Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 120 of 182
Found at i:38757214 original size:21 final size:21
Alignment explanation
Indices: 38757187--38757241 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
38757177 AGAGTTTTTA
* *
38757187 GTATCGGTAGAAGCATGATTT
1 GTATCGGTAGAAGCATCACTT
* *
38757208 GTTTCGGTAGAAGCTTCACTT
1 GTATCGGTAGAAGCATCACTT
38757229 GTATCGGTAGAAG
1 GTATCGGTAGAAG
38757242 TTTACACTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGCATCACTT
Found at i:38757982 original size:112 final size:111
Alignment explanation
Indices: 38757781--38758003 Score: 311
Period size: 112 Copynumber: 2.0 Consensus size: 111
38757771 ATATGGGTCA
* ****
38757781 TTTTATCTTTTCATTCATACGAGCTATGCCTCCAATAAAATTTAATTTTATCCGCCTTGTGACCC
1 TTTTATCTTTTCATTCATACGAGCTATGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCC
*
38757846 TGTTCAAGTATTTTTGCATCGAAATAACGGTTAGTGGACCAATGAT
66 TGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGAT
* * * *
38757892 TTTTAATCTTTTCATTCATGCGAGCTTTGCCTTCAATAAAATTTAATTTTATCCACCTCACAATC
1 TTTT-ATCTTTTCATTCATACGAGCTATGCCTCCAATAAAATTTAATTTTATCCACCTCACAACC
* * * *
38757957 CTGTTCAAGCATTTTTGCATTGAAATAGCGGTTAGTGGTCTAATGAT
65 CTGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGAT
38758004 ATAAGGAATA
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
111 4 0.04
112 93 0.96
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (111 bp):
TTTTATCTTTTCATTCATACGAGCTATGCCTCCAATAAAATTTAATTTTATCCACCTCACAACCC
TGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGAT
Found at i:38758589 original size:49 final size:48
Alignment explanation
Indices: 38758443--38758606 Score: 163
Period size: 49 Copynumber: 3.4 Consensus size: 48
38758433 CCTTAAGGAC
*** * * * *
38758443 GTGAAGGGAAAGATTGAAGCTGTGACGGCGAATCTCGTGCCCTAGAGAT
1 GTGAAGGGAAAGATTGAAGC-CCAATGGAGAATATTGTGCCCTAGAGAT
* * *
38758492 GTGAA--GAAATGATTGAAG-CCGATGGTGAATCTTGTGCCCTAGAGAT
1 GTGAAGGGAAA-GATTGAAGCCCAATGGAGAATATTGTGCCCTAGAGAT
* *
38758538 GTGAAGGGAAAGATTGAAGCCACAATGGAGAATATTGTTCCCTAGAAAT
1 GTGAAGGGAAAGATTGAAGCC-CAATGGAGAATATTGTGCCCTAGAGAT
*
38758587 GTGGAGGGAAAGATTGAAGC
1 GTGAAGGGAAAGATTGAAGC
38758607 TGCAACGACA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
46 28 0.28
47 12 0.12
48 13 0.13
49 46 0.46
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (48 bp):
GTGAAGGGAAAGATTGAAGCCCAATGGAGAATATTGTGCCCTAGAGAT
Found at i:38758653 original size:98 final size:99
Alignment explanation
Indices: 38758528--38758807 Score: 284
Period size: 98 Copynumber: 2.9 Consensus size: 99
38758518 GAATCTTGTG
* * *
38758528 CCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAATGGAGAATA-TTGTTCCCTAGAAATGTGGA
1 CCCTAGAGATATGAAGGGAAAGATTGAAGCCACAATGGAGAATACTTATACCCTAGAAATGTGGA
* *
38758592 GGGAAAGATTGAAGCTGCAACGACAAATCTTATA
66 GGGAAAGATTGAAGCCGCAACGACAAACCTTATA
* * * * * * * *
38758626 CCC-ATGATATATGGAGGGAAAGGTTGAAGTCGCAAT-GACAA-ACCTTATACCTTAGAGATGTG
1 CCCTA-GAGATATGAAGGGAAAGATTGAAGCCACAATGGAGAATA-CTTATACCCTAGAAATGTG
* *
38758688 GAGGGAAAGGTTGAAGCCGTAACGACAAACCTTATA
64 GAGGGAAAGATTGAAGCCGCAACGACAAACCTTATA
* * * * * *
38758724 CCCTAGAGATGTGAAGGGAAAGATTGAGGCCACAATGGCGAAT-CTTATACCCTGGAGATGAGGA
1 CCCTAGAGATATGAAGGGAAAGATTGAAGCCACAATGGAGAATACTTATACCCTAGAAATGTGGA
* *
38758788 GAAGCAA-ATTGAAGCCGCAA
66 G-GGAAAGATTGAAGCCGCAA
38758808 AGGCGAATCT
Statistics
Matches: 144, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
96 1 0.01
97 5 0.03
98 131 0.91
99 7 0.05
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (99 bp):
CCCTAGAGATATGAAGGGAAAGATTGAAGCCACAATGGAGAATACTTATACCCTAGAAATGTGGA
GGGAAAGATTGAAGCCGCAACGACAAACCTTATA
Found at i:38758771 original size:49 final size:49
Alignment explanation
Indices: 38758482--38758783 Score: 256
Period size: 49 Copynumber: 6.2 Consensus size: 49
38758472 GAATCTCGTG
*** * *
38758482 CCCTAGAGATGTGAA--GAAATGATTGAAGCCG--ATGGTGAATCTTGTG
1 CCCTAGAGATGTGAAGGGAAA-GATTGAAGCCGCAATGACAAATCTTATA
* * * * *
38758528 CCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAATGGA-GAATATTGTT
1 CCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAAT-GACAAATCTTATA
* * * *
38758577 CCCTAGAAATGTGGAGGGAAAGATTGAAGCTGCAACGACAAATCTTATA
1 CCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAATGACAAATCTTATA
* * * * * *
38758626 CCC-ATGATATATGGAGGGAAAGGTTGAAGTCGCAATGACAAACCTTATA
1 CCCTA-GAGATGTGAAGGGAAAGATTGAAGCCGCAATGACAAATCTTATA
* * * * * *
38758675 CCTTAGAGATGTGGAGGGAAAGGTTGAAGCCGTAACGACAAACCTTATA
1 CCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAATGACAAATCTTATA
* * * *
38758724 CCCTAGAGATGTGAAGGGAAAGATTGAGGCCACAATGGCGAATCTTATA
1 CCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAATGACAAATCTTATA
*
38758773 CCCTGGAGATG
1 CCCTAGAGATG
38758784 AGGAGAAGCA
Statistics
Matches: 211, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
46 15 0.07
47 10 0.05
48 7 0.03
49 177 0.84
50 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (49 bp):
CCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAATGACAAATCTTATA
Found at i:38758845 original size:42 final size:42
Alignment explanation
Indices: 38758786--38758901 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
38758776 TGGAGATGAG
* *
38758786 GAGAAGCAAATTGAAGCCGCAAAGGCGAATCTC-AAGACTATA
1 GAGAAGTAGATTGAAGCCGCAAAGGCGAATCTCAAAG-CTATA
* * *
38758828 GAGAAGTAGATTGAAGCCACAAAGGTGAATCTCAAAGCTGTA
1 GAGAAGTAGATTGAAGCCGCAAAGGCGAATCTCAAAGCTATA
* * **
38758870 AAG-TGCTAGATTGAAGTTGCAAAGGCGAATCT
1 GAGAAG-TAGATTGAAGCCGCAAAGGCGAATCT
38758902 TACGTCCCTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 57 0.93
43 3 0.05
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.19
Consensus pattern (42 bp):
GAGAAGTAGATTGAAGCCGCAAAGGCGAATCTCAAAGCTATA
Found at i:38759267 original size:41 final size:42
Alignment explanation
Indices: 38759191--38759295 Score: 149
Period size: 41 Copynumber: 2.5 Consensus size: 42
38759181 ACATCACCAC
* *
38759191 CCAATCTTTTACCCCTAACCTAGAGCGACAGATTAGAGCCAT
1 CCAATCTTTTACCCCTAATCTAGAGCGACAAATTAGAGCCAT
* *
38759233 CCAATCTTTTA-CCCTAATCTAGAGGGGCAAATTAGAGCCAT
1 CCAATCTTTTACCCCTAATCTAGAGCGACAAATTAGAGCCAT
* *
38759274 TCGATCTTTTACCCCTAATCTA
1 CCAATCTTTTACCCCTAATCTA
38759296 AAAGGGCAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 35 0.62
42 21 0.38
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (42 bp):
CCAATCTTTTACCCCTAATCTAGAGCGACAAATTAGAGCCAT
Found at i:38759314 original size:42 final size:41
Alignment explanation
Indices: 38759225--38759303 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
38759215 GCGACAGATT
* * *
38759225 AGAGCCATCCAATCTTTTACCCTAATCTAGAGGGGCAAATT
1 AGAGCCATCCAATCTTTTACCCTAATCTAAAAGGGCAAATG
* *
38759266 AGAGCCATTCGATCTTTTACCCCTAATCTAAAAGGGCA
1 AGAGCCATCCAATCTTTTA-CCCTAATCTAAAAGGGCA
38759304 GATCGAAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (41 bp):
AGAGCCATCCAATCTTTTACCCTAATCTAAAAGGGCAAATG
Found at i:38759766 original size:18 final size:18
Alignment explanation
Indices: 38759745--38759779 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38759735 AATAAATAAA
*
38759745 TAAAATATAAAATAAAAT
1 TAAAATACAAAATAAAAT
*
38759763 TAAAATCCAAAATAAAA
1 TAAAATACAAAATAAAA
38759780 GTCCATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATACAAAATAAAAT
Found at i:38761887 original size:11 final size:12
Alignment explanation
Indices: 38761871--38761902 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38761861 TCGAACTAGG
38761871 AATAAAAATA-A
1 AATAAAAATAGA
38761882 AAT-AAAATAGA
1 AATAAAAATAGA
38761893 AATAAAAATA
1 AATAAAAATA
38761903 TATGTATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.32
11 7 0.37
12 6 0.32
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (12 bp):
AATAAAAATAGA
Found at i:38761910 original size:6 final size:6
Alignment explanation
Indices: 38761901--38761930 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
38761891 GAAATAAAAA
38761901 TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG
38761931 AATAAACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:38762608 original size:47 final size:47
Alignment explanation
Indices: 38762564--38762714 Score: 143
Period size: 47 Copynumber: 3.3 Consensus size: 47
38762554 TTGGATTTAG
* * *
38762564 GGTATACGATTTGATCCGATAACTTTAATCT-ACCCCTCTAGATTTGA
1 GGTATAAGATTGGATCCGATAACTTCAATCTGA-CCCTCTAGATTTGA
** *
38762611 GGTATAAGATTGGATGTGATGACTTCAATCTGACCCTCTAGATTTGA
1 GGTATAAGATTGGATCCGATAACTTCAATCTGACCCTCTAGATTTGA
* * * * *
38762658 GGTATGAGATTAGAT--GGTAACTTCAATCT-ACCCTCT-GGTTAG-
1 GGTATAAGATTGGATCCGATAACTTCAATCTGACCCTCTAGATTTGA
*
38762700 GGTAAAAGATTGGAT
1 GGTATAAGATTGGAT
38762715 GGTCTTCAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 12 0.14
43 4 0.05
44 7 0.08
45 12 0.14
47 52 0.59
48 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (47 bp):
GGTATAAGATTGGATCCGATAACTTCAATCTGACCCTCTAGATTTGA
Found at i:38762716 original size:42 final size:42
Alignment explanation
Indices: 38762583--38762797 Score: 119
Period size: 42 Copynumber: 5.0 Consensus size: 42
38762573 TTTGATCCGA
* * * *
38762583 TAACTTTAATCTACCCCTCTAGATTTGAGGTATAAGATTGGATGTG
1 TAACTTCAATCTA-CCCTCT-GGTTAG-GGTAAAAGATTGGATG-G
* * * ** *
38762629 ATGACTTCAATCTGACCCTCTAGATTTGAGGTATGAGATTAGATGG
1 -TAACTTCAATCT-ACCCTCT-GGTTAG-GGTAAAAGATTGGATGG
38762675 TAACTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGG
1 TAACTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGG
* * * * * * * *
38762717 T--CTTCAATATGCACTTTGGTTAGGGTCAGAGATTAGATGA
1 TAACTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGG
** * * * * *
38762757 TGTCTTTAATTTGCCCTCTTGTTAGGATAAAAGATTGGATG
1 TAACTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATG
38762798 ATTTTCAATC
Statistics
Matches: 138, Mismatches: 27, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
40 32 0.23
42 44 0.32
43 4 0.03
44 7 0.05
45 11 0.08
46 1 0.01
47 38 0.28
48 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (42 bp):
TAACTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGG
Found at i:38762798 original size:42 final size:42
Alignment explanation
Indices: 38762678--38762806 Score: 124
Period size: 40 Copynumber: 3.2 Consensus size: 42
38762668 TAGATGGTAA
* * *
38762678 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATG--GT
1 CTTCAATATGCCCTCTTGTTAGGGTAAAAGATTGGATGATGT
* * * *
38762718 CTTCAATATGCACT-TTGGTTAGGGTCAGAGATTAGATGATGT
1 CTTCAATATGCCCTCTT-GTTAGGGTAAAAGATTGGATGATGT
* * *
38762760 CTTTAATTTGCCCTCTTGTTAGGATAAAAGATTGGATGAT-T
1 CTTCAATATGCCCTCTTGTTAGGGTAAAAGATTGGATGATGT
38762801 -TTCAAT
1 CTTCAAT
38762807 CTACCGTTTG
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.01
40 34 0.49
41 1 0.01
42 32 0.46
43 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (42 bp):
CTTCAATATGCCCTCTTGTTAGGGTAAAAGATTGGATGATGT
Found at i:38763459 original size:112 final size:112
Alignment explanation
Indices: 38763261--38763473 Score: 300
Period size: 112 Copynumber: 1.9 Consensus size: 112
38763251 TCGTTAGACC
** ** * *
38763261 ACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATTGCAAGGTGGATAAAATTGAATTTTA
1 ACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATCACAAGACGAACAAAATTGAATTTTA
*
38763326 TTGGAGGCAAAGCTCGAATGAATGAAAAGATTAAAAATCATTGGTCT
66 TTGGAGGCAAAGCTCGAATGAATAAAAAGATTAAAAATCATTGGTCT
* * * *
38763373 ACTAACCGTTATTTCGATGCAAAAATGCTTGAACAGGGTCACAAGACGAACAAAATTGAGTTTTA
1 ACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATCACAAGACGAACAAAATTGAATTTTA
* * *
38763438 TTGGAGGCAAAGCTTGCATGAATAAAAATATTAAAA
66 TTGGAGGCAAAGCTCGAATGAATAAAAAGATTAAAA
38763474 GTAACTCATA
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 87 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (112 bp):
ACTAACCGCTATTTCAATGCAAAAATGCTTGAACAGGATCACAAGACGAACAAAATTGAATTTTA
TTGGAGGCAAAGCTCGAATGAATAAAAAGATTAAAAATCATTGGTCT
Found at i:38763811 original size:5 final size:5
Alignment explanation
Indices: 38763785--38763840 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
38763775 CGACCTCTCA
* *
38763785 TTCTT CTTCTT TTCTT CTCTT TTCTT TTCCT TTC-T TTC-T TTCTT TTCTT
1 TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
38763834 TTCTT TT
1 TTCTT TT
38763841 TTTGGTGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
4 8 0.17
5 33 0.72
6 5 0.11
