Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 6 of 295
Found at i:1833252 original size:21 final size:22
Alignment explanation
Indices: 1833226--1833279 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
1833216 TTAGTCAATG
1833226 TAATTTAAAA-GGTTTAAATTT
1 TAATTTAAAATGGTTTAAATTT
* **
1833247 TAATTTAAAATGTTTTACTTTT
1 TAATTTAAAATGGTTTAAATTT
1833269 TAAATTTAAAA
1 T-AATTTAAAA
1833280 ATTATAGTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.36
22 9 0.32
23 9 0.32
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (22 bp):
TAATTTAAAATGGTTTAAATTT
Found at i:1835166 original size:93 final size:93
Alignment explanation
Indices: 1835007--1835196 Score: 335
Period size: 93 Copynumber: 2.0 Consensus size: 93
1834997 AGCCGCCGCA
* *
1835007 GCGAGGTTCGCGAACTCGGAGCCTTCGACTATCCATTCGGAGCAAACTGATTCTGCGTTCCAAAT
1 GCGAGGTTCGCAAACTCGGAGCCTTCGACGATCCATTCGGAGCAAACTGATTCTGCGTTCCAAAT
*
1835072 GGAGTCACCGTCGCCGTCAGTTTCGGAC
66 GGAATCACCGTCGCCGTCAGTTTCGGAC
*
1835100 GCGAGGTTCGCAAACTTGGAGCCTTCGACGATCCATTCGGAGCAAACTGATTCTGCGTTCCAAAT
1 GCGAGGTTCGCAAACTCGGAGCCTTCGACGATCCATTCGGAGCAAACTGATTCTGCGTTCCAAAT
*
1835165 GGAATCACCGTCGCCGTCAGTTTCGTAC
66 GGAATCACCGTCGCCGTCAGTTTCGGAC
1835193 GCGA
1 GCGA
1835197 CGGTACAATT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (93 bp):
GCGAGGTTCGCAAACTCGGAGCCTTCGACGATCCATTCGGAGCAAACTGATTCTGCGTTCCAAAT
GGAATCACCGTCGCCGTCAGTTTCGGAC
Found at i:1844248 original size:30 final size:30
Alignment explanation
Indices: 1844191--1844248 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1844181 TGTTGCTGCT
* *
1844191 GCTGCTGCTGTAGAGGTGGCTGAGGCTGAG
1 GCTGCTGCTGAAGAGGTGACTGAGGCTGAG
* * *
1844221 GCTGCTGTTGAAGATGTGACTGTGGCTG
1 GCTGCTGCTGAAGAGGTGACTGAGGCTG
1844249 CAGCTGTGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.16, G:0.43, T:0.28
Consensus pattern (30 bp):
GCTGCTGCTGAAGAGGTGACTGAGGCTGAG
Found at i:1848487 original size:14 final size:15
Alignment explanation
Indices: 1848468--1848499 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1848458 TTTAATTTGG
1848468 TTTTTAA-TTTTTTA
1 TTTTTAATTTTTTTA
1848482 TTTTTAATTTTTTTA
1 TTTTTAATTTTTTTA
1848497 TTT
1 TTT
1848500 GAGTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTAATTTTTTTA
Found at i:1849301 original size:73 final size:71
Alignment explanation
Indices: 1849182--1849332 Score: 212
Period size: 73 Copynumber: 2.1 Consensus size: 71
1849172 TTTAACCATT
** *
1849182 GCGCGTGCTACTTCACGCGTGGGGTAATGCAATTAGCGGAAAGTTAAAATTGGCACCAAATTTTG
1 GCGCGTGAGACTTCACGAGTGGGGTAATGCAATTAGCGGAAAGTTAAAATTGGCACCAAA--TTG
1849247 GGAGATGC
64 GGAGATGC
* * * *
1849255 GCGCGTGAGACTTCACGATTGGTGTAATGCAATTGGCGGAAAGTTAAAATTGGCACCGAATTGGG
1 GCGCGTGAGACTTCACGAGTGGGGTAATGCAATTAGCGGAAAGTTAAAATTGGCACCAAATTGGG
*
1849320 ATATGC
66 AGATGC
1849326 GCGCGTG
1 GCGCGTG
1849333 CGGCATTCTG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 17 0.24
73 53 0.76
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (71 bp):
GCGCGTGAGACTTCACGAGTGGGGTAATGCAATTAGCGGAAAGTTAAAATTGGCACCAAATTGGG
AGATGC
Found at i:1854155 original size:21 final size:20
Alignment explanation
Indices: 1854121--1854160 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1854111 TAAAAAATTT
1854121 AATTATTTATTTTATATAAAA
1 AATTATTTATTTTA-ATAAAA
1854142 AATTATATTA-TTTAATAAA
1 AATTAT-TTATTTTAATAAA
1854161 TATTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 10 0.56
22 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATTTATTTTAATAAAA
Found at i:1854163 original size:26 final size:26
Alignment explanation
Indices: 1854111--1854163 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1854101 TAATGTAAAG
* **
1854111 TAAAAAATTTAATTATTTATTTTATA
1 TAAAAAATTTAATTATTTAATAAATA
1854137 TAAAAAA-TTATATTATTTAATAAATA
1 TAAAAAATTTA-ATTATTTAATAAATA
1854163 T
1 T
1854164 TAATTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAAAAATTTAATTATTTAATAAATA
Found at i:1863840 original size:16 final size:16
Alignment explanation
Indices: 1863819--1863857 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1863809 GCAATAATGG
*
1863819 AATTAATGCATTAATA
1 AATTAATGCATAAATA
*
1863835 AATTAATACATAAATA
1 AATTAATGCATAAATA
1863851 AA-TAATG
1 AATTAATG
1863858 TTTTTGTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
AATTAATGCATAAATA
Found at i:1873391 original size:28 final size:28
Alignment explanation
Indices: 1873359--1873423 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
1873349 GTTTTGGTTC
*
1873359 AAAATTTAATATTTATGT-TTAA-AATAA
1 AAAATTTAA-AATTATGTATTAATAATAA
1873386 TAAAATTACTAAAATTATGTATTAATAATAA
1 -AAAATT--TAAAATTATGTATTAATAATAA
1873417 AAAATTT
1 AAAATTT
1873424 TATTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
28 7 0.22
29 7 0.22
30 13 0.41
31 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (28 bp):
AAAATTTAAAATTATGTATTAATAATAA
Found at i:1876637 original size:15 final size:14
Alignment explanation
Indices: 1876606--1876649 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
1876596 AAAATTCGAT
*
1876606 AAATATAAAACTAAA
1 AAATAT-AAATTAAA
*
1876621 AATTATTAAATTAAA
1 AAATA-TAAATTAAA
1876636 AAATATAAATTAAA
1 AAATATAAATTAAA
1876650 CCCAAAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 9 0.36
15 15 0.60
16 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATATAAATTAAA
Found at i:1902601 original size:26 final size:24
Alignment explanation
Indices: 1902571--1902620 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
1902561 AAATAAAAAA
*
1902571 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
1902597 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
1902621 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:1902640 original size:21 final size:21
Alignment explanation
Indices: 1902591--1902649 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
1902581 ATAATAAATC
*
1902591 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
1902611 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
1902633 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
1902650 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:1902716 original size:17 final size:16
Alignment explanation
Indices: 1902696--1902729 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1902686 AAATAGTTAT
*
1902696 ATTAAAAATTTAAAATA
1 ATTAAAAA-ATAAAATA
1902713 ATTAAAAAATAAAATA
1 ATTAAAAAATAAAATA
1902729 A
1 A
1902730 AATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAAATAAAATA
Found at i:1905105 original size:17 final size:17
Alignment explanation
Indices: 1905083--1905116 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1905073 GGAGATTCAT
1905083 TGAACATCAGGCCGAAC
1 TGAACATCAGGCCGAAC
1905100 TGAACATCAGGCCGAAC
1 TGAACATCAGGCCGAAC
1905117 GAGTAATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.24, T:0.12
Consensus pattern (17 bp):
TGAACATCAGGCCGAAC
Found at i:1906795 original size:11 final size:11
Alignment explanation
Indices: 1906779--1906805 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1906769 TATAAAAACA
1906779 AATTTTTGAAT
1 AATTTTTGAAT
1906790 AATTTTTGAAT
1 AATTTTTGAAT
1906801 AATTT
1 AATTT
1906806 CATTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
AATTTTTGAAT
Found at i:1908819 original size:32 final size:31
Alignment explanation
Indices: 1908755--1908831 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 31
1908745 GAGGACCTAC
*
1908755 TTAAATTTTTTAAAAATTTAATGAGATTTAA
1 TTAAATTTTTTAAAAATTTAAAGAGATTTAA
* *
1908786 TTAAATTTTTTAAATATTTTAAAG-GGTTCTAA
1 TTAAATTTTTTAAA-AATTTAAAGAGATT-TAA
**
1908818 TTAAAAATTTTAAA
1 TTAAATTTTTTAAA
1908832 GGGCATAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 17 0.44
32 22 0.56
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.48
Consensus pattern (31 bp):
TTAAATTTTTTAAAAATTTAAAGAGATTTAA
Found at i:1910155 original size:59 final size:59
Alignment explanation
Indices: 1910043--1910156 Score: 131
Period size: 59 Copynumber: 1.9 Consensus size: 59
1910033 AACTTGGACA
* * ** * *
1910043 AAAAAAAAGTTTAAGCCTCAATATGAGAACAATTATTAAGTTCAGGTCTTAACTTTGAT
1 AAAAAAAAGTTTAAGCCCCAATATAAGAACAATTACCAAGTTCAGGGCGTAACTTTGAT
* * *
1910102 AAAAAAAAGTTTAAGCCCCAATGTAAGAATAATTGCCAAGCTT-AGGGCGTAACTT
1 AAAAAAAAGTTTAAGCCCCAATATAAGAACAATTACCAAG-TTCAGGGCGTAACTT
1910157 AGACCAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
59 43 0.96
60 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (59 bp):
AAAAAAAAGTTTAAGCCCCAATATAAGAACAATTACCAAGTTCAGGGCGTAACTTTGAT
Found at i:1911896 original size:16 final size:16
Alignment explanation
Indices: 1911872--1911903 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1911862 TGTACTTCAC
