Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 64 of 136
Found at i:21298058 original size:27 final size:28
Alignment explanation
Indices: 21298027--21298083 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
21298017 TTCTTGTCGA
21298027 AAAATATAATATA-ATTA-TAAAATAATT
1 AAAATATAAT-TACATTATTAAAATAATT
*
21298054 AAAATATAATTACATTATTAAAATATTT
1 AAAATATAATTACATTATTAAAATAATT
21298082 AA
1 AA
21298084 TTTTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.07
27 14 0.52
28 11 0.41
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAATATAATTACATTATTAAAATAATT
Found at i:21298294 original size:21 final size:21
Alignment explanation
Indices: 21298265--21298347 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
21298255 TATTAATACA
21298265 TAATATAATTAATTTTTATTT
1 TAATATAATTAATTTTTATTT
* * ** *
21298286 TAATCTAATTTATTTTGGGTTAAA
1 TAATATAATTAATTTT-TATT--T
21298310 TAATAATAATTAATTTTTATTT
1 TAAT-ATAATTAATTTTTATTT
* *
21298332 TAATCTAATTTATTTT
1 TAATATAATTAATTTT
21298348 GGGTTAAATA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
21 24 0.52
22 6 0.13
24 6 0.13
25 10 0.22
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TAATATAATTAATTTTTATTT
Found at i:21298319 original size:25 final size:25
Alignment explanation
Indices: 21298291--21298366 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
21298281 TATTTTAATC
21298291 TAATTTATTTTGGGTTAAATAATAA
1 TAATTTATTTTGGGTTAAATAATAA
* ** * *
21298316 TAATTAATTTT-TATT--TTAAT-C
1 TAATTTATTTTGGGTTAAATAATAA
21298337 TAATTTATTTTGGGTTAAATAATAA
1 TAATTTATTTTGGGTTAAATAATAA
21298362 TAATT
1 TAATT
21298367 AATTAAATTA
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 10 0.27
22 6 0.16
24 6 0.16
25 15 0.41
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (25 bp):
TAATTTATTTTGGGTTAAATAATAA
Found at i:21298320 original size:46 final size:46
Alignment explanation
Indices: 21298264--21298370 Score: 207
Period size: 46 Copynumber: 2.3 Consensus size: 46
21298254 ATATTAATAC
21298264 ATAAT-ATAATTAATTTTTATTTTAATCTAATTTATTTTGGGTTAA
1 ATAATAATAATTAATTTTTATTTTAATCTAATTTATTTTGGGTTAA
21298309 ATAATAATAATTAATTTTTATTTTAATCTAATTTATTTTGGGTTAA
1 ATAATAATAATTAATTTTTATTTTAATCTAATTTATTTTGGGTTAA
21298355 ATAATAATAATTAATT
1 ATAATAATAATTAATT
21298371 AAATTATGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 5 0.08
46 56 0.92
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (46 bp):
ATAATAATAATTAATTTTTATTTTAATCTAATTTATTTTGGGTTAA
Found at i:21301791 original size:812 final size:812
Alignment explanation
Indices: 21300226--21301850 Score: 3207
Period size: 812 Copynumber: 2.0 Consensus size: 812
21300216 TGAACATGTC
21300226 TATGAATATTTTTATGTTGATATTCTTAATTTAATTAACATGGTTTAAATTTAGTTCGTGTTAGG
1 TATGAATATTTTTATGTTGATATTCTTAATTTAATTAACATGGTTTAAATTTAGTTCGTGTTAGG
21300291 TTGATTGCATTTCGTCCACTTAAGTTATTAAAATTATATTTGTGTTGTTATAGGTATTGGTAAAT
66 TTGATTGCATTTCGTCCACTTAAGTTATTAAAATTATATTTGTGTTGTTATAGGTATTGGTAAAT
21300356 TGTTTGATTAAATAAAACGATGATTATGTTATTCTTACATTACAATTGTAAGATAACTAATGAAT
131 TGTTTGATTAAATAAAACGATGATTATGTTATTCTTACATTACAATTGTAAGATAACTAATGAAT
21300421 TAATTATTAATAGTATTGAAATTTTAATTAATTGACACAATACTTAATCAGTGCATATTTAATCT
196 TAATTATTAATAGTATTGAAATTTTAATTAATTGACACAATACTTAATCAGTGCATATTTAATCT
21300486 TTTAAGGTAGGTGATGGTTAAATTAGTGACGGTATTAAACGGTACATTAACCTTGCAAGATTATT
261 TTTAAGGTAGGTGATGGTTAAATTAGTGACGGTATTAAACGGTACATTAACCTTGCAAGATTATT
21300551 GTGATCAAACTTTTTCAATGTAGGTATATATTGTTACTTCACTTAATCTTTTACTTGCTTATTAA
326 GTGATCAAACTTTTTCAATGTAGGTATATATTGTTACTTCACTTAATCTTTTACTTGCTTATTAA
21300616 AATTGATTAATTGTTTGAATCGACATAGTAATATGTTCAAGAAATTAGTTAATTTTGTAAGTCTG
391 AATTGATTAATTGTTTGAATCGACATAGTAATATGTTCAAGAAATTAGTTAATTTTGTAAGTCTG
21300681 TATGTGCTATAGTTAACAAATTACCAAGTTGCCATGAATTTATTCGTAACAACATGAACATTGTT
456 TATGTGCTATAGTTAACAAATTACCAAGTTGCCATGAATTTATTCGTAACAACATGAACATTGTT
21300746 TTAGTATTATTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATCTTGATTAAAATCAT
521 TTAGTATTATTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATCTTGATTAAAATCAT
21300811 CTTTTGAAATTGTGTATTGGAACATTTATTTTTATTTTACTTAGTTAAATTTTAGTTTTTAATTA
586 CTTTTGAAATTGTGTATTGGAACATTTATTTTTATTTTACTTAGTTAAATTTTAGTTTTTAATTA
21300876 ATTCCTCAAAATCAAAATATTTTTAATCACCAAAGTGTTTTAATTTCATTTCATAAATAATTTTC
651 ATTCCTCAAAATCAAAATATTTTTAATCACCAAAGTGTTTTAATTTCATTTCATAAATAATTTTC
21300941 TTAAATAGTCATTGTGGGTACGATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCAATTG
716 TTAAATAGTCATTGTGGGTACGATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCAATTG
21301006 TGTACACTTGCACATTTCCATCGTTCCAAGTT
781 TGTACACTTGCACATTTCCATCGTTCCAAGTT
21301038 TATGAATATTTTTATGTTGATATTCTTAATTTAATTAACATGGTTTAAATTTAGTTCGTGTTAGG
1 TATGAATATTTTTATGTTGATATTCTTAATTTAATTAACATGGTTTAAATTTAGTTCGTGTTAGG
21301103 TTGATTGCATTTCGTCCACTTAAGTTATTAAAATTATATTTGTGTTGTTATAGGTATTGGTAAAT
66 TTGATTGCATTTCGTCCACTTAAGTTATTAAAATTATATTTGTGTTGTTATAGGTATTGGTAAAT
21301168 TGTTTGATTAAATAAAACGATGATTATGTTATTCTTACATTACAATTGTAAGATAACTAATGAAT
131 TGTTTGATTAAATAAAACGATGATTATGTTATTCTTACATTACAATTGTAAGATAACTAATGAAT
21301233 TAATTATTAATAGTATTGAAATTTTAATTAATTGACACAATACTTAATCAGTGCATATTTAATCT
196 TAATTATTAATAGTATTGAAATTTTAATTAATTGACACAATACTTAATCAGTGCATATTTAATCT
21301298 TTTAAGGTAGGTGATGGTTAAATTAGTGACGGTATTAAACGGTACATTAACCTTGCAAGATTATT
261 TTTAAGGTAGGTGATGGTTAAATTAGTGACGGTATTAAACGGTACATTAACCTTGCAAGATTATT
21301363 GTGATCAAACTTTTTCAATGTAGGTATATATTGTTACTTCACTTAATCTTTTACTTGCTTATTAA
326 GTGATCAAACTTTTTCAATGTAGGTATATATTGTTACTTCACTTAATCTTTTACTTGCTTATTAA
* * *
21301428 AATTGATTAATTGTTTGAATTGGCATAGTAATATATTTCAAGAAA-TAGTTAATTTTGTAAGTCT
391 AATTGATTAATTGTTTGAATCGACATAGTAATAT-GTTCAAGAAATTAGTTAATTTTGTAAGTCT
21301492 GTATGTGCTATAGTTAACAAATTACCAAGTTGCCATGAATTTATTCGTAACAACATGAACATTGT
455 GTATGTGCTATAGTTAACAAATTACCAAGTTGCCATGAATTTATTCGTAACAACATGAACATTGT
21301557 TTTAGTATTATTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATCTTGATTAAAATCA
520 TTTAGTATTATTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATCTTGATTAAAATCA
21301622 TCTTTTGAAATTGTGTATTGGAACATTTATTTTTATTTTACTTAGTTAAATTTTAGTTTTTAATT
585 TCTTTTGAAATTGTGTATTGGAACATTTATTTTTATTTTACTTAGTTAAATTTTAGTTTTTAATT
21301687 AATTCCTCAAAATCAAAATATTTTTAATCACCAAAGTGTTTTAATTTCATTTCATAAATAATTTT
650 AATTCCTCAAAATCAAAATATTTTTAATCACCAAAGTGTTTTAATTTCATTTCATAAATAATTTT
21301752 CTTAAATAGTCATTGTGGGTACGATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCAATT
715 CTTAAATAGTCATTGTGGGTACGATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCAATT
21301817 GTGTACACTTGCACATTTCCATCGTTCCAAGTT
780 GTGTACACTTGCACATTTCCATCGTTCCAAGTT
21301850 T
1 T
21301851 TTGGCGTCAT
Statistics
Matches: 809, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
812 800 0.99
813 9 0.01
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (812 bp):
TATGAATATTTTTATGTTGATATTCTTAATTTAATTAACATGGTTTAAATTTAGTTCGTGTTAGG
TTGATTGCATTTCGTCCACTTAAGTTATTAAAATTATATTTGTGTTGTTATAGGTATTGGTAAAT
TGTTTGATTAAATAAAACGATGATTATGTTATTCTTACATTACAATTGTAAGATAACTAATGAAT
TAATTATTAATAGTATTGAAATTTTAATTAATTGACACAATACTTAATCAGTGCATATTTAATCT
TTTAAGGTAGGTGATGGTTAAATTAGTGACGGTATTAAACGGTACATTAACCTTGCAAGATTATT
GTGATCAAACTTTTTCAATGTAGGTATATATTGTTACTTCACTTAATCTTTTACTTGCTTATTAA
AATTGATTAATTGTTTGAATCGACATAGTAATATGTTCAAGAAATTAGTTAATTTTGTAAGTCTG
TATGTGCTATAGTTAACAAATTACCAAGTTGCCATGAATTTATTCGTAACAACATGAACATTGTT
TTAGTATTATTAAGTTAAGAAATGTAATTAATCTAACACAATTATGTCATCTTGATTAAAATCAT
CTTTTGAAATTGTGTATTGGAACATTTATTTTTATTTTACTTAGTTAAATTTTAGTTTTTAATTA
ATTCCTCAAAATCAAAATATTTTTAATCACCAAAGTGTTTTAATTTCATTTCATAAATAATTTTC
TTAAATAGTCATTGTGGGTACGATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCAATTG
TGTACACTTGCACATTTCCATCGTTCCAAGTT
Found at i:21306295 original size:42 final size:43
Alignment explanation
Indices: 21306234--21306351 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
21306224 GATTTGAGAT
** *
21306234 TTACGTGTAAGACAATGTCTGGGACATTGGCGTCG-TATATGA
1 TTACGTGTAAGACCCTGTCTGGGACATTGGCATCGTTATATGA
* *
21306276 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACATTGGCATCGTTATATGA
* *
21306319 TTACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TTACGTGTAAGACC-CTGTCTGGGACATTGGCAT
21306352 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 31 0.47
43 34 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TTACGTGTAAGACCCTGTCTGGGACATTGGCATCGTTATATGA
Found at i:21308039 original size:13 final size:15
Alignment explanation
Indices: 21308007--21308043 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
21307997 AGTAATATTC
*
21308007 ATATATTTATGCTTT
1 ATATATATATGCTTT
21308022 ATATATATATGCTTT
1 ATATATATATGCTTT
21308037 ATATATA
1 ATATATA
21308044 ACATCAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (15 bp):
ATATATATATGCTTT
Found at i:21310675 original size:22 final size:19
Alignment explanation
Indices: 21310650--21310691 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
21310640 TGATAATAAC
21310650 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
21310672 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
21310691 T
1 T
21310692 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:21310682 original size:16 final size:15
Alignment explanation
Indices: 21310650--21310688 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
21310640 TGATAATAAC
21310650 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
21310666 TTATTATAATATATAT
1 TAATTATAAT-TATAT
21310682 TAATTAT
1 TAATTAT
21310689 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:21311460 original size:25 final size:26
Alignment explanation
Indices: 21311406--21311461 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
21311396 TTTCTCCTAA
* *
21311406 ATTTTAAATTTATTTAGTTAATTAAT
1 ATTTTAAATTTATTAAATTAATTAAT
*
21311432 -TTTTCAATTTATTAAATT-ATTAAT
