Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 123 of 186
Found at i:40725310 original size:50 final size:50
Alignment explanation
Indices: 40725235--40725334 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
40725225 TGTGGGCTGC
40725235 TAGAGACACTAGTGATATTCGGCTATAGTATACTTTTACTCAATTTCATG
1 TAGAGACACTAGTGATATTCGGCTATAGTATACTTTTACTCAATTTCATG
*
40725285 TAGAGACGCTAGTGATATTCGGCTATAGTATACTTTTACTCAATTTCATG
1 TAGAGACACTAGTGATATTCGGCTATAGTATACTTTTACTCAATTTCATG
40725335 AATTTGCACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (50 bp):
TAGAGACACTAGTGATATTCGGCTATAGTATACTTTTACTCAATTTCATG
Found at i:40725898 original size:114 final size:114
Alignment explanation
Indices: 40725698--40725926 Score: 404
Period size: 114 Copynumber: 2.0 Consensus size: 114
40725688 TATCTCTACA
*
40725698 ATTTAGCCAGGTAAGTTCTATGCAATAAGCATTGTTAAATTTATGCTTCTAATGCTTTAATATCG
1 ATTTAGCCAGGTAAGTTCTATGCAATAAGCATTGTTAAATTTATGCTTCTAATGCTTTAATATCA
* * * *
40725763 TATAAATTGTATAGACATGAATCTTTTAATGTTTGAGGACATATTAACT
66 TATAAATTGTATAGACATGAATATTTTAATGTCTGACGACATATCAACT
40725812 ATTTAGCCAGGTAAGTTCTATGCAATAAGCATTGTTAAATTTATGCTTCTAATGCTTTAATATCA
1 ATTTAGCCAGGTAAGTTCTATGCAATAAGCATTGTTAAATTTATGCTTCTAATGCTTTAATATCA
*
40725877 TATAAATTGTATAGACGTGAATATTTTAATGTCTGACGACATATCAACT
66 TATAAATTGTATAGACATGAATATTTTAATGTCTGACGACATATCAACT
40725926 A
1 A
40725927 AATGTGGTAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (114 bp):
ATTTAGCCAGGTAAGTTCTATGCAATAAGCATTGTTAAATTTATGCTTCTAATGCTTTAATATCA
TATAAATTGTATAGACATGAATATTTTAATGTCTGACGACATATCAACT
Found at i:40725991 original size:28 final size:28
Alignment explanation
Indices: 40725959--40726037 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
40725949 GCAATCAAAT
* *
40725959 ATGGCACTCAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTGTGAAATATTGAGA
*
40725987 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGTGAAATATTGAGA
* *
40726015 ATGACACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGTGAAATAT
40726038 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGTGAAATATTGAGA
Found at i:40734205 original size:10 final size:10
Alignment explanation
Indices: 40734192--40734238 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
40734182 TTATTTTCAT
40734192 TTATCTTTAA
1 TTATCTTTAA
40734202 TTATCTTTAA
1 TTATCTTTAA
40734212 TTATCTTTAA
1 TTATCTTTAA
*
40734222 TTAT-TTGTAT
1 TTATCTT-TAA
40734232 TTATCTT
1 TTATCTT
40734239 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:40740588 original size:12 final size:13
Alignment explanation
Indices: 40740571--40740632 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 13
40740561 GCAACCCAAT
*
40740571 TTTTATTT-TTAC
1 TTTTATTTATTAA
40740583 TTTTATTTATTAA
1 TTTTATTTATTAA
40740596 TTTTA---ATTAA
1 TTTTATTTATTAA
*
40740606 TTTAATTTAATTTAA
1 TTTTATTT-A-TTAA
40740621 TTTTACTTTATT
1 TTTTA-TTTATT
40740633 TTATTTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
10 9 0.22
12 8 0.20
13 8 0.20
14 3 0.08
15 9 0.22
16 3 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATTTATTAA
Found at i:40740640 original size:16 final size:16
Alignment explanation
Indices: 40740592--40740623 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
40740582 CTTTTATTTA
40740592 TTAATTTTAA-TTAAT
1 TTAATTTTAATTTAAT
40740607 TTAA-TTTAATTTAAT
1 TTAATTTTAATTTAAT
40740622 TT
1 TT
40740624 TACTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTTAATTTAAT
Found at i:40740817 original size:75 final size:75
Alignment explanation
Indices: 40740714--40740886 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 75
40740704 GAGGGAAACA
* * *
40740714 AAAACTTGTAGCCAAACAGCCCTCATTCCA-TCCTTATTCCAGCCAAGAATAGCACGTTCCTACC
1 AAAACCTGCAGCCAAACAACCCTCATTCCATTCC-TATTCCAGCCAAGAATAGCACGTTCCTACC
40740778 ATAAACTATCC
65 ATAAACTATCC
* * * * ** * *
40740789 AAAACCTGCAGCCAAACAACCTTTATTCCATTCCTATTCTAGCCAGGAATAGCGTGTTCTTACCC
1 AAAACCTGCAGCCAAACAACCCTCATTCCATTCCTATTCCAGCCAAGAATAGCACGTTCCTACCA
*
40740854 TAGACTATCC
66 TAAACTATCC
*
40740864 AAAACCTACAGCCAAACACACCC
1 AAAACCTGCAGCCAAACA-ACCC
40740887 ATTCAGCCGA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
75 76 0.93
76 6 0.07
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.23
Consensus pattern (75 bp):
AAAACCTGCAGCCAAACAACCCTCATTCCATTCCTATTCCAGCCAAGAATAGCACGTTCCTACCA
TAAACTATCC
Found at i:40749144 original size:45 final size:45
Alignment explanation
Indices: 40749070--40749190 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
40749060 ACTATCAAAG
* * *
40749070 GATGGCATAACATCTTTCAGCTATGGTCTTAGTCCTGTTTACCAT
1 GATGCCATAACATCTTTCAGCTATGGTCTTAGTCATCTTTACCAT
* * * * * *
40749115 GATGTCATAGCATCTTTCAGCCATGGTCTTATTCATCTTTATCTT
1 GATGCCATAACATCTTTCAGCTATGGTCTTAGTCATCTTTACCAT
40749160 GATGCCATAACATCTTTCAGCTATGGTCTTA
1 GATGCCATAACATCTTTCAGCTATGGTCTTA
40749191 CTCAATTTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (45 bp):
GATGCCATAACATCTTTCAGCTATGGTCTTAGTCATCTTTACCAT
Found at i:40766159 original size:91 final size:91
Alignment explanation
Indices: 40766040--40766221 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
40766030 GGTACATACC
40766040 GTTCCCATGAACCACTAAACTCAAGGATGCAGCATCTCAACATATCCTCGAGTATCTGAATTATC
1 GTTCCCATGAACCACTAAACTCAAGGATGCAGCATCTCAACATATCCTCGAGTATCTGAATTATC
40766105 CGCTCGGATTGTCCATCGGTTTGGGG
66 CGCTCGGATTGTCCATCGGTTTGGGG
*
40766131 GTTCCCATGAACCACTAAACTCAAGGATGCAGCATCTCAGCATATCCTCGAGTATCTGAATTATC
1 GTTCCCATGAACCACTAAACTCAAGGATGCAGCATCTCAACATATCCTCGAGTATCTGAATTATC
40766196 CGCTCGGATTGTCCATCGGTTTGGGG
66 CGCTCGGATTGTCCATCGGTTTGGGG
40766222 ATGAAAAGCG
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (91 bp):
GTTCCCATGAACCACTAAACTCAAGGATGCAGCATCTCAACATATCCTCGAGTATCTGAATTATC
CGCTCGGATTGTCCATCGGTTTGGGG
Found at i:40770687 original size:150 final size:150
Alignment explanation
Indices: 40770482--40770789 Score: 598
Period size: 150 Copynumber: 2.1 Consensus size: 150
40770472 TATCTCTGGT
* *
40770482 TAATTTATATTGAATTTCCAAAGTTGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCCCACA
1 TAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCCCACA
40770547 AAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAACAGA
