Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 175 of 295
Found at i:55600469 original size:32 final size:34
Alignment explanation
Indices: 55600420--55600484 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
55600410 ACAGTGCATG
*
55600420 CAGTAACAGTCTGGGCC-TAAGCCCTATTCAATAT
1 CAGTAACAGTCTGGGCCTTAA-CCCTATACAATAT
55600454 CAGT-ACAGTC-GGGCCTTAACCCTATACAATA
1 CAGTAACAGTCTGGGCCTTAACCCTATACAATA
55600485 ACAATATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 16 0.55
33 9 0.31
34 4 0.14
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTTAACCCTATACAATAT
Found at i:55604814 original size:20 final size:21
Alignment explanation
Indices: 55604789--55604833 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
55604779 AAGCATTCAA
55604789 ATCAAGCAAATTCTATCATT-
1 ATCAAGCAAATTCTATCATTC
55604809 ATCAAGCAAATTCTATCATTC
1 ATCAAGCAAATTCTATCATTC
55604830 ATCA
1 ATCA
55604834 TGGCATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (21 bp):
ATCAAGCAAATTCTATCATTC
Found at i:55606674 original size:71 final size:71
Alignment explanation
Indices: 55606536--55606732 Score: 177
Period size: 71 Copynumber: 2.8 Consensus size: 71
55606526 TTAATCGGTT
* * * * * * *
55606536 ATCCAGTAACAGTCAATTATTCAATAA-AATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAT
1 ATCCAGTAACAATCAATTATCCAGTAATAGTCA-ATTATTCAGTAA-TATTCAG-TATTCAGTAA
*
55606599 CAGTC-ATTC
63 CAGTCTA-AC
* * * *
55606608 ATTCAGTGACAATCAGTTATTCAGTAAT-GATCAATTATTCAGTAATATTCAGTATTCAGTAACA
1 ATCCAGTAACAATCAATTATCCAGTAATAG-TCAATTATTCAGTAATATTCAGTATTCAGTAACA
55606672 GTCTAAC
65 GTCTAAC
* * * *
55606679 ATCCAGTAACAGTCAATTATCCGGTAATAGTCAATTATTTAGTAATAATCAGTA
1 ATCCAGTAACAATCAATTATCCAGTAATAGTCAATTATTCAGTAATATTCAGTA
55606733 ATTTTATACC
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
71 59 0.58
72 30 0.29
73 13 0.13
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (71 bp):
ATCCAGTAACAATCAATTATCCAGTAATAGTCAATTATTCAGTAATATTCAGTATTCAGTAACAG
TCTAAC
Found at i:55606700 original size:18 final size:18
Alignment explanation
Indices: 55606534--55606723 Score: 122
Period size: 18 Copynumber: 10.6 Consensus size: 18
55606524 AATTAATCGG
*
55606534 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
55606552 TTATTCAATAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
55606570 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
*
55606587 GTTATTCAGTATCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
55606605 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
55606624 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* *
55606642 TTATTCAGTAATATTC-A
1 TTATTCAGTAACAGTCAA
*
55606659 GTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
55606678 -CATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
55606695 TTATCCGGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
*
55606713 TTATTTAGTAA
1 TTATTCAGTAA
55606724 TAATCAGTAA
Statistics
Matches: 132, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
17 32 0.24
18 85 0.64
19 15 0.11
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:55608251 original size:12 final size:12
Alignment explanation
Indices: 55608234--55608260 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55608224 ATTCCGAAGT
55608234 ATATATATATAC
1 ATATATATATAC
55608246 ATATATATATAC
1 ATATATATATAC
55608258 ATA
1 ATA
55608261 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:55608819 original size:27 final size:28
Alignment explanation
Indices: 55608735--55608832 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
55608725 TAAATTGTAC
*
55608735 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
55608763 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
55608791 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
55608818 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55608833 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:55608843 original size:27 final size:27
Alignment explanation
Indices: 55608735--55608845 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
55608725 TAAATTGTAC
* *
55608735 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
55608763 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
55608791 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
55608818 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
55608845 A
1 A
55608846 CTTTGAATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:55610421 original size:6 final size:6
Alignment explanation
Indices: 55610410--55610434 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55610400 ACAGATCCGG
55610410 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
55610435 TTCAACACAC
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:55610488 original size:45 final size:45
Alignment explanation
Indices: 55610415--55610524 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
55610405 TCCGGAACAG
**
55610415 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * *
55610460 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
55610505 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
55610525 ACATAGTCGG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:55610519 original size:12 final size:12
Alignment explanation
Indices: 55610502--55610526 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55610492 AGTGCCGAAT
55610502 CGGTAACAGTAA
1 CGGTAACAGTAA
55610514 CGGTAACAGTAA
1 CGGTAACAGTAA
55610526 C
1 C
55610527 ATAGTCGGCA
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:55616883 original size:18 final size:18
Alignment explanation
Indices: 55616849--55617143 Score: 132
Period size: 18 Copynumber: 16.1 Consensus size: 18
55616839 TCATTAACAC
* *
55616849 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
55616866 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* * *
55616884 ACGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
55616902 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
55616920 TCAGTATCGATCAATTGATTGGTTAT
1 TCAGTA---A-CAA-TCA---GTTAT
* * *
55616946 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
55616964 TCAATAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
*
55616981 TCAG-AACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
*
55616999 TCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
55617017 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
55617035 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* * * *
55617053 TCAGAAATATTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
55617071 TCAGTAACAGTCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * *
55617089 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * * *
55617107 CCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
55617125 TCAGTAATAATTAGTTAT
1 TCAGTAACAATCAGTTAT
55617143 T
1 T
55617144 TTATACCTTT
Statistics
Matches: 209, Mismatches: 53, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
16 2 0.01
17 19 0.09
18 162 0.78
19 7 0.03
21 3 0.01
22 4 0.02
23 2 0.01
26 10 0.05
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:55616902 original size:36 final size:36
Alignment explanation
Indices: 55616849--55617131 Score: 155
Period size: 36 Copynumber: 7.7 Consensus size: 36
55616839 TCATTAACAC
* *
55616849 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * * **
55616884 ACGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
55616920 TCAGTATCGATCAATTGATTGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTTAT
* * *
55616964 TCAATAA-AATCAGA-TATTCAG-AACAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAAC-AGTCAGTTAT
* * *
55616999 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTCAGTTAT
** * * * *
55617035 TCAGTAATGATCAATTATTCAGAAATATTCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
55617071 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAGTCAGTTAT
* * *
55617107 CCGGTAACAGTCAATTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
55617132 TAATTAGTTA
Statistics
Matches: 184, Mismatches: 46, Indels: 35
0.69 0.17 0.13
Matches are distributed among these distances:
34 4 0.02
35 21 0.11
36 124 0.67
37 9 0.05
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:55617143 original size:72 final size:70
Alignment explanation
Indices: 55616943--55617143 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 70
55616933 ATTGATTGGT
* * *
55616943 TATCCAGTAACAGTCAATTATTCAATAAAATCAGA-TATTCAGAACAATTAAGTTATTCAGTAAC
1 TATCCAGTAACAGTCAATTATTCAGTAAAGTCA-ATTATTCAGAATAATTAAGTTATTCAGTAAC
*
55617007 AGTCAT
65 AGTCAA
* * * * *
55617013 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGAA-ATATTCAA-TTATTCAGT
1 T-ATCCAGTAACAGTCAATTATTCAGTAAAG-TCAATTATTCAGAATA-ATT-AAGTTATTCAGT
55617076 AACAGTCTAA
62 AACAGTC-AA
* *
55617086 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATT-AGTTATT
1 TATCCAGTAACAGTCAATTATTCAGTAA-AGTCAATTATTCAG-AATAATTAAGTTATT
55617144 TTATACCTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
70 1 0.01
71 25 0.24
72 69 0.65
73 10 0.09
74 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (70 bp):
TATCCAGTAACAGTCAATTATTCAGTAAAGTCAATTATTCAGAATAATTAAGTTATTCAGTAACA
GTCAA
Found at i:55617368 original size:45 final size:45
Alignment explanation
Indices: 55617312--55617421 Score: 184
Period size: 45 Copynumber: 2.4 Consensus size: 45
55617302 TCTGGAACAC
* *
55617312 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
*
55617357 TAACCGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
*
55617402 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
55617422 ACAGTAGTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
Found at i:55623199 original size:19 final size:17
Alignment explanation
Indices: 55623175--55623209 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
55623165 AAAAGTGACA
55623175 AAATTAAAATATGATAATT
1 AAATT-AAATA-GATAATT
55623194 AAATTAAATAGATAAT
1 AAATTAAATAGATAAT
55623210 ATCATCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
AAATTAAATAGATAATT
Found at i:55627988 original size:28 final size:28
Alignment explanation
Indices: 55627923--55628011 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 28
55627913 GAGATTGGCG
* * * *
55627923 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
55627952 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55627980 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55628008 CTAA
1 CTAA
55628012 CAGCATGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 39 0.72
29 15 0.28
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:55630327 original size:17 final size:17
Alignment explanation
Indices: 55630305--55630340 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
55630295 CCTTTTGCTG
55630305 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
55630322 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
55630339 TA
1 TA
55630341 TATTAGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAATTTGAAATATGAGT
Found at i:55631562 original size:47 final size:46
Alignment explanation
Indices: 55631334--55631570 Score: 167
Period size: 44 Copynumber: 5.2 Consensus size: 46
55631324 TGGTTAAATG
* *
55631334 TATAAATTATATATCATTATTAAATTATATTTAATATTAATTA-TT
1 TATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