1 ATTTTAAATTTATTAAATTAATTAAT
21311456 ATTTTA
1 ATTTTA
21311462 TACAAATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTTAAATTTATTAAATTAATTAAT
Found at i:21314308 original size:20 final size:21
Alignment explanation
Indices: 21314260--21314300 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21314250 TATCACATTT
*
21314260 AATTTTAATTAATTTTATAATA
1 AATTTTCA-TAATTTTATAATA
21314282 AATTTTCATAATTTT-TAAT
1 AATTTTCATAATTTTATAAT
21314301 TTATTTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTTCATAATTTTATAATA
Found at i:21318032 original size:28 final size:29
Alignment explanation
Indices: 21318001--21318136 Score: 106
Period size: 28 Copynumber: 4.8 Consensus size: 29
21317991 TGTAATAATT
*
21318001 AGATTCCAACAACTATATTGTAACGA-AA
1 AGATTCCAACTACTATATTGTAACGATAA
* * * *
21318029 AGATTCCAACGGT-C-ACATTATAATGATCA
1 AGATTCCAAC--TACTATATTGTAACGATAA
*
21318058 AG-TTCCAACTACTATATTGTAACGA-AG
1 AGATTCCAACTACTATATTGTAACGATAA
* * * *
21318085 AGATTCCAACGA-TCATATTATAATGATCA
1 AGATTCCAACTACT-ATATTGTAACGATAA
21318114 AG-TTCCAACTACTATATTGTAAC
1 AGATTCCAACTACTATATTGTAAC
21318137 AGTCATTTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 18
0.69 0.15 0.15
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 69 0.85
29 7 0.09
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (29 bp):
AGATTCCAACTACTATATTGTAACGATAA
Found at i:21318078 original size:56 final size:56
Alignment explanation
Indices: 21318004--21318136 Score: 230
Period size: 56 Copynumber: 2.4 Consensus size: 56
21317994 AATAATTAGA
* *
21318004 TTCCAACAACTATATTGTAACGAAAAGATTCCAACGGTCACATTATAATGATCAAG
1 TTCCAACTACTATATTGTAACGAAAAGATTCCAACGATCACATTATAATGATCAAG
* *
21318060 TTCCAACTACTATATTGTAACGAAGAGATTCCAACGATCATATTATAATGATCAAG
1 TTCCAACTACTATATTGTAACGAAAAGATTCCAACGATCACATTATAATGATCAAG
21318116 TTCCAACTACTATATTGTAAC
1 TTCCAACTACTATATTGTAAC
21318137 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (56 bp):
TTCCAACTACTATATTGTAACGAAAAGATTCCAACGATCACATTATAATGATCAAG
Found at i:21328520 original size:24 final size:24
Alignment explanation
Indices: 21328488--21328534 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
21328478 AAAGAAACAA
*
21328488 CAAAGATTTTATACTAATAAATAT
1 CAAAGATTTAATACTAATAAATAT
* *
21328512 CAAATATTTAATGCTAATAAATA
1 CAAAGATTTAATACTAATAAATA
21328535 CTAAATCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
CAAAGATTTAATACTAATAAATAT
Found at i:21333425 original size:10 final size:10
Alignment explanation
Indices: 21333412--21333447 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
21333402 ATATTGCATG
*
21333412 ATATAATGAT
1 ATATAATAAT
21333422 ATATAATAAT
1 ATATAATAAT
21333432 ATATAATAAT
1 ATATAATAAT
21333442 ATATAA
1 ATATAA
21333448 ATATTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
ATATAATAAT
Found at i:21340791 original size:14 final size:14
Alignment explanation
Indices: 21340772--21340801 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21340762 CAACCTTCAT
21340772 CTCCACCAATCCAC
1 CTCCACCAATCCAC
*
21340786 CTCCACCGATCCAC
1 CTCCACCAATCCAC
21340800 CT
1 CT
21340802 TCGGTCCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.57, G:0.03, T:0.17
Consensus pattern (14 bp):
CTCCACCAATCCAC
Found at i:21344066 original size:12 final size:12
Alignment explanation
Indices: 21344049--21344073 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21344039 TCCTCAGAAG
21344049 TTTGATCTTAAA
1 TTTGATCTTAAA
21344061 TTTGATCTTAAA
1 TTTGATCTTAAA
21344073 T
1 T
21344074 GCCTTAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGATCTTAAA
Found at i:21346870 original size:14 final size:14
Alignment explanation
Indices: 21346851--21346877 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21346841 CAGCTCATTT
21346851 TAGGACCCCACTAC
1 TAGGACCCCACTAC
21346865 TAGGACCCCACTA
1 TAGGACCCCACTA
21346878 TTTTGTCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (14 bp):
TAGGACCCCACTAC
Found at i:21350545 original size:71 final size:71
Alignment explanation
Indices: 21350175--21350542 Score: 366
Period size: 71 Copynumber: 5.2 Consensus size: 71
21350165 TTAATTCGCG
* *
21350175 AGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGTGGTTTTTCA
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
21350240 C--GCA
66 CTTGCA
* * * **
21350244 CGAGCCTTAATATGATAG-TAAGGAGTTTGTAACTCTCACTAACTATGTTGGAGGCTGCAGTTTT
1 --AGCCTTAATATGACAGCTGA-GAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTT
* * *
21350308 TCCCCTGCG
63 TCACTTGCA
** * * * * * *
21350317 AGCCTTAATACAACAGCTGGGAGTTTGTAACTCTCACCAATTATATTAGAGGCTGTGGGTTTTT-
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGT-GGTTTTTC
*
21350381 ACTTGTA
65 ACTTGCA
* * * * * ** *
21350388 AGCCTTAATATGACAGTTGGGAATTTGTAACTCTCAATAACTGTATCAGAGGCTGTGATTTTTCA
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
* *
21350453 TTTACA
66 CTTGCA
* * ** *
21350459 AGCCTTAATATGATAGCTGAGAGTTTGGAACTCTTGCTAACTGTGTTGGAGGCTGTGGTCTTTCA
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
21350524 CTTGCA
66 CTTGCA
21350530 AGCCTTAATATGA
1 AGCCTTAATATGA
21350543 TAGTTTGGTG
Statistics
Matches: 240, Mismatches: 51, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
70 8 0.03
71 223 0.93
72 7 0.03
73 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (71 bp):
AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
CTTGCA
Found at i:21358437 original size:15 final size:15
Alignment explanation
Indices: 21358417--21358453 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
21358407 TCTGGTTGCC
21358417 CTGTGACACGCCAAT
1 CTGTGACACGCCAAT
21358432 CTGTGACACGCCAAT
1 CTGTGACACGCCAAT
21358447 CTGTGAC
1 CTGTGAC
21358454 TGGTTATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (15 bp):
CTGTGACACGCCAAT
Found at i:21359417 original size:24 final size:24
Alignment explanation
Indices: 21359390--21359459 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
21359380 AAAAATCTGG
21359390 TGGCTATTCTGTGAGAGGCTGGAA
1 TGGCTATTCTGTGAGAGGCTGGAA
* * *
21359414 TGGCTATTCTTTGATGGTAGTCTTGAA
1 TGGCTATTCTGTGA--G-AGGCTGGAA
21359441 TGGCTATT-TCGTGAGAGGC
1 TGGCTATTCT-GTGAGAGGC
21359460 CGTAATGAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
24 16 0.43
25 1 0.03
26 2 0.05
27 18 0.49
ACGTcount: A:0.19, C:0.13, G:0.33, T:0.36
Consensus pattern (24 bp):
TGGCTATTCTGTGAGAGGCTGGAA
Found at i:21360530 original size:43 final size:43
Alignment explanation
Indices: 21360313--21360522 Score: 323
Period size: 43 Copynumber: 4.9 Consensus size: 43
21360303 TACAAAAAAA
*
21360313 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
21360356 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
21360399 AAACGCCGCTAAAGATCAAAACCTTTAGCGGCGCTTCTCCCA-
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
21360441 AAATCGCCGCTAAAGACCAAGACCTTTAGCGGCACTTCTCTCAC
1 AAA-CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * * *
21360485 AAACGCCGTTAAAAACTAGGACCTTTAGCGGCGCTTCT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCT
21360523 ATTACAAATG
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 3 0.02
43 147 0.96
44 3 0.02
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
Found at i:21362251 original size:5 final size:5
Alignment explanation
Indices: 21362207--21362233 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
21362197 TATTCGATTC
21362207 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
21362234 GGTAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:21363707 original size:120 final size:120
Alignment explanation
Indices: 21363494--21363727 Score: 459
Period size: 120 Copynumber: 1.9 Consensus size: 120
21363484 AAACCTAAAG
21363494 GAGGTACTAAAACTGAAAAAACAACCCAATATTTAGCTATTTCTCTAGGCTTTTTTCCCAAATAT
1 GAGGTACTAAAACTGAAAAAACAACCCAATATTTAGCTATTTCTCTAGGCTTTTTTCCCAAATAT
21363559 GCTTTGATGTATTGACTTCTTATGCATAAAGTGGAATTTGAAAGAGGGACTAGAT
66 GCTTTGATGTATTGACTTCTTATGCATAAAGTGGAATTTGAAAGAGGGACTAGAT
*
21363614 GAGGTACTAAAACTGAAAAAGCAACCCAATATTTAGCTATTTCTCTAGGCTTTTTTCCCAAATAT
1 GAGGTACTAAAACTGAAAAAACAACCCAATATTTAGCTATTTCTCTAGGCTTTTTTCCCAAATAT
21363679 GCTTTGATGTATTGACTTCTTATGCATAAAGTGGAATTTGAAAGAGGGA
66 GCTTTGATGTATTGACTTCTTATGCATAAAGTGGAATTTGAAAGAGGGA
21363728 TAAGTTGTGA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (120 bp):
GAGGTACTAAAACTGAAAAAACAACCCAATATTTAGCTATTTCTCTAGGCTTTTTTCCCAAATAT
GCTTTGATGTATTGACTTCTTATGCATAAAGTGGAATTTGAAAGAGGGACTAGAT
Found at i:21366422 original size:28 final size:30
Alignment explanation
Indices: 21366356--21366424 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
21366346 ACACTGGATC
* * *
21366356 CATAAACCTTAAATCCCTAACTCTTAACCT
1 CATAAACCTTAAACCCCTAACCCCTAACCT
* *
21366386 C-TAACCCTT-GACCCCTAACCCCTAA-CT
1 CATAAACCTTAAACCCCTAACCCCTAACCT
21366413 CATAAACCTTAA
1 CATAAACCTTAA
21366425 TCACAACCCT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
27 3 0.10
28 19 0.63
29 7 0.23
30 1 0.03
ACGTcount: A:0.35, C:0.38, G:0.01, T:0.26
Consensus pattern (30 bp):
CATAAACCTTAAACCCCTAACCCCTAACCT
Found at i:21366460 original size:14 final size:15
Alignment explanation
Indices: 21366443--21366475 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
21366433 CTTAAATCAG
21366443 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
21366457 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
21366472 AATC
1 AATC
21366476 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:21366810 original size:41 final size:41
Alignment explanation
Indices: 21366753--21366870 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
21366743 NNNNNNNNNN
* *
21366753 AGCATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGAACTG
1 AGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAACTA
* *