*
1911872 TATACTTGATTTTGAT
1 TATAATTGATTTTGAT
1911888 TATAATTGATTTTGAT
1 TATAATTGATTTTGAT
1911904 ATTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (16 bp):
TATAATTGATTTTGAT
Found at i:1916445 original size:16 final size:16
Alignment explanation
Indices: 1916393--1916448 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1916383 ATTCTAATTT
*
1916393 TTCAAATTTTTTATGC
1 TTCAATTTTTTTATGC
*
1916409 TTTCAATTTGACTTT-TG-
1 -TTCAATTT--TTTTATGC
1916426 TTCAATTTTTTTATGC
1 TTCAATTTTTTTATGC
1916442 TTCAATT
1 TTCAATT
1916449 ATTCTCTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.09
15 2 0.06
16 15 0.47
17 7 0.22
18 2 0.06
19 3 0.09
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.59
Consensus pattern (16 bp):
TTCAATTTTTTTATGC
Found at i:1923221 original size:38 final size:39
Alignment explanation
Indices: 1923143--1923230 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 39
1923133 AAAAATTATA
* * * *
1923143 TTTAATACAGTAAAACATTTATTATATTTATTTGT-GTT
1 TTTAATATAATAAAACATTTATTATATTTATTGGTATTT
* *
1923181 TTTAATATAATAAAATATTTATTTTATTTA-TGGTAATTTT
1 TTTAATATAATAAAACATTTATTATATTTATTGGT-A-TTT
1923221 TTTAATATAA
1 TTTAATATAA
1923231 ATACTTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 3 0.07
38 26 0.63
40 12 0.29
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTGGTATTT
Found at i:1924684 original size:29 final size:29
Alignment explanation
Indices: 1924639--1924703 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
1924629 TTCGGTCACT
*
1924639 CAACTATGAAAAATTATAAAATGATCATC
1 CAACTATGAAAAATTATAAAACGATCATC
* *
1924668 CAACTAT-AAAAAGTTATAAAACGGTCATT
1 CAACTATGAAAAA-TTATAAAACGATCATC
1924697 CAACTAT
1 CAACTAT
1924704 TCAATTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (29 bp):
CAACTATGAAAAATTATAAAACGATCATC
Found at i:1931316 original size:46 final size:46
Alignment explanation
Indices: 1931260--1931359 Score: 191
Period size: 46 Copynumber: 2.2 Consensus size: 46
1931250 AATGACCCAA
1931260 ATTGAGTCTCTAAAACTTTGACTGAAGCCTAAAGGCAAAATGCAAAT
1 ATTG-GTCTCTAAAACTTTGACTGAAGCCTAAAGGCAAAATGCAAAT
1931307 ATTGGTCTCTAAAACTTTGACTGAAGCCTAAAGGCAAAATGCAAAT
1 ATTGGTCTCTAAAACTTTGACTGAAGCCTAAAGGCAAAATGCAAAT
1931353 ATTGGTC
1 ATTGGTC
1931360 CTATAAATGA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 49 0.92
47 4 0.08
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (46 bp):
ATTGGTCTCTAAAACTTTGACTGAAGCCTAAAGGCAAAATGCAAAT
Found at i:1942117 original size:23 final size:23
Alignment explanation
Indices: 1942087--1942132 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1942077 ATTAAATTAT
1942087 TAAATATTAAATTAAAAATAATA
1 TAAATATTAAATTAAAAATAATA
***
1942110 TAAATATTTTTTTAAAAATAATA
1 TAAATATTAAATTAAAAATAATA
1942133 CAAGTGAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATATTAAATTAAAAATAATA
Found at i:1959169 original size:7 final size:7
Alignment explanation
Indices: 1959157--1959181 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1959147 ATTTAAACAT
1959157 AAAATAA
1 AAAATAA
1959164 AAAATAA
1 AAAATAA
1959171 AAAATAA
1 AAAATAA
1959178 AAAA
1 AAAA
1959182 AGAAGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:1961900 original size:21 final size:21
Alignment explanation
Indices: 1961874--1961916 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1961864 CTTCAACTAC
*
1961874 ACTTACTGTTCCTATTATCTA
1 ACTTACTGTTCCTATTAGCTA
1961895 ACTTACTGTTCCTATTAGCTA
1 ACTTACTGTTCCTATTAGCTA
1961916 A
1 A
1961917 TCAATGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (21 bp):
ACTTACTGTTCCTATTAGCTA
Found at i:1966062 original size:47 final size:47
Alignment explanation
Indices: 1965953--1966063 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
1965943 CCGGGATAAG
* * *
1965953 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
1966000 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
1966047 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
1966064 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:1973229 original size:47 final size:47
Alignment explanation
Indices: 1973121--1973230 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
1973111 CGGGATAAGT
* *
1973121 ACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
* * *
1973168 ACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTAC
1973215 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
1973231 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
Found at i:1973988 original size:4 final size:4
Alignment explanation
Indices: 1973975--1974009 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
1973965 TCAAATTTCC
1973975 CTTT -TTT CTTT CTTT CTTT CTTT C-TT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
1974010 ACGTTTGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:1975965 original size:28 final size:27
Alignment explanation
Indices: 1975918--1975989 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
1975908 AAATATCTCA
* ** *
1975918 AAAAAAGAAAAATTCGATTTTTGTTTT
1 AAAAAATAAAAATTAAATTTTTATTTT
*
1975945 AAAAAGTCAAAAATTAAA--TTTATTTT
1 AAAAAAT-AAAAATTAAATTTTTATTTT
*
1975971 AAAAAATAATAATTAAATT
1 AAAAAATAAAAATTAAATT
1975990 GATAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 9 0.26
26 13 0.37
27 5 0.14
28 8 0.23
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (27 bp):
AAAAAATAAAAATTAAATTTTTATTTT
Found at i:1975970 original size:26 final size:25
Alignment explanation
Indices: 1975941--1975989 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1975931 TCGATTTTTG
*
1975941 TTTTAAAAAGTCAAAAATTAAATTTA
1 TTTTAAAAAAT-AAAAATTAAATTTA
*
1975967 TTTTAAAAAATAATAATTAAATT
1 TTTTAAAAAATAAAAATTAAATT
1975990 GATAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTTAAAAAATAAAAATTAAATTTA
Found at i:1976675 original size:21 final size:20
Alignment explanation
Indices: 1976628--1976724 Score: 85
Period size: 19 Copynumber: 4.9 Consensus size: 20
1976618 TAAAAGTTAC
*
1976628 AAAAATTATTAAAATTTAATA
1 AAAAACTATTAAAATTT-ATA
*
1976649 AAAAACTACTTAAAATTTATT
1 AAAAACTA-TTAAAATTTATA
*
1976670 AAAAACTAATT--ATTTTATA
1 AAAAACT-ATTAAAATTTATA
* * *
1976689 AAAATC-GTTAAAAATTATA
1 AAAAACTATTAAAATTTATA
1976708 AAAAACTA-TAAAATTTA
1 AAAAACTATTAAAATTTA
1976725 AATCAAACAA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
17 2 0.03
19 30 0.50
21 18 0.30
22 10 0.17
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAACTATTAAAATTTATA
Found at i:1977040 original size:16 final size:16
Alignment explanation
Indices: 1977019--1977103 Score: 61
Period size: 16 Copynumber: 5.3 Consensus size: 16
1977009 AAAAAATACC
1977019 ATTTTATATTTTATAA
1 ATTTTATATTTTATAA
1977035 ATTTTATAATTTT-TAA
1 ATTTTAT-ATTTTATAA
*
1977051 ATATT-T-TTTTATTAAA
1 ATTTTATATTTTA-T-AA
* *
1977067 ATTTAATAATTTAATAA
1 ATTTTAT-ATTTTATAA
* *
1977084 TTTTTATTTTTTAT-A
1 ATTTTATATTTTATAA
1977099 ATTTT
1 ATTTT
1977104 TTGTCACATA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
13 4 0.08
15 7 0.13
16 24 0.45
17 13 0.25
18 1 0.02
19 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATATTTTATAA
Found at i:1977102 original size:32 final size:33
Alignment explanation
Indices: 1977019--1977102 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 33
1977009 AAAAAATACC
* * *
1977019 ATTTTATATTTTATAAATTTTATAATTTTTAAAT
1 ATTTTATTTTTTAT-AATTTAATAATTTATAAAT
* *
1977053 ATTTT-TTTATTAAAATTTAATAATTTA-ATAAT
1 ATTTTATTTTTTATAATTTAATAATTTATA-AAT
1977085 -TTTTATTTTTTATAATTT
1 ATTTTATTTTTTATAATTT
1977103 TTTGTCACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
31 5 0.12
32 26 0.63
33 5 0.12
34 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (33 bp):
ATTTTATTTTTTATAATTTAATAATTTATAAAT
Found at i:1990216 original size:28 final size:28
Alignment explanation
Indices: 1990185--1990240 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1990175 AAAAAGGAAG
1990185 TTGATTTCCAACCACAAAAACAACCAAA
1 TTGATTTCCAACCACAAAAACAACCAAA
1990213 TTGATTTCCAACCACAAAAACAACCAAA
1 TTGATTTCCAACCACAAAAACAACCAAA
1990241 CATTTATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.29, G:0.04, T:0.18
Consensus pattern (28 bp):
TTGATTTCCAACCACAAAAACAACCAAA
Found at i:1990288 original size:33 final size:33
Alignment explanation
Indices: 1990244--1990316 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
1990234 AACCAAACAT
* * *
1990244 TTATAGAGTGAGAGTACCTATGAGATCCCTGTA
1 TTATAGGGTGAGACTACCCATGAGATCCCTGTA
*
1990277 TTATAGGGTGAGACTACCCATGAGATCCTTGTA
1 TTATAGGGTGAGACTACCCATGAGATCCCTGTA
1990310 TTATAGG
1 TTATAGG
1990317 AGTTGTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (33 bp):
TTATAGGGTGAGACTACCCATGAGATCCCTGTA