66 AAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAACAGA
40770612 CTCATCGAGCTTCGATTACA
131 CTCATCGAGCTTCGATTACA
40770632 TAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCCCACA
1 TAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCCCACA
40770697 AAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAACAGA
66 AAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAACAGA
40770762 CTCATCGAGCTTCGATTACA
131 CTCATCGAGCTTCGATTACA
40770782 TAATTTAT
1 TAATTTAT
40770790 TCATAAATTA
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 156 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (150 bp):
TAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCCCACA
AAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAACAGA
CTCATCGAGCTTCGATTACA
Found at i:40771598 original size:27 final size:27
Alignment explanation
Indices: 40771568--40771742 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
40771558 TTGAGTCCGT
* *
40771568 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* *
40771595 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
40771622 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
** ** *
40771650 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
** **
40771677 ACACTTAGTGC-ATCATGTTCATTTCGC
1 ACACTTAGTGCTA-CATAATCAACTCGC
* * *
40771704 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
40771731 ACACTTAGTGCT
1 ACACTTAGTGCT
40771743 GTACAATTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:40781713 original size:126 final size:126
Alignment explanation
Indices: 40781179--40781705 Score: 799
Period size: 126 Copynumber: 4.2 Consensus size: 126
40781169 TTCAGAAAAC
*
40781179 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* * * *
40781244 TGAAGCATTTTTGACACTATTTATGCAGACACATCTTCTCAAAATTA-TTTTTCAGAGACC
66 TGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * * *
40781304 ATTGTAGCAAAAGAGCATCCACGTGGGAGTTTCTTCCAGTAATTTTGCTGAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* *
40781369 TGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTTAAAATTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * *
40781430 ACTGTAGCAAAAGAGCATCCAAGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* * * *
40781495 TGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGATACT
66 TGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
40781556 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAATACTTTTGCT-AACAATTCATCCTGC
1 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAA-AATGCATCCTGC
* *
40781620 TTGAAGCGTTTTTGACACTATTTACGCAGGCACGTCTTCTCAAATTTATTTTTTCAGAGACT
65 TTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
**
40781682 ACTGTAGCAAAAGAGTGTCCACGT
1 ACTGTAGCAAAAGAGCATCCACGT
40781706 AGAAGCTTTT
Statistics
Matches: 364, Mismatches: 34, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
124 1 0.00
125 101 0.28
126 261 0.72
127 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (126 bp):
ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
TGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
Found at i:40781960 original size:96 final size:98
Alignment explanation
Indices: 40781763--40781989 Score: 282
Period size: 96 Copynumber: 2.3 Consensus size: 98
40781753 CCTAAACCCC
* * * * * *
40781763 AAACCCTAATTTATTTGAATTTTTTTCATAAATACCCTAAACCCTAAAATCCTAATCTATTTTTT
1 AAACCCTAATTTATTTG-ATTTTTTCCTTAAAAACCATAAACACTAAAATCCTAATCTATATTTT
* ** *
40781828 TTAAAATTTATAATTAATTTACTCAAGTAACCCT
65 TTAAAATTTATAATTAATTTAATCAACAAACACT
40781862 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACT-AAA-CCATAATCTA-ATTTT
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAATCC-TAATCTATATTTT
*
40781924 TTAAAA-TTAGTAATTAATTTAATTAACAAACACT
65 TTAAAATTTA-TAATTAATTTAATCAACAAACACT
* *
40781958 AAACCTTAATTTATTTAATTTTTTCCTTAAAA
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAA
40781990 CCCTAAAATT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
95 3 0.03
96 61 0.54
97 10 0.09
98 22 0.19
99 17 0.15
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (98 bp):
AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAAATCCTAATCTATATTTTT
TAAAATTTATAATTAATTTAATCAACAAACACT
Found at i:40782004 original size:15 final size:17
Alignment explanation
Indices: 40781983--40782027 Score: 67
Period size: 15 Copynumber: 2.8 Consensus size: 17
40781973 TAATTTTTTC
40781983 CTTAAAACCCTAAAA-T
1 CTTAAAACCCTAAAATT
*
40781999 -TTAAAAACCTAAAATT
1 CTTAAAACCCTAAAATT
40782015 CTTAAAACCCTAA
1 CTTAAAACCCTAA
40782028 CCCTAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.52
16 1 0.04
17 11 0.44
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (17 bp):
CTTAAAACCCTAAAATT
Found at i:40788167 original size:19 final size:21
Alignment explanation
Indices: 40788139--40788182 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
40788129 GTCTCAATAC
40788139 ACAATATGTCA-A-TCTCGAG
1 ACAATATGTCATAGTCTCGAG
*
40788158 ACAATTTGTCATATGTCTCGAG
1 ACAATATGTCATA-GTCTCGAG
40788180 ACA
1 ACA
40788183 TACTCAACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
22 10 0.48
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (21 bp):
ACAATATGTCATAGTCTCGAG
Found at i:40792314 original size:16 final size:16
Alignment explanation
Indices: 40792281--40792314 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
40792271 CCTTTTTGTT
* *
40792281 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
40792297 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
40792313 AA
1 AA
40792315 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:40800021 original size:112 final size:112
Alignment explanation
Indices: 40799824--40800049 Score: 425
Period size: 112 Copynumber: 2.0 Consensus size: 112
40799814 GATGCATACT
40799824 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
1 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
40799889 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
66 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
* *
40799936 GAACCAGTCTTTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAGAACTCGATATTG
1 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