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TTCTT
Found at i:38770543 original size:16 final size:17
Alignment explanation
Indices: 38770522--38770554 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38770512 TTTATTTTTG
*
38770522 AAATAGGAA-AAAAATA
1 AAATAGAAATAAAAATA
38770538 AAATAGAAATAAAAATA
1 AAATAGAAATAAAAATA
38770555 TATGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (17 bp):
AAATAGAAATAAAAATA
Found at i:38789124 original size:20 final size:21
Alignment explanation
Indices: 38789088--38789126 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38789078 CATTTTTTTA
*
38789088 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
38789109 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
38789127 AATTCTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:38792039 original size:25 final size:26
Alignment explanation
Indices: 38792006--38792055 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
38791996 TTAGAAAAGG
38792006 AAAATGAGAAAA-AGAAAGAAAAAAAT
1 AAAATGAGAAAAGA-AAAGAAAAAAAT
38792032 AAAA-GAGAAAAGAAAAGAAAAAAA
1 AAAATGAGAAAAGAAAAGAAAAAAA
38792056 AATGTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAATGAGAAAAGAAAAGAAAAAAAT
Found at i:38806195 original size:15 final size:16
Alignment explanation
Indices: 38806175--38806207 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
38806165 ATATGACATA
38806175 AATCT-AGTATATATT
1 AATCTAAGTATATATT
38806190 AATCTAAGTATATATT
1 AATCTAAGTATATATT
38806206 AA
1 AA
38806208 AATTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
AATCTAAGTATATATT
Found at i:38809582 original size:17 final size:18
Alignment explanation
Indices: 38809556--38809590 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38809546 ATAAAAATGG
38809556 TAATAAACAGA-AACAAT
1 TAATAAACAGATAACAAT
*
38809573 TAATAGACAGATAACAAT
1 TAATAAACAGATAACAAT
38809591 CAATGTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (18 bp):
TAATAAACAGATAACAAT
Found at i:38811031 original size:9 final size:9
Alignment explanation
Indices: 38811017--38811050 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
38811007 TGCAATAAGG
38811017 TAAAAAAAA
1 TAAAAAAAA
38811026 T--AAAAAA
1 TAAAAAAAA
38811033 TAAAAAAAA
1 TAAAAAAAA
38811042 TAAAAAAAA
1 TAAAAAAAA
38811051 AACTATCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
9 16 0.70
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:38811038 original size:16 final size:16
Alignment explanation
Indices: 38811017--38811052 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
38811007 TGCAATAAGG
38811017 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
38811033 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
38811049 -AAAA
1 TAAAA
38811053 CTATCAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:38815455 original size:65 final size:66
Alignment explanation
Indices: 38815370--38815498 Score: 161
Period size: 65 Copynumber: 2.0 Consensus size: 66
38815360 AAAAAACATC
* * * *
38815370 TAATTTCTAAAGAAACTAAAACTTAGGCTATAAATA-TATATATGAAAAATATTTAAATGTATAT
1 TAATTTATAAAGAAACTAAAAATTAGACTATAAATAGTATATATGAAAAATATTTAAAAGTATAT
38815434 A
66 A
* * * * *
38815435 TAATTTATCAAGAAATTAAAAATTAGATTATAAATATGTATATGTGGAAAATATTTAAAAGTAT
1 TAATTTATAAAGAAACTAAAAATTAGACTATAAATA-GTATATATGAAAAATATTTAAAAGTAT
38815499 CGGTAAACCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 30 0.57
67 23 0.43
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.36
Consensus pattern (66 bp):
TAATTTATAAAGAAACTAAAAATTAGACTATAAATAGTATATATGAAAAATATTTAAAAGTATAT
A
Found at i:38817655 original size:14 final size:14
Alignment explanation
Indices: 38817635--38817678 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
38817625 TCTTGAAAAA
* *
38817635 AGTCAACGGTCAAT
1 AGTCAACGATCAAC
*
38817649 GGTCAACGATCAAC
1 AGTCAACGATCAAC
38817663 AGTCAACGATCAAC
1 AGTCAACGATCAAC
38817677 AG
1 AG
38817679 GTCGAGTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (14 bp):
AGTCAACGATCAAC
Found at i:38817675 original size:21 final size:21
Alignment explanation
Indices: 38817637--38817676 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38817627 TTGAAAAAAG
* * *
38817637 TCAACGGTCAATGGTCAACGA
1 TCAACAGTCAACGATCAACGA
38817658 TCAACAGTCAACGATCAAC
1 TCAACAGTCAACGATCAAC
38817677 AGGTCGAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (21 bp):
TCAACAGTCAACGATCAACGA
Found at i:38835412 original size:25 final size:27
Alignment explanation
Indices: 38835376--38835426 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
38835366 ATGCCCAAGT
*
38835376 TTTTTATATTTAG-AATTTAGTTTTTA
1 TTTTTATATTTAGAAATGTAGTTTTTA
38835402 TTTTTAT-TTTAGAAATGTAGTTTTT
1 TTTTTATATTTAGAAATGTAGTTTTT
38835427 TGTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (27 bp):
TTTTTATATTTAGAAATGTAGTTTTTA
Found at i:38837306 original size:23 final size:23
Alignment explanation
Indices: 38837280--38837357 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
38837270 TATTAAAATA
38837280 TTTAAAATATTTATTTACTACAT
1 TTTAAAATATTTATTTACTACAT
** *
38837303 TTTAAAATA---ATACACTATGAT
1 TTTAAAATATTTATTTACTA-CAT
38837324 ATTTAAAATATTTTATTTACTACAT
1 -TTTAAAATA-TTTATTTACTACAT
38837349 TTTAAAATA
1 TTTAAAATA
38837358 ATACACTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
20 6 0.14
21 2 0.05
22 9 0.21
23 9 0.21
24 9 0.21
25 2 0.05
26 6 0.14
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.47
Consensus pattern (23 bp):
TTTAAAATATTTATTTACTACAT
Found at i:38837326 original size:45 final size:46
Alignment explanation
Indices: 38837277--38837367 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
38837267 TTATATTAAA
38837277 ATATTTAAAATA-TTTATTTACTACATTTTAAAATAATACACTATG
1 ATATTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATG
38837322 ATATTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATG
1 ATATTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATG
38837368 GCTACGTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 12 0.27
46 33 0.73
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (46 bp):
ATATTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATG
Found at i:38837652 original size:20 final size:20
Alignment explanation
Indices: 38837629--38837699 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 20
38837619 AATAAAAAAA
38837629 AATTAATCATATTTTAACAT
1 AATTAATCATATTTTAACAT
* * * *
38837649 AATTATTATTAAATACAATTTAAAAA
1 AATTA--A-T-CAT--ATTTTAACAT
38837675 AATTAATCATATTTTAACAT
1 AATTAATCATATTTTAACAT
38837695 AATTA
1 AATTA
38837700 TTATTATTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 17 0.46
22 3 0.08
23 2 0.05
24 3 0.08
26 12 0.32
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATCATATTTTAACAT
Found at i:38837659 original size:26 final size:26
Alignment explanation
Indices: 38837630--38837705 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
38837620 ATAAAAAAAA
38837630 ATTAATCATATTTTAACATAATTATT
1 ATTAATCATATTTTAACATAATTATT
38837656 ATTAAATACA-A-TTTAA-A-AA--A--
1 ATT-AAT-CATATTTTAACATAATTATT
38837676 ATTAATCATATTTTAACATAATTATT
1 ATTAATCATATTTTAACATAATTATT
38837702 ATTA
1 ATTA
38837706 TTGAGTGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 20
0.67 0.00 0.33
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 8 0.20
21 1 0.03
22 3 0.08
24 3 0.08
25 1 0.03
26 12 0.30
27 4 0.10
28 2 0.05
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTAATCATATTTTAACATAATTATT
Found at i:38840217 original size:25 final size:25
Alignment explanation
Indices: 38840189--38840240 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
38840179 TAATATAATT
* *
38840189 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAGAAAAA
*
38840214 ATTATAATATATAATATTAGAAAAA
1 ATTATAAAATATAATATTAGAAAAA
38840239 AT
1 AT
38840241 AATATATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
ATTATAAAATATAATATTAGAAAAA
Found at i:38840229 original size:58 final size:58
Alignment explanation
Indices: 38840059--38840229 Score: 174
Period size: 58 Copynumber: 2.9 Consensus size: 58
38840049 CAGGTTGTAA
* *
38840059 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAATAATTA-ATTTAATTAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATTATAATTATA-ATAATTAT
* * *
38840117 ATTTTAACATAATTATCATTAAATACAATTTAATAAAAGAATATATAATT-TAATAATT-T
1 ATTTTAATATAATTATTATTAAATATAATTTAAT-AAA-AAT-TATAATTATAATAATTAT
*
38840176 -TTTTAATATAATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATATAATA
1 ATTTTAATATAATTATTATT-AAATAT-AATTTAATAAAAATTATAAT-TATAATA
38840230 TTAGAAAAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
56 6 0.06
57 4 0.04
58 54 0.57
59 14 0.15
60 10 0.11
61 7 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATTATAATTATAATAATTAT
Found at i:38844956 original size:20 final size:20
Alignment explanation
Indices: 38844933--38844975 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
38844923 TTTTGTTCAA
38844933 TTTCTTTAATTACTGTTTTG
1 TTTCTTTAATTACTGTTTTG
**
38844953 TTTCTTTAATTGTTGTTTTG
1 TTTCTTTAATTACTGTTTTG
38844973 TTT
1 TTT
38844976 TGTTTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTCTTTAATTACTGTTTTG
Found at i:38854134 original size:15 final size:16
Alignment explanation
Indices: 38854114--38854152 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
38854104 CTACCATCAT
38854114 CTTTCTTCTT-TTTTC
1 CTTTCTTCTTCTTTTC
*
38854129 CTTTCTTCTTCTTTTT
1 CTTTCTTCTTCTTTTC
38854145 C-TTCTTCT
1 CTTTCTTCT
38854153 CGTCATCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
CTTTCTTCTTCTTTTC
Found at i:38854174 original size:12 final size:12
Alignment explanation
Indices: 38854157--38854204 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
38854147 TCTTCTCGTC
*
38854157 ATCACTACCACG
1 ATCACTATCACG
38854169 ATCACTATCACG
1 ATCACTATCACG
*
38854181 ATCACTTTCACG
1 ATCACTATCACG
38854193 ATCACTATCACG
1 ATCACTATCACG
38854205 GTCCCGATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (12 bp):
ATCACTATCACG
Found at i:38854218 original size:24 final size:24
Alignment explanation
Indices: 38854165--38854218 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
38854155 TCATCACTAC
**
38854165 CACGATCACTATCACGATCACTTT
1 CACGATCACTATCACGATCACGAT
* *
38854189 CACGATCACTATCACGGTCCCGAT
1 CACGATCACTATCACGATCACGAT
*
38854213 CGCGAT
1 CACGAT
38854219 GGTGGTCACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (24 bp):
CACGATCACTATCACGATCACGAT
Found at i:38854260 original size:18 final size:18
Alignment explanation
Indices: 38854227--38854261 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38854217 ATGGTGGTCA
*
38854227 CGATCACGACTGCTATCG
1 CGATCACGACTACTATCG
*
38854245 CGATCACGGCTACTATC
1 CGATCACGACTACTATC
38854262 CCCGTGGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (18 bp):
CGATCACGACTACTATCG
Found at i:38854343 original size:21 final size:21
Alignment explanation
Indices: 38854317--38854357 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38854307 GTGTTTATCT
*
38854317 TTGTGCTTATGGTCATCTTTC
1 TTGTGCTTATCGTCATCTTTC
38854338 TTGTGCTTATCGTCATCTTT
1 TTGTGCTTATCGTCATCTTT
38854358 ATCACCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.20, G:0.17, T:0.54
Consensus pattern (21 bp):
TTGTGCTTATCGTCATCTTTC
Found at i:38854410 original size:99 final size:100
Alignment explanation
Indices: 38854294--38854501 Score: 319
Period size: 102 Copynumber: 2.1 Consensus size: 100
38854284 TTATCTAGCG
* * * *
38854294 TCCCTTCATCCTTGTGTTTATCTTTGTGCTTATGGTC-ATCTTTCTTGTGCTTATCGTCATCTTT
1 TCCCTTCATCCTTGTGTTCACCCTTGTGCTTATGGTCAATCTTTCTTATGCTTATCGTCATCTTT
38854358 ATCACCAGTGACCATGTCCTTGATTTTATCCATCA
66 ATCACCAGTGACCATGTCCTTGATTTTATCCATCA
*
38854393 TCCCTTCCTCCTTGTGTTCACCCTTGTGCTTATGGTCATGATCTTTCTTATGCTTATCGTCATCT
1 TCCCTTCATCCTTGTGTTCACCCTTGTGCTTATGGTCA--ATCTTTCTTATGCTTATCGTCATCT
* * *
38854458 TTATCCCCCGTGATCATGTCCTTGATTTTATCCATCA
64 TTATCACCAGTGACCATGTCCTTGATTTTATCCATCA
38854495 TCCCTTC
1 TCCCTTC
38854502 GTCTTTCTCA
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 33 0.34
102 65 0.66
ACGTcount: A:0.14, C:0.28, G:0.12, T:0.45
Consensus pattern (100 bp):
TCCCTTCATCCTTGTGTTCACCCTTGTGCTTATGGTCAATCTTTCTTATGCTTATCGTCATCTTT
ATCACCAGTGACCATGTCCTTGATTTTATCCATCA
Found at i:38854558 original size:9 final size:9
Alignment explanation
