAATTTTAAGAGACATGCGTG
66 GATTCCGCGAATTGCCAAACATCGAATCCCATCTTCGATTTGAAGAATTTTAAGAGACATGCGTG
* * *
731826 AAATTTCGAAGTGATATTCGATTA-TTCGAGCAAACGCGGAATTGCAACCCAACACGTTAGGGCA
1 AAATTT-GAAGGGATAGTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCA
* * * *
731890 CGATTCGGCGAATTGTCAAACATCGAATCCCGTCTTCGATTTGAATAATTTT
65 CGATTCCGCGAATTGCCAAACATCGAATCCCATCTTCGATTTGAAGAATTTT
731942 TGAATGAATG
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
130 87 0.85
131 15 0.15
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (130 bp):
AAATTTGAAGGGATAGTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCAC
GATTCCGCGAATTGCCAAACATCGAATCCCATCTTCGATTTGAAGAATTTTAAGAGACATGCGTG
Found at i:736685 original size:24 final size:23
Alignment explanation
Indices: 736651--736700 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
736641 CAAAACTCAA
* *
736651 AACCTTGAAAAATAAATTAATCCT
1 AACCTTAAAAAATAAA-AAATCCT
*
736675 AACCTTAAAAATTAAAAAATCCT
1 AACCTTAAAAAATAAAAAATCCT
736698 AAC
1 AAC
736701 TCTAGAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.26
Consensus pattern (23 bp):
AACCTTAAAAAATAAAAAATCCT
Found at i:736695 original size:23 final size:24
Alignment explanation
Indices: 736651--736700 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
736641 CAAAACTCAA
*
736651 AACCTTGAAAAATAAATTAATCCT
1 AACCTTGAAAAATAAATAAATCCT
736675 AACCTT-AAAAATTAAA-AAATCCT
1 AACCTTGAAAAA-TAAATAAATCCT
736698 AAC
1 AAC
736701 TCTAGAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.26
Consensus pattern (24 bp):
AACCTTGAAAAATAAATAAATCCT
Found at i:737683 original size:21 final size:21
Alignment explanation
Indices: 737659--737699 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
737649 TAAACATAAC
737659 AATTTATATGTATTT-TATATT
1 AATTTATATG-ATTTATATATT
*
737680 AATTTTTATGATTTATATAT
1 AATTTATATGATTTATATAT
737700 ATATTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
AATTTATATGATTTATATATT
Found at i:739378 original size:33 final size:33
Alignment explanation
Indices: 739339--739414 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
739329 ATATGCACAG
739339 ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
1 ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
*
739372 ATAGGGTTTTATTGAACTTCCATTGTTAACTAA
1 ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
739405 ATAGGGTTTT
1 ATAGGGTTTT
739415 GTTATATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (33 bp):
ATAGGGTTTTATTGAACTTCCATTGTTAACCAA
Found at i:744927 original size:6 final size:6
Alignment explanation
Indices: 744916--744940 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
744906 TAAAATGAAT
744916 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
744941 TATATTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:751150 original size:40 final size:40
Alignment explanation
Indices: 751106--751188 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
751096 TTGTCAACTA
751106 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
1 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
751146 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
1 GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
751186 GAT
1 GAT
751189 GATGTGATCA
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:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (40 bp):
GATTCATTTTGGTCCTTAAACTTGGGTTCTGTTAAGATTT
Found at i:751788 original size:26 final size:26
Alignment explanation
Indices: 751758--751810 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
751748 GAGTTTTTGA
751758 ATGATTAGCTAATGTATTTGGTATTT
1 ATGATTAGCTAATGTATTTGGTATTT
751784 ATGATTAGCTAATGTATTTGGTATTT
1 ATGATTAGCTAATGTATTTGGTATTT
751810 A
1 A
751811 CTTTTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (26 bp):
ATGATTAGCTAATGTATTTGGTATTT
Found at i:752646 original size:12 final size:12
Alignment explanation
Indices: 752629--752654 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
752619 GTTAATAAAA
752629 TAATATTTATTT
1 TAATATTTATTT
752641 TAATATTTATTT
1 TAATATTTATTT
752653 TA
1 TA
752655 CATGTCACTG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAATATTTATTT
Found at i:765112 original size:23 final size:23
Alignment explanation
Indices: 765084--765177 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
765074 ATGTGTGTAT
* *
765084 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
765107 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
765130 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
765153 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
765176 CT
1 CT
765178 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:769615 original size:23 final size:23
Alignment explanation
Indices: 769587--769680 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
769577 ATGTGTGTAT
* *
769587 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
769610 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
769633 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
769656 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
769679 CT
1 CT
769681 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:772439 original size:20 final size:20
Alignment explanation
Indices: 772414--772453 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
772404 AAACTTCTTC
*
772414 ACTTACTCACTTACTCAAAT
1 ACTTACTCACTTAATCAAAT
*
772434 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
772454 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:772745 original size:53 final size:53
Alignment explanation
Indices: 772616--772865 Score: 251
Period size: 55 Copynumber: 4.7 Consensus size: 53
772606 ACACGGGTAC
* * * * *
772616 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
* *
772665 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAAA
* * * *
772718 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-GAAA
* * * *
772773 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATGAAA
* *
772826 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTA
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA
772866 TTCTTAAACC
Statistics
Matches: 167, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 48 0.29
54 15 0.09
55 65 0.39
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
Found at i:772807 original size:108 final size:110
Alignment explanation
Indices: 772663--772860 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
772653 ATCCTTTTGA
* *
772663 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
772726 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
772771 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
772836 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
772861 CGGTATTCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:775510 original size:4 final size:4
Alignment explanation
Indices: 775501--775536 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
775491 TTGATGTTAG
*
775501 ATGT ATGT ATGT ATGT GTGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775537 TTTGTATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:779917 original size:24 final size:24
Alignment explanation
Indices: 779890--779941 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