*
40800001 ACCATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
66 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
40800048 GA
1 GA
40800050 GTATAGAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (112 bp):
GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
Found at i:40802655 original size:16 final size:16
Alignment explanation
Indices: 40802630--40802660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40802620 CACCACTTGG
*
40802630 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
40802646 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
40802661 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:40804602 original size:21 final size:21
Alignment explanation
Indices: 40804578--40804618 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
40804568 ATTTGCTCAA
* *
40804578 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
40804599 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
40804619 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:40807441 original size:16 final size:16
Alignment explanation
Indices: 40807416--40807446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40807406 CACCACTTGG
*
40807416 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
40807432 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
40807447 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:40809185 original size:23 final size:23
Alignment explanation
Indices: 40809159--40809214 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
40809149 GAAGATGTCT
40809159 TAACCAAAAAAATGTCTGGATCC
1 TAACCAAAAAAATGTCTGGATCC
40809182 TAACCAAAAAAATGTCTGGATCC
1 TAACCAAAAAAATGTCTGGATCC
* *
40809205 CATCCAAAAA
1 TAACCAAAAA
40809215 CTCATCGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (23 bp):
TAACCAAAAAAATGTCTGGATCC
Found at i:40811439 original size:25 final size:25
Alignment explanation
Indices: 40811411--40811458 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40811401 CAGGTAAGGC
*
40811411 TCCTTCTCTTTCTTCCATTCTTCTT
1 TCCTTCTCCTTCTTCCATTCTTCTT
* *
40811436 TCCTTTTCCTTCTTCCGTTCTTC
1 TCCTTCTCCTTCTTCCATTCTTC
40811459 ATATTCTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.02, C:0.38, G:0.02, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCATTCTTCTT
Found at i:40814139 original size:19 final size:20
Alignment explanation
Indices: 40814115--40814160 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
40814105 TATCCAAACA
40814115 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
40814134 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
40814154 CCAGAAA
1 CCAGAAA
40814161 TTATTTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:40814166 original size:14 final size:14
Alignment explanation
Indices: 40814144--40814181 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
40814134 CCAGAAAAGT
40814144 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
40814158 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
40814172 AAAACATTTT
1 AAATCATTTT
40814182 ACTGGCAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:40818707 original size:25 final size:25
Alignment explanation
Indices: 40818673--40818727 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
40818663 GAAGCCAATT
40818673 AGCTCTTAATCTTTGTTCCTAGAAC
1 AGCTCTTAATCTTTGTTCCTAGAAC
40818698 AGCTCTTAATCTTTGTTCCTAGAAC
1 AGCTCTTAATCTTTGTTCCTAGAAC
40818723 AGCTC
1 AGCTC
40818728 CTCCTTATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (25 bp):
AGCTCTTAATCTTTGTTCCTAGAAC
Found at i:40823564 original size:22 final size:22
Alignment explanation
Indices: 40823518--40823575 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
40823508 CAAATTTAAG
*
40823518 AGAGAATTTTGAGAG-TGGTTT
1 AGAGAATATTGAGAGATGGTTT
**
40823539 -GAGAATATTGAGAGATTTTTT
1 AGAGAATATTGAGAGATGGTTT
* *
40823560 AGAGAACATTGTGAGA
1 AGAGAATATTGAGAGA
40823576 AATGAGGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (22 bp):
AGAGAATATTGAGAGATGGTTT
Found at i:40824326 original size:61 final size:61
Alignment explanation
Indices: 40824206--40824327 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 61
40824196 TTGATAAAAG
* * * * * *
40824206 AAAGCGATAACTGGACATAACTTCAGTTTCTAGCATTGTTAGTAATTTACTGGTGTGTATC
1 AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
* * * * *
40824267 AAAGTGATAACTGGACACAGCTTCAGTTTCAACCATTGTTACTAGTATATTAGTTTGTATC
1 AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
40824328 TATATGTGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (61 bp):
AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
Found at i:40826598 original size:27 final size:27
Alignment explanation
Indices: 40826543--40826598 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
40826533 ATTTCCCCTT
* *
40826543 TACTAGTAAAGATTTTAAGCAGACATG
1 TACTAGGAAAGATTTTAAGCACACATG
* *
40826570 TACTAGGAAAGGTTTTAAGCACACGTG
1 TACTAGGAAAGATTTTAAGCACACATG
40826597 TA
1 TA
40826599 ATCAAGACGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (27 bp):
TACTAGGAAAGATTTTAAGCACACATG
Found at i:40839272 original size:5 final size:5
Alignment explanation
Indices: 40839262--40839290 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
40839252 TGTGGTGATT
40839262 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
40839291 TTACTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:40842173 original size:39 final size:40
Alignment explanation
Indices: 40842104--40842182 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
40842094 AATAACTAAC
* *
40842104 AAATAAACAACATATATATATATATTATTTT-TTAGATATA
1 AAATAAACAACATATACATATATATAATTTTATTA-ATATA
*
40842144 AAATAATCAA-ATATACATAT-TAATAATTTTATTAATATA
1 AAATAAACAACATATACATATAT-ATAATTTTATTAATATA
40842183 TTCTAATGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 1 0.03
39 21 0.62
40 12 0.35
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (40 bp):
AAATAAACAACATATACATATATATAATTTTATTAATATA
Found at i:40843307 original size:35 final size:35
Alignment explanation
Indices: 40843261--40843331 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
40843251 ATCATGGTCA