Found at i:1993402 original size:13 final size:13
Alignment explanation
Indices: 1993364--1993405 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1993354 AATCAAATTC
*
1993364 AATTTTTTATATA
1 AATTTATTATATA
*
1993377 AA-TTACTTTTATA
1 AATTTA-TTATATA
1993390 AATTTATTATATA
1 AATTTATTATATA
1993403 AAT
1 AAT
1993406 GTTTTCACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 2 0.08
13 19 0.79
14 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTATTATATA
Found at i:1999108 original size:16 final size:16
Alignment explanation
Indices: 1999087--1999136 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
1999077 TTTTATGTTT
1999087 TATAAATTATAATATA
1 TATAAATTATAATATA
*
1999103 TATAAATAGCATAATATA
1 TATAAAT--TATAATATA
*
1999121 -ATATATTATAA-ATA
1 TATAAATTATAATATA
1999135 TA
1 TA
1999137 GAAAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 3 0.11
15 5 0.18
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
TATAAATTATAATATA
Found at i:1999144 original size:23 final size:23
Alignment explanation
Indices: 1999095--1999145 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1999085 TTTATAAATT
* *
1999095 ATAATATATATAAATAGCATAAT
1 ATAATATATATAAATAGCAGAAA
*
1999118 ATAATATATTATAAATA-TAGAAA
1 ATAATATA-TATAAATAGCAGAAA
1999141 ATAAT
1 ATAAT
1999146 TTAGGCTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAATATATATAAATAGCAGAAA
Found at i:1999670 original size:30 final size:30
Alignment explanation
Indices: 1999597--1999675 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 30
1999587 AAATGTGCTC
* *
1999597 AAATAAAGGTTAAA-TTTTTCAAAATAGTC
1 AAATAAAGGTTAAACTTTTTCAAAATACTA
* *
1999626 AAATAAGGGTTAAACCTTTTCAAAAATACTA
1 AAATAAAGGTTAAACTTTTTC-AAAATACTA
1999657 AAATAAAGG-TAAACTTTTT
1 AAATAAAGGTTAAACTTTTT
1999676 TAAATGTGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.31
30 14 0.33
31 15 0.36
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATAAAGGTTAAACTTTTTCAAAATACTA
Found at i:1999694 original size:29 final size:31
Alignment explanation
Indices: 1999582--1999692 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 31
1999572 GGGTTTAATC
1999582 TTTACAAATGTGCTCAAATAAAGGTTAAA-TT
1 TTTA-AAATGTGCTCAAATAAAGGTTAAACTT
* *
1999613 TTTCAAAAT-AG-TCAAATAAGGGTTAAACCTT
1 TTT-AAAATGTGCTCAAATAAAGGTTAAA-CTT
* * * *
1999644 TTCAAAA-ATACTAAAATAAAGG-TAAACTT
1 TTTAAAATGTGCTCAAATAAAGGTTAAACTT
*
1999673 TTTTAAATGTGCTCAAATAA
1 TTTAAAATGTGCTCAAATAA
1999693 GGGCTTCTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
29 23 0.37
30 18 0.29
31 20 0.32
32 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (31 bp):
TTTAAAATGTGCTCAAATAAAGGTTAAACTT
Found at i:2004766 original size:22 final size:22
Alignment explanation
Indices: 2004738--2004781 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2004728 AAACCAAGTA
2004738 AATTCTTTATTTTTAATTTTTT
1 AATTCTTTATTTTTAATTTTTT
2004760 AATTCTTTATTTTTAATTTTTT
1 AATTCTTTATTTTTAATTTTTT
2004782 CCATTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (22 bp):
AATTCTTTATTTTTAATTTTTT
Found at i:2011978 original size:17 final size:17
Alignment explanation
Indices: 2011942--2011979 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2011932 AATATGAAAA
*
2011942 AAAATATATTAATCATT
1 AAAATATATTAAACATT
2011959 AAAATATATATAAACA-T
1 AAAATATAT-TAAACATT
2011976 AAAA
1 AAAA
2011980 CGTGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATATTAAACATT
Found at i:2012634 original size:31 final size:31
Alignment explanation
Indices: 2012562--2012636 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
2012552 TAATTTTATA
*
2012562 CAATTATACACATGAAACTTTGATCGTGGAT
1 CAATTATACACATGAAACTTTGATCATGGAT
* * * * *
2012593 CAAGTGTACACATGTAATTTTGATTAT-GATT
1 CAATTATACACATGAAACTTTGATCATGGA-T
2012624 CAATTATACACAT
1 CAATTATACACAT
2012637 TTAAATAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (31 bp):
CAATTATACACATGAAACTTTGATCATGGAT
Found at i:2013286 original size:12 final size:13
Alignment explanation
Indices: 2013269--2013297 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2013259 ATTTTCTTTC
2013269 TTTTTATTTT-TA
1 TTTTTATTTTATA
2013281 TTTTTATTTTATA
1 TTTTTATTTTATA
2013294 TTTT
1 TTTT
2013298 ATGTCCCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTTATA
Found at i:2017402 original size:86 final size:87
Alignment explanation
Indices: 2017292--2017456 Score: 260
Period size: 90 Copynumber: 1.9 Consensus size: 87
2017282 AAAAAATACA
* * *
2017292 TATAAAGATTCGAAAATT-AAAAAAACTATATATTATTTATTCCTTAAATGATAATAAGGTCAAT
1 TATAAAGAATCAAAAATTAAAAAAAACTATATATTATTTACTCCTTAAATGATAATAAGGTCAAT
2017356 CTAAAGTTTGAAGTATCCATTT
66 CTAAAGTTTGAAGTATCCATTT
*
2017378 TATAAAGAATCAAAAATTAAAAAAAAAAACTATATATTATTTACTCCTTAAATGGTAATAAGGTC
1 TATAAAGAATCAAAAATT---AAAAAAAACTATATATTATTTACTCCTTAAATGATAATAAGGTC
2017443 AATCTAAAGTTTGA
63 AATCTAAAGTTTGA
2017457 CGCGTCCAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
86 16 0.23
90 55 0.77
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (87 bp):
TATAAAGAATCAAAAATTAAAAAAAACTATATATTATTTACTCCTTAAATGATAATAAGGTCAAT
CTAAAGTTTGAAGTATCCATTT
Found at i:2017838 original size:10 final size:10
Alignment explanation
Indices: 2017823--2017849 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2017813 ACGACAATTA
2017823 AAATTTTAAG
1 AAATTTTAAG
2017833 AAATTTTAAG
1 AAATTTTAAG
2017843 AAATTTT
1 AAATTTT
2017850 TTGTACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (10 bp):
AAATTTTAAG
Found at i:2021998 original size:39 final size:41
Alignment explanation
Indices: 2021955--2022038 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
2021945 CCAACACATA
* * *
2021955 TTTTAG-TTTCG-TATCATATCTAAAATGGATATTTAGCCC
1 TTTTAGTTTTCGATATCATATCTAAAATGAATATTAAGCAC
2021994 TTTTAGTTTTCGATATCATATCTAAAATGAATATTAAGCAC
1 TTTTAGTTTTCGATATCATATCTAAAATGAATATTAAGCAC
2022035 TTTT
1 TTTT
2022039 TAACCTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 6 0.15
40 5 0.12
41 29 0.73
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (41 bp):
TTTTAGTTTTCGATATCATATCTAAAATGAATATTAAGCAC
Found at i:2023494 original size:15 final size:16
Alignment explanation
Indices: 2023476--2023507 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2023466 TTAATAAATC
2023476 ATATGTTAA-ATATTA
1 ATATGTTAATATATTA
2023491 ATATGTTAATATATTA
1 ATATGTTAATATATTA
2023507 A
1 A
2023508 CAATATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATATGTTAATATATTA
Found at i:2033956 original size:4 final size:4
Alignment explanation
Indices: 2033939--2033968 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
2033929 TCCCTCCGCA
2033939 CCTC CCTC CTCTC CCTC CCTC CCTC CCTC C
1 CCTC CCTC C-CTC CCTC CCTC CCTC CCTC C
2033969 GGTATGCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
CCTC
Found at i:2034257 original size:22 final size:22
Alignment explanation
Indices: 2034229--2034273 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2034219 AGACAGGAAA
2034229 GATATCAGTACTTGGAAGCATC
1 GATATCAGTACTTGGAAGCATC
2034251 GATATCAGTACTTGGAAGCATC
1 GATATCAGTACTTGGAAGCATC
2034273 G
1 G
2034274 GCATCTCCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (22 bp):
GATATCAGTACTTGGAAGCATC
Found at i:2036065 original size:23 final size:23
Alignment explanation
Indices: 2036038--2036082 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
2036028 GCCCAAACCA
*
2036038 TAATTATCCAAAGTGACCAAAAT
1 TAATTATCCAAACTGACCAAAAT
2036061 TAATTATCCAAACTGACCAAAA
1 TAATTATCCAAACTGACCAAAA
2036083 ATTGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (23 bp):
TAATTATCCAAACTGACCAAAAT
Found at i:2047762 original size:348 final size:352
Alignment explanation
Indices: 2047107--2047817 Score: 1223
Period size: 348 Copynumber: 2.0 Consensus size: 352
2047097 TTCCAGTTTT
* *
2047107 TCCGGCTACAGTTTCAGTTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
1 TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
2047172 TTGTTATAAATTCAGCCATGATCACATTACTGCAAGTAATATCATTTTCATATCATTTTTTACAA
66 TTGTTATAAATTCAGCCATGATCACATTACTGCAAG----ATCA---T-ATATCATTTTTTACAA
* * *
2047237 CGCCACCTAGGCTGAATCTGAAAAAAGTTATAGTGGTGGGCGAAAACTTCAGTTGTTAACTCTAT
123 CGCCACCTAGGCTGAATCTGAAAAAAGTTACAGTGGTGGGCGAAAACTTCAATTGTTAACTCTAC
2047302 GGAGAGCAAACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGG
188 GGAGAGCAAACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGG
2047367 GTTTATATCTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCA-TTTTTTTTTTTAAATCAG
253 GTTTATATCTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCATTTTTTTTTTTTAAATCAG
2047431 ATTATAAGATTGTAAACAGATATAAACCTTCCATC
318 ATTATAAGATTGTAAACAGATATAAACCTTCCATC