* * * **
55631379 T-TAAATTATATA-AATTCATATAAA-AAAATTT-ATTATCAAGAATTT
1 TATAAATTATATATAATT-AT-TAAATTATATTTAATAAT-AATTATTT
* * *
55631424 TAAGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-TT
1 T-ATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
* * **
55631470 T-TAAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAAGAATTT
1 TATAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATTATTT
*
55631515 TATGAAATTATATATTATTATTAAATTATATTTAATAATAATTA-TT
1 TAT-AAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
55631561 T-TAAATTATA
1 TATAAATTATA
55631571 CAAATTCATA
Statistics
Matches: 145, Mismatches: 27, Indels: 41
0.68 0.13 0.19
Matches are distributed among these distances:
43 12 0.08
44 49 0.34
45 16 0.11
46 15 0.10
47 40 0.28
48 13 0.09
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (46 bp):
TATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
Found at i:55631565 original size:117 final size:113
Alignment explanation
Indices: 55631444--55632239 Score: 658
Period size: 107 Copynumber: 7.1 Consensus size: 113
55631434 TATATCATTA
* * *
55631444 TTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAA
1 TTAAATTATATTT-ATATT-ATTA-TTT-AATTATATAAATTCATATAAGAATATTGATTATTAA
* *
55631509 GAATTTTATGAAATTATATATTATT-ATTA-AATTATATTTAATAATAATTATT
62 GAATTTTATTAAATTATATATT-TTAATTATAA-TATATTTAATAATAATTATG
** ** * * *
55631561 TTAAATTATACAAATTCATATAAGAAAATTT-ATTAGGTAT-AATT-ATTTTA-AAT-TTTATTA
1 TTAAATTAT----ATT--TATATTATTATTTAATTA--TATAAATTCATATAAGAATATTGATT-
* * * * * *
55631621 AATCATATATTTTAATTAAA--ATATA-TTTAA-TATTAAT-TATTTCA-AATTA-TATT
57 ATTAAGA-ATTTT-ATTAAATTATATATTTTAATTA-TAATATATTTAATAATAATTATG
* * * *
55631674 TTATAGTATCA--TATATTATGA-TT--TTA-GTAAATTCATATAAGAATATTGATTATTAAGAA
1 TTAAATTAT-ATTTATATTATTATTTAATTATATAAATTCATATAAGAATATTGATTATTAAGAA
55631733 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
65 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
* * * * *
55631782 TTAAA-T-TATCTATATTATGA-TT--TGA-GTAAATTCATATAAGAATATTAATTATTAAGAAT
1 TTAAATTATATTTATATTATTATTTAATTATATAAATTCATATAAGAATATTGATTATTAAGAAT
*
55631841 TTTATTAAATTATATATTTTAATTATAATATATTTTATAATAATTATG
66 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
* * * * *
55631889 TTAAA-T-TATCTATATTATGA-TT--TGA-GTAAATTCATATAAGAATATTAATTATTAAGAAT
1 TTAAATTATATTTATATTATTATTTAATTATATAAATTCATATAAGAATATTGATTATTAAGAAT
55631948 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
66 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
* *
55631996 TTAATTTATATTTTATAGTATCATATATTATGATT-TGAGTAAATTCATATAAGAATATTGATTA
1 TTAAATTATA-TTTATA-T-T-AT-TATT-TAATTAT-A-TAAATTCATATAAGAATATTGATTA
55632060 TTAAGAATTTTATTAAATTATATATTTTAATTATAATATA-TT--TAATAATTATG
58 TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
* *
55632113 TTAATTTATATTTTATAGTATCATATATTATGATT-TGAGTAAATTCATATAAGAATATTGATTA
1 TTAAATTATA-TTTATA-T-T-AT-TATT-TAATTAT-A-TAAATTCATATAAGAATATTGATTA
* *
55632177 TTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATG
58 TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
55632233 TTTAAAT
1 -TTAAAT
55632240 ATGATTAAAA
Statistics
Matches: 589, Mismatches: 45, Indels: 86
0.82 0.06 0.12
Matches are distributed among these distances:
101 1 0.00
102 10 0.02
103 9 0.02
104 15 0.03
105 17 0.03
106 15 0.03
107 209 0.35
108 8 0.01
109 2 0.00
110 6 0.01
111 1 0.00
112 1 0.00
113 13 0.02
114 5 0.01
115 11 0.02
116 10 0.02
117 135 0.23
118 16 0.03
119 11 0.02
120 80 0.14
121 10 0.02
122 3 0.01
123 1 0.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (113 bp):
TTAAATTATATTTATATTATTATTTAATTATATAAATTCATATAAGAATATTGATTATTAAGAAT
TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
Found at i:55631614 original size:91 final size:91
Alignment explanation
Indices: 55631337--55631595 Score: 473
Period size: 91 Copynumber: 2.8 Consensus size: 91
55631327 TTAAATGTAT
55631337 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
* *
55631402 AAAAATTTATTATCAAGAATTTTAAG
66 GAAAATTTATTATCAAGAATTTTATG
55631428 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
55631493 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
55631519 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
55631584 GAAAATTTATTA
66 GAAAATTTATTA
55631596 GGTATAATTA
Statistics
Matches: 163, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 163 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:55631766 original size:16 final size:16
Alignment explanation
Indices: 55631745--55631790 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
55631735 TTATTAAATT
55631745 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
55631761 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
55631776 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
55631791 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:55631797 original size:107 final size:109
Alignment explanation
Indices: 55631680--55632241 Score: 837
Period size: 107 Copynumber: 5.0 Consensus size: 109
55631670 TATTTTATAG
*
55631680 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
55631745 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT-
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATA
*
55631788 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
*
55631852 ATATATTTTAATTATAATATATTTTATAATAATTATGTTAAAT-
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATA
*
55631895 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
55631959 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATA
66 ATATATTTTAATTATAATATATTTAATAATAATTATG-----TTA-A----ATA
55632013 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 -TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
*
55632078 TATATATTTTAATTATAATATATTTAATAATTATGTTAAT-TTATATTTTATA
65 TATATATTTTAATTATAATATATTTAATAA-TA-ATT-ATGTTA-A----ATA
55632130 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 -TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* *
55632195 TATATATTTTAATTAAAATATATTTAATTATAATTATGTTTAAATA
65 TATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAATA
55632241 T
1 T
55632242 GATTAAAATA
Statistics
Matches: 427, Mismatches: 9, Indels: 34
0.91 0.02 0.07
Matches are distributed among these distances:
107 200 0.47
108 4 0.01
110 1 0.00
111 3 0.01
112 3 0.01
113 1 0.00
114 2 0.00
115 3 0.01
116 5 0.01
117 107 0.25
119 4 0.01
120 88 0.21
121 2 0.00
122 2 0.00
123 2 0.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATA
Found at i:55631974 original size:227 final size:232
Alignment explanation
Indices: 55631741--55632237 Score: 717
Period size: 227 Copynumber: 2.1 Consensus size: 232
55631731 AATTTTATTA
*
55631741 AATTATATAT-TTTAATTATAATATATTTAATAATAATTATGTTAAATTATC-TATATTATGATT
1 AATTATATATATTTAATTATAATATATTTAAT--TAA-TATGTTAAAGTATCATATATTATGATT
55631804 TGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA
63 TGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA
*
55631869 TATATTTTATAA-TA-ATT-ATGTTA-A-AT-TATC-TATATTATGATTTGAGTAAATTCATATA
128 TATATTTAATAATTATATTAAT-TTATATATATATCATATATTATGATTTGAGTAAATTCATATA
55631927 AGAATATTAATTATTAAGAATTTTATTAAATTATATATTTT
192 AGAATATTAATTATTAAGAATTTTATTAAATTATATATTTT
* * * *
55631968 AATTATAATATATTTAATAATAAT-TATGTTAATTTATATTTTATAGTATCATATATTATGATTT
1 AATTAT-ATATATTTAATTATAATATAT-TTAATTAATATGTTAAAGTATCATATATTATGATTT
*
55632032 GAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAT
64 GAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAT
*
55632097 ATATTTAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
129 ATATTTAATAATTATATTAATTTATA---TATA-TATCATATATTATGATTTGAGTAAATTCATA
*
55632162 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTT
190 TAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTT
* *
55632205 AATTAAAATATATTTAATTATAATTATGTTTAA
1 AATT-ATATATATTTAATTATAA-TATATTTAA
55632238 ATATGATTAA
Statistics
Matches: 240, Mismatches: 12, Indels: 25
0.87 0.04 0.09
Matches are distributed among these distances:
226 11 0.05
227 95 0.40
228 9 0.04
229 21 0.09
230 3 0.01
234 2 0.01
236 4 0.02
237 87 0.36
238 6 0.03
239 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (232 bp):
AATTATATATATTTAATTATAATATATTTAATTAATATGTTAAAGTATCATATATTATGATTTGA
GTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATAT
ATTTAATAATTATATTAATTTATATATATATCATATATTATGATTTGAGTAAATTCATATAAGAA
TATTAATTATTAAGAATTTTATTAAATTATATATTTT
Found at i:55631985 original size:15 final size:15
Alignment explanation
Indices: 55631950--55632001 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
55631940 TTAAGAATTT
*
55631950 TATTAAATTAT-ATA
1 TATTTAATTATAATA
55631964 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
55631978 TATTTAATAATAAT-
1 TATTTAATTATAATA
55631992 TATGTTAATT
1 TAT-TTAATT
55632002 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:55632083 original size:334 final size:333
Alignment explanation
Indices: 55631480--55632239 Score: 1076
Period size: 334 Copynumber: 2.3 Consensus size: 333
55631470 TTAAATTATA
* * * *
55631480 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATT-ATTAAATTAT
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAA-TAT
* * *
55631544 ATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTAGGTATAATTATTT
64 ATTTAATAATAATTATGTTAAATTATACAAATTCATATAAGAAAATTTATAAGATATAATTATTT
* *
55631609 TAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATT
129 AAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATT
*
55631674 TTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
194 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
55631739 TAAATTATATATTTTAATTATAATATATTTAATAA-TA-ATT-ATGTTA-A-AT-TATC-TATAT
259 TAAATTATATATTTTAATTATAATATATTTAATAATTATATTAAT-TTATATATATATCATATAT
55631797 TATGATTTGAG
323 TATGATTTGAG
55631808 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA-AATATA
* * * *
55631873 TTTTATAATAATTATGTTAAATTAT-CTATATT-ATGATTTGAGTAAATTCATATAAGAATATTA
65 TTTAATAATAATTATGTTAAATTATAC-AAATTCAT-A--TAAGAAAATT--TATAAG-ATA-TA
* *
55631936 ATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-A
122 ATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCA
*
55631999 ATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
185 AATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
*
55632064 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTAT
250 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATATTAATTTATA---TAT
55632129 AGTATCATATATTATGATTTGAG
312 A-TATCATATATTATGATTTGAG
*
55632152 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AAATATA
*
55632217 TTTAATTATAATTATGTTTAAAT
65 TTTAATAATAATTATG-TTAAAT
55632240 ATGATTAAAA
Statistics
Matches: 386, Mismatches: 21, Indels: 33
0.88 0.05 0.08
Matches are distributed among these distances:
327 5 0.01
328 83 0.22
329 2 0.01
330 8 0.02
332 5 0.01
333 5 0.01
334 161 0.42
335 4 0.01
336 5 0.01
337 3 0.01
341 2 0.01
343 4 0.01
344 92 0.24
345 7 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (333 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATATAT
TTAATAATAATTATGTTAAATTATACAAATTCATATAAGAAAATTTATAAGATATAATTATTTAA
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTA
AATTATATATTTTAATTATAATATATTTAATAATTATATTAATTTATATATATATCATATATTAT