40843261 TAGTCTACTGTTGTGGAATCTGTCTTGGAACTTAT
1 TAGTCTACTGTTGTGGAATCTGTCTTGGAACTTAT
40843296 TAGTCTACTGTTGTGGAATCTGTCTTGGAACTTAT
1 TAGTCTACTGTTGTGGAATCTGTCTTGGAACTTAT
40843331 T
1 T
40843332 TGACTTTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.44
Consensus pattern (35 bp):
TAGTCTACTGTTGTGGAATCTGTCTTGGAACTTAT
Found at i:40843760 original size:22 final size:22
Alignment explanation
Indices: 40843734--40843778 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
40843724 TGGGATAATG
40843734 TGAAATTGTGAAA-TATT-TTTAA
1 TGAAA-TGT-AAATTATTATTTAA
40843756 TGAAATGTAAATTATTATTTAA
1 TGAAATGTAAATTATTATTTAA
40843778 T
1 T
40843779 TAACTCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 7 0.33
22 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
TGAAATGTAAATTATTATTTAA
Found at i:40846158 original size:19 final size:20
Alignment explanation
Indices: 40846118--40846165 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
40846108 ATTTATATAT
* *
40846118 TAAAAAA-TATTGATTATTA
1 TAAAAAATTATTGAATATGA
40846137 TAAAAAATTATT-AATATGA
1 TAAAAAATTATTGAATATGA
40846156 TAAAAGAATT
1 TAAAA-AATT
40846166 TCTAAATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TAAAAAATTATTGAATATGA
Found at i:40849222 original size:13 final size:14
Alignment explanation
Indices: 40849198--40849226 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
40849188 AAAGATTCCC
40849198 TTTAACATGATGGT
1 TTTAACATGATGGT
40849212 TTTAA-ATGATGGT
1 TTTAACATGATGGT
40849225 TT
1 TT
40849227 ATTACAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (14 bp):
TTTAACATGATGGT
Found at i:40856698 original size:15 final size:15
Alignment explanation
Indices: 40856678--40856716 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
40856668 TGGATTCAGT
40856678 GGATCATTCAGATCA
1 GGATCATTCAGATCA
*
40856693 GGATCATTTAGATCA
1 GGATCATTCAGATCA
40856708 GGATCATTC
1 GGATCATTC
40856717 CCTTTCCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (15 bp):
GGATCATTCAGATCA
Found at i:40861011 original size:37 final size:37
Alignment explanation
Indices: 40860956--40861064 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
40860946 AGCTCAGACG
* *
40860956 AAATCTCCATACGAAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
40860993 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
40861030 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
40861065 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:40861345 original size:47 final size:48
Alignment explanation
Indices: 40861294--40861464 Score: 251
Period size: 47 Copynumber: 3.6 Consensus size: 48
40861284 TCGGCTTCGC
*
40861294 CACATATATACACT-TTCACATTCATCACATTGGCCATTCTGCCTTAT
1 CACATATATACACTGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
40861341 CACATATATGC-GTGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACACTGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
40861388 CACATATATGCA-TGTTCATATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACACTGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
40861435 CACACATATACAC-ATTCACATTCATCACAT
1 CACATATATACACTGTTCACATTCATCACAT
40861465 AAAATCCTAA
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (48 bp):
CACATATATACACTGTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:40865787 original size:48 final size:48
Alignment explanation
Indices: 40865570--40865799 Score: 198
Period size: 48 Copynumber: 5.0 Consensus size: 48
40865560 CACATAGTAA
* * *
40865570 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT--CTCATATC
* * *
40865620 GATGCCGAT---A-G-CCCAG-CTATGGTCTTACA--CGATGTC-TCAT-
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCTCAT-ATC
* ** *
40865660 -AT--CAATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
* * * *
40865705 GATGGCAATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
*
40865753 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAT
40865800 AACCCTAATG
Statistics
Matches: 142, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
37 3 0.02
39 2 0.01
40 2 0.01
41 4 0.03
42 16 0.11
43 4 0.03
44 5 0.04
45 17 0.12
46 2 0.01
47 1 0.01
48 78 0.55
50 8 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
Found at i:40866820 original size:38 final size:38
Alignment explanation
Indices: 40866734--40866923 Score: 202
Period size: 38 Copynumber: 4.9 Consensus size: 38
40866724 GAATTCGGTC
* * * * *
40866734 ACCAGCACAAAACTTGCGGGACTTTAAGCTCGAATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGAATATAAT
* *
40866774 ACCAGCACTAAGCCTGCGGGATTTAACCCTAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
* * * * *
40866812 ACCGGCACTAAGCCTGCGGGATTTTACCCGGATATACT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
*
40866850 ACCA-CTACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGC-ACGAAGCCTGCGGGATTTAACCCGAATATAAT
* * *
40866888 ACCAGTACGAAGCCTGCGGGATTTAAACCGGATATA
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATA
40866924 TATCAAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 107 0.82
39 5 0.04
40 18 0.14
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
Found at i:40869286 original size:13 final size:13
Alignment explanation
Indices: 40869268--40869293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40869258 ATATTATAAT
40869268 TATTTTATGTTAA
1 TATTTTATGTTAA
40869281 TATTTTATGTTAA
1 TATTTTATGTTAA
40869294 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:40870717 original size:40 final size:40
Alignment explanation
Indices: 40870669--40870874 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
40870659 GGACTAAGAT
*
40870669 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
40870709 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
40870749 CCGAAGGCATTTGTTCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
40870789 TCGAAGGCATCTGTGCTAGTTACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
40870829 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
40870868 CCGAAGG
1 CCGAAGG
40870875 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 15 0.10
40 139 0.90
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:40878390 original size:27 final size:24