21366794 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTA
1 AGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAACTA
21366835 AGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAG
1 AGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAG
21366871 CCCCTAAAGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAACTA
Found at i:21366957 original size:40 final size:40
Alignment explanation
Indices: 21366902--21367038 Score: 161
Period size: 40 Copynumber: 3.4 Consensus size: 40
21366892 GGGCTTAGGG
* * *
21366902 TTTTTTGCGGCGTTTTTCCAAGAAACACCGCTAATGCTC-A
1 TTTTTAGCGGCGTTTTTCGAA-AAACGCCGCTAATGCTCGA
*
21366942 TTTTTAGCGGCGTTTTT-GAAAAAGCGCCTCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCGAAAAA-CGCCGCTAATGCTCGA
* * * * *
21366982 TCTTTAGTGGCGTTTTACGTAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCGAAAAACGCCGCTAATGCTCGA
21367022 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
21367039 TTGTCCAAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.04
39 14 0.17
40 60 0.74
41 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCGAAAAACGCCGCTAATGCTCGA
Found at i:21369809 original size:27 final size:27
Alignment explanation
Indices: 21369779--21369837 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
21369769 GATGGAACGA
*
21369779 AAACAGACAGCGTTGAAAATGAAGCTG
1 AAACAGACAGCGTTGAAAACGAAGCTG
* * *
21369806 AAACAGACGGCGTTGAAGACGGAGCTG
1 AAACAGACAGCGTTGAAAACGAAGCTG
21369833 AAACA
1 AAACA
21369838 TTTAGTGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (27 bp):
AAACAGACAGCGTTGAAAACGAAGCTG
Found at i:21372801 original size:39 final size:39
Alignment explanation
Indices: 21372758--21372832 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
21372748 AAGTTGGGAA
*
21372758 AACAAATATAATATATGAACTAAATCATTATATAAGTTT
1 AACAAATATAATATATGAACTAAATCATGATATAAGTTT
21372797 AACAAATATAATATATGAACTAAATCATGATATAAG
1 AACAAATATAATATATGAACTAAATCATGATATAAG
21372833 GATTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (39 bp):
AACAAATATAATATATGAACTAAATCATGATATAAGTTT
Found at i:21374353 original size:323 final size:323
Alignment explanation
Indices: 21373765--21374420 Score: 972
Period size: 323 Copynumber: 2.0 Consensus size: 323
21373755 AACTAGATGA
* * *
21373765 AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTTCAAATATTAGCATGCCCTATT
1 AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTCCAAATATTAGCAGGCCCAATT
*** * * *
21373830 CCTGGTGATACATATTTCTAAACCTTTTCGCTGTGGAAAAAACATCTTTCTTCATCCATTTTCAA
66 CCCCCTGATACATATTTCTAAACCTTTTCGCTATGGAAAAAACATCTTTCTTCATCCATCTCCAA
* *
21373895 GCTAACCAATCCTAACTTACATCACTAGAAAAATGCACAATAGATGCTATTTATATAACAATATT
131 GCTAACCAATCCTAACCTACATCACTAGAAAAAGGCACAATAGATGCTATTTATATAACAATATT
* * * * *
21373960 AATCGATAATAGCGAGAATAGATGAGGCCAGTCCCAACAACCATTTTCGTCTACCAAATCACATA
196 AACCGATAATAGCGAGAATAGATGAGACCAATCCCAACAAACATTTCCGTCTACCAAATCACATA
* * *
21374025 CTCTTAAAGC-ATCATCTAGCTGACAGCGACCTGTATAAAACCCTTGAAGAGGACCAATCTACC
261 CTCTTAAA-CTATCATCTAGCTGACAGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
* * *
21374088 AAACCCAAACTCTTTGAGGTGTTTTCACCTTCCAAATCAGCCTCCAAATATTAGTAGGCCCAATT
1 AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTCCAAATATTAGCAGGCCCAATT
* * *
21374153 CCCCCTGATACATATTTTTAAACCTTTTCGCTATGGAAAAATCGTCTTTCTTCATCCATCTCCAA
66 CCCCCTGATACATATTTCTAAACCTTTTCGCTATGGAAAAAACATCTTTCTTCATCCATCTCCAA
* * * ** * *
21374218 GCTAACCAGTCCTGACCTACATCACTGGAAAGGGGCACAATAGATGCTATTTGTGTAACAATATT
131 GCTAACCAATCCTAACCTACATCACTAGAAAAAGGCACAATAGATGCTATTTATATAACAATATT
*
21374283 AACCGATAATAGCGAGAATAGATGAGACCAATCCCAACAAACATTTCCGTTTACCAAATCACATA
196 AACCGATAATAGCGAGAATAGATGAGACCAATCCCAACAAACATTTCCGTCTACCAAATCACATA
* * *
21374348 CTCTTAAACTATCATCTGGTTGACTGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
261 CTCTTAAACTATCATCTAGCTGACAGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
21374411 AAACCCAAAC
1 AAACCCAAAC
21374421 GTCATTCCAA
Statistics
Matches: 296, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
322 1 0.00
323 295 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (323 bp):
AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTCCAAATATTAGCAGGCCCAATT
CCCCCTGATACATATTTCTAAACCTTTTCGCTATGGAAAAAACATCTTTCTTCATCCATCTCCAA
GCTAACCAATCCTAACCTACATCACTAGAAAAAGGCACAATAGATGCTATTTATATAACAATATT
AACCGATAATAGCGAGAATAGATGAGACCAATCCCAACAAACATTTCCGTCTACCAAATCACATA
CTCTTAAACTATCATCTAGCTGACAGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
Found at i:21384188 original size:93 final size:93
Alignment explanation
Indices: 21384029--21384214 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
21384019 CTTGCTTGTT
*
21384029 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTTCTTCAGCTACATACGTATTC
1 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
21384094 TCCTCATTGTCACCCTTATGCAAATTTC
66 TCCTCATTGTCACCCTTATGCAAATTTC
21384122 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
1 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
21384187 TCCTCATTGTCACCCTTATGCAAATTTC
66 TCCTCATTGTCACCCTTATGCAAATTTC
21384215 CAAACCGAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (93 bp):
TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
TCCTCATTGTCACCCTTATGCAAATTTC
Found at i:21396030 original size:14 final size:14
Alignment explanation
Indices: 21395995--21396041 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
21395985 CTGCACAATT
* *
21395995 AATAACATGATTAT
1 AATAACATGAATAA
*
21396009 AATGACATGAATAA
1 AATAACATGAATAA
21396023 AATAACAT-AACTAA
1 AATAACATGAA-TAA
21396037 AATAA
1 AATAA
21396042 TTACATGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 2 0.07
14 26 0.93
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAACATGAATAA
Found at i:21398099 original size:10 final size:11
Alignment explanation
Indices: 21398084--21398110 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21398074 CAAAAGGAGT
21398084 GAAAAACAAGC
1 GAAAAACAAGC
21398095 GAAAAACAAGC
1 GAAAAACAAGC
21398106 GAAAA
1 GAAAA
21398111 TCGAAAAATT
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:0.67, C:0.15, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAACAAGC
Found at i:21402492 original size:15 final size:15
Alignment explanation
Indices: 21402472--21402522 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
21402462 TACCCATATC
21402472 TTTGATTTTCCAATA
1 TTTGATTTTCCAATA
**
21402487 TTTGA-TACCCATATA
1 TTTGATTTTCCA-ATA
* *
21402502 TTTGACTTTCCATTA
1 TTTGATTTTCCAATA
21402517 TTTGAT
1 TTTGAT
21402523 AACCATATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (15 bp):
TTTGATTTTCCAATA
Found at i:21402496 original size:30 final size:30
Alignment explanation
Indices: 21402450--21402541 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
21402440 ATTTCTTATG
* *
21402450 CCAATATCTCGATACCCATATCTTTGATTTT
1 CCAATAT-TTGATACCCATATATTTGATTTT
*
21402481 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGATTTT
* *
21402511 CCATTATTTGATAACCATATATTTGAATTTT
1 CCAATATTTGATACCCATATATTTG-ATTTT
21402542 TATAAATACG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 43 0.80
31 11 0.20
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCCATATATTTGATTTT
Found at i:21402533 original size:15 final size:15
Alignment explanation
Indices: 21402484--21402536 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
21402474 TGATTTTCCA
*
21402484 ATATTTGATACCCAT
1 ATATTTGATAACCAT
**
21402499 ATATTTGACTTTCCAT
1 ATATTTGA-TAACCAT
21402515 -TATTTGATAACCAT
1 ATATTTGATAACCAT
21402529 ATATTTGA
1 ATATTTGA
21402537 ATTTTTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 5 0.16
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (15 bp):
ATATTTGATAACCAT
Found at i:21412558 original size:22 final size:22
Alignment explanation
Indices: 21412498--21412555 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
21412488 AATCTTCAAG
21412498 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
21412517 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
21412539 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
21412556 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:21417176 original size:50 final size:50
Alignment explanation
Indices: 21417113--21417214 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
21417103 TCATTCATTC
21417113 ATAATCATACTATACAAATAATTATTCATAAATTCATACATTCTTTGTAT
1 ATAATCATACTATACAAATAATTATTCATAAATTCATACATTCTTTGTAT
21417163 ATAATCATACTATACAAATAATTATTCATAAATTCATACATTCTTTGTAT
1 ATAATCATACTATACAAATAATTATTCATAAATTCATACATTCTTTGTAT
21417213 AT
1 AT
21417215 TCTTTTGTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (50 bp):
ATAATCATACTATACAAATAATTATTCATAAATTCATACATTCTTTGTAT
Found at i:21419222 original size:24 final size:24
Alignment explanation
Indices: 21419190--21419247 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
21419180 ATGTCCCAAA
*
21419190 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTAAACCTTGAAG
21419214 ATTACAGTGGATTAAACCTTGAAG
1 ATTACAGTGGATTAAACCTTGAAG
21419238 ATTACAGTGG
1 ATTACAGTGG
21419248 GGGGCAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGATTAAACCTTGAAG
Found at i:21419737 original size:72 final size:72
Alignment explanation
Indices: 21419628--21419764 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
21419618 CAGTGGAACA
* * * ** *
21419628 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGCATAGATTAAAGCTGAAA
1 GATTAAAGCTAAAGGTAGCGAATCCTATTTCCCTGGCGTTACAGTGAAACAGATTAAAGCTGAAA
21419693 TGGAGCG
66 TGGAGCG
* * * *
21419700 GATTAAAGCTGAAGGTAGTGAATCCTATCTT-CTTGGCGTTATAGTGAAACAGATTAAAGCTGAA
1 GATTAAAGCTAAAGGTAGCGAATCCTAT-TTCCCTGGCGTTACAGTGAAACAGATTAAAGCTGAA
21419764 A
65 A
21419765 GTAGCGAATC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 52 0.96