Indices: 38854542--38854581 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
38854532 CTTGTGATCT
38854542 TTGT-CTTC
1 TTGTCCTTC
*
38854550 TTCTCCTTC
1 TTGTCCTTC
38854559 TTGTCCTTC
1 TTGTCCTTC
38854568 TTGTCCTTC
1 TTGTCCTTC
38854577 TTGTC
1 TTGTC
38854582 GTCCTCGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 3 0.10
9 26 0.90
ACGTcount: A:0.00, C:0.33, G:0.10, T:0.57
Consensus pattern (9 bp):
TTGTCCTTC
Found at i:38869385 original size:47 final size:47
Alignment explanation
Indices: 38869239--38869386 Score: 129
Period size: 47 Copynumber: 3.1 Consensus size: 47
38869229 CGAAACATCG
* * *
38869239 AATCCTATCTTCCTGAAGTTACAGTGAAGCAGATTAAAATAGGTAGCA
1 AATCCTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAACA-ATAGCA
* * * * * * * *
38869287 GATCTCAATCTCCACTGAAGTTGCAGTGGAATG--GAGTGAAGCCATACCA
1 AATC-CTATCTTC-CTGAAGTTGCAGT-GAA-GCAGATTAAAACAATAGCA
*
38869336 AATCCTATCTTCTTGAAGTTGCAGTGAAGCAGATTAAAACAATAGCA
1 AATCCTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAACAATAGCA
38869383 AATC
1 AATC
38869387 TTTATCTCCC
Statistics
Matches: 74, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
45 1 0.01
46 3 0.04
47 27 0.36
48 9 0.12
49 13 0.18
50 17 0.23
51 3 0.04
52 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (47 bp):
AATCCTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAACAATAGCA
Found at i:38869457 original size:50 final size:51
Alignment explanation
Indices: 38869381--38869560 Score: 145
Period size: 50 Copynumber: 3.6 Consensus size: 51
38869371 AAAACAATAG
* * *
38869381 CAAATCTTTATCTCCCCAAAGTTGCAGTAGAGCAAGATGAAGCTATAACAC
1 CAAATCTTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAACAC
* * * * * **
38869432 CAAATC-TTATATCCCTGAAGTTGCAG-GGATCGAA-TTAAAACTAATAGTGA-
1 CAAATCTTTATATCCCTAAAGTTGCAGTGGAGC-AAGATGAAGCT-ATA-ACAC
* * * *
38869482 CAAATCTTTATTTCCTTAAAGTTGCAATGGAGCAAGATGAAGCTAAAACAC
1 CAAATCTTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAACAC
* * *
38869533 CAAAT-TCTATATCCCTGAAGTTACAGTG
1 CAAATCTTTATATCCCTAAAGTTGCAGTG
38869561 ATAGGATTAA
Statistics
Matches: 95, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
49 8 0.08
50 46 0.48
51 32 0.34
52 9 0.09
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (51 bp):
CAAATCTTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAACAC
Found at i:38869515 original size:101 final size:101
Alignment explanation
Indices: 38869381--38870128 Score: 751
Period size: 101 Copynumber: 7.4 Consensus size: 101
38869371 AAAACAATAG
* * * *
38869381 CAAATCTTTATCTCCCCAAAGTTGCAGTAGAGCAAGATGAAGCTATAACACCAAATCTTATATCC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCTTATATCC
*
38869446 CTGAAGTTGCAGGGATCGAATTAAAACTAATAGTGA
66 CTGAAGTTGCAGGGATCGAATTAAAACTAACAGTGA
* * * *
38869482 CAAATCTTTATTTCCTTAAAGTTGCAATGGAGCAAGATGAAGCTAAAACACCAAAT-TCTATATC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCT-TATATC
* * * * * *
38869546 CCTGAAGTTACAGTGATAGGATTAAAACTAACAATGG
65 CCTGAAGTTGCAGGGATCGAATTAAAACTAACAGTGA
* * ** *
38869583 CAAAT-ATT-TCTCCCTAAAGTTACAATAGAGCAAGATGAAGCTACGAC-CCTAAATCATATATC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACC-AAATCTTATATC
* * ** * * *
38869645 CTTAAAGTTTTAAGGATC-AGATTAAAACTAATAGTGG
65 CCTGAAGTTGCAGGGATCGA-ATTAAAACTAACAGTGA
* * ** *
38869682 CAAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTACAACACCAAATCACACATCC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCTTATATCC
* *
38869747 CTAAAGTTACAGGGATCTG-ATTAAAACTAACAGTGA
66 CTGAAGTTGCAGGGATC-GAATTAAAACTAACAGTGA
** * * * *
38869783 -AAATTCTTTATCTCTTTGAAGTTACAATGGAGCAAGATGAAGCTGTAACCCCAAATCCTATATC
1 CAAA-TCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCTTATATC
* * ** * *
38869847 CTTGAAGTTGTAAAGATCGGATTAAAACTAACAGTGG
65 CCTGAAGTTGCAGGGATCGAATTAAAACTAACAGTGA
* * * * * * **
38869884 CAAATCTTTATCTCTCTGAAGTTGCAGTAGAGCAACATGAAGCTATAACACCAAATCCCATA-CC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCTTATATCC
**
38869948 CTTGAAGTTGCAAAGATCGAATTAAAACTAACAGTGGA
66 C-TGAAGTTGCAGGGATCGAATTAAAACTAACAGT-GA
* * *
38869986 -AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAAATGAAGCTATAACCCCAAATCTTATATCC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCTTATATCC
* * * *
38870050 TTGAAGTTGTAGGGATCGGATTAAAACTAATAGTGGA
66 CTGAAGTTGCAGGGATCGAATTAAAACTAACAGT-GA
** * *
38870087 -AAATCTTTATCTCTTTGAAGTTGCAATGGAGCAAGATGAAGC
1 CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGC
38870129 ACATCACTAA
Statistics
Matches: 540, Mismatches: 92, Indels: 30
0.82 0.14 0.05
Matches are distributed among these distances:
98 2 0.00
99 74 0.14
100 11 0.02
101 445 0.82
102 8 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (101 bp):
CAAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACACCAAATCTTATATCC
CTGAAGTTGCAGGGATCGAATTAAAACTAACAGTGA
Found at i:38869892 original size:202 final size:200
Alignment explanation
Indices: 38869382--38870142 Score: 911
Period size: 202 Copynumber: 3.8 Consensus size: 200
38869372 AAACAATAGC
* * * * * *
38869382 AAATCTTTATCTCCCCAAAGTTGCAGTAGAGCAAGATGAAGCTATAACACCAAATCTTATATCCC
1 AAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACCCCAAATCTTATATCCT
* * * * * *
38869447 TGAAGTTGCAGGGATCGAATTAAAACTAATAGTGACAAATCTTTATTTCCTTAAAGTTGCAATGG
66 TGAAGTTGTAAGGATCGGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTAAAGTTGCAATGG
* * * * *
38869512 AGCAAGATGAAGCTAAAACACCAAATTCTATATCCCTGAAGTTACAGTGATAGGATTAAAACTAA
131 AGCAAGATGAAGCTACAACACCAAA-TCCACATCCCTGAAGTTACAGAGAT-CGATTAAAACTAA
* *
38869577 CAATGGC
194 CAGTGGA
* * ** * *
38869584 AAAT-ATT-TCTCCCTAAAGTTACAATAGAGCAAGATGAAGCTACGACCCTAAATCATATATCCT
1 AAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACCCCAAATCTTATATCCT
* * * * *
38869647 TAAAGTTTTAAGGATCAGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTAAAGTTACAGTGG
66 TGAAGTTGTAAGGATCGGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTAAAGTTGCAATGG
* *
38869712 AGCAAGATGAAGCTACAACACCAAATCACACATCCCTAAAGTTACAGGGATCTGATTAAAACTAA
131 AGCAAGATGAAGCTACAACACCAAATC-CACATCCCTGAAGTTACAGAGATC-GATTAAAACTAA
38869777 CAGT-GA
194 CAGTGGA
** * * *
38869783 AAATTCTTTATCTCTTTGAAGTTACAATGGAGCAAGATGAAGCTGTAACCCCAAATCCTATATCC
1 AAA-TCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACCCCAAATCTTATATCC
* * * * * *
38869848 TTGAAGTTGTAAAGATCGGATTAAAACTAACAGTGGCAAATCTTTATCTCTCTGAAGTTGCAGTA
65 TTGAAGTTGTAAGGATCGGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTAAAGTTGCAATG
* * * *
38869913 GAGCAACATGAAGCTATAACACCAAATCC-CATACCCTTGAAGTTGCAAAGATCGAATTAAAACT
130 GAGCAAGATGAAGCTACAACACCAAATCCACAT-CCC-TGAAGTTACAGAGATCG-ATTAAAACT
38869977 AACAGTGGA
192 AACAGTGGA
* *
38869986 AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAAATGAAGCTATAACCCCAAATCTTATATCCT
1 AAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACCCCAAATCTTATATCCT
* * ** *
38870051 TGAAGTTGTAGGGATCGGATTAAAACTAATAGTGGAAAATCTTTATCTCTTTGAAGTTGCAATGG
66 TGAAGTTGTAAGGATCGGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTAAAGTTGCAATGG
* *
38870116 AGCAAGATGAAGC-ACATCACTAAATCC
131 AGCAAGATGAAGCTACAACACCAAATCC
38870143 TATCTTCCTA
Statistics
Matches: 478, Mismatches: 72, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
199 6 0.01
200 163 0.34
201 20 0.04
202 284 0.59
203 5 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (200 bp):
AAATCTTTATCTCCCTAAAGTTACAATGGAGCAAGATGAAGCTATAACCCCAAATCTTATATCCT
TGAAGTTGTAAGGATCGGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTAAAGTTGCAATGG
AGCAAGATGAAGCTACAACACCAAATCCACATCCCTGAAGTTACAGAGATCGATTAAAACTAACA
GTGGA
Found at i:38870066 original size:303 final size:299
Alignment explanation
Indices: 38869382--38870145 Score: 976
Period size: 303 Copynumber: 2.5 Consensus size: 299
38869372 AAACAATAGC
* * *
38869382 AAATCTTTATCTCCCCAAAGTTGCAGTAGAGCAAGATGAAGCTATAACACCAAATCTTATATCCC
1 AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTATAACACCAAATCTTATATCCC
* * *
38869447 TGAAGTTGCAGGGATCGAATTAAAACTAATAGTGACAAATCTTTATTTCCTTAAAGTTGCAATGG
66 TGAAGTTGCAGGGATCG-ATTAAAACTAATAGTGA-AAATCTTTATCTCTTTGAAGTTGCAATGG
* **
38869512 AGCAAGATGAAGCTAAAACACCAAATTCTATATCCCTGAAGTTACAGTGATAGGATTAAAACTAA
129 AGCAAGATGAAGCTAAAACACCAAATCCTATATCCCTGAAGTTACAAAGATAGGATTAAAACTAA
* * *
38869577 CAATGGCAAATATTTCTCCCTAAAGTTACAATAGAGCAAGATGAAGCTACGACCCTAAATCATAT
194 CAATGGCAAATATTTCTCCCTAAAGTTACAATAGAGCAACATGAAGCTACAACCCTAAATCACAT
* ** * * *
38869642 ATCCTTAAAGTTTTAAGGATCAGATTAAAACTAATAGTGGC
259 ACCCTTAAAGTTGCAAAGATCAGATTAAAACTAACAGTGGA
* ** *
38869683 AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTACAACACCAAATCACACATCCC
1 AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTATAACACCAAATCTTATATCCC
* * * *
38869748 TAAAGTTACAGGGATCTGATTAAAACTAACAGTGAAAATTCTTTATCTCTTTGAAGTTACAATGG
66 TGAAGTTGCAGGGATC-GATTAAAACTAATAGTGAAAA-TCTTTATCTCTTTGAAGTTGCAATGG
** * * ** *
38869813 AGCAAGATGAAGCTGTAACCCCAAATCCTATATCCTTGAAGTTGTAAAGATCGGATTAAAACTAA
129 AGCAAGATGAAGCTAAAACACCAAATCCTATATCCCTGAAGTTACAAAGATAGGATTAAAACTAA
* * * * * * * *
38869878 CAGTGGCAAATCTTTATCTCTCTGAAGTTGCAGTAGAGCAACATGAAGCTATAACACC-AAATCC
194 CAATGGCAAAT-ATT-TCTCCCTAAAGTTACAATAGAGCAACATGAAGCTACAAC-CCTAAATCA
*
38869942 CATACCCTTGAAGTTGCAAAGATC-GAATTAAAACTAACAGTGGA
256 CATACCCTTAAAGTTGCAAAGATCAG-ATTAAAACTAACAGTGGA
* * *
38869986 AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAAATGAAGCTATAACCCCAAATCTTATATCCT
1 AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTATAACACCAAATCTTATATCCC
*
38870051 TGAAGTTGTAGGGATCGGATTAAAACTAATAGTGGAAAATCTTTATCTCTTTGAAGTTGCAATGG
66 TGAAGTTGCAGGGATC-GATTAAAACTAATAGT-GAAAATCTTTATCTCTTTGAAGTTGCAATGG
* * *
38870116 AGCAAGATGAAGC-ACATCACTAAATCCTAT
129 AGCAAGATGAAGCTAAAACACCAAATCCTAT
38870146 CTTCCTAAAA
Statistics
Matches: 396, Mismatches: 60, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
300 3 0.01
301 175 0.44
302 16 0.04
303 195 0.49
304 7 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (299 bp):
AAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTATAACACCAAATCTTATATCCC
TGAAGTTGCAGGGATCGATTAAAACTAATAGTGAAAATCTTTATCTCTTTGAAGTTGCAATGGAG
CAAGATGAAGCTAAAACACCAAATCCTATATCCCTGAAGTTACAAAGATAGGATTAAAACTAACA
ATGGCAAATATTTCTCCCTAAAGTTACAATAGAGCAACATGAAGCTACAACCCTAAATCACATAC
CCTTAAAGTTGCAAAGATCAGATTAAAACTAACAGTGGA
Found at i:38874256 original size:17 final size:17
Alignment explanation
Indices: 38874234--38874283 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
38874224 AATTTTAATT
38874234 TATTTTAAGTTTGAATC
1 TATTTTAAGTTTGAATC
* *
38874251 TATTTTAAATTT-AAAC
1 TATTTTAAGTTTGAATC
*
38874267 TCATTTTGAGTTTGAAT
1 T-ATTTTAAGTTTGAAT
38874284 TTACTTTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 4 0.15
17 20 0.77
18 2 0.08
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (17 bp):
TATTTTAAGTTTGAATC
Found at i:38874273 original size:34 final size:34
Alignment explanation
Indices: 38874235--38874309 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
38874225 ATTTTAATTT
*
38874235 ATTTTAAGTTTGAATCTATTTTAAATTTAAACTC
1 ATTTTAAGTTTGAATCTACTTTAAATTTAAACTC
* * * * *
38874269 ATTTTGAGTTTGAATTTACTTTAGATTTAAATTT
1 ATTTTAAGTTTGAATCTACTTTAAATTTAAACTC
38874303 ATTTTAA
1 ATTTTAA
38874310 ATTGAAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.53
Consensus pattern (34 bp):
ATTTTAAGTTTGAATCTACTTTAAATTTAAACTC
Found at i:38875001 original size:21 final size:19
Alignment explanation
Indices: 38874977--38875030 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
38874967 TGTTTTAAAC
38874977 AAATTTAATATTAATAATAAT
1 AAATTTAATATT-A-AATAAT
* *
38874998 AAATATAACATTAAATAAT
1 AAATTTAATATTAAATAAT
38875017 AAATCTATAATATT
1 AAAT-T-TAATATT
38875031 TTTAATAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 10 0.37
20 1 0.04
21 16 0.59
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTAATATTAAATAAT
Found at i:38876261 original size:31 final size:31
Alignment explanation
Indices: 38876223--38876288 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
38876213 TATATTTTTA
38876223 TTTTTCCCTCAATCTTTTCAAAAATTACATT
1 TTTTTCCCTCAATCTTTTCAAAAATTACATT
38876254 TTTTTCCCTCAATCTTTTCAAAAATTACATT
1 TTTTTCCCTCAATCTTTTCAAAAATTACATT
38876285 TTTT
1 TTTT
38876289 GACCTCGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTTTCCCTCAATCTTTTCAAAAATTACATT
Found at i:38876366 original size:58 final size:59