Alignment explanation
Indices: 40878360--40878408 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
40878350 TTATTTTATT
40878360 TTATTCATATTTATTATTTATTTATAA
1 TTATTC-TATTTATT-TTT-TTTATAA
*
40878387 TTATTCTCTTTATTTTTTTTAT
1 TTATTCTATTTATTTTTTTTAT
40878409 CTAACTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 7 0.33
27 6 0.29
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (24 bp):
TTATTCTATTTATTTTTTTTATAA
Found at i:40881508 original size:27 final size:27
Alignment explanation
Indices: 40881477--40881654 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40881467 TAAATTGTAC
40881477 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40881504 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40881530 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40881558 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40881586 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40881613 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40881640 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40881655 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40881591 original size:82 final size:81
Alignment explanation
Indices: 40881478--40881633 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40881468 AAATTGTACA
* *
40881478 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40881542 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40881559 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40881624 TGCGAGTTGA
65 TGCGAATTGA
40881634 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40881645 original size:82 final size:81
Alignment explanation
Indices: 40881474--40881654 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40881464 GATTAAATTG
* *
40881474 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40881539 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40881555 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40881619 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40881637 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40881655 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40891918 original size:27 final size:27
Alignment explanation
Indices: 40891887--40892064 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40891877 TAAATTGTAC
40891887 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40891914 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40891940 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40891968 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40891996 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40892023 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40892050 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40892065 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40892001 original size:82 final size:81
Alignment explanation
Indices: 40891888--40892043 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40891878 AAATTGTACA
* *
40891888 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40891952 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40891969 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40892034 TGCGAGTTGA
65 TGCGAATTGA
40892044 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40892055 original size:82 final size:81
Alignment explanation
Indices: 40891884--40892064 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40891874 GATTAAATTG
* *
40891884 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40891949 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40891965 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40892029 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40892047 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40892065 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40902161 original size:27 final size:26
Alignment explanation
Indices: 40902124--40902238 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
40902114 AGCATGGCTG
* *
40902124 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
40902150 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
40902178 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
40902205 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
40902232 CCAGAAC
1 CCAGAAC
40902239 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:40902183 original size:54 final size:54
Alignment explanation
Indices: 40902124--40902238 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
40902114 AGCATGGCTG
*
40902124 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCAGAGCCA
* * *
40902178 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
40902232 CCAGAAC
1 CCAGAAC
40902239 GCTTCCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
Found at i:40903320 original size:26 final size:26
Alignment explanation
Indices: 40903284--40903445 Score: 297
Period size: 26 Copynumber: 6.2 Consensus size: 26
40903274 CATGAAATTC
40903284 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
40903310 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
40903336 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
40903362 TTATCATGGAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
40903388 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
40903414 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
40903440 TTATCA
1 TTATCA
40903446 ATTTGTATCA
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 131 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:40904430 original size:14 final size:14
Alignment explanation
Indices: 40904411--40904444 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
40904401 GTGTAAATAT
*
40904411 GCAAAAGCTTAGGG
1 GCAAAAGCTTAAGG
*
40904425 GCAAAAGTTTAAGG
1 GCAAAAGCTTAAGG
40904439 GCAAAA
1 GCAAAA
40904445 TCGTAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (14 bp):
GCAAAAGCTTAAGG
Found at i:40904982 original size:53 final size:53
Alignment explanation
Indices: 40904801--40905007 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
40904791 ATTAGGGTTT
* * * *