GATTTGAG
Found at i:55632211 original size:18 final size:18
Alignment explanation
Indices: 55632183--55632231 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
55632173 ATTATTAAGA
55632183 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
55632200 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
55632216 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
55632232 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:55632217 original size:16 final size:16
Alignment explanation
Indices: 55632183--55632237 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
55632173 ATTATTAAGA
55632183 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
55632200 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
55632216 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
55632230 ATGTTTAA
1 AT-TTTAA
55632238 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:55632447 original size:44 final size:45
Alignment explanation
Indices: 55632382--55632472 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
55632372 ACCTCTATTC
* * *
55632382 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
55632426 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
55632471 CA
1 CA
55632473 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:55632487 original size:17 final size:16
Alignment explanation
Indices: 55632453--55632505 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
55632443 GATTAGCTAT
55632453 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55632469 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
55632486 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55632502 TACA
1 TACA
55632506 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:55632562 original size:28 final size:28
Alignment explanation
Indices: 55632522--55632615 Score: 154
Period size: 28 Copynumber: 3.4 Consensus size: 28
55632512 CAAACGCACC
*
55632522 CTAAGTGTGCGAGGTTGATTATGTAGCA
1 CTAAGTGTGCGAGGTTGATTATATAGCA
*
55632550 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGGTTGATTATATAGCA
55632578 CTAAGTGTGCGA-GTTGATTATATAGCA
1 CTAAGTGTGCGAGGTTGATTATATAGCA
*
55632605 CTGAGTGTGCG
1 CTAAGTGTGCG
55632616 GACTTAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 24 0.39
28 38 0.61
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGGTTGATTATATAGCA
Found at i:55632626 original size:27 final size:27
Alignment explanation
Indices: 55632522--55632628 Score: 108
Period size: 28 Copynumber: 3.9 Consensus size: 27
55632512 CAAACGCACC
* * *
55632522 CTAAGTGTGCGAGGTTGATTATGTAGCA
1 CTAAGTGTGCGA-CTTGAATATATAGCA
* *
55632550 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGA-CTTGAATATATAGCA
* *
55632578 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGACTTGAATATATAGCA
*
55632605 CTGAGTGTGCGGACTT-AATATATA
1 CTAAGTGTGC-GACTTGAATATATA
55632629 CTTTTGAATC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.42
28 42 0.58
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (27 bp):
CTAAGTGTGCGACTTGAATATATAGCA
Found at i:55640591 original size:28 final size:28
Alignment explanation
Indices: 55640526--55640704 Score: 261
Period size: 28 Copynumber: 6.4 Consensus size: 28
55640516 GAGATTGGCG
* * * *
55640526 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
55640555 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55640583 CTAAGTGTGCGAGTTTAATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
55640611 CTAAGTGTGCGAGGTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55640639 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55640667 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55640694 CTGAGTGTGCG
1 CTAAGTGTGCG
55640705 GACTTAATAT
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 24 0.18
28 98 0.72
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:55645034 original size:40 final size:40
Alignment explanation
Indices: 55644990--55645212 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
55644980 GCTCCTCGTT
*
55644990 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
55645030 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
55645070 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
55645110 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
55645149 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
55645190 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
55645213 ACAGCATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 105 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:55645174 original size:79 final size:80
Alignment explanation
Indices: 55644990--55645213 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
55644980 GCTCCTCGTT
* * *
55644990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
55645054 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
55645070 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
55645134 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
55645149 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
55645210 CGGA
63 CGGA
55645214 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 60 0.47
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:55646990 original size:16 final size:16
Alignment explanation
Indices: 55646965--55646996 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55646955 CATTTAAAAT
*
55646965 GATCAGGAGTCATCAC
1 GATCAAGAGTCATCAC
55646981 GATCAAGAGTCATCAC
1 GATCAAGAGTCATCAC
55646997 ACTATCATAA
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:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (16 bp):
GATCAAGAGTCATCAC
Found at i:55650435 original size:46 final size:47
Alignment explanation
Indices: 55650349--55650472 Score: 162
Period size: 46 Copynumber: 2.6 Consensus size: 47
55650339 TCTGTCTACA
* * * *
55650349 ACATTTTGAGCCTACAACATTTTGGTTTT-AGGATACAAGATGGTAGTC
1 ACATTTTGAGCCTA-AACATTCTGGTTTTGA-AACACAAGATAGTAGTC
*
55650397 ACATTTTGAGCCT-AGCATTCTGGTTTTGAAACACAAGATAGTAGTC
1 ACATTTTGAGCCTAAACATTCTGGTTTTGAAACACAAGATAGTAGTC
55650443 ACATTTTGAGCCTACAACATTCTGGTTTTG
1 ACATTTTGAGCCTA-AACATTCTGGTTTTG
55650473 GAATACACCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 39 0.58
47 1 0.01
48 27 0.40
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (47 bp):
ACATTTTGAGCCTAAACATTCTGGTTTTGAAACACAAGATAGTAGTC
Found at i:55651657 original size:29 final size:29
Alignment explanation
Indices: 55651624--55651679 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
55651614 AAATTTGAAG
*
55651624 AAAGATTAGGGATTTCACGATTTACTTCT
1 AAAGATTAGGGATTTCACAATTTACTTCT
55651653 AAAGATTAGGGATTTCACAATTTACTT
1 AAAGATTAGGGATTTCACAATTTACTT
55651680 TTAAGGGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (29 bp):
AAAGATTAGGGATTTCACAATTTACTTCT
Found at i:55651711 original size:23 final size:23
Alignment explanation
Indices: 55651662--55651712 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
55651652 TAAAGATTAG
* *
55651662 GGATTTCACAATTTACTTTTAAG
1 GGATTTCACAATTTACTTCTAAA
**
55651685 GGATTTCACAATTTGGTTCTAAA
1 GGATTTCACAATTTACTTCTAAA
55651708 GGATT
1 GGATT
55651713 AAGAATGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
GGATTTCACAATTTACTTCTAAA
Found at i:55651820 original size:16 final size:16
Alignment explanation
Indices: 55651801--55651845 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
55651791 GATGTTATGG
55651801 ATTTGGGGATTTCACA
1 ATTTGGGGATTTCACA
* *
55651817 ATTTGGGGAATTTGACG
1 ATTTGGGG-ATTTCACA
*
55651834 AGTTGGGGATTT
1 ATTTGGGGATTT
55651846 TAAAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.38
Consensus pattern (16 bp):
ATTTGGGGATTTCACA
Found at i:55654210 original size:48 final size:48
Alignment explanation
Indices: 55654135--55654356 Score: 239
Period size: 48 Copynumber: 4.6 Consensus size: 48
55654125 CATAGTAGGG
* * * * * ***
55654135 TGCCAATGCCATATCCTAGATATGGTCTTATATGGGACCGTTTATCGA
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
* *
55654183 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
* *
55654231 TGCCAATACCATGTCCCAAACATGGTCTTACACGGGACCACATATCGA
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
* * *
55654279 TGCCAATGCCATGTCCCA-ACCATGGTCTTACATGGGATCACATATCAA
1 TGCCAATACCATGTCCCAGA-CATGGTCTTACATGGGACCACATATCGA
* * * * * *
55654327 TACCGATGCCATATCCCAAATATGGTCTTA
1 TGCCAATACCATGTCCCAGACATGGTCTTA
55654357 TACAGGATCT
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
47 1 0.01
48 148 0.99
49 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
Found at i:55654303 original size:96 final size:96
Alignment explanation
Indices: 55654177--55654356 Score: 272
Period size: 96 Copynumber: 1.9 Consensus size: 96
55654167 TGGGACCGTT
* *
55654177 TATCGATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATGCCAATACCA
1 TATCGATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATAACAATACCAATACCA
*
55654242 TGTCCCAAACATGGTCTTACACGGGACCACA
66 TATCCCAAACATGGTCTTACACGGGACCACA
* * * *
55654273 TATCGATGCCAATGCCATGTCCCA-ACCATGGTCTTACATGGGATCACATATCAATACCGATGCC
1 TATCGATGCCAATACCATGTCCCAGA-CATGGTCTTACATGGGATCACATAACAATACCAATACC
*
55654337 ATATCCCAAATATGGTCTTA
65 ATATCCCAAACATGGTCTTA
55654357 TACAGGATCT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (96 bp):
TATCGATGCCAATACCATGTCCCAGACATGGTCTTACATGGGATCACATAACAATACCAATACCA
TATCCCAAACATGGTCTTACACGGGACCACA
Found at i:55657315 original size:3 final size:3
Alignment explanation
Indices: 55657307--55657339 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
55657297 CGATTGAGCA
55657307 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
55657340 CCTTTTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:55658787 original size:34 final size:34
Alignment explanation
Indices: 55658732--55658822 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
55658722 TTACATACTG
*
55658732 TACTGAAATAGGCTAAGGCCCAGACTGCTTCTAT
1 TACTGAAATAGGCTAAGGCCCAGACTGCTACTAT
* * * * *
55658766 TACTGAAATGGGCTCATGCCCAGACTGGTACTGT
1 TACTGAAATAGGCTAAGGCCCAGACTGCTACTAT
*
55658800 TACTGAAAAATGGGCTAAGGCCC
1 TACTG--AAATAGGCTAAGGCCC
55658823 TAATTGGAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 33 0.70
36 14 0.30
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (34 bp):
TACTGAAATAGGCTAAGGCCCAGACTGCTACTAT
Found at i:55667215 original size:43 final size:43
Alignment explanation
Indices: 55667136--55667218 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
55667126 TTAATTTTTT
* **
55667136 AAAAATTATATTTTTTTAATTTTTATTTTTTATTTAAAATATG
1 AAAAATTATATTTTTTTAATTTTTATGTACTATTTAAAATATG
55667179 AAAAA-TATAATTTTTTTAAATTTTTATGTACT-TTTAAAAT
1 AAAAATTAT-ATTTTTTT-AATTTTTATGTACTATTTAAAAT
55667219 GTAATAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.09
43 21 0.60
44 11 0.31
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (43 bp):
AAAAATTATATTTTTTTAATTTTTATGTACTATTTAAAATATG
Found at i:55668858 original size:29 final size:30
Alignment explanation
Indices: 55668802--55668859 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
55668792 AATTTACATT
55668802 TTTAAACAAAAAAATAAAAAAGTTAAATTC
1 TTTAAACAAAAAAATAAAAAAGTTAAATTC
* *
55668832 TTTAAA-ATAAAAGTAACAAAA-TTAAATT
1 TTTAAACAAAAAAATAA-AAAAGTTAAATT
55668860 TCAAATGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (30 bp):