Alignment explanation
Indices: 38876272--38876456 Score: 198
Period size: 58 Copynumber: 3.1 Consensus size: 59
38876262 TCAATCTTTT
* *
38876272 CAAAAATTACATTTTTTGACCTCGAAAATCCAAAAATTACCATTTTA-CCATCGAACTTC
1 CAAAAATTGCATTTTTTGACCTCGAAAATCCAAAAATTACCATTTTACCCCT-GAACTTC
*
38876331 CAAAAATTGCATTTTTT-ACCTC-AAACATCTAAAAATTACCATTTTACCCCTGAACTTC
1 CAAAAATTGCATTTTTTGACCTCGAAA-ATCCAAAAATTACCATTTTACCCCTGAACTTC
* * ** * * * *
38876389 CAAAAATTGTA-TTTTTGACATCGAACTTTCAAAAAATAACATTTTTTACCCCCGAACTTC
1 CAAAAATTGCATTTTTTGACCTCGAAAATCCAAAAATTACCA--TTTTACCCCTGAACTTC
*
38876449 TAAAAATT
1 CAAAAATT
38876457 AATATTTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
57 8 0.07
58 55 0.51
59 21 0.20
60 23 0.21
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (59 bp):
CAAAAATTGCATTTTTTGACCTCGAAAATCCAAAAATTACCATTTTACCCCTGAACTTC
Found at i:38876393 original size:29 final size:29
Alignment explanation
Indices: 38876300--38876625 Score: 149
Period size: 29 Copynumber: 11.3 Consensus size: 29
38876290 ACCTCGAAAA
*
38876300 TCCAAAAATTACCATTTTA-CCATCGAACT
1 TCCAAAAATTACCATTTTACCCCT-GAACT
* * * *
38876329 TCCAAAAATT-GCATTTTTTACCTC-AAACA
1 TCCAAAAATTACCA--TTTTACCCCTGAACT
*
38876358 TCTAAAAATTACCATTTTACCCCTGAACT
1 TCCAAAAATTACCATTTTACCCCTGAACT
** **
38876387 TCCAAAAATT-GTATTTTTGACATC-GAACT
1 TCCAAAAATTACCA-TTTT-ACCCCTGAACT
* * * *
38876416 TTCAAAAAATAACATTTTTTACCCCCGAACT
1 TCCAAAAATTACCA--TTTTACCCCTGAACT
* ** *
38876447 TCTAAAAATTAATATTTTACCGCTGAACT
1 TCCAAAAATTACCATTTTACCCCTGAACT
**
38876476 TCCAAAAATTA-CATTTTTGA-TTCTGAACTT
1 TCCAAAAATTACCA-TTTT-ACCCCTGAAC-T
**
38876506 TCCAAAAATTACCATTTTA-CCCTCGAGTGT
1 TCCAAAAATTACCATTTTACCCCT-GA-ACT
* * *
38876536 TCC-AAAATTACCATTTTTCCTC-GAACA
1 TCCAAAAATTACCATTTTACCCCTGAACT
* * * *
38876563 T-C-AAAATTACAATTTTTCCCCCGAACA
1 TCCAAAAATTACCATTTTACCCCTGAACT
* * *
38876590 T-CTAAAATTACCATTTT-GCCCTCGAATT
1 TCCAAAAATTACCATTTTACCCCT-GAACT
38876618 TCCAAAAA
1 TCCAAAAA
38876626 ATACACTTTC
Statistics
Matches: 228, Mismatches: 48, Indels: 42
0.72 0.15 0.13
Matches are distributed among these distances:
26 18 0.08
27 11 0.05
28 31 0.14
29 106 0.46
30 39 0.17
31 23 0.10
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCCTGAACT
Found at i:38876445 original size:31 final size:30
Alignment explanation
Indices: 38876242--38876493 Score: 128
Period size: 29 Copynumber: 8.5 Consensus size: 30
38876232 CAATCTTTTC
* *
38876242 AAAAATTACATTTTTTTCCCTC-AATCTTTTC-
1 AAAAATTACATTTTTTACCCCCGAA-C--TTCA
* ** *
38876273 AAAAATTACATTTTTTGA-CCTCGAAAATCC
1 AAAAATTACATTTTTT-ACCCCCGAACTTCA
** *
38876303 AAAAATTACCA--TTTTACCATCGAACTTCC
1 AAAAATTA-CATTTTTTACCCCCGAACTTCA
* * * * *
38876332 AAAAATTGCATTTTTTA-CCTCAAACATCT
1 AAAAATTACATTTTTTACCCCCGAACTTCA
* *
38876361 AAAAATTACCA--TTTTACCCCTGAACTTCC
1 AAAAATTA-CATTTTTTACCCCCGAACTTCA
** * **
38876390 AAAAATTGTATTTTTGA-CATCGAACTTTCA
1 AAAAATTACATTTTTTACCCCCGAAC-TTCA
* *
38876420 AAAAATAACATTTTTTACCCCCGAACTTCT
1 AAAAATTACATTTTTTACCCCCGAACTTCA
* * * *
38876450 AAAAATTA-ATATTTTACCGCTGAACTTCC
1 AAAAATTACATTTTTTACCCCCGAACTTCA
38876479 AAAAATTACATTTTT
1 AAAAATTACATTTTT
38876494 GATTCTGAAC
Statistics
Matches: 170, Mismatches: 37, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
28 9 0.05
29 81 0.48
30 50 0.29
31 28 0.16
32 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAAATTACATTTTTTACCCCCGAACTTCA
Found at i:38876475 original size:60 final size:59
Alignment explanation
Indices: 38876372--38876493 Score: 140
Period size: 60 Copynumber: 2.1 Consensus size: 59
38876362 AAAATTACCA
* * *
38876372 TTTTACCCCTGAACTTCCAAAAATTGTATTTTTGACATCGAACTTTCAAAAAATAACATT
1 TTTTACCCCCGAACTTCCAAAAATTATATTTTTGACAGCGAAC-TTCAAAAAATAACATT
* * * *
38876432 TTTTACCCCCGAACTTCTAAAAATTA-ATATTTT-ACCGCTGAACTTCCAAAAATTACATT
1 TTTTACCCCCGAACTTCCAAAAATTATAT-TTTTGACAGC-GAACTTCAAAAAATAACATT
38876491 TTT
1 TTT
38876494 GATTCTGAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
59 22 0.42
60 31 0.58
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (59 bp):
TTTTACCCCCGAACTTCCAAAAATTATATTTTTGACAGCGAACTTCAAAAAATAACATT
Found at i:38876475 original size:89 final size:88
Alignment explanation
Indices: 38876300--38876523 Score: 249
Period size: 89 Copynumber: 2.5 Consensus size: 88
38876290 ACCTCGAAAA
* ** *
38876300 TCCAAAAATTACCA-TTTT-ACCATCGAAC-TTCCAAAAATTGCATTTTTTACCTCAAACATCTA
1 TCCAAAAATTA-CATTTTTGA-CATCGAACTTTCAAAAAATAACATTTTTTACCCCAAACATCTA
*
38876362 AAAATTACCATTTTACCCCTGAACT
64 AAAATTAACATTTTACCCCTGAACT
** * *
38876387 TCCAAAAATTGTATTTTTGACATCGAACTTTCAAAAAATAACATTTTTTACCCCCGAACTTCTAA
1 TCCAAAAATTACATTTTTGACATCGAACTTTCAAAAAATAACATTTTTTA-CCCCAAACATCTAA
* *
38876452 AAATTAATATTTTACCGCTGAACT
65 AAATTAACATTTTACCCCTGAACT
* * *
38876476 TCCAAAAATTACATTTTTGA-TTCTGAACTTTCCAAAAATTACCATTTT
1 TCCAAAAATTACATTTTTGACATC-GAACTTT-CAAAAAATAACATTTT
38876524 ACCCTCGAGT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
86 1 0.01
87 22 0.19
88 21 0.18
89 57 0.50
90 14 0.12
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (88 bp):
TCCAAAAATTACATTTTTGACATCGAACTTTCAAAAAATAACATTTTTTACCCCAAACATCTAAA
AATTAACATTTTACCCCTGAACT
Found at i:38876605 original size:28 final size:27
Alignment explanation
Indices: 38876510--38876615 Score: 115
Period size: 28 Copynumber: 3.9 Consensus size: 27
38876500 GAACTTTCCA
* ***
38876510 AAAATTACCATTTTACCCTCGAGTGTTCC
1 AAAATTACCATTTTTCCCTCGA-ACAT-C
38876539 AAAATTACCATTTTT-CCTCGAACATC
1 AAAATTACCATTTTTCCCTCGAACATC
* *
38876565 AAAATTACAATTTTTCCCCCGAACATC
1 AAAATTACCATTTTTCCCTCGAACATC
*
38876592 TAAAATTACCATTTTGCCCTCGAA
1 -AAAATTACCATTTTTCCCTCGAA
38876616 TTTCCAAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 15 0.23
27 11 0.17
28 26 0.39
29 14 0.21
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTACCATTTTTCCCTCGAACATC
Found at i:38876624 original size:28 final size:27
Alignment explanation
Indices: 38876504--38876624 Score: 109
Period size: 28 Copynumber: 4.3 Consensus size: 27
38876494 GATTCTGAAC
*
38876504 TTTCCAAAAATTACCATTTTACCCTCGAG
1 TTTCC-AAAATTACCATTTT-CCCTCGAA
*
38876533 TGTTCCAAAATTACCATTTTTCCTCGAA
1 T-TTCCAAAATTACCATTTTCCCTCGAA
** * *
38876561 CAT-CAAAATTACAATTTTTCCCCCGAA
1 TTTCCAAAATTACCA-TTTTCCCTCGAA
** *
38876588 CATCTAAAATTACCATTTTGCCCTCGAA
1 TTTCCAAAATTACCATTTT-CCCTCGAA
38876616 TTTCCAAAA
1 TTTCCAAAA
38876625 AATACACTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
26 10 0.13
27 18 0.24
28 28 0.37
29 15 0.20
30 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (27 bp):
TTTCCAAAATTACCATTTTCCCTCGAA
Found at i:38877031 original size:97 final size:97
Alignment explanation
Indices: 38876924--38877107 Score: 323
Period size: 97 Copynumber: 1.9 Consensus size: 97
38876914 CAAACCTTTA
38876924 AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGACTCGAT
1 AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGACTCGAT
38876989 TTTTCTTCAAACCGAGATAATCAAGTATCCTT
66 TTTTCTTCAAACCGAGATAATCAAGTATCCTT
* * *
38877021 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACTCGAT
1 AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGACTCGAT
* *
38877086 TTTTCTTCAAATCGGGATAATC
66 TTTTCTTCAAACCGAGATAATC
38877108 GAATACCCTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 82 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGACTCGAT
TTTTCTTCAAACCGAGATAATCAAGTATCCTT
Found at i:38888835 original size:209 final size:209
Alignment explanation
Indices: 38888381--38889075 Score: 982
Period size: 209 Copynumber: 3.3 Consensus size: 209
38888371 CGATCATGGG
* * * *
38888381 ACAAAGGAGTGAATCAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCA
1 ACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
* * * *
38888446 AATCAAAGAAGCCAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGA
66 AATCAAAGAAACC-AGGCTCAAAGTGAACAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGA
** * * **
38888511 GAAGCAGGTTGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCG
130 GAAGCAGGTTGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACTGAGAAGTAAACCAAATTCG
*
38888576 TCTTCCTGATGAGAT
195 TCTTCCTGATGAGAC
* * *
38888591 ACTAAGAAGTGGATTAAGA-AAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
1 ACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
* *
38888655 AATCAATGAAACCAGGCTCAAAGTGAACAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAG
66 AATCAAAGAAACCAGGCTCAAAGTGAACAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAG
* * * ** *
38888720 AAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATTCTGAGAAGTAAATCGGATCCGT
131 AAGCAGGTTGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACTGAGAAGTAAACCAAATTCGT
38888785 CTTCCTGATGAGAC
196 CTTCCTGATGAGAC
* *
38888799 ACAAAGAAGTGGATCAAAATAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
1 ACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
* * * *
38888864 AATCAACGAAACCAGGCTCAAAG-CAAGCAAACCTTCGAACCCCAACTTCCTGATGAGATACTGA
66 AATCAAAGAAACCAGGCTCAAAGTGAA-CAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGA
* * * * *
38888928 GATGCAAGTTGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTAAACCACATTTG
130 GAAGCAGGTTGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACTGAGAAGTAAACCAAATTCG
*
38888993 TCTTCCTGATGACAC
195 TCTTCCTGATGAGAC
* *
38889008 ACAGAGAAGTGGATCAAAACAAGCGATAG-GGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
1 ACAAAGAAGTGGATCAAAACAAGTGAT-GCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
38889072 AAAT
65 AAAT
38889076 TAATAACACC
Statistics
Matches: 433, Mismatches: 49, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
208 132 0.30
209 286 0.66
210 15 0.03
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (209 bp):
ACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
AATCAAAGAAACCAGGCTCAAAGTGAACAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAG
AAGCAGGTTGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACTGAGAAGTAAACCAAATTCGT
CTTCCTGATGAGAC
Found at i:38889418 original size:17 final size:17
Alignment explanation
Indices: 38889396--38889495 Score: 92
Period size: 17 Copynumber: 5.9 Consensus size: 17
38889386 AAATTTTAAT
*
38889396 TTTTAAATTTTAATTTA
1 TTTTAAATTTAAATTTA
* *
38889413 TTTTAAGTTTGAATTTA
1 TTTTAAATTTAAATTTA
* * *
38889430 TTTTAAATCTAAACTCA
1 TTTTAAATTTAAATTTA
* * *
38889447 TTTTGAGTTTGAATTTA
1 TTTTAAATTTAAATTTA
* *
38889464 CTTTAGATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
38889481 TTTTAAATTGAAATT
1 TTTTAAATTTAAATT
38889496 AATTAAAAAG
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 62 1.00
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:38891424 original size:58 final size:57
Alignment explanation
Indices: 38891274--38891581 Score: 225
Period size: 59 Copynumber: 5.3 Consensus size: 57
38891264 CTAAACTTTT
* ** * * * *
38891274 CAAAAATTATATTTGACCCTCAAATTTTCTAAAAA--ACATATTTTAACCCTCAAACTTTA
1 CAAAAATTACATTTTTCCCTCAAA-CTTCCAAAAATTACAT-TTTTGACCC-CAAAC-TTC
* * *
38891333 CAAAAATTAAATTTTTGCCC-CAAACTTTACAAAAATTAAATTTTTG-CCCCAAACTTC
1 CAAAAATTACATTTTT-CCCTCAAAC-TTCCAAAAATTACATTTTTGACCCCAAACTTC
* * * *** *
38891390 ACAAAAATTACATTTTTCGCCT-GATCTTTCCAAAAAAATACATTTTTGACAGTAAACATC
1 -CAAAAATTACATTTTTC-CCTCAAAC-TTCC-AAAAATTACATTTTTGACCCCAAACTTC
* * *
38891450 CAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTGCATTTTTGACCTCAAACATT-
1 CAAAAATTA-CATTTTTCCCTCAAACTTCCAAAAATTACATTTTTGACCCCAAAC-TTC
* * * *
38891508 -AAAAATTACCATTTTACCCTCGAACTTCTAAAAATTGCATTTTTGACCCCAAACTTTC
1 CAAAAATTA-CATTTTTCCCTCAAACTTCCAAAAATTACATTTTTGACCCCAAAC-TTC
38891566 CAAAAATTACATTTTT
1 CAAAAATTACATTTTT
38891582 TACCCTTGAA
Statistics
Matches: 202, Mismatches: 33, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
57 56 0.28
58 54 0.27
59 66 0.33
60 23 0.11
61 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (57 bp):
CAAAAATTACATTTTTCCCTCAAACTTCCAAAAATTACATTTTTGACCCCAAACTTC
Found at i:38891573 original size:30 final size:30
Alignment explanation
Indices: 38891241--38891586 Score: 210
Period size: 29 Copynumber: 11.8 Consensus size: 30
38891231 GTCCCTGAAT
* * *
38891241 TTTCCAAAAA-T-CATATTTTAACTCTAAAC
1 TTTCCAAAAATTACAT-TTTTGACCCCAAAC
* * *
38891270 TTTTCAAAAATT--ATATTTGACCCTCAAAT
1 TTTCCAAAAATTACATTTTTGACCC-CAAAC
* *
38891299 TTTCTAAAAA--ACATATTTTAACCCTCAAAC