40904801 AAGGATACCATGTATGACCATGCCAAGACATGGCATTGGTAAGTT-TTACAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGT--AAGGA
* * * * * * * *
40904855 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCG-TAAGGA
** * * * *
40904910 AAAAATCCCACGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCGTAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGTAAGGA
* * *
40904963 AAGGATACCACGTAAGACCATGTCAAGACTTGGAAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
40905008 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 42 0.35
54 39 0.32
55 38 0.32
57 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGTAAGGA
Found at i:40910448 original size:53 final size:53
Alignment explanation
Indices: 40910271--40910477 Score: 177
Period size: 53 Copynumber: 3.8 Consensus size: 53
40910261 ATTAGGGTTT
* * *
40910271 AAGGATACC-CAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-TTACGAGGC
1 AAGGATACCAC-GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATA--AGGC
* * * * * * * * * *
40910325 AAGGAAATCATGTATGACCATGTCAAGACATGACATTGATAAACTACGATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
40910380 AAAGAT-CCTATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACC-ACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
*
40910433 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
40910478 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 28, Indels: 13
0.74 0.17 0.08
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 36 0.30
57 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:40911512 original size:198 final size:198
Alignment explanation
Indices: 40911174--40911565 Score: 712
Period size: 198 Copynumber: 2.0 Consensus size: 198
40911164 CCCCTGTTCC
*
40911174 AAATTTGGAAAATCACTAGAAATTTTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
1 AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
*
40911239 CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCTGATTTCTGCATAATGAGATA
66 CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
* *
40911304 ATTTATTTTTAGTGAAGAGAGGTTAGGTCTGCTGAACTGTGAAACAGGGGAATCTTTAATGAATT
131 ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTGAACTGTGAAACAGGGGAACCTTTAATGAATT
40911369 TCA
196 TCA
40911372 AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
1 AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
* * *
40911437 CCTTAGTGAGTCTATTTTCATTAGAAATAAACAGAAACATTATCCGATTTTTGCATAATGAGATA
66 CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
*
40911502 ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTGAACTGTGAAACATGGGAACCTTTAATGAAT
131 ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTGAACTGTGAAACAGGGGAACCTTTAATGAAT
40911566 AAACTGTACT
Statistics
Matches: 186, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 186 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.35
Consensus pattern (198 bp):
AAATTTGGAAAATCACTAGAAATTGTAAAAAAAGAATTATAAGTCAAAGTTTATATTTATAGATT
CCTTAGTGAGTATATTTTCATTAGAAACAAACAGAAACATTATCCGATTTCTGCATAATGAGATA
ATTTATTTTTAGTGAAGAGAGGTTAGGTATGCTGAACTGTGAAACAGGGGAACCTTTAATGAATT
TCA
Found at i:40913298 original size:11 final size:10
Alignment explanation
Indices: 40913284--40913331 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 10
40913274 AAACAACAAG
40913284 AAAATAGTAA
1 AAAATAGTAA
40913294 CAAAATAGTAA
1 -AAAATAGTAA
* *
40913305 AAAACAGCAA
1 AAAATAGTAA
40913315 TAAAATAGTAA
1 -AAAATAGTAA
40913326 AAAATA
1 AAAATA
40913332 TTTTTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (10 bp):
AAAATAGTAA
Found at i:40916606 original size:41 final size:41
Alignment explanation
Indices: 40916549--40916627 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
40916539 TCTTACACTT
*
40916549 CATACTTATGCTAAGGTCTATCCATAGACTAATTTAGTTAC
1 CATACTAATGCTAAGGTCTATCCATAGACTAATTTAGTTAC
40916590 CATACTAATGCTAAGGTCTATCCATAGACTAATTTAGT
1 CATACTAATGCTAAGGTCTATCCATAGACTAATTTAGT
40916628 CACTTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (41 bp):
CATACTAATGCTAAGGTCTATCCATAGACTAATTTAGTTAC
Found at i:40916614 original size:22 final size:22
Alignment explanation
Indices: 40916549--40916615 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
40916539 TCTTACACTT
*
40916549 CATACTTATGCTAAGGTCTATC
1 CATACTAATGCTAAGGTCTATC
*
40916571 CATAGACTAAT--TTA-GT-TA-C
1 CAT--ACTAATGCTAAGGTCTATC
40916590 CATACTAATGCTAAGGTCTATC
1 CATACTAATGCTAAGGTCTATC
40916612 CATA
1 CATA
40916616 GACTAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 6 0.17
19 6 0.17
20 4 0.11
21 4 0.11
22 10 0.29
24 5 0.14
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (22 bp):
CATACTAATGCTAAGGTCTATC
Found at i:40918084 original size:48 final size:48
Alignment explanation
Indices: 40918013--40918150 Score: 197
Period size: 48 Copynumber: 2.9 Consensus size: 48
40918003 GGGTAAAATG
* * * * ***
40918013 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGC
40918061 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
40918109 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
40918151 AAACCAAATG
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 2 0.02
48 80 0.98
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
Found at i:40925490 original size:33 final size:33
Alignment explanation
Indices: 40925453--40925522 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
40925443 ACACAAGCCT
40925453 GTGTGGCTCAGGACACGCCCGTGTCCTCCACCC
1 GTGTGGCTCAGGACACGCCCGTGTCCTCCACCC
*
40925486 GTGTGGCTCAGGACACGCCCGTGTCCTCTACCC
1 GTGTGGCTCAGGACACGCCCGTGTCCTCCACCC
40925519 GTGT
1 GTGT
40925523 AATTCTCTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.39, G:0.29, T:0.21
Consensus pattern (33 bp):
GTGTGGCTCAGGACACGCCCGTGTCCTCCACCC
Found at i:40925508 original size:20 final size:20
Alignment explanation
Indices: 40925453--40925509 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
40925443 ACACAAGCCT
40925453 GTGTGGCTCAGGACACGCCC
1 GTGTGGCTCAGGACACGCCC
*
40925473 GTGT-CCTC----CA--CCC
1 GTGTGGCTCAGGACACGCCC
40925486 GTGTGGCTCAGGACACGCCC
1 GTGTGGCTCAGGACACGCCC
40925506 GTGT
1 GTGT
40925510 CCTCTACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 2 0.07
18 2 0.07
19 3 0.11
20 11 0.39
ACGTcount: A:0.12, C:0.37, G:0.32, T:0.19