TTTAAACAAAAAAATAAAAAAGTTAAATTC
Found at i:55674298 original size:424 final size:423
Alignment explanation
Indices: 55673484--55674335 Score: 1084
Period size: 423 Copynumber: 2.0 Consensus size: 423
55673474 AATGCTACTC
* * *
55673484 TCGCTAGTTTCTTTTCAAGGCGTTGATCTTACTTTTCGTTTAAGCCAAGCTAAGACGTCCATATT
1 TCGCTAATTTCTTTTCAAGGCGTCGATCTTACTTTTCATTTAAGCCAAGCTAAGACGTCCATATT
* * * * * * * *
55673549 TTCTTTTCTCCTATAGTTTCTATCTTTAATTTGTTTCTGGTTGAACTTTACGAACTGTGTGTACA
66 TACTTTTCTCATATAGTTCCAATCTTTAATCTGTTTCCGATTGAACTTTACGAACTATGTGTACA
*** * *
55673614 TAGAGTCACCTATTAAGCTCTTTTTTGGTCATATAAACTACTCATTCTTTTCTATAGGAACTCTA
131 TAGAGTCACCTATTAAGCTCTTTACCGGTCACATAAACTACTCATTCTTTTCTATAAGAACTCTA
* * ** *
55673679 ACATGTTTAGATATTGTTGTCACAAGATGGGGAAAGAAAATCTAACCTTCTAGCAGCTAAAGCAT
196 ACATATTTAGATAATGTCATCACAAGATGGGGAAAGAAAATCTAACCTCCTAGCAGCTAAAGCAT
*
55673744 CATTTCATATTCTGATGGATCCCTTCTCCAATGCATATTTATTTTTTCTGCAAAATTCCATATAG
261 CATTTCATATTCTGATGGATCCATTCTCCAATGCATATTTATTTTTTCTGCAAAATTCCATATAG
* *
55673809 CAAAATAGCTCAAAAAGTATTGACATTAAAGACATTTAGAGTTGGTGTAATTCTAGTATAAATAA
326 CAAAATAGCTCAAAAAGTATTGACATTAAAGACATTTAGAGATGGTGTAATTCTAGTACAAATAA
*
55673874 ACTGCATCCACATTTTAGCTATTGAAAGCATAG
391 ACTGCATCCACATTTTAGCTATTGAAAGCATAA
* * * * * * * *
55673907 TCGCTAATTTCTTTTCGAGGTGTCGGTCTTACTTTTCATTTAAGCGAAG-TCAGGATGTCCGTCT
1 TCGCTAATTTCTTTTCAAGGCGTCGATCTTACTTTTCATTTAAGCCAAGCT-AAGACGTCCATAT
* * ** * *
55673971 TTACTTTTCTCATTTGGTTCCAATCTTTAATCTGTTTCCGATTGTGCTTTATGTACTATGTGTAC
65 TTACTTTTCTCATATAGTTCCAATCTTTAATCTGTTTCCGATTGAACTTTACGAACTATGTGTAC
* * *
55674036 ATAGAGT-AGCCTATTAGGCTCTTTACCGGTCACATAAACTGCTCATTCTCTTTC-ATAAGATCT
130 ATAGAGTCA-CCTATTAAGCTCTTTACCGGTCACATAAACTACTCATTCT-TTTCTATAAGAACT
* * ** * *
55674099 CTAGCTTATTT-GTATAATGTCATTGCAAGATGGGGAAAGAAAATCCTAAGCTCCTAGCCGCTAA
193 CTAACATATTTAG-ATAATGTCATCACAAGATGGGGAAAGAAAAT-CTAACCTCCTAGCAGCTAA
* * * *
55674163 CA-CATCATTTCATATTTTGATGGATCCATTCTCCAATGCATATTTGTTTTTTTTGTAAAATTCC
256 -AGCATCATTTCATATTCTGATGGATCCATTCTCCAATGCATATTTATTTTTTCTGCAAAATTCC
* * * * *
55674227 ATATAGCAACATAGCTCGAAAAGTATTGACATTAGAGACATTTAGAGATGGTGTAATTTTAGTGC
320 ATATAGCAAAATAGCTCAAAAAGTATTGACATTAAAGACATTTAGAGATGGTGTAATTCTAGTAC
* *
55674292 AAATAAACTGCATCCATATTTTAGCTATTGGAAGCATAA
385 AAATAAACTGCATCCACATTTTAGCTATTGAAAGCATAA
55674331 TCGCT
1 TCGCT
55674336 TGATTGAAGT
Statistics
Matches: 364, Mismatches: 59, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
422 3 0.01
423 184 0.51
424 176 0.48
425 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (423 bp):
TCGCTAATTTCTTTTCAAGGCGTCGATCTTACTTTTCATTTAAGCCAAGCTAAGACGTCCATATT
TACTTTTCTCATATAGTTCCAATCTTTAATCTGTTTCCGATTGAACTTTACGAACTATGTGTACA
TAGAGTCACCTATTAAGCTCTTTACCGGTCACATAAACTACTCATTCTTTTCTATAAGAACTCTA
ACATATTTAGATAATGTCATCACAAGATGGGGAAAGAAAATCTAACCTCCTAGCAGCTAAAGCAT
CATTTCATATTCTGATGGATCCATTCTCCAATGCATATTTATTTTTTCTGCAAAATTCCATATAG
CAAAATAGCTCAAAAAGTATTGACATTAAAGACATTTAGAGATGGTGTAATTCTAGTACAAATAA
ACTGCATCCACATTTTAGCTATTGAAAGCATAA
Found at i:55677829 original size:40 final size:40
Alignment explanation
Indices: 55677537--55677822 Score: 493
Period size: 40 Copynumber: 7.2 Consensus size: 40
55677527 AACCCAAGTA
* ** *
55677537 CCTTCGGGATTTAG-CCGGATATAACAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55677576 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55677616 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55677656 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55677696 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55677736 CCTTCGGGACTTAGCCTGGATATAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55677776 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55677816 CCTTCGG
1 CCTTCGG
55677823 ATCTTAGTCC
Statistics
Matches: 236, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 13 0.06
40 223 0.94
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55679359 original size:13 final size:13
Alignment explanation
Indices: 55679341--55679366 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55679331 ATTTTTATTT
55679341 TTAACATAAAATA
1 TTAACATAAAATA
55679354 TTAACATAAAATA
1 TTAACATAAAATA
55679367 ATTATTATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:55679778 original size:46 final size:48
Alignment explanation
Indices: 55679681--55679949 Score: 239
Period size: 46 Copynumber: 5.7 Consensus size: 48
55679671 TGTCACAGCC
* * * * *
55679681 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAAACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGAGCT
* *
55679729 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTTGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AGAGCT
* * * *
55679775 AGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACAAGATGTG-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAGAGCT
* * * *
55679819 AGTGTAAGACCATGTCTGGGACATGGCATCTGCATAGATATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT--GAGAGCT
* ** * *
55679869 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GAGAGCT
* *
55679918 AGTATAAGACCATGTTTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
55679950 TATTCTACCC
Statistics
Matches: 182, Mismatches: 29, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 59 0.32
47 15 0.08
48 11 0.06
49 36 0.20
50 36 0.20
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGAGCT
Found at i:55689065 original size:6 final size:6
Alignment explanation
Indices: 55689054--55689270 Score: 196
Period size: 6 Copynumber: 35.8 Consensus size: 6
55689044 AACCAAAATG
* *
55689054 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * * *
55689102 AGCAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AAAATA
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
55689151 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
55689199 AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
55689247 ACGTGA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
55689271 GTGAATGCAA
Statistics
Matches: 171, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
5 12 0.07
6 146 0.85
7 11 0.06
8 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:55689069 original size:30 final size:29
Alignment explanation
Indices: 55689033--55689270 Score: 216
Period size: 30 Copynumber: 8.1 Consensus size: 29
55689023 AAGAAACATT
* * *
55689033 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGCAA-CAGAATCAGAATCAGA
* *
55689063 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGCAACAGAATCAGAATCAGA
*
55689093 ATCAGTATTAGCAACAGAATCAGAATCAGA
1 ATCAGAATT-GCAACAGAATCAGAATCAGA
** * *
55689123 ATCAGAATTAGGTGACAGAATCAAAATAAGA
1 ATCAGAATT--GCAACAGAATCAGAATCAGA
55689154 ATCAG---T--AACAGAATCAGAATCAGA
1 ATCAGAATTGCAACAGAATCAGAATCAGA
* *
55689178 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GCAACAGAATCAGAATCAGA
* *
55689208 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GCAACAGAATCAGAATCAGA
**
55689238 ATCAGAATTACGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GCAACAGAATCAGAATCAGA
55689269 AT
1 AT
55689271 GTGAATGCAA
Statistics
Matches: 179, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
24 20 0.11
27 1 0.01
28 1 0.01
30 112 0.63
31 45 0.25
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGCAACAGAATCAGAATCAGA
Found at i:55689194 original size:115 final size:115
Alignment explanation
Indices: 55689054--55689270 Score: 380
Period size: 115 Copynumber: 1.9 Consensus size: 115
55689044 AACCAAAATG
55689054 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGCAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGCAACAGAATCAGAAT
*
55689119 CAGAATCAGAATTAGGTGACAGAATCAAAATAAGAATCAGTAACAGAATC
66 CAGAATCAGAATTACGTGACAGAATCAAAATAAGAATCAGTAACAGAATC
* * *
55689169 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGCAACAGAATCAGAAT
* *
55689234 CAGAATCAGAATTACGTGACAGAATCAGAATCAGAAT
66 CAGAATCAGAATTACGTGACAGAATCAAAATAAGAAT
55689271 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 96 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (115 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGCAACAGAATCAGAAT
CAGAATCAGAATTACGTGACAGAATCAAAATAAGAATCAGTAACAGAATC
Found at i:55689423 original size:27 final size:26
Alignment explanation
Indices: 55689386--55689451 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
55689376 AGCATGGCTG
* *
55689386 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
* *
55689412 CCAGATACAGATATTATGGCAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
55689439 CCAGAATCAGATA
1 CCAGAA-CAGATA
55689452 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:55689458 original size:27 final size:27
Alignment explanation
Indices: 55689386--55689459 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
55689376 AGCATGGCTG
* *
55689386 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* *
55689412 CCAG-ATACAGATATTATGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
55689439 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
55689460 AACCCACCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.79
28 3 0.08
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:55689466 original size:27 final size:27
Alignment explanation
Indices: 55689410--55689467 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
55689400 GTGACAGAGT
* * *
55689410 CACCAGATACAGATATTATGGCAGAGC
1 CACCAGATACAGATAATATGGCAAACC
*
55689437 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATATGGCAAACC
55689464 CACC
1 CACC
55689468 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATATGGCAAACC
Found at i:55689809 original size:27 final size:26
Alignment explanation
Indices: 55689770--55689851 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
55689760 TCGATCGGTC
* *
55689770 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
55689796 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
55689823 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
55689850 AA
1 AA
55689852 TGCTTCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:55690081 original size:27 final size:27
Alignment explanation
Indices: 55690051--55690246 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
55690041 GGGGCAAAAT
* * *
55690051 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
55690078 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
55690105 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
55690132 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
55690159 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
55690186 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*** *
55690213 AAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
55690240 AGTAATT
1 GGTAATT
55690247 TCACAATCGA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:55690281 original size:27 final size:27
Alignment explanation
Indices: 55690251--55690686 Score: 477
Period size: 27 Copynumber: 16.2 Consensus size: 27
55690241 GTAATTTCAC
55690251 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55690278 AATCGAGGGTAAAACGATAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
55690304 AA-CTGAAGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
55690331 AATCAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55690358 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