1 TTTCCAAAAATTACAT-TTTTGACCC-CAAAC
* *
38891329 TTTACAAAAATTAAATTTTTG-CCCCAAAC
1 TTTCCAAAAATTACATTTTTGACCCCAAAC
* *
38891358 TTTACAAAAATTAAATTTTTG-CCCCAAAC
1 TTTCCAAAAATTACATTTTTGACCCCAAAC
** *
38891387 -TTCACAAAAATTACATTTTT--CGCCTGATC
1 TTTC-CAAAAATTACATTTTTGAC-CCCAAAC
* ***
38891416 TTTCCAAAAAAATACATTTTTGACAGTAAAC
1 TTTCC-AAAAATTACATTTTTGACCCCAAAC
*
38891447 -ATCCAAAAATTACCA-TTTT-ACCCTCAAAC
1 TTTCCAAAAATTA-CATTTTTGACCC-CAAAC
* *
38891476 -TTCCAAAAATTGCATTTTTGACCTCAAAC
1 TTTCCAAAAATTACATTTTTGACCCCAAAC
* *
38891505 ATT--AAAAATTACCA-TTTT-ACCCTCGAAC
1 TTTCCAAAAATTA-CATTTTTGACCC-CAAAC
* *
38891533 -TTCTAAAAATTGCATTTTTGACCCCAAAC
1 TTTCCAAAAATTACATTTTTGACCCCAAAC
*
38891562 TTTCCAAAAATTACATTTTTTACCC
1 TTTCCAAAAATTACATTTTTGACCC
38891587 TTGAACTTTC
Statistics
Matches: 251, Mismatches: 41, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
27 5 0.02
28 30 0.12
29 129 0.51
30 76 0.30
31 7 0.03
32 4 0.02
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (30 bp):
TTTCCAAAAATTACATTTTTGACCCCAAAC
Found at i:38891638 original size:30 final size:31
Alignment explanation
Indices: 38891444--38891660 Score: 113
Period size: 29 Copynumber: 7.4 Consensus size: 31
38891434 TTTGACAGTA
*
38891444 AACATCC-AAAAATTACCATTT-TACCCTCA
1 AACATCCAAAAAATTACCATTTATACCCTCG
* * * *
38891473 AACTTCC-AAAAATT-GCATTTTTGA-CCTCA
1 AACATCCAAAAAATTACCATTTAT-ACCCTCG
*
38891502 AACAT--TAAAAATTACCATTT-TACCCTCG
1 AACATCCAAAAAATTACCATTTATACCCTCG
* * * * *
38891530 AAC-TTCTAAAAATT-GCATTTTTGACCC-CA
1 AACATCCAAAAAATTACCATTTAT-ACCCTCG
* * *
38891559 AACTTTCC-AAAAATTA-CATTTTTTACCCTTG
1 AAC-ATCCAAAAAATTACCA-TTTATACCCTCG
* * *
38891590 AACTTTC-AAAAGTTACCATTT-TACCCTCG
1 AACATCCAAAAAATTACCATTTATACCCTCG
* * *
38891619 AGCGTCCAAAAAATTACCATTTATGCCCTCG
1 AACATCCAAAAAATTACCATTTATACCCTCG
38891650 AACATCCAAAA
1 AACATCCAAAA
38891661 TTACAATATT
Statistics
Matches: 151, Mismatches: 20, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
27 2 0.01
28 25 0.17
29 52 0.34
30 44 0.29
31 28 0.19
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (31 bp):
AACATCCAAAAAATTACCATTTATACCCTCG
Found at i:38892138 original size:97 final size:97
Alignment explanation
Indices: 38892019--38892202 Score: 269
Period size: 97 Copynumber: 1.9 Consensus size: 97
38892009 CAAACCTTTA
* * * * *
38892019 AAATCGAGGCAATATTTTTTTATCTCGGGTTTTGAAAATTTATGCCTTTACTTACTAGGCGCGAT
1 AAATCGAGGCAATATTTCTTTATCTCGGGTTTTAAAAATTTATGCCTTAACTTACTAGGCACGAC
38892084 TTTTCTTCAAACCGGGATAATCGAGTATCCTT
66 TTTTCTTCAAACCGGGATAATCGAGTATCCTT
* * * *
38892116 AAATCGAGGCAGTGTTTCTTTATCTCTGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCACGAC
1 AAATCGAGGCAATATTTCTTTATCTCGGGTTTTAAAAATTTATGCCTTAACTTACTAGGCACGAC
* *
38892181 TTTTCTTTAAATCGGGATAATC
66 TTTTCTTCAAACCGGGATAATC
38892203 AAATACCCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (97 bp):
AAATCGAGGCAATATTTCTTTATCTCGGGTTTTAAAAATTTATGCCTTAACTTACTAGGCACGAC
TTTTCTTCAAACCGGGATAATCGAGTATCCTT
Found at i:38895782 original size:21 final size:21
Alignment explanation
Indices: 38895736--38895782 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
38895726 TAGTACAGAT
*
38895736 TTCTACCGATACAAGTGACAG
1 TTCTACCGATACAAGTGACAC
* *
38895757 ATCTACCGATACAAGTGACTC
1 TTCTACCGATACAAGTGACAC
38895778 TTCTA
1 TTCTA
38895783 TCGAAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAC
Found at i:38896497 original size:19 final size:19
Alignment explanation
Indices: 38896475--38896513 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38896465 TCCTTACGAT
38896475 CCAATACTGCTCTTATGAG
1 CCAATACTGCTCTTATGAG
*
38896494 CCAATATTGCTCTTATGAG
1 CCAATACTGCTCTTATGAG
38896513 C
1 C
38896514 TAGTATTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (19 bp):
CCAATACTGCTCTTATGAG
Found at i:38896520 original size:19 final size:19
Alignment explanation
Indices: 38896482--38896542 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
38896472 GATCCAATAC
*
38896482 TGCTCTTATGAGCCAATAT
1 TGCTCTTATGAGCCAGTAT
*
38896501 TGCTCTTATGAGCTAGTAT
1 TGCTCTTATGAGCCAGTAT
* *
38896520 TACTCTTACGAGCCAGTAT
1 TGCTCTTATGAGCCAGTAT
38896539 TGCT
1 TGCT
38896543 ATTCTCTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (19 bp):
TGCTCTTATGAGCCAGTAT
Found at i:38904096 original size:29 final size:29
Alignment explanation
Indices: 38904063--38904139 Score: 96
Period size: 22 Copynumber: 2.9 Consensus size: 29
38904053 GCAAACTATG
38904063 GAATAATTTATTCAATTTAAAATCAATAA
1 GAATAATTTATTCAATTTAAAATCAATAA
*
38904092 GAATAATTTATTC-------AATCAATCA
1 GAATAATTTATTCAATTTAAAATCAATAA
38904114 GAATAATTTATTCAATTTAAAATCAA
1 GAATAATTTATTCAATTTAAAATCAA
38904140 ACAAATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
22 21 0.52
29 19 0.47
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (29 bp):
GAATAATTTATTCAATTTAAAATCAATAA
Found at i:38904735 original size:68 final size:71
Alignment explanation
Indices: 38904663--38904795 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 71
38904653 ATCCTCTCAT
* * *
38904663 AAAAATTAAGGTGAGTTTATCAAGTCCTT-TGA-AAGAACCACCCATACAA-TTTGGGATATGAA
1 AAAAATT-AGGTGAATTCATCAAGTCCTTCTCATAAGAACCACCCATACAATTTTGGGATATGAA
38904725 CCTTAAA
65 CCTTAAA
* * *
38904732 AAAAATTCGGTGAATTCATCAAGTCCTTCTCATTAGGACCACCCATACAATTTTGGGATATGAA
1 AAAAATTAGGTGAATTCATCAAGTCCTTCTCATAAGAACCACCCATACAATTTTGGGATATGAA
38904796 TTCATTAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 18 0.33
69 9 0.16
70 15 0.27
71 13 0.24
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (71 bp):
AAAAATTAGGTGAATTCATCAAGTCCTTCTCATAAGAACCACCCATACAATTTTGGGATATGAAC
CTTAAA
Found at i:38908598 original size:13 final size:13
Alignment explanation
Indices: 38908580--38908618 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
38908570 AAATAGAGAG
38908580 GAGAGAAAAGCTA
1 GAGAGAAAAGCTA
38908593 GAGAGAAAAGCTA
1 GAGAGAAAAGCTA
38908606 GAGAGAAAAGCTA
1 GAGAGAAAAGCTA
38908619 AATGTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (13 bp):
GAGAGAAAAGCTA
Found at i:38912410 original size:23 final size:23
Alignment explanation
Indices: 38912238--38912398 Score: 166
Period size: 23 Copynumber: 6.9 Consensus size: 23
38912228 CGAAGTACTT
38912238 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
* *
38912264 AACAGTAAGTACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
** * * *
38912286 ATTAGTAGGCACACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
38912308 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
38912332 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
38912355 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
38912378 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
38912399 TGAACGGTAA
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
22 18 0.16
23 77 0.66
24 3 0.03
26 13 0.11
27 5 0.04
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:38918316 original size:23 final size:23
Alignment explanation
Indices: 38918168--38918304 Score: 170
Period size: 23 Copynumber: 6.0 Consensus size: 23
38918158 AAGTACTGGG
*
38918168 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACAAAGTGC
* * * * *
38918191 -AATCAGTAGGCGCACATAGCGC
1 GAAACAGTAAGCACACAAAGTGC
* *
38918213 -AAATCAGTAGGCACACGAAGTGC
1 GAAA-CAGTAAGCACACAAAGTGC
38918236 GAAACAGTAAGCACACAAAGTGC
1 GAAACAGTAAGCACACAAAGTGC
38918259 GAAACAGTAAGCACACAAAGTGC
1 GAAACAGTAAGCACACAAAGTGC
*
38918282 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACAAAGTGC
38918305 TGAACGGTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
22 19 0.19
23 77 0.78
24 3 0.03
ACGTcount: A:0.42, C:0.24, G:0.23, T:0.10
Consensus pattern (23 bp):
GAAACAGTAAGCACACAAAGTGC
Found at i:38924148 original size:23 final size:23
Alignment explanation
Indices: 38924073--38924209 Score: 143
Period size: 23 Copynumber: 6.0 Consensus size: 23
38924063 AAGTGCTGGG
*
38924073 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACAAAGTGC
* * * * *
38924096 -AATCAGTAGGCGCACATAGCGC
1 GAAACAGTAAGCACACAAAGTGC
* **
38924118 -AAATCAGTAGGCACATGAAGTGC
1 GAAA-CAGTAAGCACACAAAGTGC
* *
38924141 GAAACAGTAGGCACACAAAGTGT
1 GAAACAGTAAGCACACAAAGTGC
38924164 GAAACAGTAAGCACACAAAGTGC
1 GAAACAGTAAGCACACAAAGTGC
*
38924187 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACAAAGTGC
38924210 TGAACGGTAA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
22 19 0.20
23 73 0.77
24 3 0.03
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.12
Consensus pattern (23 bp):
GAAACAGTAAGCACACAAAGTGC
Found at i:38924172 original size:46 final size:47
Alignment explanation
Indices: 38924052--38924221 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 47
38924042 AGTACTTAAT
* *
38924052 AGTAAGCACAC-AAGTGCTGGGGAAACAGTAAGCACACACAGTGC-AATC
1 AGTAAGCACACAAAGTGCT---GAAACAGTAAGCACACAAAGTGCGAAAC
* * * * * **
38924100 AGTAGGCGCACATAGCGC--AAATCAGTAGGCACATGAAGTGCGAAAC
1 AGTAAGCACACAAAGTGCTGAAA-CAGTAAGCACACAAAGTGCGAAAC
*
38924146 AGTAGGCACACAAAGTG-TGAAACAGTAAGCACACAAAGTGCGAAAC
1 AGTAAGCACACAAAGTGCTGAAACAGTAAGCACACAAAGTGCGAAAC
* *
38924192 AGTAAGCACACACAGTGCTG-AACGGTAAGC
1 AGTAAGCACACAAAGTGCTGAAACAGTAAGC
38924222 GCGCTAGCGT
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
44 3 0.03
45 15 0.15
46 62 0.63
47 5 0.05
48 9 0.09
49 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (47 bp):
AGTAAGCACACAAAGTGCTGAAACAGTAAGCACACAAAGTGCGAAAC
Found at i:38924219 original size:23 final size:24
Alignment explanation
Indices: 38924052--38924221 Score: 133
Period size: 23 Copynumber: 7.3 Consensus size: 24
38924042 AGTACTTAAT
38924052 AGTAAGCACAC-AAGTGCTGGGGAAAC
1 AGTAAGCACACAAAGTGCT---GAAAC
* *
38924078 AGTAAGCACACACAGTGC--AATC
1 AGTAAGCACACAAAGTGCTGAAAC
* * * *
38924100 AGTAGGCGCACATAGCGC--AAATC
1 AGTAAGCACACAAAGTGCTGAAA-C
* **
38924123 AGTAGGCACATGAAGTGC-GAAAC
1 AGTAAGCACACAAAGTGCTGAAAC
*
38924146 AGTAGGCACACAAAGTG-TGAAAC
1 AGTAAGCACACAAAGTGCTGAAAC
38924169 AGTAAGCACACAAAGTGC-GAAAC
1 AGTAAGCACACAAAGTGCTGAAAC
*
38924192 AGTAAGCACACACAGTGCTG-AAC
1 AGTAAGCACACAAAGTGCTGAAAC
*
38924215 GGTAAGC
1 AGTAAGC
38924222 GCGCTAGCGT
Statistics
Matches: 121, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
22 19 0.16
23 82 0.68
24 4 0.03
26 11 0.09
27 5 0.04
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (24 bp):
AGTAAGCACACAAAGTGCTGAAAC
Found at i:38926939 original size:12 final size:12
Alignment explanation
Indices: 38926922--38926946 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38926912 TTAGGAGTTC
38926922 TTCCAAAAGAAA
1 TTCCAAAAGAAA
38926934 TTCCAAAAGAAA
1 TTCCAAAAGAAA
38926946 T
1 T
38926947 ATGTAAGGGA
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:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TTCCAAAAGAAA
Found at i:38927868 original size:29 final size:29
Alignment explanation
Indices: 38927834--38927923 Score: 162
Period size: 29 Copynumber: 3.1 Consensus size: 29
38927824 ATTGCCATAA
38927834 GAAAAAGTTTGTGATTCAGAGTGTTTATG
1 GAAAAAGTTTGTGATTCAGAGTGTTTATG
*
38927863 GAAAAAGTTTATGATTCAGAGTGTTTATG
1 GAAAAAGTTTGTGATTCAGAGTGTTTATG
*
38927892 GAAAAAGTTGGTGATTCAGAGTGTTTATG
1 GAAAAAGTTTGTGATTCAGAGTGTTTATG
38927921 GAA
1 GAA
38927924 GTTTAATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (29 bp):
GAAAAAGTTTGTGATTCAGAGTGTTTATG
Found at i:38932412 original size:15 final size:15
Alignment explanation
Indices: 38932392--38932430 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
38932382 GTAATAAATT
*
38932392 ATAATAATATTAATG
1 ATAATAATAATAATG
38932407 ATAATAATAATAATG
1 ATAATAATAATAATG
*
38932422 -TGATAATAA
1 ATAATAATAA
38932431 GATGATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (15 bp):
ATAATAATAATAATG
Found at i:38933971 original size:109 final size:110
Alignment explanation
Indices: 38933810--38934054 Score: 271
Period size: 110 Copynumber: 2.2 Consensus size: 110
38933800 CGCAATCCTT
** * *
38933810 GTCAGTTAATCTAACTAGTGCTGGGCACACAAATTATCGGTTTAACCTACTAGCACGGGGCGCAA
1 GTCAGTTAATCTAACTAGTGCTGGGCACACAAATTATCAATTTAACCGACTAGCACGAGGCGCAA
* *
38933875 CA-TCGTTGGTTTATCCAACTAGAGTTGGGCTCACCTTTTATATC
66 CATTCGTTGGTATATCCAACTAGAGCTGGGCTCACCTTTTATATC
* * * * * * * *
38933919 GTCAG-TATATCTGACTAGTGTTGGGCACACCATTTGTCAATTTAACCGACTAGCGCTAGGCGTA
1 GTCAGTTA-ATCTAACTAGTGCTGGGCACACAAATTATCAATTTAACCGACTAGCACGAGGCGCA
* * *