Consensus pattern (20 bp):
GTGTGGCTCAGGACACGCCC
Found at i:40927421 original size:96 final size:96
Alignment explanation
Indices: 40927242--40927530 Score: 316
Period size: 96 Copynumber: 3.0 Consensus size: 96
40927232 AAAAGGGTAA
* * * *
40927242 AATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATTG-GTGCCGATGCCAT
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACTCACAT--ATTGAG-GCCGATGCCAT
*
40927306 GTCCTAGACATGGTCTTACACTGACACATATAAC
63 GTCCCAGACATGGTCTTACACTGACACATATAAC
* * *
40927340 AATGCCGATGCCATGTTCCAAACATAGTCTTACACTGACTCACATATTGAGGCCAATGCCATGTC
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACTCACATATTGAGGCCGATGCCATGTC
*** *
40927405 CCAGACATGGTCTTACACTGGTTC-TCATAAT
66 CCAGACATGGTCTTACACTGACACAT-ATAAC
* * * ** *
40927436 GAGGCCGATGCCATG-TCCTAGACATGGTCTTACACT-AGCACACATATCAACGCCGATGCCATG
1 AATGCCGATGCCATGTTCC-AGACATGGTCTTACACTGA-CTCACATATTGAGGCCGATGCCATG
40927499 TCCCAGACATGGTCTTACACTAGAACACATAT
64 TCCCAGACATGGTCTTACACT-G-ACACATAT
40927531 CAACCAAATG
Statistics
Matches: 160, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
95 5 0.03
96 110 0.69
97 2 0.01
98 42 0.26
99 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (96 bp):
AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACTCACATATTGAGGCCGATGCCATGTC
CCAGACATGGTCTTACACTGACACATATAAC
Found at i:40927514 original size:144 final size:145
Alignment explanation
Indices: 40927252--40927519 Score: 427
Period size: 144 Copynumber: 1.8 Consensus size: 145
40927242 AATGCCGATA
40927252 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATTGGTGCCGATGCCATGTCCTAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATTGGTGCCGATGCCATGTCCTAGACAT
* *
40927317 GGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAAACATAGTCTTACACTGACTCA
66 GGTCTTACACTGACACATAT-ACAACGCCGATGCCATGTCCCAAACATAGTCTTACACTGACTCA
40927382 CATATTGAGGCCAATG
130 CATATTGAGGCCAATG
*
40927398 CCATGTCCCAGACATGGTCTTACACTGGTTCTCATA-A-TGAG-GCCGATGCCATGTCCTAGACA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATTG-GTGCCGATGCCATGTCCTAGACA
* *
40927460 TGGTCTTACACTAGCACACATAT-CAACGCCGATGCCATGTCCCAGACATGGTCTTACACT
65 TGGTCTTACACT-G-ACACATATACAACGCCGATGCCATGTCCCAAACATAGTCTTACACT
40927520 AGAACACATA
Statistics
Matches: 114, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
144 68 0.60
145 3 0.03
146 43 0.38
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (145 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATTGGTGCCGATGCCATGTCCTAGACAT
GGTCTTACACTGACACATATACAACGCCGATGCCATGTCCCAAACATAGTCTTACACTGACTCAC
ATATTGAGGCCAATG
Found at i:40927531 original size:48 final size:47
Alignment explanation
Indices: 40927245--40927534 Score: 253
Period size: 48 Copynumber: 6.0 Consensus size: 47
40927235 AGGGTAAAAT
* ** * **
40927245 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-CATTGGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAACACATATCA---AC
* *
40927295 GCCGATGCCATGTCCTAGACATGGTCTTACACTG-ACACATATAACAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACACATAT--CAAC
* * * * ** *
40927343 GCCGATGCCATGTTCCAAACATAGTCTTACACTGACTCACATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-ACACATATCAAC
* ** * * *
40927391 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAAT-GAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAACACAT-ATCAAC
* *
40927439 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAACACATATCAAC
40927487 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGAACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAACACATATCAAC
40927535 CAAATGTCTT
Statistics
Matches: 203, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.01
48 157 0.77
49 4 0.02
50 38 0.19
51 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACACATATCAAC
Found at i:40929345 original size:27 final size:27
Alignment explanation
Indices: 40929315--40929492 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40929305 ATATTGAGTC
* * * *
40929315 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
40929342 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
40929369 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
40929397 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
40929424 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
40929451 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
40929478 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40929493 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:40929454 original size:82 final size:81
Alignment explanation
Indices: 40929336--40929491 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40929326 TGCTATATAA
* *
40929336 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
40929401 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
40929418 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
40929482 CACTTAGTGC
65 CACTTAGTGC
40929492 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:40934181 original size:42 final size:43
Alignment explanation
Indices: 40934122--40934286 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 43
40934112 GCGTTTTTAT
*
40934122 GACCTTTAGCGGCGCTTTGA-AAAAAACGCCGCTAAAGAACAG
1 GACCTTTAGCGGCGCTTTTACAAAAAACGCCGCTAAAGAACAG
*
40934164 GACCTTTAGCGGCGC-TTTACCCAAAAACGCCGCTAAAGAACAG
1 GACCTTTAGCGGCGCTTTTA-CAAAAAACGCCGCTAAAGAACAG
* * *
40934207 GACCTTTAGCGGCGCTTTTATC-ACAAACGCAGCTAAA-AAGCAT
1 GACCTTTAGCGGCGCTTTTA-CAAAAAACGCCGCTAAAGAA-CAG
* * * *
40934250 GACCTTTAGCGACGCTTTTATAGAAAACGCCACTAAA
1 GACCTTTAGCGGCGCTTTTACAAAAAACGCCGCTAAA
40934287 AGCATTTTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
41 3 0.03
42 17 0.16
43 81 0.76
44 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTACAAAAAACGCCGCTAAAGAACAG
Found at i:40936931 original size:22 final size:22
Alignment explanation
Indices: 40936903--40936948 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
40936893 ATAGTGCCCG
40936903 GCTCCAGATCCATGAGAACAGC
1 GCTCCAGATCCATGAGAACAGC
40936925 GCTCCAGATCCATGAGAACAGC
1 GCTCCAGATCCATGAGAACAGC
40936947 GC
1 GC
40936949 GTGGGACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (22 bp):
GCTCCAGATCCATGAGAACAGC