55690385 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
55690412 AA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
55690439 AATCGAGGGTAAAACGGTAAATT-TACA
1 AATCGAGGGTAAAACGGT-AATTCTGTA
* *
55690466 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
55690493 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55690520 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
55690547 AATTGAAGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
55690574 AATCAAAGGTAAAACTGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
55690601 AATTGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55690628 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55690655 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
55690682 AATCG
1 AATCG
55690687 GAGTACTTTG
Statistics
Matches: 347, Mismatches: 53, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.00
26 26 0.07
27 314 0.90
28 6 0.02
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:55692736 original size:6 final size:6
Alignment explanation
Indices: 55692725--55692886 Score: 136
Period size: 6 Copynumber: 26.8 Consensus size: 6
55692715 AACCAAAATG
* * *
55692725 AGAATC AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC
* * * *
55692773 AGTAA-C AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AAAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
55692822 AAAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
55692870 AAAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
55692887 TACGTGACAA
Statistics
Matches: 125, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
5 8 0.06
6 109 0.87
7 7 0.06
8 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:55692740 original size:30 final size:29
Alignment explanation
Indices: 55692704--55692911 Score: 147
Period size: 30 Copynumber: 7.1 Consensus size: 29
55692694 AAGAAACATT
* * *
55692704 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATT-GAAACAGAATCAGAATCAGA
**
55692734 ATCAGAATCAATAACAGAATCAGAATCAGA
1 ATCAGAATTGA-AACAGAATCAGAATCAGA
* * *
55692764 ATCAGTATTAGTAACAGAATCAGAATTAGA
1 ATCAGAATT-GAAACAGAATCAGAATCAGA
** * *
55692794 ATCAGAATTAGGTGACAGAATCAAAATCAAA
1 ATCAGAATT--GAAACAGAATCAGAATCAGA
55692825 ATCAG---T--AACAGAATCAGAATCAGA
1 ATCAGAATTGAAACAGAATCAGAATCAGA
* * *
55692849 ATCAGTATTAGTAACAGAATCAAAATCAGA
1 ATCAGAATT-GAAACAGAATCAGAATCAGA
** *
55692879 ATCAGAATTACGTGACAAAATCAGAATCAGA
1 ATCAGAATT--GAAACAGAATCAGAATCAGA
55692910 AT
1 AT
55692912 GTGAATACAA
Statistics
Matches: 143, Mismatches: 25, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
24 20 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 80 0.56
31 40 0.28
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGAAACAGAATCAGAATCAGA
Found at i:55692828 original size:85 final size:85
Alignment explanation
Indices: 55692725--55692907 Score: 303
Period size: 85 Copynumber: 2.2 Consensus size: 85
55692715 AACCAAAATG
* *
55692725 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAAAT
* *
55692790 TAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
* *
55692810 AGAATCAAAATCAAAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAAAT
1 AGAATCAGAATCAAAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAAAT
55692875 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
*
55692895 AAAATCAGAATCA
1 AGAATCAGAATCA
55692908 GAATGTGAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAAAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAAAT
CAGAATCAGAATTACGTGAC
Found at i:55692921 original size:25 final size:24
Alignment explanation
Indices: 55692865--55692921 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
55692855 ATTAGTAACA
55692865 GAAT-CAAAATCAGAATCAGAATT
1 GAATACAAAATCAGAATCAGAATT
*
55692888 -ACGTGACAAAATCAGAATCAGAATGT
1 GA-AT-ACAAAATCAGAATCAGAAT-T
55692914 GAATACAA
1 GAATACAA
55692922 TCCCAACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
22 1 0.04
23 1 0.04
25 22 0.81
26 2 0.07
27 1 0.04
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (24 bp):
GAATACAAAATCAGAATCAGAATT
Found at i:55693064 original size:27 final size:26
Alignment explanation
Indices: 55693026--55693092 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
55693016 CAGCATGGCT
*
55693026 ACCAGAACAGATATCGTGACAGAGTC
1 ACCAGAACAGATATCGTGACAGAGCC
* *
55693052 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATCGTGACAGAGCC
55693079 ACCAGAATCAGATA
1 ACCAGAA-CAGATA
55693093 ATGTGGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.19
27 29 0.81
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATATCGTGACAGAGCC
Found at i:55693107 original size:27 final size:27
Alignment explanation
Indices: 55693051--55693108 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
55693041 GTGACAGAGT
* * *
55693051 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
*
55693078 CACCAGA-ATCAGATAATGTGGGAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
55693105 CACC
1 CACC
55693109 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:55693450 original size:27 final size:26
Alignment explanation
Indices: 55693411--55693492 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
55693401 TCGATCGGTC
* *
55693411 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
55693437 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
55693464 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
55693491 AA
1 AA
55693493 TGCTTCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:55693724 original size:27 final size:26
Alignment explanation
Indices: 55693694--55693833 Score: 138
Period size: 27 Copynumber: 5.2 Consensus size: 26
55693684 GGCAAAATGG
* *
55693694 TAATTTTACCCCACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTC-A
* *
55693721 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTC-A
* *
55693748 TATTTCTACCCTATAAGGGTATTTCA
1 TAATTCTACCCTACAAGGGTATTTCA
*
55693774 GTAATTCTACCCTA-TAGGGATATTTCAA
1 -TAATTCTACCCTACAAGGG-TATTTC-A
* *
55693802 AAATTCTACCCTACAGGGGTATTTCA
1 TAATTCTACCCTACAAGGGTATTTCA
55693828 GTAATT
1 -TAATT
55693834 TCACAATCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.05
27 85 0.90
28 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (26 bp):
TAATTCTACCCTACAAGGGTATTTCA
Found at i:55693739 original size:54 final size:54
Alignment explanation
Indices: 55693681--55693792 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
55693671 TTAACACCCT
55693681 AGGGGCAAAAT-GGTAATTT-TACCCCACAAGGGTATTTC-GATAATTCTACCCTAC
1 AGGGG-AAAATCGGT-ATTTCTACCCCACAAGGGTATTTCAG-TAATTCTACCCTAC
* ** * * *
55693735 AGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTAT
1 AGGGGAAAATCGGTATTTCTACCCCACAAGGGTATTTCAGTAATTCTACCCTAC
55693789 AGGG
1 AGGG
55693793 ATATTTCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
53 6 0.12
54 42 0.86
55 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (54 bp):
AGGGGAAAATCGGTATTTCTACCCCACAAGGGTATTTCAGTAATTCTACCCTAC
Found at i:55693798 original size:54 final size:54
Alignment explanation
Indices: 55693695--55693833 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
55693685 GCAAAATGGT
* * * ***
55693695 AATTTTACCCCACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGATATTTCAAA
* * *
55693749 ATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGATATTTCAAA
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGATATTTCAAA
*
55693803 AATTCTACCCTACAGGGGTATTTCAGTAATT
1 AATTCTACCCTACAAGGGTATTTCAGTAATT
55693834 TCACAATCGA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 71 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (54 bp):
AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGATATTTCAAA
Found at i:55693868 original size:27 final size:27
Alignment explanation
Indices: 55693838--55694325 Score: 617
Period size: 27 Copynumber: 18.1 Consensus size: 27
55693828 GTAATTTCAC
55693838 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55693865 AATCGAGGGTAAAACGATAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55693891 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* ** * **
55693918 AATCAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55693945 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
55693972 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55693999 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
55694026 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55694053 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
55694080 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55694107 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55694134 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
55694161 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55694188 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
55694215 AA-CTGAGGGTAAAACGGTAATTCAATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
55694242 AATTGAGGGTAAAACGGTGATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
55694269 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
55694296 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
55694323 AAT
1 AAT
55694326 TGGGAGTACT
Statistics
Matches: 404, Mismatches: 48, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
25 5 0.01
26 19 0.05
27 375 0.93
28 5 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:55694046 original size:108 final size:108
Alignment explanation
Indices: 55693828--55694324 Score: 734
Period size: 108 Copynumber: 4.6 Consensus size: 108
55693818 GGGTATTTCA
* *
55693828 GTAATTTCAC-AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATT-TGT
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
* * * *
55693890 AAACTGAGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAATA
65 AAACTGAGGGTAAAAC-GGTAATTCTATAAATCGAGGGTAAAATG
*
55693934 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
55693999 AACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
66 AACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* * *
55694042 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
55694107 AA-TCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
66 AACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* ** * * *
55694150 GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* * *
55694215 AACTGAGGGTAAAACGGTAATTCAATAAATTGAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* * *
55694258 GTGATTTTAAAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
55694323 AA
66 AA
55694325 TTGGGAGTAC
Statistics
Matches: 358, Mismatches: 27, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
106 9 0.03
107 46 0.13
108 298 0.83
109 5 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
Found at i:55701645 original size:47 final size:47
Alignment explanation
Indices: 55701567--55701829 Score: 384
Period size: 47 Copynumber: 5.6 Consensus size: 47
55701557 CCCTTCGGGA
* * * * * *
55701567 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55701613 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55701661 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55701708 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55701757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55701804 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