38933983 ATATTTGTTGGTATATCCAACTAGAGCTGGGCTCACCTTTTATATT
65 ACATTCGTTGGTATATCCAACTAGAGCTGGGCTCACCTTTTATATC
* * *
38934029 ATCAGTTTAA-CCAGCTAGTGCTGGGC
1 GTCAG-TTAATCTAACTAGTGCTGGGC
38934055 GCAAACTCTT
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
108 2 0.02
109 51 0.46
110 54 0.49
111 1 0.01
112 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (110 bp):
GTCAGTTAATCTAACTAGTGCTGGGCACACAAATTATCAATTTAACCGACTAGCACGAGGCGCAA
CATTCGTTGGTATATCCAACTAGAGCTGGGCTCACCTTTTATATC
Found at i:38936368 original size:29 final size:29
Alignment explanation
Indices: 38936334--38936400 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
38936324 ACAGAATTTG
*
38936334 AAATAATTTATTCAATTTAAAATCAATCT
1 AAATAATTTATTCAATTTAAAATCAATCA
* **
38936363 GAATAAACTATTCAATTTAAAATCAATCA
1 AAATAATTTATTCAATTTAAAATCAATCA
38936392 AAATAATTT
1 AAATAATTT
38936401 TAGAGATTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.37
Consensus pattern (29 bp):
AAATAATTTATTCAATTTAAAATCAATCA
Found at i:38936647 original size:17 final size:16
Alignment explanation
Indices: 38936614--38936652 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
38936604 TGTTTAAATT
38936614 TATTATATTATATATTA
1 TATT-TATTATATATTA
*
38936631 TATTTATTCTATCATTA
1 TATTTATTATAT-ATTA
38936648 TATTT
1 TATTT
38936653 TGTTGATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATTATATATTA
Found at i:38945144 original size:28 final size:29
Alignment explanation
Indices: 38945112--38945170 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
38945102 AAATATATGT
* *
38945112 ATCTAAAA-AATTTAGAAAAATAAAAAAA
1 ATCTAAAATAAGTTAAAAAAATAAAAAAA
38945140 ATCTAAAATTCAAGTTAAAAAAATAAAAAAA
1 ATCTAAAA-T-AAGTTAAAAAAATAAAAAAA
38945171 CCCAGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
31 18 0.69
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (29 bp):
ATCTAAAATAAGTTAAAAAAATAAAAAAA
Found at i:38956779 original size:7 final size:7
Alignment explanation
Indices: 38956767--38956792 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38956757 TCATCCCATT
38956767 TTCTTTC
1 TTCTTTC
38956774 TTCTTTC
1 TTCTTTC
38956781 TTCTTTC
1 TTCTTTC
38956788 TTCTT
1 TTCTT
38956793 CCTATGGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTTTC
Found at i:38973377 original size:20 final size:20
Alignment explanation
Indices: 38973348--38973385 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38973338 AGATGTTGAA
38973348 TGGTTCATATAATTTATAAG
1 TGGTTCATATAATTTATAAG
* *
38973368 TGGTTGATATATTTTATA
1 TGGTTCATATAATTTATA
38973386 GAGAAGAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.50
Consensus pattern (20 bp):
TGGTTCATATAATTTATAAG
Found at i:38995771 original size:43 final size:43
Alignment explanation
Indices: 38995703--38996134 Score: 411
Period size: 43 Copynumber: 10.1 Consensus size: 43
38995693 TTATGTGAGA
* * *
38995703 AAACACCACTATAGAACATGATCTTTAGTGGCACTTTTCCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * * **
38995746 AAACACCGCTACAGAGCATGGTCTTTAGCGATGCTTTTCCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * * *
38995789 AAACGCCGCTATAGAGCATGGTTTTTAATGGCGCTTTTCCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * * * *
38995832 AAACACCACTATAGAACATAGTCTTTAGCGGCGTTTTTTCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
** ** * ** *
38995875 AAATGCCGCTATAGAACATGGTCTTTACAGGTGCTTTAGCCAT
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * ** *
38995918 AAA-AGCCGCTATAGAACATGGTCATTAGCGGCATTTTTTCCAC
1 AAACA-CCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * * *
38995961 AAACGCCGCTATAGAATATGGTCTTTAGTGGCAC-TTTCCCGC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * * ** *
38996003 AAATACTGCTATAGAACATGATCTTTAACGGTGCTTTTCCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * *
38996046 AAACGCCGCTATAGAACAT-GTCTTTAGTGGTGTTTTTCCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
* * **
38996088 AAACGCCGCTATAGAACATGGTTTTTAGTGGCATTTTTCCCAC
1 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
38996131 AAAC
1 AAAC
38996135 GCCACTAACA
Statistics
Matches: 313, Mismatches: 72, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
42 69 0.22
43 244 0.78
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
Found at i:38995859 original size:86 final size:84
Alignment explanation
Indices: 38995711--38996137 Score: 455
Period size: 86 Copynumber: 5.0 Consensus size: 84
38995701 GAAAACACCA
* * * *
38995711 CTATAGAACATGATCTTTAGTGGCACTTTTCCCACAAACACCGCTACAGAGCATGGTCTTTAGCG
1 CTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACACCGCTATAGAACATGGTCTTTAGCG
38995776 ATGCTTTTCCCACAAACGCCG
66 --GCTTTTCCCACAAACGCCG
* * * * *
38995797 CTATAGAGCATGGTTTTTAATGGCGCTTTTCCCACAAACACCACTATAGAACATAGTCTTTAGCG
1 CTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACACCGCTATAGAACATGGTCTTTAGCG
* *
38995862 GCGTTTTTTCCACAAATGCCG
66 GC--TTTTCCCACAAACGCCG
** * ** * *
38995883 CTATAGAACATGGTCTTTACAGGTGCTTTAGCCATAAA-AGCCGCTATAGAACATGGTCATTAGC
1 CTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACA-CCGCTATAGAACATGGTCTTTAGC
*
38995947 GGCATTTTTTCCACAAACGCCG
65 GGC--TTTTCCCACAAACGCCG
* * * * * * *
38995969 CTATAGAATATGGTCTTTAGTGGCAC-TTTCCCGCAAATACTGCTATAGAACATGATCTTTAACG
1 CTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACACCGCTATAGAACATGGTCTTTAGC-
38996033 GTGCTTTTCCCACAAACGCCG
65 G-GCTTTTCCCACAAACGCCG
* * * * *
38996054 CTATAGAACAT-GTCTTTAGTGGTGTTTTTCCCACAAACGCCGCTATAGAACATGGTTTTTAGTG
1 CTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACACCGCTATAGAACATGGTCTTTAGCG
38996118 GCATTTTTCCCACAAACGCC
66 GC--TTTTCCCACAAACGCC
38996138 ACTAACATTA
Statistics
Matches: 282, Mismatches: 50, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
83 2 0.01
84 14 0.05
85 99 0.35
86 165 0.59
87 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (84 bp):
CTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACACCGCTATAGAACATGGTCTTTAGCG
GCTTTTCCCACAAACGCCG
Found at i:38995938 original size:129 final size:129
Alignment explanation
Indices: 38995703--38996133 Score: 510
Period size: 129 Copynumber: 3.4 Consensus size: 129
38995693 TTATGTGAGA
* * * * *
38995703 AAACACCACTATAGAACATGATCTTTAGTGGCACTTTTCCCACAAACACCGCTACAGAGCATGGT
1 AAACACCACTATAGAACATGGTCTTTAGTGGCATTTTTCCCACAAATACCGCTATAGAACATGGT
* * * * *
38995768 CTTTAGC-GATGCTTTTCCCACAAACGCCGCTATAGAGCATGGTTTTTAATGGCGCTTTTCCCAC
66 CTTTA-CAGGTGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTAGTGGCGTTTTTCCCAC
* * * * *
38995832 AAACACCACTATAGAACATAGTCTTTAGCGGCGTTTTTTCCACAAATGCCGCTATAGAACATGGT
1 AAACACCACTATAGAACATGGTCTTTAGTGGCATTTTTCCCACAAATACCGCTATAGAACATGGT
** * * * * * *
38995897 CTTTACAGGTGCTTTAGCCATAAAAGCCGCTATAGAACATGGTCATTAGCGGCATTTTTTCCAC
66 CTTTACAGGTGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTAGTGGCGTTTTTCCCAC
* * * * * * *
38995961 AAACGCCGCTATAGAATATGGTCTTTAGTGGCA-CTTTCCCGCAAATACTGCTATAGAACATGAT
1 AAACACCACTATAGAACATGGTCTTTAGTGGCATTTTTCCCACAAATACCGCTATAGAACATGGT
*
38996025 CTTTA-ACGGTGCTTTTCCCACAAACGCCGCTATAGAACAT-GTCTTTAGTGGTGTTTTTCCCAC
66 CTTTACA-GGTGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTAGTGGCGTTTTTCCCAC
* * *
38996088 AAACGCCGCTATAGAACATGGTTTTTAGTGGCATTTTTCCCACAAA
1 AAACACCACTATAGAACATGGTCTTTAGTGGCATTTTTCCCACAAA
38996134 CGCCACTAAC
Statistics
Matches: 251, Mismatches: 48, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
127 50 0.20
128 70 0.28
129 131 0.52
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (129 bp):
AAACACCACTATAGAACATGGTCTTTAGTGGCATTTTTCCCACAAATACCGCTATAGAACATGGT
CTTTACAGGTGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTAGTGGCGTTTTTCCCAC
Found at i:38996543 original size:66 final size:66
Alignment explanation
Indices: 38996410--38996536 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
38996400 ATTTTGAACC
* * * * ***
38996410 TGTAGCTGCAGTTCGTCATACTTTCTTTGAGACTTTGCTTCCCTCACTGCTGCCTTGGCTTCTAG
1 TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCACTGCTGCCTCCACTTCTAG
38996475 T
66 T
* * * *
38996476 TGTAGCTGAAGTTCATCATATTTTCTTTGAGCCTCTACTTCTCTCGCTGCTGCCTCCACTT
1 TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCACTGCTGCCTCCACTT
38996537 TAAGTTGAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.41
Consensus pattern (66 bp):
TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCACTGCTGCCTCCACTTCTAG
T
Found at i:38998110 original size:78 final size:78
Alignment explanation
Indices: 38997981--38998139 Score: 282
Period size: 78 Copynumber: 2.0 Consensus size: 78
38997971 GAAGATCCAA
38997981 TAGTAGTCTATTAATCACTATTTGTTTCTTCCAAATTTGGAGGATTTTGAATAATACTTAGATCT
1 TAGTAGTCTATTAATCACTATTTGTTTCTTCCAAATTTGGAGGATTTTGAATAATACTTAGATCT
38998046 CGGAATTTTCTTC
66 CGGAATTTTCTTC
* ** *
38998059 TAGTAGTCTGTTGGTCACTATTTGTTTCTTCCGAATTTGGAGGATTTTGAATAATACTTAGATCT
1 TAGTAGTCTATTAATCACTATTTGTTTCTTCCAAATTTGGAGGATTTTGAATAATACTTAGATCT
38998124 CGGAATTTTCTTC
66 CGGAATTTTCTTC
38998137 TAG
1 TAG
38998140 GCATATTATA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.45
Consensus pattern (78 bp):
TAGTAGTCTATTAATCACTATTTGTTTCTTCCAAATTTGGAGGATTTTGAATAATACTTAGATCT
CGGAATTTTCTTC
Found at i:38998425 original size:30 final size:30
Alignment explanation
Indices: 38998389--38998449 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
38998379 TATTTTATTT
*
38998389 TATTTAAA-ATATATTTTTATTAGGATTTAA
1 TATTTAAAGATAT-TATTTATTAGGATTTAA
* *
38998419 TATTTAAAGATATTATTTATTTGTATTTAA
1 TATTTAAAGATATTATTTATTAGGATTTAA
38998449 T
1 T
38998450 TTAGGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (30 bp):
TATTTAAAGATATTATTTATTAGGATTTAA
Found at i:38999260 original size:15 final size:16
Alignment explanation
Indices: 38999240--38999269 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38999230 CTTCCCTATT
38999240 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
38999255 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
38999270 TTTTTCCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:39000099 original size:30 final size:30
Alignment explanation
Indices: 39000063--39000124 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
39000053 TACAAAAATT
39000063 TTAAGTAGATGCATAGAATTTAATCTTGTC
1 TTAAGTAGATGCATAGAATTTAATCTTGTC
39000093 TTAAGTAGATGCATAGAATTTAATCTTGTC
1 TTAAGTAGATGCATAGAATTTAATCTTGTC
39000123 TT
1 TT
39000125 GAATTATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (30 bp):
TTAAGTAGATGCATAGAATTTAATCTTGTC
Found at i:39002259 original size:6 final size:6
Alignment explanation
Indices: 39002250--39002286 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
39002240 ATAATTATAA
*
39002250 TTATTT TTATTT TTATTT TTATTT TTCTATT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT
39002287 ATTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:39002275 original size:13 final size:13
Alignment explanation
Indices: 39002250--39002295 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
39002240 ATAATTATAA
39002250 TTATTTTTA-TTT
1 TTATTTTTATTTT
39002262 TTATTTTTATTTT
1 TTATTTTTATTTT
39002275 TCTA-TTTTATTTAT
1 T-TATTTTTATTT-T
39002289 TTATTTT
1 TTATTTT
39002296 ACTATATGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.30
13 14 0.47
14 7 0.23
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:39005648 original size:15 final size:16
Alignment explanation
Indices: 39005628--39005657 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39005618 CTTCCTTATT
39005628 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
39005643 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
39005658 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:39005650 original size:22 final size:22
Alignment explanation
Indices: 39005624--39005683 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
39005614 TCAACTTCCT
39005624 TATTTTCTATTT-CTTTTAATTC
1 TATTTTCT-TTTACTTTTAATTC
*
39005646 TATTTTCTTTTATTTTTAATTC
1 TATTTTCTTTTACTTTTAATTC
* *
39005668 T-GTTTCTTTTATTTTT
1 TATTTTCTTTTACTTTT
39005684 CCTCAGATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTC
Found at i:39005673 original size:21 final size:22
Alignment explanation
Indices: 39005637--39005683 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
39005627 TTTCTATTTC
*
39005637 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