2047466 TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
1 TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
*
2047531 TTGTTATAACTTCAGCCATGATCACATTACTGCAAG-T-A-ATATCATTTTTTACAACGCCACCT
66 TTGTTATAAATTCAGCCATGATCACATTACTGCAAGATCATATATCATTTTTTACAACGCCACCT
* * *
2047593 AGGCTGAATCTGAAAAAGGTTACAGTGGTGGGTGAAAACTTTAATTGTTAACTCTACGGAGAGCA
131 AGGCTGAATCTGAAAAAAGTTACAGTGGTGGGCGAAAACTTCAATTGTTAACTCTACGGAGAGCA
2047658 AACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGGGTTTATAT
196 AACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGGGTTTATAT
*
2047723 CTTGGGTAAGAAACTAGAAATGAATCAAGTTGGAACCATTTTTTTTTTTTAAATCAGATTATAAG
261 CTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCATTTTTTTTTTTTAAATCAGATTATAAG
*
2047788 ATTGTAAACAGGTATAAACCTTCCATC
326 ATTGTAAACAGATATAAACCTTCCATC
2047815 TCC
1 TCC
2047818 AGCAGAAGCC
Statistics
Matches: 340, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
348 185 0.54
349 55 0.16
353 1 0.00
354 1 0.00
359 98 0.29
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (352 bp):
TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
TTGTTATAAATTCAGCCATGATCACATTACTGCAAGATCATATATCATTTTTTACAACGCCACCT
AGGCTGAATCTGAAAAAAGTTACAGTGGTGGGCGAAAACTTCAATTGTTAACTCTACGGAGAGCA
AACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGGGTTTATAT
CTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCATTTTTTTTTTTTAAATCAGATTATAAG
ATTGTAAACAGATATAAACCTTCCATC
Found at i:2048587 original size:3 final size:3
Alignment explanation
Indices: 2048579--2048606 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2048569 AACGTTAAAT
2048579 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
2048607 ATACTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2049790 original size:22 final size:22
Alignment explanation
Indices: 2049732--2049792 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
2049722 AGAGATCAAA
2049732 ATTAAATTATAATTTTTACAAT
1 ATTAAATTATAATTTTTACAAT
* *
2049754 AGTAAAAATATAATTTTTA-AATT
1 A-TTAAATTATAATTTTTACAA-T
*
2049777 ATTAAATTAAAATTTT
1 ATTAAATTATAATTTT
2049793 ATCATTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAAATTATAATTTTTACAAT
Found at i:2049950 original size:30 final size:30
Alignment explanation
Indices: 2049914--2049973 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
2049904 CCAACTCCCC
*
2049914 TAGATTCGCCCCTGAATAGGATCTAGTTAA
1 TAGATTCGCCCCTGAATAAGATCTAGTTAA
*
2049944 TAGATTCGCCCCTGACTAAGATCTAGTTAA
1 TAGATTCGCCCCTGAATAAGATCTAGTTAA
2049974 GCCATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (30 bp):
TAGATTCGCCCCTGAATAAGATCTAGTTAA
Found at i:2050582 original size:25 final size:27
Alignment explanation
Indices: 2050556--2050606 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
2050546 TTGAATAAAT
*
2050556 TTTTAT-AATTTTTAAT-ATTT-TTTA
1 TTTTATAAATTTATAATAATTTATTTA
2050580 TTTTATAAATTTATAATAATTTATTTA
1 TTTTATAAATTTATAATAATTTATTTA
2050607 ATTAAACCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 9 0.39
26 4 0.17
27 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTATAAATTTATAATAATTTATTTA
Found at i:2055437 original size:9 final size:9
Alignment explanation
Indices: 2055423--2055450 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2055413 TCACTTAGGC
2055423 TAGCACATT
1 TAGCACATT
2055432 TAGCACATT
1 TAGCACATT
2055441 TAGCACATT
1 TAGCACATT
2055450 T
1 T
2055451 TTGTGCCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (9 bp):
TAGCACATT
Found at i:2062061 original size:133 final size:132
Alignment explanation
Indices: 2061839--2062193 Score: 557
Period size: 133 Copynumber: 2.7 Consensus size: 132
2061829 GATAAGGCCG
* * *
2061839 GTGGCTAAAATCTGCTTCATAGCCGATACATGGAGATAAGACTACCATTCCTGATCTGCTCCATA
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTGCCATTTCTGATCTGCTCCATA
* *
2061904 GTCGATACACGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
66 GCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
2061969 TT
131 TT
* * * *
2061971 GTGGCTAAAATCTGCTCCATAGCCGAGACATAGAGATAAGACTCGCCATTTCTGATTTACTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACT-GCCATTTCTGATCTGCTCCAT
* *
2062036 AGCCGATATATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
65 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGA
2062101 CTT
130 CTT
* * * *
2062104 ATAGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGGCTTGCTATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGAC-TGCCATTTCTGATCTGCTCCAT
2062169 AGCCGATACATGGAGATAAGATCTG
65 AGCCGATACATGGAGATAAGATCTG
2062194 GTATTTAGCT
Statistics
Matches: 201, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
132 40 0.20
133 160 0.80
134 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (132 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTGCCATTTCTGATCTGCTCCATA
GCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
TT
Found at i:2062199 original size:45 final size:43
Alignment explanation
Indices: 2061848--2062199 Score: 179
Period size: 45 Copynumber: 7.9 Consensus size: 43
2061838 GGTGGCTAAA
* ** *
2061848 ATCTGCTTCATAGCCGATACATGGAGATAAGACTACCATTCCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-GTATTTCTG
* * *
2061892 ATCTGCTCCATAGTCGATACACGGAGATAAGATCTGTAATTT-TC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CTGT-ATTTCTG
* * * ** *
2061936 AGTCTGCTTCC-TA--CAACTTCA-GGAAGATAAGACT-TGTGGCTAAA
1 A-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTGTATTTCT--G
* * *
2061980 ATCTGCTCCATAGCCGAGACATAGAGATAAGACTCGCCATTTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-G-TATTTCTG
* * * *
2062025 ATTTACTCCATAGCCGATATATGGAGATAAGATCTGTAATTT-TC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CTGT-ATTTCTG
* * ** *
2062069 AGTCTGCTTCC-T-G-CAACTTCA-GGAAGATAAGACT-TATAGCTAAA
1 A-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTGTATTTCT--G
*
2062113 ATCTGCTCCATAGCCGATACATGGAGATAAGGCTTGCTATTTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGAC-TG-TATTTCTG
2062158 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGGTATTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CT-GTATTT
2062200 AGCTTGCTCC
Statistics
Matches: 230, Mismatches: 44, Indels: 67
0.67 0.13 0.20
Matches are distributed among these distances:
41 3 0.01
42 10 0.04
43 25 0.11
44 81 0.35
45 93 0.40
46 10 0.04
47 8 0.03
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTGTATTTCTG
Found at i:2062520 original size:268 final size:268
Alignment explanation
Indices: 2062182--2062862 Score: 1093
Period size: 268 Copynumber: 2.5 Consensus size: 268
2062172 CGATACATGG
* *
2062182 AGATAAGATCTGGTA--TTTAGCTTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * *
2062245 ATCTGCTCCA-TCCCTGGTACGTGGAGATAAAATTCTCCAAAGTTCGATCTGCTTCACTCCTGCT
66 ATCTGCTCCATTGCC-GGTACGTGGAGATAAGATTCTCCAAAGTTTGATCTGCTTCACTCCTGCT
2062309 CAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAGC
130 CAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAGC
* *
2062374 TGAAAACTGCTCCATTGCCAATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTT-ACTCC
195 TGAAAACTGCTCCATTACCAATACATAAAGATAAGACTTGCCAAAATTTGATCTG-TTTCACTCC
2062438 TGCTCAGTGA
259 TGCTCAGTGA
* *
2062448 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTACTCAGTGAAGATAAGGCTGATGATTAGA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
*
2062513 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCTAAAGTTTGATCTGCTTCACTCCTGCTC
66 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAGTTTGATCTGCTTCACTCCTGCTC
* *
2062578 AGTGAAGATAAGATTTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCT
131 AGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAGCT
* * *
2062643 GAAATCTGCTCCATTACCGATACATAAAGATAAGACTTGCCAAAATTTGATCTGTTTCATTCCTG
196 GAAAACTGCTCCATTACCAATACATAAAGATAAGACTTGCCAAAATTTGATCTGTTTCACTCCTG
2062708 CTCAGTGA
261 CTCAGTGA
2062716 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * * * *
2062781 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGC-CCTGCTTCTGCT
66 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAGTTTGATCTGCTTC-ACTCCTGCT
*
2062845 CAGCGAAGATAAGATCTG
130 CAGTGAAGATAAGATCTG
2062863 TAATTTTAGC
Statistics
Matches: 383, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
266 15 0.04
267 4 0.01
268 361 0.94
269 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (268 bp):
AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAGTTTGATCTGCTTCACTCCTGCTC
AGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAGCT
GAAAACTGCTCCATTACCAATACATAAAGATAAGACTTGCCAAAATTTGATCTGTTTCACTCCTG
CTCAGTGA
Found at i:2062525 original size:135 final size:132
Alignment explanation
Indices: 2062182--2062862 Score: 886