55701830 CACAATTATC
Statistics
Matches: 197, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.01
47 148 0.75
48 2 0.01
49 45 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55701764 original size:96 final size:96
Alignment explanation
Indices: 55701567--55701829 Score: 392
Period size: 96 Copynumber: 2.8 Consensus size: 96
55701557 CCCTTCGGGA
* * * * * * *
55701567 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATATA
55701629 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
55701661 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
55701726 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
55701757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
55701822 A--TTCACAT
66 ACTTTCACAT
55701830 CACAATTATC
Statistics
Matches: 155, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
94 51 0.33
95 2 0.01
96 102 0.66
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55701865 original size:143 final size:141
Alignment explanation
Indices: 55701569--55701829 Score: 398
Period size: 143 Copynumber: 1.8 Consensus size: 141
55701559 CTTCGGGACT
* * *
55701569 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATACACTT
1 TATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCTCTATCACATATATACACTT
* *
55701634 TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACATTCACATTCATCACATCAG
*
55701699 CCATTAGGCCT
131 CCATTAGGCCA
* *
55701710 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC-CTTATCACATATATACA
1 TATCAC--ATATATACACTTTCACATCCATCACATTGGCCACTCGGCTC-TATCACATATATACA
* *
55701774 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
63 CTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACATTCACAT
55701830 CACAATTATC
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 6 0.06
142 1 0.01
143 102 0.94
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
TATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCTCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACATTCACATTCATCACATCAG
CCATTAGGCCA
Found at i:55705456 original size:40 final size:40
Alignment explanation
Indices: 55705424--55705812 Score: 573
Period size: 40 Copynumber: 9.8 Consensus size: 40
55705414 CCAGCATGAT
* * * *
55705424 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
55705464 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
55705504 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
55705544 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
55705584 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
55705624 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
55705664 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
55705704 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
55705744 TGCTCTTCGGGACTTAGCCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
55705784 TGCTCTTCGGGAATTAGCCCGGAT-CATCA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA
55705813 TCGAGACCTT
Statistics
Matches: 315, Mismatches: 34, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 5 0.02
40 310 0.98
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:55705905 original size:38 final size:38
Alignment explanation
Indices: 55705863--55705937 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
55705853 GAATTTTAAT
*
55705863 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
55705901 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
55705938 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:55708290 original size:49 final size:47
Alignment explanation
Indices: 55708069--55708427 Score: 549
Period size: 47 Copynumber: 7.6 Consensus size: 47
55708059 CCCTTCGGGA
* * * * * *
55708069 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55708115 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55708163 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55708210 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55708257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55708306 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55708355 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55708402 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
55708428 CACAATTATC
Statistics
Matches: 291, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 193 0.66
48 2 0.01
49 94 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55708463 original size:96 final size:95
Alignment explanation
Indices: 55708069--55708427 Score: 510
Period size: 96 Copynumber: 3.8 Consensus size: 95
55708059 CCCTTCGGGA
* * * * * * * *
55708069 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATATA
* *
55708133 CTTTCACATTCATCACATCGGCCATTA-GGC
65 CATTCACATTCATCACATTGGCCATTACGGC
* * *
55708163 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
55708228 TTTCACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
55708257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
55708322 ACACTTTCACATTCATCACATTGGCCATT-CGGC
64 ACA--TTCACATTCATCACATTGGCCATTACGGC
55708355 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
55708420 ATTCACAT
66 ATTCACAT
55708428 CACAATTATC
Statistics
Matches: 245, Mismatches: 14, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
94 96 0.39
95 2 0.01
96 113 0.46
98 34 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATTGGCCATTACGGC
Found at i:55718417 original size:19 final size:19
Alignment explanation
Indices: 55718390--55718431 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
55718380 AATAAATAAA
*
55718390 ATTAGTTTCACATTTTACT
1 ATTAATTTCACATTTTACT
*
55718409 ATTAATTTCATATTTTACT
1 ATTAATTTCACATTTTACT
55718428 ATTA
1 ATTA
55718432 TGTCTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTAATTTCACATTTTACT
Found at i:55721910 original size:54 final size:53
Alignment explanation
Indices: 55721821--55722048 Score: 251
Period size: 54 Copynumber: 4.2 Consensus size: 53
55721811 ACACGTCAGG
* * * *
55721821 AAAGGAAGCTTTTGAGGCTAACACTAAAAAAGAAGCCTTTGTGGCTAACTTTGA
1 AAAGGAAGCTTTTGTGG-TAACACTAAAAAGGAAGCCTTTGTGACTAACTCTGA
* * * *
55721875 AAAGGAAGCTTTTGTGGCTAACATTGAAAACGAAGCCTTTATGACTAACTCTGA
1 AAAGGAAGCTTTTGTGG-TAACACTAAAAAGGAAGCCTTTGTGACTAACTCTGA
* * *
55721929 AAAGGAAGCCTTTGTGGTGAACACTAAAAAGGAAGCCTTTGTGATTAACTCTAA
1 AAAGGAAGCTTTTGTGGT-AACACTAAAAAGGAAGCCTTTGTGACTAACTCTGA
* * * * * *
55721983 AAAGGAAGCCTTTGTGGAAAAATCTAAAAAGGAA-CCTTTGTGGCTAATTTTGA
1 AAAGGAAGCTTTTGTGGTAACA-CTAAAAAGGAAGCCTTTGTGACTAACTCTGA
55722036 AAAGGAATGCTTT
1 AAAGGAA-GCTTT
55722049 CTGGCGAACA
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
53 25 0.17
54 124 0.83
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (53 bp):
AAAGGAAGCTTTTGTGGTAACACTAAAAAGGAAGCCTTTGTGACTAACTCTGA
Found at i:55722048 original size:27 final size:27
Alignment explanation
Indices: 55721821--55722042 Score: 216
Period size: 27 Copynumber: 8.3 Consensus size: 27
55721811 ACACGTCAGG
* * * *
55721821 AAAGGAAGCTTTTGAGGCTAACACTAA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
* *
55721848 AAAAGAAGCCTTTGTGGCTAACTTTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
*
55721875 AAAGGAAGCTTTTGTGGCTAACAT-TGA
1 AAAGGAAGCCTTTGTGGCTAAC-TCTGA
* * *
55721902 AAACGAAGCCTTTATGACTAACTCTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
* *
55721929 AAAGGAAGCCTTTGTGG-TGAACACTAA
1 AAAGGAAGCCTTTGTGGCT-AACTCTGA
** *
55721956 AAAGGAAGCCTTTGTGATTAACTCTAA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
** * *
55721983 AAAGGAAGCCTTTGTGGAAAAATCTAA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
* *
55722010 AAAGGAA-CCTTTGTGGCTAATTTTGA
1 AAAGGAAGCCTTTGTGGCTAACTCTGA
55722036 AAAGGAA
1 AAAGGAA
55722043 TGCTTTCTGG
Statistics
Matches: 163, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.14
27 138 0.85
28 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (27 bp):
AAAGGAAGCCTTTGTGGCTAACTCTGA
Found at i:55725930 original size:27 final size:27
Alignment explanation
Indices: 55725885--55726007 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
55725875 TTGAACCCTT
* *
55725885 ATGTGATAAAATAAAGATTTTGTCCTC
1 ATGTGATAAAATGACGATTTTGTCCTC
*
55725912 ATATGATAAAATGACGATTTT-TCCCTC
1 ATGTGATAAAATGACGATTTTGT-CCTC
*
55725939 ATGTGATAAAATGACGATTTTG-CTCTT
1 ATGTGATAAAATGACGATTTTGTC-CTC
** * *
55725966 ATGTGATAAAATGATAATTTTGCCCTT
1 ATGTGATAAAATGACGATTTTGTCCTC
55725993 ATGTGATAAAATGAC
1 ATGTGATAAAATGAC
55726008 TGAAATACCC
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.02
27 81 0.96
28 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (27 bp):
ATGTGATAAAATGACGATTTTGTCCTC
Found at i:55725973 original size:54 final size:54
Alignment explanation
Indices: 55725880--55726007 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
55725870 TGTACTTGAA
* * * *
55725880 CCCTTATGTGATAAAATAAAGATTTTGTCCTCATATGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTGTCCTCATATGATAAAATGACAATTTTG
* * * *
55725934 CCCTCATGTGATAAAATGACGATTTTG-CTCTTATGTGATAAAATGATAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTGTC-CTCATATGATAAAATGACAATTTTG
55725988 CCCTTATGTGATAAAATGAC
1 CCCTTATGTGATAAAATGAC
55726008 TGAAATACCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (54 bp):
CCCTTATGTGATAAAATGACGATTTTGTCCTCATATGATAAAATGACAATTTTG
Found at i:55726033 original size:26 final size:27
Alignment explanation
Indices: 55725999--55726060 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
55725989 CCTTATGTGA
* *
55725999 TAAAATGACTGAAATACCCCTGTAGGG
1 TAAAATGACTGAAATACCCCGGTAAGG
*
55726026 T-AAATGACTGTAATACCCCGGTAAGG
1 TAAAATGACTGAAATACCCCGGTAAGG
55726052 TAAAATGAC
1 TAAAATGAC
55726061 AGATTTGTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCGGTAAGG
Found at i:55726428 original size:18 final size:18
Alignment explanation
Indices: 55726402--55726467 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
55726392 GTTTGCATTT
55726402 TGCACTGATTACTGCTAC
1 TGCACTGATTACTGCTAC
* * *
55726420 TGCATTGATCA-TGGTTAC
1 TGCACTGATTACT-GCTAC
*
55726438 TGCACTGATTACTGCCAC
1 TGCACTGATTACTGCTAC
55726456 TGCTACTG-TTAC
1 TGC-ACTGATTAC
55726468 AGAATGGGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 1 0.03
18 32 0.84
19 5 0.13
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (18 bp):
TGCACTGATTACTGCTAC
Found at i:55736857 original size:19 final size:18
Alignment explanation
Indices: 55736820--55736863 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
55736810 ATACATACAG
55736820 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
55736837 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
55736856 TACTAATT
1 TAATAATT
55736864 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:55738747 original size:17 final size:19
Alignment explanation
Indices: 55738718--55738753 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
55738708 TTTCTTTTCT
55738718 CTTTGCTAAGCTCT-TCAA
1 CTTTGCTAAGCTCTGTCAA
55738736 CTTTGC-AAGCTCTGTCAA
1 CTTTGCTAAGCTCTGTCAA
55738754 ATAGAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (19 bp):
CTTTGCTAAGCTCTGTCAA
Found at i:55739731 original size:16 final size:17
Alignment explanation
Indices: 55739701--55739733 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