39005659 TTTTAATTCT-GTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
39005680 TTTT
1 TTTT
39005684 CCTCAGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:39009136 original size:24 final size:24
Alignment explanation
Indices: 39009104--39009304 Score: 303
Period size: 24 Copynumber: 8.4 Consensus size: 24
39009094 TTAAACTTTG
*
39009104 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
*
39009128 TCTGGGCTCATAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
39009152 TCTGGGCTCGTAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
* * * *
39009176 TCTAGGCTCATAAGAGTTAATCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
*
39009200 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
39009224 TCTGGGCTCGTAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
* *
39009248 TTTGGGCTCATAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
*
39009272 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
*
39009296 TCTAGGCTC
1 TCTGGGCTC
39009305 ATGTGGGCTA
Statistics
Matches: 160, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 160 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGCTAACCAT
Found at i:39026600 original size:3 final size:3
Alignment explanation
Indices: 39026592--39026624 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
39026582 AGGAAAAATT
39026592 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
39026625 ATTACAGCTA
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:39027317 original size:40 final size:41
Alignment explanation
Indices: 39027273--39027349 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
39027263 CATAAACGCC
* *
39027273 GCTATTGCTTTACCTTTTACGACGTTTATG-AAAAATCGCT
1 GCTATTCCTTTACCTTTTACGACATTTATGTAAAAATCGCT
* *
39027313 GCTATTCCTTTACCTTTTGCGGCATTTATGTAAAAAT
1 GCTATTCCTTTACCTTTTACGACATTTATGTAAAAAT
39027350 GTCGCTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (41 bp):
GCTATTCCTTTACCTTTTACGACATTTATGTAAAAATCGCT
Found at i:39027357 original size:40 final size:39
Alignment explanation
Indices: 39027272--39027364 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 39
39027262 TCATAAACGC
* *
39027272 CGCTATTGCTTTACCTTTTACGACGTTTATGAAAAATCG
1 CGCTATTCCTTTACCTTTTACGACATTTATGAAAAATCG
* *
39027311 CTGCTATTCCTTTACCTTTTGCGGCATTTATGTAAAAAT-G
1 C-GCTATTCCTTTACCTTTTACGACATTTATG-AAAAATCG
*
39027351 TCGCTATTTCTTTA
1 -CGCTATTCCTTTA
39027365 TTTCATTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.02
40 38 0.83
41 7 0.15
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (39 bp):
CGCTATTCCTTTACCTTTTACGACATTTATGAAAAATCG
Found at i:39028670 original size:40 final size:41
Alignment explanation
Indices: 39028592--39028809 Score: 269
Period size: 41 Copynumber: 5.3 Consensus size: 41
39028582 CACTAATGCT
* *
39028592 CTTTACCTTTTGCGTCGTTTTTTCCATAAACGCCGCTATTG
1 CTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTG
*
39028633 CATTACCTTTTGCGGCG-TTTTCCCATAAACGCCGCTATTG
1 CTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTG
* * *
39028673 CTCTTTACCTTTTGCGGCATTTTTCCCATAAACGTCGTTATTG
1 --CTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTG
* * * *
39028716 ATTTACTTTTTGCGGCGTTTTTCCCATAAACGTCGTTATTG
1 CTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTG
* *** *
39028757 CTTTACCTTTTGTGGCGTTTTTGGGA-AAACGCCACTATTG
1 CTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTG
39028797 CTTTACCTTTTGC
1 CTTTACCTTTTGC
39028810 TGCATTTATG
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 45 0.29
41 73 0.47
42 15 0.10
43 21 0.14
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.43
Consensus pattern (41 bp):
CTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTG
Found at i:39028696 original size:83 final size:84
Alignment explanation
Indices: 39028588--39028809 Score: 274
Period size: 83 Copynumber: 2.7 Consensus size: 84
39028578 ATGCCACTAA
* *
39028588 TGCTCTTTACCTTTTGCGTCGTTTTTTCCATAAACGCCGCTATTGCATTACCTTTTGCGGCG-TT
1 TGCTCTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTGCATTACCTTTTGCGGCGTTT
39028652 TTCCCATAAACGCCGCTAT
66 TTCCCATAAACGCCGCTAT
* * * *
39028671 TGCTCTTTACCTTTTGCGGCATTTTTCCCATAAACGTCGTTATTG-ATTTACTTTTTGCGGCGTT
1 TGCTCTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTGCA-TTACCTTTTGCGGCGTT
* *
39028735 TTTCCCATAAACGTCGTTAT
65 TTTCCCATAAACGCCGCTAT
* *** * *
39028755 TG--CTTTACCTTTTGTGGCGTTTTTGGGA-AAACGCCACTATTGCTTTACCTTTTGC
1 TGCTCTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTGCATTACCTTTTGC
39028810 TGCATTTATG
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
81 21 0.18
82 22 0.19
83 54 0.46
84 21 0.18
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.43
Consensus pattern (84 bp):
TGCTCTTTACCTTTTGCGGCGTTTTTCCCATAAACGCCGCTATTGCATTACCTTTTGCGGCGTTT
TTCCCATAAACGCCGCTAT
Found at i:39028834 original size:39 final size:40
Alignment explanation
Indices: 39028752--39028846 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 40
39028742 TAAACGTCGT
* *
39028752 TATTGCTTTACCTTTTGTGGCGTTTTTGGGAAAACGCCAC
1 TATTGCTTTACCTTTTGTGGCATTTATGGGAAAACGCCAC
* *
39028792 TATTGCTTTACCTTTTGCT-GCATTTAT-GGAAAATGCCTC
1 TATTGCTTTACCTTTTG-TGGCATTTATGGGAAAACGCCAC
*
39028831 TATTACTTTACCTTTT
1 TATTGCTTTACCTTTT
39028847 ACGGTGTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 25 0.51
40 23 0.47
41 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (40 bp):
TATTGCTTTACCTTTTGTGGCATTTATGGGAAAACGCCAC
Found at i:39031207 original size:29 final size:29
Alignment explanation
Indices: 39031174--39031240 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
39031164 CAAAAATGCG
* * *
39031174 ATTTTTGGATG-CCCGGGAGTAAAATGGTA
1 ATTTTTGGAGGTCCAGGG-GTAAAACGGTA
*
39031203 ATTTTTGGAGGTTCAGGGGTAAAACGGTA
1 ATTTTTGGAGGTCCAGGGGTAAAACGGTA
39031232 ATTTTTGGA
1 ATTTTTGGA
39031241 CACTCGACGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.27, C:0.07, G:0.31, T:0.34
Consensus pattern (29 bp):
ATTTTTGGAGGTCCAGGGGTAAAACGGTA
Found at i:39031313 original size:28 final size:29
Alignment explanation
Indices: 39031192--39031639 Score: 286
Period size: 29 Copynumber: 15.4 Consensus size: 29
39031182 ATGCCCGGGA
**
39031192 GTAAAATGGTAATTTTTGGAGGTTC-AGGG
1 GTAAAATGGTAATTTTTGGAAATTCGA-GG
* * * *
39031221 GTAAAACGGTAATTTTTGGACACTCGA-C
1 GTAAAATGGTAATTTTTGGAAATTCGAGG
* ** * *
39031249 GCAAAATGGTAATTTTTGGGCACT-AAGG
1 GTAAAATGGTAATTTTTGGAAATTCGAGG
*
39031277 GACAAAAAT-GTAATTTTTGGAAATTCGAGG
1 G--TAAAATGGTAATTTTTGGAAATTCGAGG
*
39031307 GTAAAATGGTAA-TTTTGGAAAGTTTG-GG
1 GTAAAATGGTAATTTTTGGAAA-TTCGAGG
* * * *
39031335 GTCAAAAAT-ATAATTCTTGGACATTTGAGG
1 GT--AAAATGGTAATTTTTGGAAATTCGAGG
*
39031365 GTAAAATGGTAATTTTTGGAAAGTTAG-GG
1 GTAAAATGGTAATTTTTGGAAA-TTCGAGG
* *
39031394 GTTAAAAT-GAAATTTTTGGACATTCG-GG
1 G-TAAAATGGTAATTTTTGGAAATTCGAGG
* *
39031422 GT-AAATGGTAATTTTTAGAAAGTT-TAGG
1 GTAAAATGGTAATTTTTGGAAA-TTCGAGG
* *
39031450 GTTAAAATGG-AATTTTTGGGAATT-TAGGG
1 G-TAAAATGGTAATTTTTGGAAATTCGA-GG
*
39031479 GTAAAATGGTAATTTTTGGAAAGTT-TAGG
1 GTAAAATGGTAATTTTTGGAAA-TTCGAGG
*
39031508 GTCAAAAATGGTAATTTTT-GAAAGGTTTGAGG
1 GT--AAAATGGTAATTTTTGGAAA--TTCGAGG
* * *
39031540 TTAAAATGAT-ATTTTTGGAAGTTCGAGG
1 GTAAAATGGTAATTTTTGGAAATTCGAGG
**
39031568 GTAAAATGGTAATTTTT-GAAATTTTAGG
1 GTAAAATGGTAATTTTTGGAAATTCGAGG
* * *
39031596 GTCAAAATTGTGATTTTTTGGAAGTTC-AGGG
1 GT-AAAATGGT-AATTTTTGGAAATTCGA-GG
39031627 GTAAAATGGTAAT
1 GTAAAATGGTAAT
39031640 CTTGTAAAGT
Statistics
Matches: 337, Mismatches: 50, Indels: 64
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.01
27 13 0.04
28 92 0.27
29 124 0.37
30 73 0.22
31 27 0.08
32 4 0.01
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (29 bp):
GTAAAATGGTAATTTTTGGAAATTCGAGG
Found at i:39031341 original size:58 final size:58
Alignment explanation
Indices: 39031192--39031632 Score: 339
Period size: 58 Copynumber: 7.6 Consensus size: 58
39031182 ATGCCCGGGA
* * ** * * *
39031192 GTAAAATGGTAATTTTTGG-AGGTTCAGGGGTAAAACGGTAATTTTTGGACACTCGA-C
1 GTAAAATGGTAATTTTTGGAAAGTT-TGGGGTAAAAATGTAATTTTTGGAAATTCGAGG
* ** * ** **
39031249 GCAAAATGGTAATTTTTGGGCACTAAGGGACAAAAATGTAATTTTTGGAAATTCGAGG
1 GTAAAATGGTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAATTCGAGG
* * * *
39031307 GTAAAATGGTAA-TTTTGGAAAGTTTGGGGTCAAAAATATAATTCTTGGACATTTGAGG
1 GTAAAATGGTAATTTTTGGAAAGTTTGGGGT-AAAAATGTAATTTTTGGAAATTCGAGG
* * * *
39031365 GTAAAATGGTAATTTTTGGAAAGTTAGGGGTTAAAATGAAATTTTTGGACATTCG-GG
1 GTAAAATGGTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAATTCGAGG
* * * * * *
39031422 GT-AAATGGTAATTTTTAGAAAGTTTAGGGTTAAAATGGAATTTTTGGGAATT-TAGGG
1 GTAAAATGGTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAATTCGA-GG
* *
39031479 GTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGGTAATTTTT-GAAAGGTTTGAGG
1 GTAAAATGGTAATTTTTGGAAAGTTTGGGGT-AAAAAT-GTAATTTTTGGAAA--TTCGAGG
* * * **
39031540 TTAAAATGAT-ATTTTTGG-AAGTTCGAGGGT-AAAATGGTAATTTTT-GAAATTTTAGG
1 GTAAAATGGTAATTTTTGGAAAGTTTG-GGGTAAAAAT-GTAATTTTTGGAAATTCGAGG
* * *
39031596 GTCAAAATTGTGATTTTTTGG-AAGTTCAGGGGTAAAA
1 GT-AAAATGGT-AATTTTTGGAAAGTT-TGGGGTAAAA
39031633 TGGTAATCTT
Statistics
Matches: 314, Mismatches: 52, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
56 51 0.16
57 68 0.22
58 112 0.36
59 46 0.15
60 24 0.08
61 12 0.04
62 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.35
Consensus pattern (58 bp):
GTAAAATGGTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAATTCGAGG
Found at i:39031636 original size:59 final size:58
Alignment explanation
Indices: 39031432--39031670 Score: 192
Period size: 59 Copynumber: 4.1 Consensus size: 58
39031422 GTAAATGGTA
* * * * *
39031432 ATTTTTAGAAAGTTTAGGGTTAAAATGG-AATTTTTGGGAA-TTTAGGGGT-AAAATG-G
1 ATTTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTT-GAAAGTTTA-GGGTCAAAATGTG
* * *
39031488 TAATTTTTGGAAAGTTTA-GGGTCAAAAATGGTAATTTTTGAAAGGTTT-GAGGTTAAAA--TG
1 -ATTTTTTGG-AAGTTCAGGGGT--AAAATGGTAATTTTTGAAA-GTTTAG-GGTCAAAATGTG
*
39031548 ATATTTTTGGAAGTTC-GAGGGTAAAATGGTAATTTTTGAAATTTTAGGGTCAAAATTGTG
1 AT-TTTTTGGAAGTTCAG-GGGTAAAATGGTAATTTTTGAAAGTTTAGGGTCAAAA-TGTG
* * *
39031608 ATTTTTTGGAAGTTCAGGGGTAAAATGGTAA-TCTTGTAAAGTTTAAGGTCAAAATATG
1 ATTTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTG-AAAGTTTAGGGTCAAAATGTG
39031666 ATTTT
1 ATTTT
39031671 GGAAAAGTTT
Statistics
Matches: 151, Mismatches: 13, Indels: 35
0.76 0.07 0.18
Matches are distributed among these distances:
57 19 0.13
58 39 0.26
59 59 0.39
60 27 0.18
61 7 0.05
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (58 bp):
ATTTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGAAAGTTTAGGGTCAAAATGTG
Found at i:39033563 original size:17 final size:17
Alignment explanation
Indices: 39033541--39033608 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
39033531 GTGGGACTTT
*
39033541 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
* * *
39033558 TAAATTCAAACTCAAAA
1 TAAATTTAAATTTAAAA
* *
39033575 TGAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
39033592 TAAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
39033609 ATTAAAATTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:39034375 original size:160 final size:160
Alignment explanation
Indices: 39034122--39034421 Score: 476
Period size: 160 Copynumber: 1.9 Consensus size: 160
39034112 TTTTAATCCG
* *
39034122 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCGGGAAGCTGAC
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGAATCTCATCAGGAAGCTGAC
* * * *
39034187 CATTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGTTCA
66 CATTTTATTGCTTCGACCTGCCTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCA
*
39034252 CATTGAGCTTTGTTTCATTGAGTTGGTATA
131 CATCGAGCTTTGTTTCATTGAGTTGGTATA
*
39034282 CTTCTCTGTATCTCATCAGGAAGATGAATTTGG-TCTACTTCTCAGAATCTCATCAGGAAGCTGA
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTC-ACTTCTCAGAATCTCATCAGGAAGCTGA
* * * *
39034346 CCATTTTATTGCTTCGACTTGCCTCTCAGTATCTCATCAAGAAGTTGGGGTTTGAAGTTTCGCTC
65 CCATTTTATTGCTTCGACCTGCCTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTC
39034411 ACATCGAGCTT
130 ACATCGAGCTT
39034422 CGGTTTTGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
159 2 0.02
160 125 0.98
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (160 bp):
CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGAATCTCATCAGGAAGCTGAC
CATTTTATTGCTTCGACCTGCCTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCA
CATCGAGCTTTGTTTCATTGAGTTGGTATA
Found at i:39034778 original size:161 final size:161
Alignment explanation
Indices: 39034578--39034921 Score: 483
Period size: 161 Copynumber: 2.1 Consensus size: 161
39034568 TTCGACCTGT
* *
39034578 TTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGTTTCGCTTACATTAAGCTTTATTTCATTGA
1 TTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTATTTCATTGA
* * * *
39034643 GTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGCTTCAATCCGCTTCTTT
66 GTTGGTATACTTCTCTATATCTCATCAGAAAGATGACCGCCTCACTTGCTTCAATCCACTTCTCT
* * *
39034708 GTATCTCATCATGAAGAC-GAATTTGGTCCAC
131 ATATCTCAACAAGAAGACAG-ATTTGGTCCAC
* * * ** *
39034739 TTCTCAATATCTTATCAGGAAGTTGGGGTTCGAAGTTTCGCTCACATTGTGCTTTGTTTCATTGA
1 TTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTATTTCATTGA
* * * * *
39034804 TTTGGTATACTTCTCTATATTTCATCAGAAAGATGATCGCCTCACTTGTTTTAATCCACTTCTCT
66 GTTGGTATACTTCTCTATATCTCATCAGAAAGATGACCGCCTCACTTGCTTCAATCCACTTCTCT
39034869 ATATCTCAACAAGAAGACAGATTTGGTCCAC
131 ATATCTCAACAAGAAGACAGATTTGGTCCAC
*
39034900 TTCTCTGTATCTCATCAGGAAG
1 TTCTCAGTATCTCATCAGGAAG
39034922 ACGACCACTT
Statistics
Matches: 159, Mismatches: 23, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
161 158 0.99
162 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (161 bp):
TTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTATTTCATTGA
GTTGGTATACTTCTCTATATCTCATCAGAAAGATGACCGCCTCACTTGCTTCAATCCACTTCTCT
ATATCTCAACAAGAAGACAGATTTGGTCCAC
Found at i:39034806 original size:370 final size:364
Alignment explanation
Indices: 39034070--39034939 Score: 983
Period size: 370 Copynumber: 2.4 Consensus size: 364
39034060 TTGCTTCGAC
** * * * * * *
39034070 CTACTTCTCAGTATCTCATCAGGAAGATGACCGCATTACATGTTTTAATCCGCTTCTCTGTATCT
1 CTACTTCTCAGTA-CTTTTCAAGAAGATGACTGCATCACTTGTTTTAATCCACTTCTCTATATCT
* * * * *
39034135 CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCGGGAAGCTGACCATTTTATTGCTT
65 CATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTT
* * *
39034200 TGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGTTCACATTGAGCTTTGT
130 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGTTCACATTAAGCTTTAT
*
39034265 TTCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCTACTTCTCAGAAT
195 TTCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGAACTTGGTCTACTTCTCAGAAT
* * *
39034330 CTCATCAGGAAGCTGACCATTTTATTGCTTCGACTTGCCTCTCAGTATCTCATCAAGAAGTTGGG
260 CTCATCAGGAAGCTGA-CA--TTATTGCGTCCACTT--CTCTCAATATCTCATCAAGAAGTTGGG
* **
39034395 GTTTGAAGTTTCGCTCACATCGAGCTTCGGTTTTGTTGATTTAAT
320 GTTCGAAGTTTCGCTCACATCGAGCTTCGGTTTCATTGATTTAAT
* *
39034440 CTACTTCTCAGTACCTTTTCAAGAAGATGACTGCATCACTTGTTTTGATCTACTTCTCTATATCT
1 CTACTTCTCAGTA-CTTTTCAAGAAGATGACTGCATCACTTGTTTTAATCCACTTCTCTATATCT
39034505 CATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTT
65 CATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTT
* * *
39034570 CGACCTGTTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGTTTCGCTT-ACATTAAGCTTTA
130 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCG-TTCACATTAAGCTTTA
*
39034634 TTTCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGCTTCAATC
194 TTTCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGA-------ACTTG-GTC--T-
* ** * * * *
39034699 CGCTTCTTTGTATCTCATCATGAAGAC-GA-A-T-TTG-GTCCAC-T-TCTCAATATCTTATCAG
248 -ACTTCTCAGAATCTCATCAGGAAG-CTGACATTATTGCGTCCACTTCTCTCAATATCTCATCAA
* * * **
39034757 GAAGTTGGGGTTCGAAGTTTCGCTCACATTGTGCTT-TGTTTCATTGATTTGGT
311 GAAGTTGGGGTTCGAAGTTTCGCTCACATCGAGCTTCGGTTTCATTGATTTAAT
* *
39034810 ATACTTCTC--TA-TATTTCATCAGAAAGATGA-TCGCCTCACTTGTTTTAATCCACTTCTCTAT
1 CTACTTCTCAGTACT-TTTCA--AG-AAGATGACT-GCATCACTTGTTTTAATCCACTTCTCTAT
* * * * *
39034871 ATCTCAACAAGAAGACAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATT
61 ATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATT
39034936 GCTT
126 GCTT
39034940 TAGATAACTG
Statistics
Matches: 430, Mismatches: 51, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
366 1 0.00
367 5 0.01
368 2 0.00
369 3 0.01
370 331 0.77
371 49 0.11
374 1 0.00
375 4 0.01
376 3 0.01
377 5 0.01
378 2 0.00
380 2 0.00
382 21 0.05
383 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (364 bp):
CTACTTCTCAGTACTTTTCAAGAAGATGACTGCATCACTTGTTTTAATCCACTTCTCTATATCTC
ATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTTC
GACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGTTCACATTAAGCTTTATT
TCATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGAACTTGGTCTACTTCTCAGAATC
TCATCAGGAAGCTGACATTATTGCGTCCACTTCTCTCAATATCTCATCAAGAAGTTGGGGTTCGA
AGTTTCGCTCACATCGAGCTTCGGTTTCATTGATTTAAT
Found at i:39035075 original size:39 final size:39
Alignment explanation
Indices: 39035020--39035563 Score: 354
Period size: 39 Copynumber: 14.0 Consensus size: 39
39035010 AGAGATCAAG
*
39035020 TGGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
* ** * *
39035059 TGCCTGATGGTGATCTGCCTTAGGCTCGGGGTAAAAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
**** * * * * *
39035098 CAAATAACT-GTAATCTGCCCTAGGCTCGAGGTAAGAGAT
1 TGGCTGA-TGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
* * * *
39035137 TGGCTGATGGTGATCTGCCCTAGGCTCGAGGTAAAAGA-
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
* *
39035175 T--C-GAATGGCTGCAATCTGCCCC-AGTCTCGAGCT-AGAAGAT
1 TGGCTG-ATGG-TG--ATCTGCCCCAAG-CTCGGGGTAAG-AGAT
* * *
39035215 TGGCTGATGGTTATCTGCTCCAAGCTCGGGGTAAAAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
* ** ** * *
39035254 CGAATGGCGGTAATCTGCCCCAAGCTCGGGGTAAAAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
** * *
39035293 TGGCTGACAGTGATCTGCCTCAAGCTC-GGGTAAAAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
** * * * * * * *
39035331 CAGATGGTAGTAATCTGCCTCAGGCTCAGGGTAAGAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
*
39035370 TGGCTGATGGTGATCTGCCCCAAGCTC-GGGTAAAAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
** * ** * * *
39035408 CAGATGGCGATAATCTGCCCCAGGCTCGGGGTAAGAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
* *
39035447 TGGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
** * ** *
39035486 CAGATGACT-GCAATCTGTCCCAAGC-CTGGGGTAAGAGAT
1 TGGCTGA-TGGTGATCTGCCCCAAGCTC-GGGGTAAGAGAT
* * *
39035525 TGTCTGATGGTGATCTGCTCCAAGATCGGGGTAAGAGAT
1 TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
39035564 AGGAATCTTC
Statistics
Matches: 391, Mismatches: 94, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
35 1 0.00
36 5 0.01
37 2 0.01
38 66 0.17
39 303 0.77
40 7 0.02
41 1 0.00
42 5 0.01
43 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
Found at i:39035144 original size:78 final size:78
Alignment explanation
Indices: 39035032--39035563 Score: 608
Period size: 78 Copynumber: 6.8 Consensus size: 78
39035022 GCTAATGGTG
* * ** *
39035032 ATCTGCCCCAAGCTCGGGGTAAGAGATTGCCTGATGGTGATCTGCCTTAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
**
39035097 TCAAATAACTGTA
66 TCAAATGGCTGTA
* * * * *
39035110 ATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGAGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
* *
39035175 TCGAATGGCTGCA
66 TCAAATGGCTGTA
* * * * *
39035188 ATCTGCCCCAGTCTCGAGCT-AGAAGATTGGCTGATGGTTATCTGCTCCAAGCTCGGGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAG-AGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
* *
39035252 ATCGAATGGCGGTA
65 ATCAAATGGCTGTA
* * ** *
39035266 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGACAGTGATCTGCCTCAAGCTC-GGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
*
39035330 TCAGATGG-TAGTA
66 TCAAATGGCT-GTA
* *
39035343 ATCTGCCTCAGGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTC-GGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
*
39035407 TCAGATGGC-GATA
66 TCAAATGGCTG-TA
* * *
39035420 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
* * *
39035485 TCAGATGACTGCA
66 TCAAATGGCTGTA
* * * * * *
39035498 ATCTGTCCCAAGC-CTGGGGTAAGAGATTGTCTGATGGTGATCTGCTCCAAGATCGGGGTAAGAG
1 ATCTGCCCCAGGCTC-GGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
39035562 AT
65 AT
39035564 AGGAATCTTC
Statistics
Matches: 392, Mismatches: 54, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
76 1 0.00
77 139 0.35
78 250 0.64
79 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
TCAAATGGCTGTA
Found at i:39035614 original size:43 final size:43
Alignment explanation
Indices: 39035566--39035685 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 43
39035556 TAAGAGATAG
* * *
39035566 GAATCTTCATTCTGCCCTTTTTGACTAAGGGTAAAAAAAACTA
1 GAATCTTCAATCTGCCCTTCTTGATTAAGGGTAAAAAAAACTA
* * * * *
39035609 GAATCTTCAATCTACCCTTCTTAATTAAAGGT--AAAAGACTG
1 GAATCTTCAATCTGCCCTTCTTGATTAAGGGTAAAAAAAACTA
39035650 GAATCTTCAATCTGCCCTTCTTGATTAAGGGTAAAA
1 GAATCTTCAATCTGCCCTTCTTGATTAAGGGTAAAA
39035686 GACTTGAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 36 0.56
43 28 0.44
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (43 bp):
GAATCTTCAATCTGCCCTTCTTGATTAAGGGTAAAAAAAACTA
Found at i:39035936 original size:50 final size:49
Alignment explanation
Indices: 39035844--39035938 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 49
39035834 TTTCCTTTCA
* * *
39035844 CATCTTCTGAGGTACCGGTTTGCCGTTGCGGCCTCAATCTTTCCCATCT
1 CATCTTCTAAGGTACCGGTTTACCGTTGCGGCCTCAACCTTTCCCATCT
*
39035893 CATCTTCTAAGGTACCGTTTTCACCGTTGCGGCCTCAACCTTTCCC
1 CATCTTCTAAGGTACCGGTTT-ACCGTTGCGGCCTCAACCTTTCCC
39035939 TTCAAATCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 19 0.46
50 22 0.54
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.34
Consensus pattern (49 bp):
CATCTTCTAAGGTACCGGTTTACCGTTGCGGCCTCAACCTTTCCCATCT
Found at i:39035948 original size:50 final size:49
Alignment explanation
Indices: 39035828--39035949 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 49
39035818 TATTGCGACT
* * *
39035828 TCAATCTTTCCTTTCACATCTTCTGAGGTACCGGTTTGCCGTTGCGGCC
1 TCAATCTTTCCCTTCACATCTTCTAAGGTACCGGTTTACCGTTGCGGCC
* * *
39035877 TCAATCTTTCCCATCTCATCTTCTAAGGTACCGTTTTCACCGTTGCGGCC
1 TCAATCTTTCCCTTCACATCTTCTAAGGTACCGGTTT-ACCGTTGCGGCC
* *
39035927 TCAACCTTTCCCTTCAAATCTTC
1 TCAATCTTTCCCTTCACATCTTC
39035950 ATGTTTTTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 32 0.52
50 30 0.48
ACGTcount: A:0.16, C:0.34, G:0.14, T:0.37
Consensus pattern (49 bp):
TCAATCTTTCCCTTCACATCTTCTAAGGTACCGGTTTACCGTTGCGGCC
Found at i:39036894 original size:6 final size:6
Alignment explanation
Indices: 39036883--39036964 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
39036873 CCTCTACCCC
* * *
39036883 TCTTTT TCTTTT TCCTTT T-TTTC T-TTTT TCTTTTT TACTTTT TTTATTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT T-CTTTT TCT-TTT
* *
39036932 TCATTTT ACTTTT TCTTCT TCTTTTT TCTTTT T
1 TC-TTTT TCTTTT TCTTTT TC-TTTT TCTTTT T
39036965 TTTCATTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 7 0.12
6 28 0.47
7 23 0.38
8 2 0.03
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:39036902 original size:8 final size:7
Alignment explanation
Indices: 39036885--39036965 Score: 78
Period size: 7 Copynumber: 11.7 Consensus size: 7
39036875 TCTACCCCTC
39036885 TTTTTCT
1 TTTTTCT
*
39036892 TTTTCCTT
1 TTTTTC-T
39036900 TTTTTCT
1 TTTTTCT
39036907 TTTTTCT
1 TTTTTCT
39036914 TTTTTACT
1 TTTTT-CT
39036922 TTTTT-T
1 TTTTTCT
* *
39036928 ATTTTCA
1 TTTTTCT
*
39036935 TTTTAC-
1 TTTTTCT
39036941 TTTTTC-
1 TTTTTCT
*
39036947 TTCTTCT
1 TTTTTCT
39036954 TTTTTCT
1 TTTTTCT
39036961 TTTTT
1 TTTTT
39036966 TTCATTGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
6 15 0.25
7 33 0.54
8 13 0.21
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:39036905 original size:15 final size:14
Alignment explanation
Indices: 39036885--39036964 Score: 69
Period size: 13 Copynumber: 5.8 Consensus size: 14
39036875 TCTACCCCTC
39036885 TTTTTCTTTTTCCTT
1 TTTTTCTTTTT-CTT
39036900 TTTTTCTTTTTTCTT
1 TTTTTC-TTTTTCTT
*
39036915 TTTTACTTTTT-TT
1 TTTTTCTTTTTCTT
* *
39036928 ATTTTCATTTTAC--
1 TTTTTC-TTTTTCTT
*
39036941 TTTTTCTTCTTC-T
1 TTTTTCTTTTTCTT
39036954 TTTTTCTTTTT
1 TTTTTCTTTTT
39036965 TTTCATTGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
12 4 0.08
13 21 0.40
14 9 0.17
15 14 0.26
16 5 0.09
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Done.