73 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (72 bp):
GATTAAAGCTAAAGGTAGCGAATCCTATTTCCCTGGCGTTACAGTGAAACAGATTAAAGCTGAAA
TGGAGCG
Found at i:21419806 original size:123 final size:122
Alignment explanation
Indices: 21419585--21419815 Score: 306
Period size: 123 Copynumber: 1.9 Consensus size: 122
21419575 GGCGTTAAGA
* * *
21419585 CTGAAGGCAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 CTGAAGGCAGTGAATCCTATTTCCCTGGCGTTACAGTGAAACAGATTAAAGCTAAAGGTAGCGAA
* * *
21419650 TCTTGTTTCCCTGGCGTTGCAGTGGCATAGATTAAAGCTGAAATGGAGCGGATTAAAG
66 TCTTGTTTCCCTAGCATTGCAGCGGCA-AGATTAAAGCTGAAATGGAGCGGATTAAAG
* * *
21419708 CTGAAGGTAGTGAATCCTATCTT-CTTGGCGTTATAGTGAAACAGATTAAAGCTGAAA-GTAGCG
1 CTGAAGGCAGTGAATCCTAT-TTCCCTGGCGTTACAGTGAAACAGATTAAAGCT-AAAGGTAGCG
*
21419771 AATCTTGTTTCCCTAGCATTGCAGCGAAGC-GGATTAAAGCTGAAA
64 AATCTTGTTTCCCTAGCATTGCAGCG--GCAAGATTAAAGCTGAAA
21419816 GCATCGAATC
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
123 87 0.93
124 5 0.05
125 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (122 bp):
CTGAAGGCAGTGAATCCTATTTCCCTGGCGTTACAGTGAAACAGATTAAAGCTAAAGGTAGCGAA
TCTTGTTTCCCTAGCATTGCAGCGGCAAGATTAAAGCTGAAATGGAGCGGATTAAAG
Found at i:21420423 original size:170 final size:171
Alignment explanation
Indices: 21420051--21420519 Score: 597
Period size: 170 Copynumber: 2.7 Consensus size: 171
21420041 AAAGATGGCG
* * * **
21420051 AATCTTATCTTCCTGAAATTGTAGTGGAGTAGATTAAAGCCAAT--AATCCTATCTCTTTAAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG--AATCCAATCCTATCTCCCTAAAGT
* * * * * * *
21420114 TACAATGGAGCGGGTTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGTATCC
64 TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAAAGAGCAGATCGCAT-C
*
21420179 AGTCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAATAAACC
128 AGTCTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAATAAACC
* * *
21420223 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAATTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
* * *
21420288 TAGTGGAGCGGATTAAAATCATAGATCTTATCTCTTTGAAGTTGCAAAGAGTAGATCGCAT-AGT
66 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAAAGAGCAGATCGCATCAGT
* *
21420352 CTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAATAAATC
131 CTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAATAAACC
* * * * *
21420393 AATCTTATCTCCCTGAAGTTATAGTGGAGCATATTAAAGAAACCAACCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
* * *
21420458 CAGTGGAGTGGATTAAAATCACAGATCTTATCT-TTCTGAAGTTGTAGTAGAGCA-ATCGCATC
66 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTT-TGAAGTTGCA-AAGAGCAGATCGCATC
21420520 CAGCCTAGCC
Statistics
Matches: 257, Mismatches: 35, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
169 2 0.01
170 147 0.57
171 5 0.02
172 103 0.40
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (171 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAAAGAGCAGATCGCATCAGT
CTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAATAAACC
Found at i:21420490 original size:44 final size:44
Alignment explanation
Indices: 21420052--21420511 Score: 197
Period size: 44 Copynumber: 10.7 Consensus size: 44
21420042 AAGATGGCGA
* * * * ** *
21420052 ATCTTATCTTCCTGAAATTGTAGTGGAGTAGATTAAAGCCA-ATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
* ** * * * * *
21420096 ATCCTATCTCTTTAAAGTTACAATGGAGCGGGTTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * ***
21420140 ATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGTATC-CAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * *
21420181 -TCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAATAAAC-CA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCACAG
*
21420224 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAATC-CA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AATCACAG
* * * * * *
21420268 ATCCTATCTCCCTAAATTTGTAGTGGAGCGGATTAAAATCATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
** * * * *
21420312 ATCTTATCTCTTTGAAGTTGCA----A--AGAGT-AGATCGCAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *
21420349 AGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAATAA--ATCA-
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCA-CAG
** * *
21420394 ATCTTATCTCCCTGAAGTTATAGTGGAGCATATTAAAGA-AACCA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAG
* * **
21420438 ACCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
** * *
21420482 ATCTTATCTTTCTGAAGTTGTAGTAGAGCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA
21420512 ATCGCATCCA
Statistics
Matches: 305, Mismatches: 87, Indels: 48
0.69 0.20 0.11
Matches are distributed among these distances:
37 6 0.02
38 21 0.07
40 21 0.07
41 9 0.03
42 10 0.03
43 16 0.05
44 216 0.71
45 2 0.01
46 3 0.01
47 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:21420678 original size:89 final size:89
Alignment explanation
Indices: 21420519--21420747 Score: 323
Period size: 89 Copynumber: 2.6 Consensus size: 89
21420509 GCAATCGCAT
* * * * * **
21420519 CCAGCCTAGCCTCCCTGAGTATGCAGCGGAGTAGACTGACGATAGCAGATCTTGTCTTTTTGTAT
1 CCAGCCTTGCCTCCCTGAGTTTGTAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
*
21420584 TGGCAGCGAAGCAGATCGAAGACA
66 TGGCAGCGAAACAGATCGAAGACA
* * * * *
21420608 CTATCCTTGCCTCCCTGAGTTTGTAGCAGAGCAGAATGAATATAGCAGATCTTGTCTTCCTGTAT
1 CCAGCCTTGCCTCCCTGAGTTTGTAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
*
21420673 TGGCAGCGAAATAGATCGAAGACA
66 TGGCAGCGAAACAGATCGAAGACA
*
21420697 CCAGCCTTGCCTCCCTGATTTTGTAGCGGAGCAGACTGAAGATAGCAGATC
1 CCAGCCTTGCCTCCCTGAGTTTGTAGCGGAGCAGACTGAAGATAGCAGATC
21420748 GAAAACACCA
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 120 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (89 bp):
CCAGCCTTGCCTCCCTGAGTTTGTAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
TGGCAGCGAAACAGATCGAAGACA
Found at i:21420805 original size:58 final size:58
Alignment explanation
Indices: 21420684--21420805 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 58
21420674 GGCAGCGAAA
* * * *
21420684 TAGATCGAAGACACCAGCCTTGCCTCCCTGATTTTGTAGCGGAGCAGACTGAAGATAG
1 TAGATCGAAAACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAG
* * * * ** *
21420742 CAGATCGAAAACACCAACCTTGCCTCTCTGAGTTTGCAGTGGAGTAGGTTGAAGATTG
1 TAGATCGAAAACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAG
21420800 TAGATC
1 TAGATC
21420806 TTGTCTTCCT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (58 bp):
TAGATCGAAAACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAG
Found at i:21420928 original size:87 final size:87
Alignment explanation
Indices: 21420819--21420991 Score: 206
Period size: 87 Copynumber: 2.0 Consensus size: 87
21420809 TCTTCCTAAT
* * *
21420819 TAGTAGTGGAGTAGATCAAAGATGGCGA-ATCTTATCTTCCCAATGTAGTAG-GAAGCAGATTTA
1 TAGTAGTGGAGTAGATCAAAGATGG-GATATCCTATCTCCCCAA-GCAGTAGTGAAGCAGATTTA
21420882 AGCCACCAGCCCTATCTCCCTGAG
64 AGCCACCAGCCCTATCTCCCTGAG
* ** * * *
21420906 TAGTAGTGGAGTAGGTTGAAGATTGTATATCCTATCTCCCCAAGCAGTAGTGGAGCAGATTTAAG
1 TAGTAGTGGAGTAGATCAAAGATGGGATATCCTATCTCCCCAAGCAGTAGTGAAGCAGATTTAAG
* * *
21420971 TCATCAGCCTTATCTCCCTGA
66 CCACCAGCCCTATCTCCCTGA
21420992 AGTTGCAGTG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
86 7 0.10
87 65 0.90
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (87 bp):
TAGTAGTGGAGTAGATCAAAGATGGGATATCCTATCTCCCCAAGCAGTAGTGAAGCAGATTTAAG
CCACCAGCCCTATCTCCCTGAG
Found at i:21421486 original size:22 final size:22
Alignment explanation
Indices: 21421426--21421483 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
21421416 AATCTTCAAG
21421426 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
21421445 GATATGCAATTTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
21421467 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
21421484 GATTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.39
22 8 0.26
23 11 0.35
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:21425760 original size:50 final size:47
Alignment explanation
Indices: 21425701--21425861 Score: 155
Period size: 47 Copynumber: 3.3 Consensus size: 47
21425691 CAGTGAGTGT
* *
21425701 GCCAGTGTAAGACTATGTCTGGGGCATGGCATCGGCACG-GACTAAGGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGA-T---GAGA
* * * * *
21425751 GCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCTCGAGATGCGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGA
* * *
21425798 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATGAGA
*
21425846 TCCCA-TGTAAGACCAT
1 -GCCAGTGTAAGACCAT
21425862 ATATAGGATA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
47 35 0.38
48 18 0.19
49 3 0.03
50 35 0.38
51 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGA
Found at i:21425813 original size:47 final size:48
Alignment explanation
Indices: 21425701--21425835 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 48
21425691 CAGTGAGTGT
* *
21425701 GCCAGTGTAAGACTATGTCTGGGGCATGGCATCGGCACGGACTAAGGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACT-A-GAGA
* * * * *
21425751 GCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCTCGAGA-T-GCGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-GACTAGAGA
*
21425798 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
21425836 CGATATGTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 36 0.49
50 35 0.48
51 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.20
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACTAGAGA
Found at i:21428667 original size:20 final size:19
Alignment explanation
Indices: 21428644--21428686 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
21428634 AATTTAGTCT
*
21428644 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAA-A
*
21428664 TTTTTGTTTTTAATTTAAA
1 TTTTTATTTTTAATTTAAA