55739691 AACCATTTAG
55739701 CATACATTACATCATTT
1 CATACATTACATCATTT
55739718 CATACATT-CATCATTT
1 CATACATTACATCATTT
55739734 AAACTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (17 bp):
CATACATTACATCATTT
Found at i:55740950 original size:19 final size:19
Alignment explanation
Indices: 55740893--55740956 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
55740883 AAATCATTCG
* *
55740893 ATAACAGTAACTCACCCGT
1 ATAACAGTAATTCACCCAT
* * * *
55740912 TTAAACAGTACTTTATCCAT
1 AT-AACAGTAATTCACCCAT
55740932 ATAACAGTAATTCACCCAT
1 ATAACAGTAATTCACCCAT
*
55740951 GTAACA
1 ATAACA
55740957 CATAGCTTTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (19 bp):
ATAACAGTAATTCACCCAT
Found at i:55740975 original size:39 final size:39
Alignment explanation
Indices: 55740893--55740975 Score: 89
Period size: 39 Copynumber: 2.1 Consensus size: 39
55740883 AAATCATTCG
* * *
55740893 ATAACAGTAACTCACCCGTTTAAACAGTACTTTATCCAT
1 ATAACAGTAACTCACCCATGTAAACAGTACTTTATCCAC
* *
55740932 ATAACAGTAATTCACCCATGTAACACA-TAGCTTT-TTCAC
1 ATAACAGTAACTCACCCATGTAA-ACAGTA-CTTTATCCAC
55740971 ATAAC
1 ATAAC
55740976 CAACAACAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.30
Consensus pattern (39 bp):
ATAACAGTAACTCACCCATGTAAACAGTACTTTATCCAC
Found at i:55741180 original size:24 final size:24
Alignment explanation
Indices: 55741101--55741280 Score: 152
Period size: 24 Copynumber: 7.4 Consensus size: 24
55741091 AGCTATGATT
* **
55741101 AGTAAGCTCCTTATGAGCTGATGGAC
1 AGTAAGCT-CTTACGAGCTGA-AAAC
* *
55741127 AGTAAGCTC-TATTGAGCTG-AAAT
1 AGTAAGCTCTTA-CGAGCTGAAAAC
* *
55741150 GGTAAGCT-TTGACGAGCTAAAAAC
1 AGTAAGCTCTT-ACGAGCTGAAAAC
55741174 AGTAAGCTCTTACGAGCTTG-AAAC
1 AGTAAGCTCTTACGAGC-TGAAAAC
*
55741198 AGTAAGCTCTTACGAGCTGGAAAC
1 AGTAAGCTCTTACGAGCTGAAAAC
* * *
55741222 AGTAAGCTCTGACGAGCTGAGATC
1 AGTAAGCTCTTACGAGCTGAAAAC
* *
55741246 AGTAAGCTCTTATGAGCTGATATATC
1 AGTAAGCTCTTACGAGCTGA-A-AAC
55741272 AGTAAGCTC
1 AGTAAGCTC
55741281 ATATGAGTTG
Statistics
Matches: 129, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
23 16 0.12
24 82 0.64
25 11 0.09
26 20 0.16
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGAAAAC
Found at i:55741236 original size:72 final size:72
Alignment explanation
Indices: 55741101--55741280 Score: 195
Period size: 72 Copynumber: 2.5 Consensus size: 72
55741091 AGCTATGATT
* ** * ** *
55741101 AGTAAGCTCCTTATGAGCTGATGGACAGTAAGCTCTATTGAGCTGAAATGGTAAGCTTTGACGAG
1 AGTAAGCT-CTTACGAGCTGATATACAGTAAGCTCTATCGAGCTGAAACAGTAAGCTCTGACGAG
55741166 CTAAAAAC
65 CTAAAAAC
55741174 AGTAAGCTCTTACGAGCTTGA-A-ACAGTAAGCTCT-TACGAGCTGGAAACAGTAAGCTCTGACG
1 AGTAAGCTCTTACGAGC-TGATATACAGTAAGCTCTAT-CGAGCT-GAAACAGTAAGCTCTGACG
* * *
55741236 AGCTGAGATC
63 AGCTAAAAAC
*
55741246 AGTAAGCTCTTATGAGCTGATATATCAGTAAGCTC
1 AGTAAGCTCTTACGAGCTGATATA-CAGTAAGCTC
55741281 ATATGAGTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
70 1 0.01
71 20 0.22
72 48 0.53
73 12 0.13
74 10 0.11
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (72 bp):
AGTAAGCTCTTACGAGCTGATATACAGTAAGCTCTATCGAGCTGAAACAGTAAGCTCTGACGAGC
TAAAAAC
Found at i:55746412 original size:25 final size:27
Alignment explanation
Indices: 55746375--55746427 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
55746365 TCAAACATGC
55746375 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
55746401 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
55746427 A
1 A
55746428 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:55747946 original size:31 final size:32
Alignment explanation
Indices: 55747908--55747971 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
55747898 AATGCTTACC
55747908 ATGCCCATCATCCATTAACTATTAAAAT-CTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
55747939 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
55747971 A
1 A
55747972 AATGCATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:55763447 original size:51 final size:51
Alignment explanation
Indices: 55763287--55763444 Score: 271
Period size: 51 Copynumber: 3.1 Consensus size: 51
55763277 ACTTCTGATC
* * *
55763287 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
55763338 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
55763389 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATATGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
55763440 AGTGA
1 AGTGA
55763445 TAAATGTGAT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:55766782 original size:44 final size:43
Alignment explanation
Indices: 55766699--55766782 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
55766689 TGTGAAATCT
** *
55766699 GAACTCATTGAGTTGGTCTGAGTTCATGATTTATGTGACATCC
1 GAACTCATTGAGTTGGTCTGAGTTCATGACATATATGACATCC
* *
55766742 GAACTCATTGAGTTGTGTCTGAGTTCGTGACATGTATGACA
1 GAACTCATTGAGTTG-GTCTGAGTTCATGACATATATGACA
55766783 CATGTTTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 15 0.43
44 20 0.57
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
GAACTCATTGAGTTGGTCTGAGTTCATGACATATATGACATCC
Found at i:55768237 original size:20 final size:20
Alignment explanation
Indices: 55768209--55768263 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
55768199 CATAGTCAGA
*
55768209 GAGTTACACGGGCGTGTCCC
1 GAGTCACACGGGCGTGTCCC
**
55768229 GAGTCACACGGGCGTGTCTT
1 GAGTCACACGGGCGTGTCCC
*
55768249 GAGTCACACAGGCGT
1 GAGTCACACGGGCGT
55768264 ATGTGACCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (20 bp):
GAGTCACACGGGCGTGTCCC
Found at i:55768795 original size:24 final size:24
Alignment explanation
Indices: 55768718--55768798 Score: 117
Period size: 24 Copynumber: 3.3 Consensus size: 24
55768708 AATAAGTAGC
* *
55768718 TAATTAATGATTAAATTCTTTCATT
1 TAATCAATG-TTAAATTCCTTCATT
* *
55768743 TAATAAATATTAAATTCCTTCATT
1 TAATCAATGTTAAATTCCTTCATT
55768767 TAATCAATGTTAAATTCCTTCATT
1 TAATCAATGTTAAATTCCTTCATT
55768791 TAATCAAT
1 TAATCAAT
55768799 TCATGACCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 44 0.86
25 7 0.14
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATCAATGTTAAATTCCTTCATT
Found at i:55775438 original size:14 final size:15
Alignment explanation
Indices: 55775419--55775458 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
55775409 GAAAAGTAAG
55775419 TCATTTTCTAGAA-C
1 TCATTTTCTAGAAGC
55775433 TCATTTTCTAGAAGC
1 TCATTTTCTAGAAGC
55775448 -CATTTT-TAGAA
1 TCATTTTCTAGAA
55775459 AAACAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 19 0.76
15 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (15 bp):
TCATTTTCTAGAAGC
Found at i:55776217 original size:27 final size:27
Alignment explanation
Indices: 55776171--55776506 Score: 222
Period size: 27 Copynumber: 12.7 Consensus size: 27
55776161 ACACATTAGG
* *
55776171 AAAGGAAGCCTTTATTGCTAACACTAA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
* ** *
55776198 AAATGAAGCCTTTGTGGCTAA-TTTGA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
55776224 AAAGGAAGCCTTTGT-G-----ACTAA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
** * * *
55776245 TTAGTGAAGCCTTTATGACTACCACTAA
1 AAAG-GAAGCCTTTGTGGCTAACACTAA
* **
55776273 AAAGGAAGCCTTTATGGCTAATTCTGAA
1 AAAGGAAGCCTTTGTGGCTAACACT-AA
* * * *
55776301 AAA-GAAGGCTTTGTGGCGAACTCTGA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
* * * * *
55776327 AAAGAAAGGCTTTGTGGCAAACTCTGA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
* *
55776354 AAAGGAAGCATTTGTGGCTAACTCTAA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
*
55776381 AAAGGAAGCCTTTTTGG-TGAACACTAA
1 AAAGGAAGCCTTTGTGGCT-AACACTAA
** * * *
55776408 AAATAAAGTCTTTATGGCAAACACTAA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
** ** *
55776435 AAAAAAAGCCTTTGTGGCTAACTTTTA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
** *
55776462 AAAGGAAGCCTTTGCAGCTAACACTGA
1 AAAGGAAGCCTTTGTGGCTAACACTAA
*
55776489 AAAGGGAGCCTTTGTGGC
1 AAAGGAAGCCTTTGTGGC
55776507 GAACTTCGAA
Statistics
Matches: 241, Mismatches: 57, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
21 4 0.02
22 10 0.04
25 1 0.00
26 21 0.09
27 193 0.80
28 12 0.05
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAGGAAGCCTTTGTGGCTAACACTAA
Found at i:55776372 original size:81 final size:81
Alignment explanation
Indices: 55776171--55776475 Score: 257
Period size: 81 Copynumber: 3.8 Consensus size: 81
55776161 ACACATTAGG
* * * * * * *
55776171 AAAGGAAGCCTTTATTGCTAACACTAAAAATGAAGCCTTTGTGGCTAA-TTTGAAAAGGAAGCCT
1 AAAGAAAGGCTTTATGGCAAACACTAAAAAGGAAGCCTTTGTGGCTAACTCTAAAAAGGAAGCCT
55776235 TTGT---G---ACTAA
66 TTGTGGCGAACACTAA
** * * * * * * * *
55776245 TTAGTGAAGCCTTTATGACTACCACTAAAAAGGAAGCCTTTATGGCTAATTCTGAAAAA-GAAGG
1 AAAG-AAAGGCTTTATGGCAAACACTAAAAAGGAAGCCTTTGTGGCTAACTCT-AAAAAGGAAGC
* *
55776309 CTTTGTGGCGAACTCTGA
64 CTTTGTGGCGAACACTAA
* * * *
55776327 AAAGAAAGGCTTTGTGGCAAACTCTGAAAAGGAAGCATTTGTGGCTAACTCTAAAAAGGAAGCCT
1 AAAGAAAGGCTTTATGGCAAACACTAAAAAGGAAGCCTTTGTGGCTAACTCTAAAAAGGAAGCCT
* *
55776392 TTTTGGTGAACACTAA
66 TTGTGGCGAACACTAA
* * ** * *
55776408 AAATAAAGTCTTTATGGCAAACACTAAAAAAAAAGCCTTTGTGGCTAACTTTTAAAAGGAAGCCT
1 AAAGAAAGGCTTTATGGCAAACACTAAAAAGGAAGCCTTTGTGGCTAACTCTAAAAAGGAAGCCT
55776473 TTG
66 TTG
55776476 CAGCTAACAC
Statistics
Matches: 180, Mismatches: 41, Indels: 13
0.77 0.18 0.06
Matches are distributed among these distances:
74 2 0.01
75 39 0.22
76 12 0.07
77 4 0.02
79 1 0.01
80 5 0.03
81 112 0.62
82 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (81 bp):
AAAGAAAGGCTTTATGGCAAACACTAAAAAGGAAGCCTTTGTGGCTAACTCTAAAAAGGAAGCCT
TTGTGGCGAACACTAA
Found at i:55776582 original size:27 final size:27
Alignment explanation
Indices: 55776552--55776657 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
55776542 GTATGATAGC
*
55776552 CTTTATGGCGCAATATGAAAGGAACTT
1 CTTTATGGTGCAATATGAAAGGAACTT
* *
55776579 CTTT-GGGATGAAATATGAAAGGAACTT
1 CTTTATGG-TGCAATATGAAAGGAACTT
* * *
55776606 CTTTGTGGTGCAATATGAAA-GAAATGC
1 CTTTATGGTGCAATATGAAAGGAACT-T
*
55776633 CTTTATGGTGCAATGTGAAAGGAAC
1 CTTTATGGTGCAATATGAAAGGAAC
55776658 ACCTATGTGG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.09
27 54 0.83
28 5 0.08
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (27 bp):
CTTTATGGTGCAATATGAAAGGAACTT
Found at i:55785739 original size:52 final size:52
Alignment explanation
Indices: 55785669--55785799 Score: 176
Period size: 52 Copynumber: 2.5 Consensus size: 52
55785659 CCATGGCAAG
* *
55785669 AAGACCATATAGTGTAAGATCTAGTCTAAAAGTATGACATCAAATGGGGGGAA
1 AAGACCATATAGTGTAAGACCTAGTCTAAAACTATGACATCAAAT-GGGGGAA
** * *
55785722 AAGACCATA-AGTGTAAGACCTAGTCTAGGACTATGGCATCATATGGGGGAA
1 AAGACCATATAGTGTAAGACCTAGTCTAAAACTATGACATCAAATGGGGGAA
*
55785773 AA-ACCATATAGTGTAAGACCTATTCTA
1 AAGACCATATAGTGTAAGACCTAGTCTA
55785800 GGACTATCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 6 0.09
51 26 0.37
52 29 0.41
53 9 0.13
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (52 bp):
AAGACCATATAGTGTAAGACCTAGTCTAAAACTATGACATCAAATGGGGGAA
Found at i:55785791 original size:51 final size:53
Alignment explanation
Indices: 55785669--55785806 Score: 192
Period size: 51 Copynumber: 2.7 Consensus size: 53
55785659 CCATGGCAAG
* ** *
55785669 AAGACCATATAGTGTAAGATCTAGTCTAAAAGTATGACATCAAATGGGGGGAA
1 AAGACCATATAGTGTAAGACCTAGTCTAGGACTATGACATCAAATGGGGGGAA
* *
55785722 AAGACCATA-AGTGTAAGACCTAGTCTAGGACTATGGCATCATAT-GGGGGAA