Period size: 133 Copynumber: 5.1 Consensus size: 132
2062172 CGATACATGG
* * *
2062182 AGATAAGATCTGGTATTTAGCTTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTAGAAT
* * * * * * * *
2062247 CTGCTCCA-TCCCTGGTACGTGGAGATAAAATTCTCCAAAGTTCGATCTGCTTCACTCCTGCTCA
66 CTGCTCCATTGCC-GATACATGGAGATAAGATT-GCCAAAATTTGATCTGCTTTACTCCTGCTCA
2062311 GTGA
129 GTGA
* *
2062315 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAGCTGA-AA
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT-GATTAGAA
* * *
2062379 ACTGCTCCATTGCCAATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTTACTCCTGCTCA
65 TCTGCTCCATTGCCGATACATGGAGATAAGA-TTGCCAAAATTTGATCTGCTTTACTCCTGCTCA
2062444 GTGA
129 GTGA
*
2062448 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTACTCAGTGAAGATAAGGCTGATGATTAGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTAGA
* * * *
2062513 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATT-CTCTAAAGTTTGATCTGCTTCACTCCTGCT
64 ATCTGCTCCATTGCCGATACATGGAGATAAGATTGC-C-AAAATTTGATCTGCTTTACTCCTGCT
2062577 CAGTGA
127 CAGTGA
* **
2062583 AGATAAGATTTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCT-GAAA
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTAG-AA
* ** *
2062647 TCTGCTCCATTACCGATACATAAAGATAAGACTTGCCAAAATTTGATCTG-TTTCATTCCTGCTC
65 TCTGCTCCATTGCCGATACATGGAGATAAGA-TTGCCAAAATTTGATCTGCTTT-ACTCCTGCTC
2062711 AGTGA
128 AGTGA
*
2062716 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTAGA
* ** * *
2062781 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCCCTGCTTCTGCTC
64 ATCTGCTCCATTGCCGATACATGGAGATAAGATT-GCCAAAATTTGATCTGCTTTACTCCTGCTC
*
2062846 AGCGA
128 AGTGA
2062851 AGATAAGATCTG
1 AGATAAGATCTG
2062863 TAATTTTAGC
Statistics
Matches: 480, Mismatches: 51, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
132 3 0.01
133 233 0.49
134 18 0.04
135 224 0.47
136 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTAGAAT
CTGCTCCATTGCCGATACATGGAGATAAGATTGCCAAAATTTGATCTGCTTTACTCCTGCTCAGT
GA
Found at i:2064334 original size:14 final size:16
Alignment explanation
Indices: 2064315--2064349 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2064305 CTCCAGTTTC
2064315 TTTTTC-TTTTCT-TT
1 TTTTTCTTTTTCTCTT
2064329 TTTTTCTTTTTCTCTT
1 TTTTTCTTTTTCTCTT
2064345 TTTTT
1 TTTTT
2064350 TGAAACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTTCTCTT
Found at i:2064336 original size:20 final size:20
Alignment explanation
Indices: 2064311--2064350 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2064301 GCCTCTCCAG
2064311 TTTCTTTTTCT-TTTCTTTTT
1 TTTCTTTTTCTCTTT-TTTTT
2064331 TTTCTTTTTCTCTTTTTTTT
1 TTTCTTTTTCTCTTTTTTTT
2064351 GAAACTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTCTTTTTCTCTTTTTTTT
Found at i:2068292 original size:22 final size:23
Alignment explanation
Indices: 2068245--2068303 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
2068235 AAGGCCAAGC
*
2068245 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
2068270 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
2068292 TATTTAC-ATAAA
1 TATATACAATAAA
2068304 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:2069156 original size:27 final size:25
Alignment explanation
Indices: 2069125--2069177 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
2069115 TCACGCAAAA
*
2069125 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAGGAAAGAA-AATAA-AAAATC
* *
2069152 AGAAAGGGAAAGAAACTAAAAAATC
1 AGAAAAGGAAAGAAAATAAAAAATC
2069177 A
1 A
2069178 CCTTTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.11
Consensus pattern (25 bp):
AGAAAAGGAAAGAAAATAAAAAATC
Found at i:2071574 original size:30 final size:30
Alignment explanation
Indices: 2071527--2071650 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
2071517 TCTATATTTA
* * *
2071527 TGGAAAATCAAAGATATGAGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* * *
2071557 TAGAAAGTCAAAAATATGGGTATCAAGTAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
2071587 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
2071617 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
2071648 TGG
1 TGG
2071651 CATAATAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 75 0.90
31 8 0.10
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:2071582 original size:15 final size:15
Alignment explanation
Indices: 2071564--2071640 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
2071554 TAATAGAAAG
*
2071564 TCAAAAATATGGGTA
1 TCAAAGATATGGGTA
**
2071579 TC-AAG-TATTGGAAA
1 TCAAAGATA-TGGGTA
2071593 GTCAAAGATATGGGTA
1 -TCAAAGATATGGGTA
* **
2071609 TCAAATAT-TGGAAA
1 TCAAAGATATGGGTA
2071623 GTCAAAGATATGGGTA
1 -TCAAAGATATGGGTA
2071639 TC
1 TC
2071641 GAGATATTGG
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
13 2 0.04
14 10 0.22
15 20 0.44
16 11 0.24
17 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
TCAAAGATATGGGTA
Found at i:2076245 original size:15 final size:15
Alignment explanation
Indices: 2076225--2076332 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
2076215 TTTATGGAAA
2076225 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
2076240 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
2076254 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
2076270 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
2076284 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
2076300 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
2076314 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
2076330 ATC
1 ATC
2076333 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:2076262 original size:30 final size:30
Alignment explanation
Indices: 2076219--2076342 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
2076209 TCCATATTTA
* *
2076219 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
2076249 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
2076279 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
2076309 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
2076340 TGG
1 TGG
2076343 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:2077572 original size:32 final size:32
Alignment explanation
Indices: 2077533--2077602 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
2077523 ATATTATCAC
2077533 TCATCATCGTACTATTAACTGTGAGTACCATA
1 TCATCATCGTACTATTAACTGTGAGTACCATA
2077565 TCATCATCGTACTATTAACTGTGAGTACCATA
1 TCATCATCGTACTATTAACTGTGAGTACCATA
2077597 TCATCA
1 TCATCA
2077603 CATTATAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (32 bp):
TCATCATCGTACTATTAACTGTGAGTACCATA
Found at i:2088698 original size:23 final size:23
Alignment explanation
Indices: 2088634--2088698 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
2088624 AAAATTTTAG
2088634 AATTAAAATTAAGA-TTTTATAT
1 AATTAAAATTAAGATTTTTATAT
* * * *
2088656 AACTTTAAATTGATATTTTTTATTT
1 AA-TTAAAATTAAGA-TTTTTATAT
2088681 AATTAAAATTAAGATTTT
1 AATTAAAATTAAGATTTT
2088699 AGAATTAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 9 0.27
25 9 0.27
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
AATTAAAATTAAGATTTTTATAT
Found at i:2088706 original size:24 final size:23
Alignment explanation
Indices: 2088634--2088706 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 23
2088624 AAAATTTTAG
*
2088634 AATTAAAATTAAGATTTTATA-T
1 AATTAAAATTAAGATTTTAAATT
* * * * *
2088656 AACTTTAAATTGATATTTTTTATTT
1 AA-TTAAAATTAAGA-TTTTAAATT
2088681 AATTAAAATTAAGATTTTAGAATT
1 AATTAAAATTAAGATTTTA-AATT
2088705 AA
1 AA
2088707 AATTTTGGAT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 2 0.06
23 13 0.36
24 18 0.50
25 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (23 bp):
AATTAAAATTAAGATTTTAAATT
Found at i:2102268 original size:19 final size:19
Alignment explanation
Indices: 2102219--2102257 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2102209 TTTTTACATG
2102219 AAAATATGTTTATAATTAA
1 AAAATATGTTTATAATTAA
2102238 AAAATATGTTTATAATTAA
1 AAAATATGTTTATAATTAA
2102257 A
1 A
2102258 CTATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AAAATATGTTTATAATTAA
Found at i:2112536 original size:17 final size:18
Alignment explanation
Indices: 2112514--2112548 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2112504 GCGGATTTAA
*
2112514 TTAAAA-TAATTTGAAAT
1 TTAAAATTAATTTAAAAT
2112531 TTAAAATTAATTTAAAAT
1 TTAAAATTAATTTAAAAT
2112549 CTCTAAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAAAATTAATTTAAAAT
Found at i:2113871 original size:14 final size:12
Alignment explanation
Indices: 2113829--2113862 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2113819 TAAATTACAT
*
2113829 AATAAATAAT-A
1 AATAAAAAATAA
2113840 AATAAAAAATAA
1 AATAAAAAATAA
2113852 AATAAAAAATA