21428683 TTTT
1 TTTT
21428687 ACATTCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTTAATTTAAA
Found at i:21433964 original size:42 final size:42
Alignment explanation
Indices: 21433884--21433965 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
21433874 CATTTTCTCT
* **
21433884 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
21433926 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
21433966 CACACCAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:21440289 original size:11 final size:11
Alignment explanation
Indices: 21440273--21440297 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21440263 GTCAAAAAAT
21440273 TTATTTTAATA
1 TTATTTTAATA
21440284 TTATTTTAATA
1 TTATTTTAATA
21440295 TTA
1 TTA
21440298 AAGCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:21444204 original size:21 final size:22
Alignment explanation
Indices: 21444177--21444241 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
21444167 ATGTTTTAGG
21444177 TTCAGGCACTATATGTGTCGTA
1 TTCAGGCACTATATGTGTCGTA
* **
21444199 TT-AGGCACCACGTGTGTCGT-
1 TTCAGGCACTATATGTGTCGTA
*
21444219 TTCAGGCACTTTATGTGTCGTA
1 TTCAGGCACTATATGTGTCGTA
21444241 T
1 T
21444242 ACTGCTTCTG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (22 bp):
TTCAGGCACTATATGTGTCGTA
Found at i:21444497 original size:23 final size:23
Alignment explanation
Indices: 21444471--21444548 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
21444461 GGCTTTGCCG
*
21444471 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
21444494 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
21444517 ATCATGCGCTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
21444540 TTCAGGCAC
1 ATCAGGCAC
21444549 CTCGTGCGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:21444559 original size:23 final size:22
Alignment explanation
Indices: 21444533--21444583 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
21444523 CGCTTTATGT
21444533 GTCGTATTTCAGGCACCTCGTGC
1 GTCGTA-TTCAGGCACCTCGTGC
*
21444556 GTCGTA-TCAGGCACCTCGTGT
1 GTCGTATTCAGGCACCTCGTGC
21444577 GTCGTAT
1 GTCGTAT
21444584 ATTGATCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 20 0.77
23 6 0.23
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.31
Consensus pattern (22 bp):
GTCGTATTCAGGCACCTCGTGC
Found at i:21454121 original size:224 final size:224
Alignment explanation
Indices: 21453685--21454121 Score: 510
Period size: 224 Copynumber: 2.0 Consensus size: 224
21453675 CAATACAACC
* *
21453685 CTAAAAAGCTAATATACTAAAAAGACTTAAACTAGTACACTTGGTTCAAATAGGCTCTTATGTTT
1 CTAAAAAGCTAATATACTAAAAAGACTTAAACTAGTACACTTGGTTCAAATAAGCCCTTATGTTT
* * * * * **
21453750 TTTTTGGTAACTAAATAACTCCTAAACTTTTATTTTTATTCATGTAAACCCTTAGTTTTAACTAA
66 TTTGTGATAACTAAATAACTCCTAAACTTTGATATTTATTCATGTAAACCCTTAGCTAAAACTAA
* *
21453815 AAATACTTTCGGAGAAACTCAATACCAAGTTACAATCAATATTCTAGAGATATTAAGTTATCAAT
131 AAATACTTTCGGAGAAACCCAATACCAAGTTACAATCAATATTCTAGAGATATTAAGCTATCAAT
* *
21453880 ATTCGATTTTTGTTTTTTCTATTATAGAG
196 ATTCGATCTTGGTTTTTTCTATTATAGAG
* * * * *
21453909 CTAAAAGGCTAATGTACTAAAGAAGGCCTTAAACTAGTACACTTTGTTTAAATAAGCCCTTATG-
1 CTAAAAAGCTAATATACTAAA-AA-GACTTAAACTAGTACACTTGGTTCAAATAAGCCCTTATGT
* * * *
21453973 TTTTTGT-ATAACTAAATAAGTCCTATACTTTGATATTTATTCATGTAAGCCCTTA-CTAAAAGT
64 TTTTTGTGATAACTAAATAACTCCTAAACTTTGATATTTATTCATGTAAACCCTTAGCTAAAACT
* * * * *
21454036 AAAACT-CTTTTTGGAGAAACCCAAATACCAAGTTACAA-CTACTGTTC-ATGAGATATTCAGCT
129 AAAAATAC-TTTCGGAGAAACCC-AATACCAAGTTACAATC-AATATTCTA-GAGATATTAAGCT
*
21454098 GTCAATATT-GAATCTTGGTTTTTT
190 ATCAATATTCG-ATCTTGGTTTTTT
21454122 TTTTTAATTT
Statistics
Matches: 178, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
222 1 0.01
223 24 0.13
224 111 0.62
225 8 0.04
226 34 0.19
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (224 bp):
CTAAAAAGCTAATATACTAAAAAGACTTAAACTAGTACACTTGGTTCAAATAAGCCCTTATGTTT
TTTGTGATAACTAAATAACTCCTAAACTTTGATATTTATTCATGTAAACCCTTAGCTAAAACTAA
AAATACTTTCGGAGAAACCCAATACCAAGTTACAATCAATATTCTAGAGATATTAAGCTATCAAT
ATTCGATCTTGGTTTTTTCTATTATAGAG
Found at i:21455905 original size:13 final size:13
Alignment explanation
Indices: 21455889--21455914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21455879 TTTTTAATTT
21455889 TCTATAATTTATA
1 TCTATAATTTATA
21455902 TCTATAATTTATA
1 TCTATAATTTATA
21455915 ACATAATATA
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TCTATAATTTATA
Found at i:21456230 original size:5 final size:5
Alignment explanation
Indices: 21456182--21456214 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
21456172 AATAAATAAA
*
21456182 TAATT TAATT TAATT TAATT TAATT TATTT TAA
1 TAATT TAATT TAATT TAATT TAATT TAATT TAA
21456215 AAAACTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:21456876 original size:21 final size:20
Alignment explanation
Indices: 21456838--21456877 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21456828 TTTTGTCTTA
*
21456838 TATAGTTTTAATATATTAAT
1 TATAGTTTTAACATATTAAT
21456858 TATAGTTTTAAACATATTAA
1 TATAGTTTT-AACATATTAA
21456878 GCATATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATAGTTTTAACATATTAAT
Found at i:21464463 original size:15 final size:16
Alignment explanation
Indices: 21464428--21464466 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
21464418 TAAAGGACTT
*
21464428 AAGGATTAGTGCATGAA
1 AAGG-TTAGTGCATAAA
21464445 AAGGTTAGT-CATAAA
1 AAGGTTAGTGCATAAA
21464460 AAGGTTA
1 AAGGTTA
21464467 TGTCGAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (16 bp):
AAGGTTAGTGCATAAA
Found at i:21468940 original size:43 final size:43
Alignment explanation
Indices: 21468884--21468965 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
21468874 ATTTCATGTC
*
21468884 AGACCATGCCTGGGCTATTGGCATTGATTTGAGATTTCGTATA
1 AGACCATGCCTGGGCTATTGGCATCGATTTGAGATTTCGTATA
21468927 AGACCATAG-CTGGGCTATTGGCATCGATTTGAGATTTCG
1 AGACCAT-GCCTGGGCTATTGGCATCGATTTGAGATTTCG
21468966 GTTGATTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
AGACCATGCCTGGGCTATTGGCATCGATTTGAGATTTCGTATA
Found at i:21469000 original size:60 final size:60
Alignment explanation
Indices: 21468907--21469025 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
21468897 GCTATTGGCA
*
21468907 TTGATTTGAGATTTCGTATAAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTTCGG
1 TTGATTTGAGATTTCGTATAAGACCATAGCTGGGCTACTGGCATCGATTTGAGATTTCGG
* *
21468967 TTGATTTGAGATTTCGTTTAAGACCATAGCTGGGCTACTGGCATCGATTTGATATTTCG
1 TTGATTTGAGATTTCGTATAAGACCATAGCTGGGCTACTGGCATCGATTTGAGATTTCG
21469026 TGTAAGACCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (60 bp):
TTGATTTGAGATTTCGTATAAGACCATAGCTGGGCTACTGGCATCGATTTGAGATTTCGG
Found at i:21469032 original size:43 final size:43
Alignment explanation
Indices: 21468969--21469067 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
21468959 GATTTCGGTT
* *
21468969 GATTTGAGATTTCGTTTAAGACCATAGCTGGGCTACTGGCATC
1 GATTTGAGATTTCGTGTAAGACCATAGCTAGGCTACTGGCATC
* *
21469012 GATTTGATATTTCGTGTAAGACCATAGCTAGGCTATTGGCATC
1 GATTTGAGATTTCGTGTAAGACCATAGCTAGGCTACTGGCATC
**
21469055 GATACGAGATTTC
1 GATTTGAGATTTC
21469068 CATGTAAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTTGAGATTTCGTGTAAGACCATAGCTAGGCTACTGGCATC
Found at i:21470432 original size:3 final size:3
Alignment explanation
Indices: 21470426--21470471 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
21470416 ATTAATCAAT
21470426 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21470472 CGTCGATATC
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):
TTA
Found at i:21474000 original size:18 final size:18
Alignment explanation
Indices: 21473964--21474001 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21473954 CTTTAACATT
*
21473964 TTTTTTTCCTTCTTTTTC
1 TTTTTTTCCTCCTTTTTC
21473982 TTTTTTTCC-CCTTTCTTC
1 TTTTTTTCCTCCTTT-TTC
21474000 TT
1 TT
21474002 CCTTTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTCCTCCTTTTTC
Found at i:21476033 original size:27 final size:27
Alignment explanation
Indices: 21475983--21476035 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
21475973 TTTTTATATC
*
21475983 ATAAAAATAAAATTAATTATAAATTAA
1 ATAAAAATAAAATTAATTAGAAATTAA
21476010 ATAAAAATAAAATTTAATT-GAAATTA
1 ATAAAAATAAAA-TTAATTAGAAATTA
21476036 TACTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
ATAAAAATAAAATTAATTAGAAATTAA
Found at i:21476760 original size:8 final size:8
Alignment explanation
Indices: 21476749--21476775 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21476739 CTTTTATTAA
21476749 TTTAAAAT
1 TTTAAAAT
21476757 TTTAAAAT
1 TTTAAAAT
21476765 TTTAAAAT
1 TTTAAAAT
21476773 TTT
1 TTT
21476776 TTAAAGAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:21478358 original size:16 final size:16
Alignment explanation
Indices: 21478334--21478368 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21478324 TGAATTACTG
* *
21478334 ATTATAGCTCTATTTC
1 ATTACAGCTCTATTCC
21478350 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
21478366 ATT
1 ATT
21478369 TCAACCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:21479070 original size:19 final size:18
Alignment explanation
Indices: 21479024--21479073 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
21479014 TGAGATTCTA
*
21479024 ATATTTAAATTTACTAAT
1 ATATTTAAATTTAGTAAT
*
21479042 ATA--GAAATTTAGTAAT
1 ATATTTAAATTTAGTAAT
21479058 ATAATTTAAATTTAGT
1 AT-ATTTAAATTTAGT
21479074 GAACCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 3 0.12
19 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (18 bp):
ATATTTAAATTTAGTAAT
Found at i:21479439 original size:3 final size:3
Alignment explanation
Indices: 21479433--21479458 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21479423 AATAATAAAA