1 AAGACCATATAGTGTAAGACCTAGTCTAGGACTATGACATCAAATGGGGGGAA
*
55785773 AA-ACCATATAGTGTAAGACCTATTCTAGGACTAT
1 AAGACCATATAGTGTAAGACCTAGTCTAGGACTAT
55785807 CACGTTGCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 6 0.08
51 33 0.43
52 29 0.38
53 9 0.12
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (53 bp):
AAGACCATATAGTGTAAGACCTAGTCTAGGACTATGACATCAAATGGGGGGAA
Found at i:55785957 original size:30 final size:29
Alignment explanation
Indices: 55785921--55786005 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
55785911 ATTTACTGAA
55785921 ATGTGGAAGCCTTTGTATCTGTTCTTAGAT
1 ATGTGGAAGCCTTTGTA-CTGTTCTTAGAT
* * * * *
55785951 ATGTGGAAGCATTTATGGCTTTTCTTTGAT
1 ATGTGGAAGCCTTTGT-ACTGTTCTTAGAT
* *
55785981 AAGTGGAAGCCTCTGTGACTGTTCT
1 ATGTGGAAGCCTTTGT-ACTGTTCT
55786006 CTATTACACT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (29 bp):
ATGTGGAAGCCTTTGTACTGTTCTTAGAT
Found at i:55797153 original size:40 final size:39
Alignment explanation
Indices: 55797104--55797258 Score: 179
Period size: 39 Copynumber: 3.9 Consensus size: 39
55797094 AAATCCAATC
* *
55797104 ACCACCACAAAGCATGCGGGACTTTAAGCCTGGATATAAT
1 ACCAGCACAAAGCATGCGGGACTTT-AGCCCGGATATAAT
*
55797144 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
1 ACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAAT
* * *
55797183 ACCAGCACAAATGCCTGCGGGACTTT-GCCCGGATGTAAC
1 ACCAGCACAAA-GCATGCGGGACTTTAGCCCGGATATAAT
* * * *
55797222 ACCAGCATGAATGCATTCGGGAC-TTAACCCGGATATA
1 ACCAGCA-CAAAGCATGCGGGACTTTAGCCCGGATATA
55797259 TATATTACAT
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.02
39 60 0.59
40 39 0.39
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (39 bp):
ACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAAT
Found at i:55797189 original size:39 final size:39
Alignment explanation
Indices: 55797104--55797228 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
55797094 AAATCCAATC
* * *
55797104 ACCACCACAAAGCATGCGGGACTTTAAGCCTGGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTT-AGCCCGGATATAAT
55797144 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
* *
55797183 ACCAGCACAAATGCCTGCGGGACTTT-GCCCGGATGTAAC
1 ACCAGCACAAA-GCCTGCGGGACTTTAGCCCGGATATAAT
55797222 ACCAGCA
1 ACCAGCA
55797229 TGAATGCATT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 42 0.53
40 37 0.47
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
Found at i:55798964 original size:12 final size:14
Alignment explanation
Indices: 55798943--55798974 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
55798933 TTTGTATATT
55798943 AAAATGTT-AATAA
1 AAAATGTTAAATAA
55798956 AAAAT-TTAAATAA
1 AAAATGTTAAATAA
55798969 AAAATG
1 AAAATG
55798975 CATATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 15 0.88
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAATGTTAAATAA
Found at i:55800020 original size:31 final size:31
Alignment explanation
Indices: 55799985--55800048 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
55799975 TCAATAGTTC
55799985 AGGTTGACCAAAACTCCCACACGGCCTCAGT
1 AGGTTGACCAAAACTCCCACACGGCCTCAGT
55800016 AGGTTGACCAAAACTCCCACACGGCCTCAGT
1 AGGTTGACCAAAACTCCCACACGGCCTCAGT
55800047 AG
1 AG
55800049 CAAAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.16
Consensus pattern (31 bp):
AGGTTGACCAAAACTCCCACACGGCCTCAGT
Found at i:55801516 original size:19 final size:19
Alignment explanation
Indices: 55801492--55801538 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
55801482 AAACCCAACT
55801492 CATGTGGCTCTAACATGGC
1 CATGTGGCTCTAACATGGC
55801511 CATGTGGCTCTAACATGGC
1 CATGTGGCTCTAACATGGC
55801530 CATGTGGCT
1 CATGTGGCT
55801539 ATCCCACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (19 bp):
CATGTGGCTCTAACATGGC
Found at i:55804765 original size:42 final size:42
Alignment explanation
Indices: 55804647--55804799 Score: 193
Period size: 42 Copynumber: 3.6 Consensus size: 42
55804637 TACTATACCA
* *
55804647 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
55804689 ATACCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* **
55804732 ATGCCATATCCCATATATGGTCTTACACAAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCG
*
55804774 ATGCCATAT-CCATATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
55804800 AATAGTCTCA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 17 0.17
42 42 0.43
43 39 0.40
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:55808145 original size:27 final size:26
Alignment explanation
Indices: 55808097--55808156 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
55808087 GCGAGGCTGC
*
55808097 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
55808124 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
55808150 CAGATAT
1 CAGATAT
55808157 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:55808203 original size:71 final size:67
Alignment explanation
Indices: 55808124--55808265 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
55808114 TCACCAAATA
* * * *
55808124 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTACAGCGA
55808189 GGCTGC
62 GGCTGC
* *
55808195 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTACAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
55808260 GC
66 GC
55808262 CAGA
1 CAGA
55808266 ACGTTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
GC
Found at i:55808243 original size:27 final size:26
Alignment explanation
Indices: 55808195--55808246 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55808185 GCGAGGCTGC
*
55808195 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
55808221 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
55808247 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55810739 original size:40 final size:42
Alignment explanation
Indices: 55810683--55810822 Score: 157
Period size: 40 Copynumber: 3.5 Consensus size: 42
55810673 GACTATGTTT
55810683 GGCACTTAGTGTGCGA-ATCAG-AATAGCTTCGGCTATATAA
1 GGCACTTAGTGTGCGAGATCAGAAATAGCTTCGGCTATATAA
* * *
55810723 AGCACTTAGTGTGCGA-ATC-GAAATAGCTTAGGCTATATAT
1 GGCACTTAGTGTGCGAGATCAGAAATAGCTTCGGCTATATAA
* * * *
55810763 GGCACTTAATGTGAGAGAT-TGAAATAGCTTCGACTATGA-AA
1 GGCACTTAGTGTGCGAGATCAGAAATAGCTTCGGCTAT-ATAA
*
55810804 GGCACTAAGTGTGCGAGAT
1 GGCACTTAGTGTGCGAGAT
55810823 TATAATAGCT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 48 0.57
41 34 0.40
42 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (42 bp):
GGCACTTAGTGTGCGAGATCAGAAATAGCTTCGGCTATATAA
Found at i:55815758 original size:46 final size:46
Alignment explanation
Indices: 55815698--55815912 Score: 174
Period size: 46 Copynumber: 4.6 Consensus size: 46
55815688 GTCATTCGTG
*
55815698 TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA
* *
55815744 TGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATC-G--ACATTGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-A
* * * *
55815790 -GACGAAGGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-GA
1 TGA-G-A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA
* * * *
55815838 CGCA-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGA-GA
1 TG-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA
* *
55815884 TGATAGTCAGTGTAAGACTATGTCTGGGA
1 TGAGAGCCAGTGTAAGAC-ATGTCTGGGA
55815913 AATGGCATTG
Statistics
Matches: 139, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
45 8 0.06
46 72 0.52
47 39 0.28
48 16 0.12
49 2 0.01
50 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA
Found at i:55819914 original size:37 final size:37
Alignment explanation
Indices: 55819814--55819916 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
55819804 CGAATAGTCC
* *
55819814 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
55819851 CCATACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
55819888 CCACACGTAGTCATCAGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
55819917 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:55820143 original size:48 final size:48
Alignment explanation
Indices: 55820089--55820502 Score: 693
Period size: 48 Copynumber: 8.6 Consensus size: 48
55820079 GCCGAATCAC
* **
55820089 TAGCCATTCGGCTTTAGCACATATACATATCTCATACATATTTCGTAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
55820137 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
55820185 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
55820233 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
55820281 TAGCCATTCGGCTTTACCTCATATGCATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * **
55820329 TAGCCATTCGGCTTTACCGCATATACATATCTCATACATAGTTCACGC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
55820377 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
55820425 TAGCCATTCGGCTTTACCTCATATACATATCTCATGCATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
55820473 TAGCCATTCGGCTTTACCACATATACATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
55820503 ATATCTATCT
Statistics
Matches: 343, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 343 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:55824184 original size:26 final size:26
Alignment explanation
Indices: 55824155--55824222 Score: 120
Period size: 26 Copynumber: 2.6 Consensus size: 26
55824145 TGATTGTGAT
55824155 ATGGGCTCAA-GCCCAACTGAGGCTAC
1 ATGGGCT-AAGGCCCAACTGAGGCTAC
55824181 ATGGGCTAAGGCCCAACTGAGGCTAC
1 ATGGGCTAAGGCCCAACTGAGGCTAC
55824207 ATGGGCTAAGGCCCAA
1 ATGGGCTAAGGCCCAA
55824223 GTGCCACCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.28, C:0.28, G:0.29, T:0.15
Consensus pattern (26 bp):
ATGGGCTAAGGCCCAACTGAGGCTAC
Found at i:55825531 original size:30 final size:30
Alignment explanation
Indices: 55825497--55825554 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55825487 TTTTCGAGCA
* *
55825497 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGATCATTTTGCCAAAGTT
*
55825527 TAGGGGCAAAATGATCATTTTTCCAAAG
1 TAGGGGCAAAATGATCATTTTGCCAAAG
55825555 ATGTGAATTT
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:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTGCCAAAGTT
Found at i:55825947 original size:47 final size:46
Alignment explanation
Indices: 55825879--55826147 Score: 183
Period size: 47 Copynumber: 5.7 Consensus size: 46
55825869 AATTTCTTGT
* * *
55825879 GTGCCAGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATGATGA
* *
55825925 GTGCCAGTATAAGACCATGTCTGGGACATGGCATCGG-CACAGAGACGA
1 GTGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TGATGA
* * *
55825973 GTGCCAG-AGTAAGACATGTCTGGGACATGCATTGGCCTCAACGATGA
1 GTGCCAGTA-TAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGA
* * * * * * *
55826020 -TAGCCAGTGTAGGACATATATGGGACACGCATCGGCTA-A-GA-GTT
1 GT-GCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATGATG-A
* * * *
55826064 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATATATACGA
1 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAT-GAT--GA
* * *
55826112 GAGCTAGTATAAGACCATGTCTAGGACATGGCATCG
1 GTGCCAGTATAAGA-CATGTCTGGGACAT-GCATCG
55826148 ACAACTTATC
Statistics
Matches: 174, Mismatches: 31, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 30 0.17
45 2 0.01
46 20 0.11
47 66 0.38
48 35 0.20
49 14 0.08
50 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATGATGA
Done.