779880 AGATAAATAT
779890 TATTTTATTAATACTTTAATTAG-A
1 TATTTTATTAATA-TTTAATTAGTA
* *
779914 TATTTTATTATTATTTTATTAGTA
1 TATTTTATTAATATTTAATTAGTA
779938 TATT
1 TATT
779942 AAAGGAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTTTATTAATATTTAATTAGTA
Found at i:782124 original size:38 final size:38
Alignment explanation
Indices: 782075--782361 Score: 331
Period size: 38 Copynumber: 6.9 Consensus size: 38
782065 TGATATAAAA
*
782075 TGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
782113 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
782156 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
782197 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
782235 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
782280 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
782319 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ---TG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
782362 ATGACAGAAA
Statistics
Matches: 223, Mismatches: 3, Indels: 38
0.84 0.01 0.14
Matches are distributed among these distances:
38 109 0.49
39 1 0.00
41 6 0.03
43 3 0.01
44 1 0.00
45 1 0.00
46 102 0.46
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:782180 original size:46 final size:45
Alignment explanation
Indices: 782113--782405 Score: 355
Period size: 46 Copynumber: 6.7 Consensus size: 45
782103 TGGCAACCTG
782113 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-ATGAAA
782159 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAATGAAA
782197 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAATGAAA
*
782235 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-ATGAAA
*
782281 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-ATGAAA
* ** *
782327 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-ATG-AAA
* * *
782373 TGAGTAAGACCATAGTTGAAAGACACCATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
782406 TCACGTCAAA
Statistics
Matches: 227, Mismatches: 11, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
38 74 0.33
41 2 0.01
43 2 0.01
45 1 0.00
46 148 0.65
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (45 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAATGAAA
Found at i:782199 original size:84 final size:84
Alignment explanation
Indices: 782064--782361 Score: 405
Period size: 84 Copynumber: 3.5 Consensus size: 84
782054 AGTGTGCTCT
* *
782064 CTGATATAAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
782129 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
782148 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
782213 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
782232 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
782289 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
782316 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
782362 ATGACAGAAA
Statistics
Matches: 192, Mismatches: 6, Indels: 24
0.86 0.03 0.11
Matches are distributed among these distances:
76 36 0.19
79 2 0.01
81 1 0.01
83 1 0.01
84 118 0.61
89 2 0.01
92 32 0.17
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:782292 original size:122 final size:123
Alignment explanation
Indices: 782074--782361 Score: 470
Period size: 122 Copynumber: 2.3 Consensus size: 123
782064 CTGATATAAA
*
782074 ATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
782139 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
66 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
782197 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
* *
782261 CATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
66 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
782319 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
782362 ATGACAGAAA
Statistics
Matches: 153, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
122 119 0.78
125 2 0.01
128 1 0.01
130 31 0.20
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (123 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:782512 original size:13 final size:13
Alignment explanation
Indices: 782494--782523 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
782484 TCAGATGACG
782494 AATGGTTATATGA
1 AATGGTTATATGA
*
782507 AATGGTTATGTGA
1 AATGGTTATATGA
782520 AATG
1 AATG
782524 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:782711 original size:23 final size:25
Alignment explanation
Indices: 782666--782712 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
782656 AATAAATATA
*
782666 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
782691 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
782713 AGGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:783741 original size:19 final size:19
Alignment explanation
Indices: 783717--783795 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
783707 AATCTTTAAG
783717 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
783736 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
783755 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
783772 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
783793 GAT
1 GAT
783796 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:783747 original size:36 final size:36
Alignment explanation
Indices: 783707--783794 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
783697 ATGGAAATAT
783707 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
783743 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
783779 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
783795 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:787023 original size:21 final size:22
Alignment explanation
Indices: 786996--787052 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
786986 ATATATTAAA
786996 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
787018 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
787039 TTATTGTTATTATT
1 TTATTATTATTATT
787053 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:787687 original size:23 final size:21
Alignment explanation
Indices: 787640--787680 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
787630 TTTGGTTAAA
787640 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
787662 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
787681 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:788058 original size:15 final size:15
Alignment explanation
Indices: 788010--788059 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
788000 TTTATCAAAT
788010 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
788025 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
788040 TTATATTGATTGAAA
1 TTATATTGATTGAAA
788055 TTATA
1 TTATA
788060 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:788475 original size:23 final size:21
Alignment explanation
Indices: 788449--788498 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
788439 AGGCACTTTA
788449 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
* *
788472 TGTGTCGTATCAGGCATCTCG
1 TGTGTCATATCAGGCACCTCG
788493 TGTGTC
1 TGTGTC
788499 GTTTTAGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.68
23 8 0.32
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Done.