21479433 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
21479459 TTAATCTTTA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21486440 original size:16 final size:16
Alignment explanation
Indices: 21486419--21486454 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
21486409 TTTGGTTCGC
21486419 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
21486435 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
21486451 TGTA
1 TGTA
21486455 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:21486573 original size:27 final size:27
Alignment explanation
Indices: 21486540--21486601 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
21486530 AGATGTGTAA
*
21486540 TAGAATA-ATGGAAAAAACTAAAATGAC
1 TAGAATACACGGAAAAAACT-AAATGAC
*
21486567 TAGAATACCCGGAAAAAACTAAATGAC
1 TAGAATACACGGAAAAAACTAAATGAC
21486594 TAGAATAC
1 TAGAATAC
21486602 CCTTAGCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.55, C:0.13, G:0.15, T:0.18
Consensus pattern (27 bp):
TAGAATACACGGAAAAAACTAAATGAC
Found at i:21486602 original size:27 final size:28
Alignment explanation
Indices: 21486549--21486603 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
21486539 ATAGAATAAT
21486549 GGAAAAAACTAAAATGACTAGAATACCC
1 GGAAAAAACTAAAATGACTAGAATACCC
21486577 GGAAAAAACT-AAATGACTAGAATACCC
1 GGAAAAAACTAAAATGACTAGAATACCC
21486604 TTAGCATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.53, C:0.18, G:0.15, T:0.15
Consensus pattern (28 bp):
GGAAAAAACTAAAATGACTAGAATACCC
Found at i:21499967 original size:18 final size:18
Alignment explanation
Indices: 21499940--21499989 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
21499930 GACCATATCT
*
21499940 CCATCCTCATACACCAT-A
1 CCATCATCAT-CACCATCA
*
21499958 CCATCATCATCATCATCA
1 CCATCATCATCACCATCA
21499976 CCATCATCATCACC
1 CCATCATCATCACC
21499990 TGTATTAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (18 bp):
CCATCATCATCACCATCA
Found at i:21500402 original size:2 final size:2
Alignment explanation
Indices: 21500389--21500423 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21500379 TGTCATCCCC
*
21500389 AT AT AT AC 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 AT AT AT A
21500424 GATGACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21502896 original size:72 final size:72
Alignment explanation
Indices: 21502805--21502952 Score: 165
Period size: 72 Copynumber: 2.1 Consensus size: 72
21502795 CAACGACGCT
** * *
21502805 GTTTCCAAGCTTTTGGGGATTTACC-GACGTTTTTAATTAAGCGCCACTAATAATCCTAAGCCAA
1 GTTTCCAAGCTTTTGGGGATTTACCAG-CGTTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCAA
21502869 ACGGTGCC
65 ACGGTGCC
* * ** * *
21502877 GTTTCCATAG-TTTTTGGGATTTAGCAGCGTTTTTGGGGAAGCGTCGCTAAAAACCCTAAGCCAA
1 GTTTCCA-AGCTTTTGGGGATTTACCAGCGTTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCAA
*
21502941 ACGGTGTC
65 ACGGTGCC
21502949 GTTT
1 GTTT
21502953 TCTCAGTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
72 60 0.95
73 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (72 bp):
GTTTCCAAGCTTTTGGGGATTTACCAGCGTTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCAAA
CGGTGCC
Found at i:21503560 original size:7 final size:7
Alignment explanation
Indices: 21503550--21503603 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
21503540 GATTTAAAGT
21503550 TTAGGGG
1 TTAGGGG
*
21503557 TTAGGTG
1 TTAGGGG
* **
21503564 TTATGCT
1 TTAGGGG
21503571 TTAGGGG
1 TTAGGGG
21503578 TTAGGGG
1 TTAGGGG
21503585 TTAGGGG
1 TTAGGGG
21503592 ATTTAGGGG
1 --TTAGGGG
21503601 TTA
1 TTA
21503604 CAGTTAGGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 31 0.82
9 7 0.18
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:21503775 original size:20 final size:20
Alignment explanation
Indices: 21503752--21503800 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
21503742 GTGTTAGAGA
21503752 TTGAGTTTGGGGTTTAAGGT
1 TTGAGTTTGGGGTTTAAGGT
* *
21503772 TTGAGTTTAGGGTTTTAGGGT
1 TTGAGTTT-GGGGTTTAAGGT
21503793 TT-AGTTTG
1 TTGAGTTTG
21503801 AAAATTGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (20 bp):
TTGAGTTTGGGGTTTAAGGT
Found at i:21503949 original size:7 final size:7
Alignment explanation
Indices: 21503931--21503963 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
21503921 CAAAAAATAT
21503931 GGTTTA-
1 GGTTTAC
21503937 GGTTTAC
1 GGTTTAC
*
21503944 GGTTTAG
1 GGTTTAC
21503951 GGTTTAC
1 GGTTTAC
21503958 GGTTTA
1 GGTTTA
21503964 GAGTGAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.15, C:0.06, G:0.33, T:0.45
Consensus pattern (7 bp):
GGTTTAC
Found at i:21503956 original size:14 final size:14
Alignment explanation
Indices: 21503931--21503964 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
21503921 CAAAAAATAT
21503931 GGTTTA-GGTTTAC
1 GGTTTAGGGTTTAC
21503944 GGTTTAGGGTTTAC
1 GGTTTAGGGTTTAC
21503958 GGTTTAG
1 GGTTTAG
21503965 AGTGAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.15, C:0.06, G:0.35, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAC
Found at i:21504307 original size:115 final size:114
Alignment explanation
Indices: 21504105--21504342 Score: 390
Period size: 115 Copynumber: 2.1 Consensus size: 114
21504095 TGCTTCATAA
* *
21504105 AAAAACGCCGCTAAAGGTGATATATTACCGGCGTCTTCTAAAGAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAAGTGATATATTACCGGCGTCTTCTAAAGAAACGCCACAAATTTCCTTTAA
*
21504170 CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGCATTT
66 CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGAATTT
*
21504219 GAAAAACGCCGCTAAAAGTGATATTTTACCGGCGT-TT-TACGAAGAAACGCCACAAATTTCCTT
1 -AAAAACGCCGCTAAAAGTGATATATTACCGGCGTCTTCTA--AAGAAACGCCACAAATTTCCTT
*
21504282 TAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTT
63 TAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGAATTT
21504334 AAAAACGCC
1 AAAAACGCC
21504343 ACAAATATTT
Statistics
Matches: 116, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
113 2 0.02
114 11 0.09
115 103 0.89
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (114 bp):
AAAAACGCCGCTAAAAGTGATATATTACCGGCGTCTTCTAAAGAAACGCCACAAATTTCCTTTAA
CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCCTTTAGTGGCGAATTT
Found at i:21504655 original size:261 final size:260
Alignment explanation
Indices: 21504205--21504734 Score: 880
Period size: 261 Copynumber: 2.0 Consensus size: 260
21504195 TTGTTTTCCT
* *
21504205 TTAGTGGCGCATTTGAAAAACGCCGCTAAAAGTGATATTTTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATATGAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
21504270 ACAAATTTCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTA
66 ACAAATTTCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTA
* * *
21504335 AAAACGCCACAAATATTTATTACGAGCTGAGGAAACGGTGTCGTTTCCTATTTTTATTAGTGGCG
131 AAAACGCCACAAATATTTACTACGAGCTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCG
* * *
21504400 CTTTAGCTAAAGCGCCGCAAAAATGTTTAATGTTACCTTATAACGGTGCCGTTTTGTCCTTGTTA
196 CTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTACCTTATAACGATGCCGTTTTGTCCGTGTTA
* *
21504465 TTAGTGGCGCATATGAAAAACGCCGCTAAAGGTGATATATTACTGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATATGAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* * ** * *
21504530 ACAAATTTCGTTTAACTGTAACGAAGACGGTGTTGTTTTGTTTTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTTCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCG-AATTT
*
21504595 AAAAACGCCACAAATATTTACTACGAGCTGAGGAAATGGCGCCGTTTCCTATTTTTATTAGTGGC
130 AAAAACGCCACAAATATTTACTACGAGCTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGC
* *
21504660 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATGACGATGCCGTTTTGTCCGTGTT
195 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTACCTTATAACGATGCCGTTTTGTCCGTGTT
21504725 A
260 A
21504726 TTAGTGGCG
1 TTAGTGGCG
21504735 TTTTTACTCT
Statistics
Matches: 250, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
260 115 0.46
261 135 0.54
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (260 bp):
TTAGTGGCGCATATGAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTA
AAAACGCCACAAATATTTACTACGAGCTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCG
CTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTACCTTATAACGATGCCGTTTTGTCCGTGTTA
Found at i:21506856 original size:21 final size:21
Alignment explanation
Indices: 21506832--21506875 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21506822 TAAGCTATGT
21506832 ATCCGTAAAAAATGATTTTGC
1 ATCCGTAAAAAATGATTTTGC
21506853 ATCCGTAAAAAATGATTTTGC
1 ATCCGTAAAAAATGATTTTGC
21506874 AT
1 AT
21506876 TTAGATATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (21 bp):
ATCCGTAAAAAATGATTTTGC
Found at i:21507540 original size:23 final size:23
Alignment explanation
Indices: 21507513--21507560 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
21507503 TAACTTGCAT
*
21507513 AATTTGAGCATTATTTTATGATA
1 AATTTGAGCATTACTTTATGATA
* *
21507536 AATTTGAGCTTTGCTTTATGATA
1 AATTTGAGCATTACTTTATGATA
21507559 AA
1 AA
21507561 AGTTGCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (23 bp):
AATTTGAGCATTACTTTATGATA
Found at i:21508705 original size:34 final size:34
Alignment explanation
Indices: 21508662--21508830 Score: 223
Period size: 34 Copynumber: 5.0 Consensus size: 34
21508652 AATATTCCGA
*
21508662 TATTAATTTTATTTACCTTAAATTTATATAATTT
1 TATTAATTTTATTTACCTTGAATTTATATAATTT
* ** **
21508696 TATTAATTTTATTTACCTTGAATTAATATTCTGA
1 TATTAATTTTATTTACCTTGAATTTATATAATTT
*
21508730 TATTAATTTTATTTACCTTAAATTTATATAATTT
1 TATTAATTTTATTTACCTTGAATTTATATAATTT
* ** **
21508764 TATTAATTTTATTTACCTTGAATTAATATTCTGA
1 TATTAATTTTATTTACCTTGAATTTATATAATTT
21508798 TATTAATTTTATTTACCTTGAA-TTATATAATTT
1 TATTAATTTTATTTACCTTGAATTTATATAATTT
21508831 ATTTACCTTA
Statistics