1 AATAAAAAATA
2113863 TATTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:2119301 original size:18 final size:18
Alignment explanation
Indices: 2119278--2119319 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2119268 TCAATTGACT
2119278 AAAAAAACTATT-ATCATA
1 AAAAAAACTATTCA-CATA
*
2119296 AAAAAAATTATTCACATA
1 AAAAAAACTATTCACATA
2119314 AAAAAA
1 AAAAAA
2119320 CAAAAGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAAACTATTCACATA
Found at i:2124521 original size:27 final size:28
Alignment explanation
Indices: 2124490--2124625 Score: 93
Period size: 27 Copynumber: 4.8 Consensus size: 28
2124480 ACATTTTTTT
2124490 TCTAATTTGGTACCTAAACTTTTTTGGC
1 TCTAATTTGGTACCTAAACTTTTTTGGC
*
2124518 -CTAATTTGGTA-CTGAAA-TGTTTTTTGC
1 TCTAATTTGGTACCT-AAACT-TTTTTGGC
* * **
2124545 TCCAAGTTGGTACCTAAACTTAACATTTTTTTC
1 TCTAATTTGGTACCTAAAC-T----TTTTTGGC
* * *
2124578 CCTAATTTGGTACCTATA-TTTTTTAGGT
1 TCTAATTTGGTACCTAAACTTTTTT-GGC
2124606 TC-AATTTGGTACCTAAACTT
1 TCTAATTTGGTACCTAAACTT
2124626 GTTAATACAA
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
26 3 0.04
27 40 0.48
28 15 0.18
29 2 0.02
30 1 0.01
31 1 0.01
33 21 0.25
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (28 bp):
TCTAATTTGGTACCTAAACTTTTTTGGC
Found at i:2132391 original size:27 final size:27
Alignment explanation
Indices: 2132359--2132413 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2132349 GTGAAAAAAA
2132359 AAACATTTATACGTGTTTATTAAAAGT
1 AAACATTTATACGTGTTTATTAAAAGT
2132386 AAACATTTATACGTGTTTATTAAAAGT
1 AAACATTTATACGTGTTTATTAAAAGT
2132413 A
1 A
2132414 TCTCACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (27 bp):
AAACATTTATACGTGTTTATTAAAAGT
Found at i:2134238 original size:19 final size:18
Alignment explanation
Indices: 2134194--2134240 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
2134184 TTTTGGAATT
2134194 TAAATTTTAAATTTTATA
1 TAAATTTTAAATTTTATA
* *
2134212 TGATTTTTAGAATTTTAT-
1 TAAATTTTA-AATTTTATA
2134230 TAAAATTTTAA
1 T-AAATTTTAA
2134241 TATATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TAAATTTTAAATTTTATA
Found at i:2136159 original size:23 final size:23
Alignment explanation
Indices: 2136132--2136177 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2136122 TCATTTCTTC
2136132 TCATCAATTATTGTTTTTCTGTA
1 TCATCAATTATTGTTTTTCTGTA
2136155 TCATCAATTATTGTTTTTCTGTA
1 TCATCAATTATTGTTTTTCTGTA
2136178 CTTATATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.57
Consensus pattern (23 bp):
TCATCAATTATTGTTTTTCTGTA
Found at i:2142705 original size:21 final size:21
Alignment explanation
Indices: 2142679--2142723 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2142669 CCCGTAGGCC
2142679 AATATTCATAATTAT-TACATT
1 AATATT-ATAATTATATACATT
* *
2142700 AATATTATATTTATATATATT
1 AATATTATAATTATATACATT
2142721 AAT
1 AAT
2142724 GTTTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTATAATTATATACATT
Found at i:2158233 original size:20 final size:23
Alignment explanation
Indices: 2158177--2158241 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 23
2158167 GTAAGATTTT
*
2158177 TGAATTATTAATAAAAAATAATAA
1 TGAATTATTAAT-AAAAACAATAA
2158201 TGAATTATTAATAAAAACAATAA
1 TGAATTATTAATAAAAACAATAA
2158224 T-AA-T-TTAATAAAAACAAT
1 TGAATTATTAATAAAAACAAT
2158242 TTATACAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 14 0.35
21 1 0.03
22 2 0.05
23 11 0.28
24 12 0.30
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (23 bp):
TGAATTATTAATAAAAACAATAA
Found at i:2163804 original size:45 final size:45
Alignment explanation
Indices: 2163755--2163849 Score: 190
Period size: 45 Copynumber: 2.1 Consensus size: 45
2163745 TTTTACATTA
2163755 TATTATCAAATCAAATTCACAATATTTTAAATTAATTATTTTTAT
1 TATTATCAAATCAAATTCACAATATTTTAAATTAATTATTTTTAT
2163800 TATTATCAAATCAAATTCACAATATTTTAAATTAATTATTTTTAT
1 TATTATCAAATCAAATTCACAATATTTTAAATTAATTATTTTTAT
2163845 TATTA
1 TATTA
2163850 GTTTCGATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.49
Consensus pattern (45 bp):
TATTATCAAATCAAATTCACAATATTTTAAATTAATTATTTTTAT
Found at i:2164812 original size:26 final size:25
Alignment explanation
Indices: 2164762--2164812 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
2164752 TAAAATTATC
*
2164762 TTTTAAAATAAAAAATTATTTAATT
1 TTTTAAAATAAAAAATTATTAAATT
2164787 TTTTAAAAATAATAAAATTA-TAAATT
1 TTTT-AAAATAA-AAAATTATTAAATT
2164813 AATATGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTAAAATAAAAAATTATTAAATT
Found at i:2168592 original size:22 final size:22
Alignment explanation
Indices: 2168567--2168610 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2168557 TATTCATGAC
*
2168567 CAAATATATATGATACAA-ATAT
1 CAAATATA-ATAATACAATATAT
2168589 CAAATATAATAATACAATATAT
1 CAAATATAATAATACAATATAT
2168611 TTTTGAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (22 bp):
CAAATATAATAATACAATATAT
Found at i:2171815 original size:28 final size:28
Alignment explanation
Indices: 2171759--2171816 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
2171749 CGTTGAAAGG
* *
2171759 AATTAAATCTCAAATTTTAAAGTACTAT
1 AATTAAATCTCAAATTCTAAAGAACTAT
*
2171787 AATTAAATCTCAAATTCTAAAGAAGTAT
1 AATTAAATCTCAAATTCTAAAGAACTAT
2171815 AA
1 AA
2171817 GGACTAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.34
Consensus pattern (28 bp):
AATTAAATCTCAAATTCTAAAGAACTAT
Found at i:2177083 original size:153 final size:153
Alignment explanation
Indices: 2176797--2177084 Score: 407
Period size: 153 Copynumber: 1.9 Consensus size: 153
2176787 GAACGGAAAA
* *
2176797 TTTCCTCTTTTTACTTGAACAACTAACGATTTCAACATCTGGGCATCTTTCCTTTCCCTTCAAAT
1 TTTCCTCTTTATACTTGAACAACTAACGATTTCAACATCTGGGCATCTTTCCTTTCCCTCCAAAT
* ** * * *
2176862 CGACACCAAAAACAACACTTCCTGAGTTTGTGAAGTTTTCTGTTTCTTTCTCGGGAAACCCAATA
66 CGACACCAAAAACAACACTTCCTGACTCGGTGAAATTTTCCGTTTCTTTCTCGGGAAACCCAAAA
2176927 TCAAAAACGACATTGGGGCTTCT
131 TCAAAAACGACATTGGGGCTTCT
* ** * *
2176950 TTTCGTCTTTATACTTGAAGGACTAACGATTTCAACA-CTTGGGCTTCTTTCCTTTCTCTCCAAA
1 TTTCCTCTTTATACTTGAACAACTAACGATTTCAACATC-TGGGCATCTTTCCTTTCCCTCCAAA
* ** *
2177014 TCGACACCAAGAACAACACTTTGTGACTCGGTGAAATTTTCCGTTTGTTTCTCGGGAAACCCAAA
65 TCGACACCAAAAACAACACTTCCTGACTCGGTGAAATTTTCCGTTTCTTTCTCGGGAAACCCAAA
2177079 ATCAAA
130 ATCAAA
2177085 CCCCCCAAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
152 1 0.01
153 116 0.99
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (153 bp):
TTTCCTCTTTATACTTGAACAACTAACGATTTCAACATCTGGGCATCTTTCCTTTCCCTCCAAAT
CGACACCAAAAACAACACTTCCTGACTCGGTGAAATTTTCCGTTTCTTTCTCGGGAAACCCAAAA
TCAAAAACGACATTGGGGCTTCT
Found at i:2178070 original size:12 final size:12
Alignment explanation
Indices: 2178053--2178094 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2178043 ATATGAACTG
2178053 GTTAAAAAATTA
1 GTTAAAAAATTA
*
2178065 GTTAAATTAA-TA
1 GTTAAA-AAATTA
2178077 GTTAAAAAATTA
1 GTTAAAAAATTA
*
2178089 ATTAAA
1 GTTAAA
2178095 TTAATAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (12 bp):
GTTAAAAAATTA
Found at i:2178085 original size:24 final size:24
Alignment explanation
Indices: 2178053--2178120 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
2178043 ATATGAACTG
2178053 GTTAAAAAATTAGTTAAATTAATA
1 GTTAAAAAATTAGTTAAATTAATA
*
2178077 GTTAAAAAATTAATTAAATTAATA
1 GTTAAAAAATTAGTTAAATTAATA
*
2178101 GTTAAATTAA-TAGTTAAATT
1 GTTAAA-AAATTAGTTAAATT
2178121 TGAAGTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 38 0.95
25 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (24 bp):
GTTAAAAAATTAGTTAAATTAATA
Found at i:2178105 original size:12 final size:12
Alignment explanation
Indices: 2178063--2178120 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
2178053 GTTAAAAAAT
2178063 TAGTTAAATTAA
1 TAGTTAAATTAA
*
2178075 TAGTTAAA-AAA
1 TAGTTAAATTAA
*
2178086 TTAATTAAATTAA
1 -TAGTTAAATTAA
2178099 TAGTTAAATTAA
1 TAGTTAAATTAA
2178111 TAGTTAAATT
1 TAGTTAAATT
2178121 TGAAGTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
11 2 0.05
12 36 0.90
13 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
TAGTTAAATTAA
Found at i:2180428 original size:18 final size:18
Alignment explanation
Indices: 2180386--2180429 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
2180376 TTAAATTTAA
*
2180386 ATTAATTATAAAAATATT
1 ATTAAATATAAAAATATT
*
2180404 AAT-AATATAAAAATATT
1 ATTAAATATAAAAATATT
*
2180421 TTTAAATAT
1 ATTAAATAT
2180430 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAATATAAAAATATT
Found at i:2188544 original size:5 final size:5
Alignment explanation
Indices: 2188536--2188578 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
2188526 CAAAAACTAT
*
2188536 AAATA AAATA TAAATA AAA-A ATAT- AAATA AAATA AAATA AAAT