Matches: 112, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
33 6 0.05
34 106 0.95
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (34 bp):
TATTAATTTTATTTACCTTGAATTTATATAATTT
Found at i:21508735 original size:68 final size:68
Alignment explanation
Indices: 21508650--21508830 Score: 337
Period size: 68 Copynumber: 2.7 Consensus size: 68
21508640 TGATTTTTGT
*
21508650 TTAATATTCCGATATTAATTTTATTTACCTTAAATTTATATAATTTTATTAATTTTATTTACCTT
1 TTAATATTCTGATATTAATTTTATTTACCTTAAATTTATATAATTTTATTAATTTTATTTACCTT
21508715 GAA
66 GAA
21508718 TTAATATTCTGATATTAATTTTATTTACCTTAAATTTATATAATTTTATTAATTTTATTTACCTT
1 TTAATATTCTGATATTAATTTTATTTACCTTAAATTTATATAATTTTATTAATTTTATTTACCTT
21508783 GAA
66 GAA
*
21508786 TTAATATTCTGATATTAATTTTATTTACCTTGAA-TTATATAATTT
1 TTAATATTCTGATATTAATTTTATTTACCTTAAATTTATATAATTT
21508831 ATTTACCTTA
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
67 11 0.10
68 100 0.90
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (68 bp):
TTAATATTCTGATATTAATTTTATTTACCTTAAATTTATATAATTTTATTAATTTTATTTACCTT
GAA
Found at i:21508830 original size:24 final size:25
Alignment explanation
Indices: 21508797--21508855 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
21508787 TAATATTCTG
*
21508797 ATATTAATTTTATTTACCTTGAATT
1 ATATTAATTTTATTTACCTTAAATT
21508822 ATA-TAA-TTTATTTACCTTAAATT
1 ATATTAATTTTATTTACCTTAAATT
*
21508845 TTATTAATTTT
1 ATATTAATTTT
21508856 TTAAAATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 18 0.60
24 6 0.20
25 6 0.20
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTAATTTTATTTACCTTAAATT
Found at i:21511399 original size:21 final size:21
Alignment explanation
Indices: 21511347--21511404 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
21511337 CTACAACTTA
* *
21511347 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
21511368 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
21511389 AAGCGGAGGCTGCAGC
1 AAGCAGAGGCTGCAGC
21511405 AAGAGAAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:21511933 original size:42 final size:42
Alignment explanation
Indices: 21511762--21512078 Score: 433
Period size: 42 Copynumber: 7.5 Consensus size: 42
21511752 ATTTTTGTAT
* *
21511762 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
* *
21511804 AAAAGACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-A
1 AAAA-ACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
* * *
21511846 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCATAGAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAG-AA
* *
21511889 AAAAACGCCACTAAAGAACATGCTCTTTAGAGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
* *
21511931 AAAAACGCAGCTAAAGAACATGTTCTTTAGAGGCGTTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
* **
21511973 AAAAACGCCGTTAAAGAACATGTTCTTTAGAGGCGCACA-AA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
**
21512014 CAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCACA-AA
1 -AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
21512056 CAAAAACGCCGCTAAAGAACATG
1 -AAAAACGCCGCTAAAGAACATG
21512079 GTATTTAGCG
Statistics
Matches: 253, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
41 37 0.15
42 146 0.58
43 70 0.28
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
Found at i:21514445 original size:16 final size:16
Alignment explanation
Indices: 21514420--21514453 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21514410 ATGAATATAT
* *
21514420 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
21514436 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
21514452 AT
1 AT
21514454 TGGATATTGG
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:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:21534599 original size:16 final size:16
Alignment explanation
Indices: 21534574--21534607 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21534564 ATGAATATAT
* *
21534574 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
21534590 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
21534606 AT
1 AT
21534608 TGGATATTGG
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:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:21536035 original size:18 final size:18
Alignment explanation
Indices: 21536008--21536053 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
21535998 GTACAACTAT
21536008 TATA-TATATACTATCAA
1 TATATTATATACTATCAA
*
21536025 TATATTATATACTATTAA
1 TATATTATATACTATCAA
21536043 TATATTATATA
1 TATATTATATA
21536054 TTATATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (18 bp):
TATATTATATACTATCAA
Found at i:21538643 original size:3 final size:3
Alignment explanation
Indices: 21538635--21538675 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
21538625 AAATTAGTTA
21538635 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21538676 AAGGATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21542828 original size:25 final size:25
Alignment explanation
Indices: 21542783--21542831 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21542773 ATATAGTTTT
*
21542783 TATATTAATTATAAATGTTATAATA
1 TATATTAATTATAAATATTATAATA
21542808 TATATTATATTAT-AATATTATAAT
1 TATATTA-ATTATAAATATTATAAT
21542832 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTAATTATAAATATTATAATA
Found at i:21543773 original size:41 final size:41
Alignment explanation
Indices: 21543699--21543793 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
21543689 ATGATTAGTC
* * *
21543699 CTAAGTGTGC-TAATTAAATGATGAGGTTGAATAACGAGCA
1 CTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGCA
* * *
21543739 CTAAGTGTGTGAAATTAAATAATGATGTTAAATAACGGGCA
1 CTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGCA
21543780 CTAAGTGTGCGAAA
1 CTAAGTGTGCGAAA
21543794 CNNNNNNNNN
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 9 0.19
41 38 0.81
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (41 bp):
CTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGCA
Found at i:21551705 original size:41 final size:42
Alignment explanation
Indices: 21551642--21551726 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
21551632 ACTAATCTGA
* *
21551642 TTTATTGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGC
1 TTTATTGCCAGTGAAATAATTCAGACTATACGTCTAGCAGGC
* * *
21551684 TTTA-TGCCGGTGAAATTATTCAGACTATACGTCTCGCAGGC
1 TTTATTGCCAGTGAAATAATTCAGACTATACGTCTAGCAGGC
21551725 TT
1 TT
21551727 AATGGTGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
TTTATTGCCAGTGAAATAATTCAGACTATACGTCTAGCAGGC
Found at i:21554435 original size:47 final size:46
Alignment explanation
Indices: 21554364--21554542 Score: 160
Period size: 47 Copynumber: 3.6 Consensus size: 46
21554354 TTATGCGTGA
* * *
21554364 AAATGAATCAATCTATAGCTGAATGTATATGTAATTGTTATGCAGAG
1 AAATGAATTAAACTATGGC-GAATGTATATGTAATTGTTATGCAGAG
* * * **
21554411 AAATAAATTAAACTATGGTCGAATGTATATATATATATATATTTGTTATACATTG
1 AAATGAATTAAACTATGG-CGAATG------TATATGTA-A-TTGTTATGCAGAG
* *
21554466 AAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGAG
1 AAATGAATTAAACTATGGC-GAATGTATATGTAATTGTTATGCAGAG
21554513 AAATGAATTAAACTATGGCCGAATGTATAT
1 AAATGAATTAAACTATGG-CGAATGTATAT
21554543 ATATATATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
47 55 0.53
48 3 0.03
49 7 0.07
53 7 0.07
54 2 0.02
55 30 0.29
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (46 bp):
AAATGAATTAAACTATGGCGAATGTATATGTAATTGTTATGCAGAG
Found at i:21554488 original size:102 final size:102
Alignment explanation
Indices: 21554328--21554573 Score: 376
Period size: 102 Copynumber: 2.5 Consensus size: 102
21554318 AAATTAACTA
* * * *
21554328 CGAATGTATATATATAAATATATTTTTTATGC-GTGAAAATGAATCAATCTATAGCTGAATGTAT
1 CGAATGTATATATATATATATATTTGTTATGCATTG-AAATGAATTAATCTATAGCTGAATGTAT
*
21554392 ATGTAATTGTTATGCAGAGAAATAAATTAAACTATGGT
65 ATGTAATTGTTATGCAGAGAAATAAATTAAACTATGGC
*
21554430 CGAATGTATATATATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 CGAATGTATATATATATATATATTTGTTATGCATTGAAATGAATTAATCTATAGCTGAATGTATA
*
21554495 TGTAATTGTTATGCAGAGAAATGAATTAAACTATGGC
66 TGTAATTGTTATGCAGAGAAATAAATTAAACTATGGC
*
21554532 CGAATG----TATATATATATATTTGTTATGCATTGAAATAAATTA
1 CGAATGTATATATATATATATATTTGTTATGCATTGAAATGAATTA
21554574 TTTGAAGTTA
Statistics
Matches: 134, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
98 34 0.25
102 98 0.73
103 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.39
Consensus pattern (102 bp):
CGAATGTATATATATATATATATTTGTTATGCATTGAAATGAATTAATCTATAGCTGAATGTATA
TGTAATTGTTATGCAGAGAAATAAATTAAACTATGGC
Found at i:21554734 original size:41 final size:41
Alignment explanation
Indices: 21554679--21554833 Score: 238
Period size: 41 Copynumber: 3.8 Consensus size: 41
21554669 TTGTAAGTTT
* * *
21554679 GGGCTTTATGCCTAGCAGGCTTTGTGCCGATGAAATGTATT
1 GGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATC
21554720 GGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATC
1 GGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATC
*
21554761 AGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATC
1 GGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATC
* * * *
21554802 GGGCTTTGTGTCTAGCAGGCTTTATGCCGGTG
1 GGGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
21554834 TTTTATATAA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.17, C:0.20, G:0.32, T:0.32
Consensus pattern (41 bp):
GGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATC
Found at i:21554847 original size:82 final size:82
Alignment explanation
Indices: 21554680--21554852 Score: 229
Period size: 82 Copynumber: 2.1 Consensus size: 82
21554670 TGTAAGTTTG
* * *
21554680 GGCTTTATGCCTAGCAGGCTTTGTGCCGATGAAATGTATTGGGCTTTATGCCTAGCAGGCTCTGT
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGATGAAATGTATCGGGCTTTATGCCTAGCAGGCTCTAT
* *
21554745 GCCGGTGAAATGTATCA
66 GCCGGTGAAATATATAA
* * * *
21554762 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCGGGCTTTGTGTCTAGCAGGCTTTAT
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGATGAAATGTATCGGGCTTTATGCCTAGCAGGCTCTAT
***
21554827 GCCGGTGTTTTATATAA
66 GCCGGTGAAATATATAA
*
21554844 GGCTCTATG
1 GGCTTTATG
21554853 TTTAATAAGT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (82 bp):
GGCTTTATGCCTAGCAGGCTCTGTGCCGATGAAATGTATCGGGCTTTATGCCTAGCAGGCTCTAT
GCCGGTGAAATATATAA
Found at i:21564598 original size:49 final size:49
Alignment explanation
Indices: 21564476--21564578 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
21564466 AGCCCTTAAG
* *
21564476 TTGAAAACCATTGTTGTC-GAGCTATCTGGGATGGTAAGATATGTCTATA
1 TTGAAAACAATCGTTGTCAG-GCTATCTGGGATGGTAAGATATGTCTATA
21564525 TTGAAAACAATCGTTGTCAGGCTATCTGGGATGGT-AGAATAT-TCATATA
1 TTGAAAACAATCGTTGTCAGGCTATCTGGGATGGTAAG-ATATGTC-TATA
21564574 TTGAA
1 TTGAA
21564579 TGCCATCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
48 4 0.08
49 44 0.90
50 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (49 bp):
TTGAAAACAATCGTTGTCAGGCTATCTGGGATGGTAAGATATGTCTATA
Found at i:21571325 original size:72 final size:71
Alignment explanation
Indices: 21571169--21571328 Score: 173
Period size: 72 Copynumber: 2.2 Consensus size: 71
21571159 GGATTTCATG
** * * * *
21571169 ATCGATGGCTTGAGATCCAACATTTGTTGCGGATTCTCTGAAGCTTGTGTGAGCAGCATTAAATC
1 ATCGATGGCTTGAGATCCAACACGTGTTACGGATTCTCTGAAGCTTGTATGAGCAACATGAAATC
21571234 CTTGATT
66 CTT-ATT
* * *
21571241 ATCGATGACTTGAGATCCAGCACGTGTTACGGATTCTTTGAAGCTTGTATGAGCAACATCGAATT
1 ATCGATGGCTTGAGATCCAACACGTGTTACGGATTCTCTGAAGCTTGTATGAGCAACAT-GAA--
21571306 ATCC-T-TT
63 ATCCTTATT
21571313 A-CTGATGGCTTGAGAT
1 ATC-GATGGCTTGAGAT
21571329 TTGGCACGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
71 1 0.01
72 66 0.89
73 2 0.03
74 1 0.01
75 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (71 bp):
ATCGATGGCTTGAGATCCAACACGTGTTACGGATTCTCTGAAGCTTGTATGAGCAACATGAAATC
CTTATT
Found at i:21585373 original size:15 final size:15
Alignment explanation
Indices: 21585335--21585375 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
21585325 TACATAATAG
21585335 TAAAAAAATT-AAAA
1 TAAAAAAATTCAAAA
* *
21585349 T-TACAAATTCAAAA
1 TAAAAAAATTCAAAA
21585363 TAAAAAAATTCAA
1 TAAAAAAATTCAA
21585376 TTTTTAATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 6 0.29
14 6 0.29
15 9 0.43
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAAATTCAAAA
Found at i:21592877 original size:25 final size:25
Alignment explanation
Indices: 21592843--21592894 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
21592833 ATGGTCATAA
21592843 CATGACCCATTTACAAACCCAAATC
1 CATGACCCATTTACAAACCCAAATC
21592868 CATGACCCATTTACAAACCCAAATC
1 CATGACCCATTTACAAACCCAAATC
21592893 CA
1 CA
21592895 AATACCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.37, G:0.04, T:0.19
Consensus pattern (25 bp):
CATGACCCATTTACAAACCCAAATC
Found at i:21594138 original size:23 final size:23
Alignment explanation
Indices: 21594112--21594157 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
21594102 GATTTAAACG
*
21594112 GTTGTTAAATTATGTTTTA-AATA
1 GTTGTT-AACTATGTTTTACAATA
*
21594135 GTTGTTGACTATGTTTTACAATA
1 GTTGTTAACTATGTTTTACAATA
21594158 TCATTATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.50
Consensus pattern (23 bp):
GTTGTTAACTATGTTTTACAATA
Found at i:21594384 original size:20 final size:20
Alignment explanation
Indices: 21594361--21594399 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21594351 TATTTTTAAA
*
21594361 ATTTAAAATATATTTTATAT
1 ATTTAAAATAAATTTTATAT
*
21594381 ATTTAAATTAAATTTTATA
1 ATTTAAAATAAATTTTATA
21594400 AACAATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAAAATAAATTTTATAT
Found at i:21596387 original size:39 final size:37
Alignment explanation
Indices: 21596320--21596453 Score: 101
Period size: 39 Copynumber: 3.5 Consensus size: 37
21596310 TCCAGTATGG
* *
21596320 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGA-AATCCGAAG-AATAGTTGA
* *
21596359 CACCCAGTGTCTCATCGGCAAATCCGAAGAA-AGTTGG
1 CACCCAGTGCCTCATCGG-AAATCCGAAGAATAGTTGA
* * *
21596396 TACCCAGTACCTCATCGAAACTATCCGAAGAAATAAAG-TGA
1 CACCCAGTGCCTCATCGGAA--ATCCGAAG-AAT--AGTTGA
* *
21596437 CATCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
21596454 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
36 2 0.03
37 19 0.25
38 10 0.13
39 26 0.35
40 1 0.01
41 15 0.20
42 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAATCCGAAGAATAGTTGA
Found at i:21596616 original size:37 final size:36
Alignment explanation
Indices: 21596545--21596617 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
21596535 GTCTCCAAAT
* *
21596545 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACATTTCAATTCAAATTCACTTTTCCACTTTCAA
* *
21596581 TCACATTTCGATTCAAAATTCACTTTTCCATTTTCAA
1 TCACATTTCAATTC-AAATTCACTTTTCCACTTTCAA
21596618 GTCAATATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.29, C:0.25, G:0.01, T:0.45
Consensus pattern (36 bp):
TCACATTTCAATTCAAATTCACTTTTCCACTTTCAA
Found at i:21596873 original size:3 final size:3
Alignment explanation
Indices: 21596865--21596899 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21596855 AATCTCACTC
21596865 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
21596900 TATACTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21597730 original size:14 final size:17
Alignment explanation
Indices: 21597711--21597748 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
21597701 ATTTATTTCT
21597711 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
21597725 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
21597742 TAATATA
1 TAATATA
21597749 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:21597756 original size:12 final size:11
Alignment explanation
Indices: 21597728--21597771 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
21597718 ATATTTATAA
21597728 TATAATTAATT
1 TATAATTAATT
*
21597739 TAATAATATACTT
1 T-ATAAT-TAATT
21597752 TATAATTAATT
1 TATAATTAATT
21597763 TATATATTA
1 TATA-ATTA
21597772 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:21597775 original size:20 final size:23
Alignment explanation
Indices: 21597723--21597785 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
21597713 ATATAATATT
21597723 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
21597745 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
21597770 TATATAAATAAATAAT
1 TATATATATAATTAAT
21597786 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:21597787 original size:20 final size:20
Alignment explanation
Indices: 21597740--21597788 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21597730 TAATTAATTT
*
21597740 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
21597760 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
21597780 AATAATATA
1 AATAATATA
21597789 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:21599614 original size:38 final size:38
Alignment explanation
Indices: 21599572--21599647 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
21599562 CTTTGTTTGT
21599572 GGCTAACCCGAGCGGTGGTTCCTGAACTTTCAGATGTC
1 GGCTAACCCGAGCGGTGGTTCCTGAACTTTCAGATGTC
21599610 GGCTAACCCGAGCGGTGGTTCCTGAACTTTCAGATGTC
1 GGCTAACCCGAGCGGTGGTTCCTGAACTTTCAGATGTC
21599648 ACACAAGGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (38 bp):
GGCTAACCCGAGCGGTGGTTCCTGAACTTTCAGATGTC
Found at i:21612891 original size:9 final size:9
Alignment explanation
Indices: 21612846--21612893 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
21612836 CATCCATCTT
21612846 TCAACTCTC
1 TCAACTCTC
*
21612855 GCAACTCTC
1 TCAACTCTC
* *
21612864 TCAAACCCTT
1 TC-AACTCTC
*
21612874 TCAAGTCTC
1 TCAACTCTC
21612883 TCAACTCTC
1 TCAACTCTC
21612892 TC
1 TC
21612894 GTTTTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 23 0.77
10 7 0.23
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (9 bp):
TCAACTCTC
Found at i:21615027 original size:38 final size:38
Alignment explanation
Indices: 21614976--21615065 Score: 144
Period size: 38 Copynumber: 2.4 Consensus size: 38
21614966 CACCGGCAAT
* *
21614976 AAGCCTGAATAACACCGGCATTAAGCCAGCTAGGCACA
1 AAGCCTGAATAACACCGACACTAAGCCAGCTAGGCACA
**
21615014 AAGCCTGAATAACACCGACACTAAGCTTGCTAGGCACA
1 AAGCCTGAATAACACCGACACTAAGCCAGCTAGGCACA
21615052 AAGCCTGAATAACA
1 AAGCCTGAATAACA
21615066 GTATGATTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.39, C:0.28, G:0.19, T:0.14
Consensus pattern (38 bp):
AAGCCTGAATAACACCGACACTAAGCCAGCTAGGCACA
Found at i:21622023 original size:13 final size:13
Alignment explanation
Indices: 21622005--21622032 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21621995 TGATTATGGC
21622005 ATCAATCTTATGT
1 ATCAATCTTATGT
21622018 ATCAATCTTATGT
1 ATCAATCTTATGT
21622031 AT
1 AT
21622033 AGGGCCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (13 bp):
ATCAATCTTATGT
Found at i:21624437 original size:18 final size:17
Alignment explanation
Indices: 21624414--21624457 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
21624404 AATTGAGTAC
21624414 TCCATTTCTCATTCCATT
1 TCCATTTCTCATT-CATT
*
21624432 TCCATTTTTCATTCATT
1 TCCATTTCTCATTCATT
21624449 TGCCATTTC
1 T-CCATTTC
21624458 AACATTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.16, C:0.30, G:0.02, T:0.52
Consensus pattern (17 bp):
TCCATTTCTCATTCATT
Found at i:21624801 original size:2 final size:2
Alignment explanation
Indices: 21624794--21624821 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21624784 CATTTCATTT
21624794 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
21624822 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.