1 AAATA AAATA -AAATA AAATA AAATA AAATA AAATA AAATA AAAT
2188579 TTATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 22 0.67
6 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:2188547 original size:11 final size:11
Alignment explanation
Indices: 2188528--2188578 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
2188518 ATATTATACA
2188528 AAAACTATAAAT
1 AAAA-TATAAAT
2188540 AAAATATAAAT
1 AAAATATAAAT
2188551 AAAAAATATAAAT
1 --AAAATATAAAT
2188564 AAAATA-AAAT
1 AAAATATAAAT
2188574 AAAAT
1 AAAAT
2188579 TTATTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.24
11 13 0.35
12 4 0.11
13 11 0.30
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:2188556 original size:13 final size:13
Alignment explanation
Indices: 2188527--2188567 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
2188517 TATATTATAC
*
2188527 AAAAACTATAAAT
1 AAAAAATATAAAT
2188540 --AAAATATAAAT
1 AAAAAATATAAAT
2188551 AAAAAATATAAAT
1 AAAAAATATAAAT
2188564 AAAA
1 AAAA
2188568 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 10 0.40
13 15 0.60
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAATATAAAT
Found at i:2188560 original size:24 final size:23
Alignment explanation
Indices: 2188527--2188577 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
2188517 TATATTATAC
*
2188527 AAAAACTATAAATAAAATATAAAT
1 AAAAAATATAAATAAAATA-AAAT
2188551 AAAAAATATAAATAAAATAAAAT
1 AAAAAATATAAATAAAATAAAAT
2188574 AAAA
1 AAAA
2188578 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAATATAAATAAAATAAAAT
Found at i:2193135 original size:5 final size:6
Alignment explanation
Indices: 2193120--2193144 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2193110 CAAAGCTTGA
2193120 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
2193145 GACCGGCGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:2195031 original size:26 final size:27
Alignment explanation
Indices: 2195001--2195055 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
2194991 TTTTTTAGTC
*
2195001 AAAT-AAACTTTTAATTTGTATTAATT
1 AAATAAAACTTATAATTTGTATTAATT
2195027 AAATAACCAAACTTATAATTTGTATTAAT
1 AAAT-A--AAACTTATAATTTGTATTAAT
2195056 CCCAACATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
30 20 0.83
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (27 bp):
AAATAAAACTTATAATTTGTATTAATT
Found at i:2202070 original size:23 final size:23
Alignment explanation
Indices: 2202044--2202118 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 23
2202034 GGAAATTATG
2202044 TATTTAAATTTAAAAATAATATA
1 TATTTAAATTTAAAAATAATATA
*
2202067 TA-TTAAATATAAAAA-AATATA
1 TATTTAAATTTAAAAATAATATA
* *
2202088 TGATTTGAAA-TTAATAATATTATTA
1 T-ATTT-AAATTTAAAAATAATA-TA
2202113 TATTTA
1 TATTTA
2202119 TAATATTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 7 0.16
22 13 0.30
23 10 0.23
24 10 0.23
25 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (23 bp):
TATTTAAATTTAAAAATAATATA
Found at i:2202080 original size:21 final size:22
Alignment explanation
Indices: 2202047--2202088 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2202037 AATTATGTAT
* *
2202047 TTAAATTTAAAAATAATATATA
1 TTAAATATAAAAAAAATATATA
2202069 TTAAATAT-AAAAAAATATAT
1 TTAAATATAAAAAAAATATAT
2202089 GATTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATATAAAAAAAATATATA
Found at i:2209538 original size:11 final size:12
Alignment explanation
Indices: 2209508--2209541 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2209498 AGCGTTGAAT
2209508 TTTAAAAATACA
1 TTTAAAAATACA
*
2209520 TTTAAAAATATA
1 TTTAAAAATACA
2209532 TTTAAAAATA
1 TTTAAAAATA
2209542 AGGTTTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TTTAAAAATACA
Found at i:2217660 original size:19 final size:20
Alignment explanation
Indices: 2217636--2217679 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
2217626 ATTTTTAAAA
*
2217636 AAAAATTGTTAAAAA-TAAT
1 AAAAATTGTAAAAAAGTAAT
*
2217655 AAAAA-TGTAAAAAAGTATT
1 AAAAATTGTAAAAAAGTAAT
2217674 AAAAAT
1 AAAAAT
2217680 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAAATTGTAAAAAAGTAAT
Found at i:2217698 original size:40 final size:40
Alignment explanation
Indices: 2217644--2217723 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
2217634 AAAAAAATTG
*
2217644 TTAAAAATAATAAAAATGTA-AAAAAG-TATTAAAAATATAT
1 TTAAAAATAAT-AAAAT-TATAAAAAGTTATAAAAAATATAT
** *
2217684 TTAAAAATTGTAAAATTATTAAAAGTTATAAAAAATATAT
1 TTAAAAATAATAAAATTATAAAAAGTTATAAAAAATATAT
2217724 AATTTTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
38 2 0.06
39 10 0.29
40 22 0.65
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (40 bp):
TTAAAAATAATAAAATTATAAAAAGTTATAAAAAATATAT
Found at i:2217717 original size:19 final size:20
Alignment explanation
Indices: 2217644--2217723 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 20
2217634 AAAAAAATTG
* *
2217644 TTAAAAATAATAAAAATGTA
1 TTAAAAATTATAAAAATATA
*
2217664 --AAAAAGTATTAAAAATATA
1 TTAAAAATTA-TAAAAATATA
*
2217683 TTTAAAAATTGT-AAAAT-TA
1 -TTAAAAATTATAAAAATATA
*
2217702 TTAAAAGTTATAAAAAATATA
1 TTAAAAATTAT-AAAAATATA
2217723 T
1 T
2217724 AATTTTTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
18 15 0.33
19 11 0.24
20 10 0.22
21 4 0.09
22 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TTAAAAATTATAAAAATATA
Found at i:2217841 original size:30 final size:29
Alignment explanation
Indices: 2217807--2217863 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
2217797 TTGAAAATAC
* * *
2217807 TTTTTAATCATTTTTACAATTTTTAAAATT
1 TTTTTAATAACTTTTAC-ATTTTAAAAATT
2217837 TTTTTAATAACTTTTACATTTTAAAAA
1 TTTTTAATAACTTTTACATTTTAAAAA
2217864 AAAATTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTTAATAACTTTTACATTTTAAAAATT
Found at i:2217917 original size:19 final size:20
Alignment explanation
Indices: 2217886--2217941 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
2217876 TAGTAATTTT
2217886 TTTTACAAATTTT-TAATAAA
1 TTTTACAAATTTTCT-ATAAA
2217906 TTTTAC-AATTTTCTATAAA
1 TTTTACAAATTTTCTATAAA
*
2217925 TTTTAATAAATTTTCTA
1 TTTT-ACAAATTTTCTA
2217942 ACTTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.47
20 8 0.25
21 9 0.28
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTACAAATTTTCTATAAA
Found at i:2218014 original size:19 final size:20
Alignment explanation
Indices: 2217984--2218034 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
2217974 ATGACATTAG
*
2217984 AAATTCTAGTATC-ACTTAA
1 AAATTTTAGTATCGACTTAA
* **
2218003 AAATTTTGGTATCGTGTTAA
1 AAATTTTAGTATCGACTTAA
2218023 AAATTTTAGTAT
1 AAATTTTAGTAT
2218035 TGGTAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (20 bp):
AAATTTTAGTATCGACTTAA
Found at i:2218104 original size:20 final size:20
Alignment explanation
Indices: 2218079--2218225 Score: 95
Period size: 20 Copynumber: 7.4 Consensus size: 20
2218069 TTGGTATTAC
* *
2218079 TTAGAAATCTGGATATCATG
1 TTAGAAATATTGATATCATG
2218099 TTAGAAATATTGATATCCAT-
1 TTAGAAATATTGATAT-CATG
* *
2218119 TATA-AAATTTTGATATCATA
1 T-TAGAAATATTGATATCATG
* *
2218139 TTAGAAGTATTGATATCACG
1 TTAGAAATATTGATATCATG
* *
2218159 TTAGAAACT-TTGGTATTA-G
1 TTAGAAA-TATTGATATCATG
* * ***
2218178 TTAAAAATTTTGATATCGCC
1 TTAGAAATATTGATATCATG
* *
2218198 TTAGAAGTATTGATATCACG
1 TTAGAAATATTGATATCATG
*
2218218 TTAAAAAT
1 TTAGAAAT
2218226 TTTAGTATTA
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
18 1 0.01
19 18 0.18
20 73 0.74
21 6 0.06
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (20 bp):
TTAGAAATATTGATATCATG
Found at i:2218204 original size:59 final size:60
Alignment explanation
Indices: 2218122--2218259 Score: 190
Period size: 59 Copynumber: 2.3 Consensus size: 60
2218112 TATCCATTAT
* * *
2218122 AAAATTTTGATATCATATTAGAAGTATTGATATCACGTTAGAAACTTTGGTATTA-GTTA
1 AAAATTTTGATATCACATTAGAAGTATTGATATCACGTTAAAAACTTTAGTATTACGTTA
* * *
2218181 AAAATTTTGATATCGCCTTAGAAGTATTGATATCACGTTAAAAATTTTAGTATTACGTTA
1 AAAATTTTGATATCACATTAGAAGTATTGATATCACGTTAAAAACTTTAGTATTACGTTA
* *
2218241 GAAATTTTAATATC-CATTA
1 AAAATTTTGATATCACATTA
2218260 AAAATTTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 53 0.77
60 16 0.23
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.41
Consensus pattern (60 bp):
AAAATTTTGATATCACATTAGAAGTATTGATATCACGTTAAAAACTTTAGTATTACGTTA
Found at i:2218266 original size:19 final size:20
Alignment explanation
Indices: 2218218--2218266 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2218208 TGATATCACG
* *
2218218 TTAAAAATTTTAGTATTACG
1 TTAAAAATTTTAATATTACA
* *
2218238 TTAGAAATTTTAATA-TCCA
1 TTAAAAATTTTAATATTACA
2218257 TTAAAAATTT
1 TTAAAAATTT
2218267 AAAAACACTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (20 bp):
TTAAAAATTTTAATATTACA
Found at i:2219599 original size:6 final size:6
Alignment explanation
Indices: 2219588--2219614 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2219578 TTTAGTAAAT
2219588 TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TAT
2219615 AAAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:2220792 original size:44 final size:44
Alignment explanation
Indices: 2220720--2220811 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
2220710 CTGAAGTAAC
*
2220720 AGTAACAGTACGACACACAATGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACAATGTGCCTCATCGACT-GAAGGCCGA
** *
2220764 AGTAACAGTACGACAC-TTATAGTTCCTCATCGACTGAAGGCCGA
1 AGTAACAGTACGACACACAAT-GTGCCTCATCGACTGAAGGCCGA
2220808 AGTA
1 AGTA
2220812 TTCCTGAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 5 0.12
44 37 0.88
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAATGTGCCTCATCGACTGAAGGCCGA
Found at i:2221377 original size:44 final size:44
Alignment explanation
Indices: 2221305--2221396 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
2221295 CTGAAGTAAC
*
2221305 AGTAACAGTACGACACACAATATGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACAATATGCCTCATCGACT-GAAGGCCGA
** *
2221349 AGTAACAGTACGACAC-TTATAGTTCCTCATCGACTGAAGGCCGA
1 AGTAACAGTACGACACACAATA-TGCCTCATCGACTGAAGGCCGA
2221393 AGTA
1 AGTA
2221397 TTACTGAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 6 0.14
44 36 0.86
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAATATGCCTCATCGACTGAAGGCCGA
Found at i:2221595 original size:585 final size:585
Alignment explanation
Indices: 2220485--2221654 Score: 2232
Period size: 585 Copynumber: 2.0 Consensus size: 585
2220475 ATTGTTATTT
2220485 AATAACAATCAGTTATTCAGTATCAAACTATCAATACCAATCAGTTATTCAGTCCAGTAATAAAG
1 AATAACAATCAGTTATTCAGTATCAAACTATCAATACCAATCAGTTATTCAGTCCAGTAATAAAG
*
2220550 TCATTCAATTATTCAGTGCAATTGTTTACCCCTATTAACATAACTCGGACTTAGACAGATATATG
66 CCATTCAATTATTCAGTGCAATTGTTTACCCCTATTAACATAACTCGGACTTAGACAGATATATG
* *
2220615 GATCCAACCAACAAACCAGTATGGCACTCAGTGCCTCATCGGCTTTGCCGAAGTAAACAGTAGTA
131 GATCCAACCAACAAACCAGTACGGCACTCAGTGCCTCATCGGCTTTGCCGAAGTAAAAAGTAGTA
*
2220680 GTACAGTACTTAGTACCTCATTGGATTAAACTGAAGTAACAGTAACAGTACGACACACAATGTGC
196 GTACAGTACTTAGTACCTCATTGGATTAAACTGAAGTAACAGTAACAGTACGACACACAATATGC
2220745 CTCATCGACTCGAAGTCGAAGTAACAGTACGACACTTATAGTTCCTCATCGACTGAAGGCCGAAG
261 CTCATCGACTCGAAGTCGAAGTAACAGTACGACACTTATAGTTCCTCATCGACTGAAGGCCGAAG
* *
2220810 TATTCCTGAACACTTCCAATCCTATGGCATGCCAACTATATCTGACTCAACCCAATACAGTTAAT
326 TATTACTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAACCCAATACAGTTAAT
*
2220875 AGGGTATTCAATTCATTTCTCAATTCATAGTAATTAATTATTTCAATATCTATTTCACAATAATC
391 AGGGTATTCAATTCATTTCTCAATTCACAGTAATTAATTATTTCAATATCTATTTCACAATAATC
*
2220940 ACAAATTCACATACATTCAATTCAATATCAAAACACTAATACTTACCTTAATATCTTTCCATATA
456 ACAAATTCACATACATTCAATTCAATATCAAAACACTAATACTGACCTTAATATCTTTCCATATA
* *
2221005 CATCAAATAATAACATCAAAAATTTAAATGTTAAGTTCGGTTTATAGAAATACAAACCGTAATTC
521 CATCAAATAATAAAATAAAAAATTTAAATGTTAAGTTCGGTTTATAGAAATACAAACCGTAATTC
*
2221070 AATAACAATCAGTTATTCAGTATCAAACTATCAATATCAATCAGTTATTCAGTCCAGTAATAAAG
1 AATAACAATCAGTTATTCAGTATCAAACTATCAATACCAATCAGTTATTCAGTCCAGTAATAAAG
2221135 CCATTCAATTATTCAGTGCAATTGTTTACCCCTATTAACATAACTCGGACTTAGACAGATATATG
66 CCATTCAATTATTCAGTGCAATTGTTTACCCCTATTAACATAACTCGGACTTAGACAGATATATG
2221200 GATCCAACCAACAAACCAGTACGGCACTCAGTGCCTCATCGGCTTTGCCGAAGTAAAAAGTAGTA
131 GATCCAACCAACAAACCAGTACGGCACTCAGTGCCTCATCGGCTTTGCCGAAGTAAAAAGTAGTA
*
2221265 GTACGGTACTTAGTACCTCATTGGATTAAACTGAAGTAACAGTAACAGTACGACACACAATATGC
196 GTACAGTACTTAGTACCTCATTGGATTAAACTGAAGTAACAGTAACAGTACGACACACAATATGC
2221330 CTCATCGACTCGAAGTCGAAGTAACAGTACGACACTTATAGTTCCTCATCGACTGAAGGCCGAAG
261 CTCATCGACTCGAAGTCGAAGTAACAGTACGACACTTATAGTTCCTCATCGACTGAAGGCCGAAG
2221395 TATTACTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAACCCAATACAGTTAAT
326 TATTACTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAACCCAATACAGTTAAT
2221460 AGGGTATTCAATTCATTTCTCAATTCACAGTAATTAATTATTTCAATATCTATTTCACAATAATC
391 AGGGTATTCAATTCATTTCTCAATTCACAGTAATTAATTATTTCAATATCTATTTCACAATAATC
2221525 ACAAATTCACATACATTCAATTCAATATCAAAACACTAATACTGACCTTAATATCTTTCCATATA
456 ACAAATTCACATACATTCAATTCAATATCAAAACACTAATACTGACCTTAATATCTTTCCATATA
2221590 CATCAAATAATAAAATAAAAAATTTAAATGTTAAGTTCGGTTTATAGAAATACAAACCGTAATTC
521 CATCAAATAATAAAATAAAAAATTTAAATGTTAAGTTCGGTTTATAGAAATACAAACCGTAATTC
2221655 TCGGATTACT
Statistics
Matches: 573, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
585 573 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.29
Consensus pattern (585 bp):
AATAACAATCAGTTATTCAGTATCAAACTATCAATACCAATCAGTTATTCAGTCCAGTAATAAAG
CCATTCAATTATTCAGTGCAATTGTTTACCCCTATTAACATAACTCGGACTTAGACAGATATATG
GATCCAACCAACAAACCAGTACGGCACTCAGTGCCTCATCGGCTTTGCCGAAGTAAAAAGTAGTA
GTACAGTACTTAGTACCTCATTGGATTAAACTGAAGTAACAGTAACAGTACGACACACAATATGC
CTCATCGACTCGAAGTCGAAGTAACAGTACGACACTTATAGTTCCTCATCGACTGAAGGCCGAAG
TATTACTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAACCCAATACAGTTAAT
AGGGTATTCAATTCATTTCTCAATTCACAGTAATTAATTATTTCAATATCTATTTCACAATAATC
ACAAATTCACATACATTCAATTCAATATCAAAACACTAATACTGACCTTAATATCTTTCCATATA
CATCAAATAATAAAATAAAAAATTTAAATGTTAAGTTCGGTTTATAGAAATACAAACCGTAATTC
Found at i:2221735 original size:6 final size:6
Alignment explanation
Indices: 2221724--2221754 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2221714 GTTAACTACG
2221724 AAAATA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A
2221755 TTTATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:2223389 original size:46 final size:46
Alignment explanation
Indices: 2223339--2223465 Score: 209
Period size: 46 Copynumber: 2.8 Consensus size: 46
2223329 TGTTTGGGCA
*
2223339 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
2223385 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
2223431 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
2223466 AGGCGGGTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:2227729 original size:13 final size:13
Alignment explanation
Indices: 2227713--2227765 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
2227703 TTTAAATTAA
*
2227713 ACTTTTCAAAAAT
1 ACTTTTCAAAAAC
*
2227726 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAAC
* *
2227739 ACTTTTCTATAAC
1 ACTTTTCAAAAAC
2227752 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
2227765 A
1 A
2227766 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:2231276 original size:38 final size:39
Alignment explanation
Indices: 2231230--2231306 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
2231220 GGTGATTAAG
* *
2231230 ATGAATGTATTTAG-GAAGTAGTCAT-TTAATTAAGATGT
1 ATGAATGTA-TTAGACAAATAGTCATGTTAATTAAGATGT
2231268 ATGAATGTATTAGACCAAATAGTCATGTTAATTAAGATG
1 ATGAATGTATTAGA-CAAATAGTCATGTTAATTAAGATG
2231307 CATGTTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 4 0.12
38 9 0.26
39 9 0.26
40 12 0.35
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.36
Consensus pattern (39 bp):
ATGAATGTATTAGACAAATAGTCATGTTAATTAAGATGT
Found at i:2233841 original size:24 final size:24
Alignment explanation
Indices: 2233814--2233876 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 24
2233804 CAACTCAAAA
* *
2233814 GAGCGTCCTATTATTAGCTCTCAG
1 GAGCATCCTATTATTAGCTCTCAC
*
2233838 GAGCATCC-ATTTATTTGGCTCTCAC
1 GAGCATCCTA-TTA-TTAGCTCTCAC
* *
2233863 GAGCTTCCTGTTAT
1 GAGCATCCTATTAT
2233877 ATGGTTCTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.03
24 11 0.35
25 19 0.61
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (24 bp):
GAGCATCCTATTATTAGCTCTCAC
Found at i:2233876 original size:25 final size:25
Alignment explanation
Indices: 2233830--2233900 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
2233820 CCTATTATTA
* * *
2233830 GCTCTCAGGAGCATCCAT-TTATTTG
1 GCTCTCACGAGCTTCC-TGTTATATG
2233855 GCTCTCACGAGCTTCCTGTTATATG
1 GCTCTCACGAGCTTCCTGTTATATG
* ** *
2233880 GTTCTTGCGAGCTTCCCGTTA
1 GCTCTCACGAGCTTCCTGTTA
2233901 ATAACTCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (25 bp):
GCTCTCACGAGCTTCCTGTTATATG
Found at i:2234140 original size:25 final size:24
Alignment explanation
Indices: 2234111--2234184 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
2234101 CTCGCTTGAA
2234111 CTTCCCGATTACAGCTCTTATGAG
1 CTTCCCGATTACAGCTCTTATGAG
* * *
2234135 CTTTCCAATATACAGCTC-AATTGAG
1 CTTCCCGAT-TACAGCTCTTA-TGAG
*
2234160 CTTCCCG-TTATATGCTCTTATGAG
1 CTTCCCGATTACA-GCTCTTATGAG
2234184 C
1 C
2234185 ATTCTTAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
23 3 0.08
24 18 0.46
25 18 0.46
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (24 bp):
CTTCCCGATTACAGCTCTTATGAG
Done.