Found at i:40939823 original size:27 final size:27
Alignment explanation
Indices: 40939793--40939970 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40939783 ATATTGAGTC
* * * *
40939793 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
40939820 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
40939847 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
40939875 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
40939902 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
40939929 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
40939956 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40939971 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:40939932 original size:82 final size:81
Alignment explanation
Indices: 40939814--40939969 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40939804 TGCTATATAA
* *
40939814 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
40939879 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
40939896 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
40939960 CACTTAGTGC
65 CACTTAGTGC
40939970 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:40941881 original size:26 final size:22
Alignment explanation
Indices: 40941829--40941879 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
40941819 CTGTCACACG
*
40941829 AACTTACCTCGAATGCAAAAAC
1 AACTAACCTCGAATGCAAAAAC
40941851 AACTAACCTCGAATGCAAAAAC
1 AACTAACCTCGAATGCAAAAAC
40941873 AACTAAC
1 AACTAAC
40941880 TATTCCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.49, C:0.27, G:0.08, T:0.16
Consensus pattern (22 bp):
AACTAACCTCGAATGCAAAAAC
Found at i:40944195 original size:15 final size:15
Alignment explanation
Indices: 40944154--40944196 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
40944144 CTTGTTTAAA
* *
40944154 TTTTTGTATATTTAT
1 TTTTTATATTTTTAT
40944169 TTTTTATAATTTTTAT
1 TTTTTAT-ATTTTTAT
40944185 TTTTTATATTTT
1 TTTTTATATTTT
40944197 AAATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTATATTTTTAT
Found at i:40944196 original size:14 final size:14
Alignment explanation
Indices: 40944153--40944197 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
40944143 ACTTGTTTAA
40944153 ATTTTTGTATA-TTT
1 ATTTTT-TATATTTT
40944167 ATTTTTTATAATTTTT
1 ATTTTTTAT-A-TTTT
40944183 ATTTTTTATATTTT
1 ATTTTTTATATTTT
40944197 A
1 A
40944198 AATAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 12 0.43
15 1 0.04
16 12 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
ATTTTTTATATTTT
Found at i:40945893 original size:23 final size:23
Alignment explanation
Indices: 40945862--40945911 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
40945852 GCATCCTGTT
* * *
40945862 ATATGGCTCTCTGGAGCTTCCCG
1 ATATGGCTCGCTGGAACTTCCCA
* *
40945885 ATATTGCTCGCTTGAACTTCCCA
1 ATATGGCTCGCTGGAACTTCCCA
40945908 ATAT
1 ATAT
40945912 ATGGATATCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (23 bp):
ATATGGCTCGCTGGAACTTCCCA
Found at i:40946088 original size:25 final size:25
Alignment explanation
Indices: 40946019--40946090 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
40946009 TATTGCTCTT
* * *
40946019 ATGAGCTTCCCGTTATATAGCCTAG
1 ATGAGCTTCCCGTTATATGGCTTAC
* *
40946044 ATGTGCTTCCCGTTACATGGCTTAC
1 ATGAGCTTCCCGTTATATGGCTTAC
**
40946069 ATGAGCTTCCTATTATATGGCT
1 ATGAGCTTCCCGTTATATGGCT
40946091 CGAGAGAGGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTTAC
Found at i:40959584 original size:16 final size:16
Alignment explanation
Indices: 40959563--40959593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40959553 ATAAATTTGA
40959563 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40959579 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40959594 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40964489 original size:17 final size:18
Alignment explanation
Indices: 40964463--40964496 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
40964453 TTTTTGTTTA
40964463 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
40964480 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
40964497 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:40976504 original size:7 final size:7
Alignment explanation
Indices: 40976494--40976525 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
40976484 TGATGAATGA
40976494 ATGAGGG
1 ATGAGGG
40976501 ATGAGGG
1 ATGAGGG
40976508 ATGAGGG
1 ATGAGGG
40976515 ATGAGGG
1 ATGAGGG
40976522 ATGA
1 ATGA
40976526 TTGAAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.53, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:40982312 original size:47 final size:47
Alignment explanation
Indices: 40982249--40982552 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
40982239 CCCTTCGGGA
* * *
40982249 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
40982296 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
40982343 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
40982390 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
40982437 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
40982484 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
40982533 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
40982553 GTACATCAAT
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 193 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:40986774 original size:26 final size:26
Alignment explanation
Indices: 40986744--40986799 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
40986734 TGAAATTCCC
*
40986744 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
40986770 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
40986796 ATCA
1 ATCA
40986800 ATTTGTATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:40992091 original size:290 final size:290
Alignment explanation
Indices: 40991571--40992150 Score: 1115
Period size: 290 Copynumber: 2.0 Consensus size: 290
40991561 ATAATATAAT
*
40991571 CCCAGAAAATCAAAGAAGAAAATAAAGTTAAAATGGCCTTATTACAACCCAAAAATTAAATAGTA
1 CCCAGAAAATCAAAGAAGAAAATAAAGTTAAAATGGCCTTATTACAACCCAAAAATTAAATAGCA
40991636 ATTAAAAATAACTTAAGAAAACCAGTCTCTTTTTCAAACCCAAAAGTATTCACCATGGCCACTCT
66 ATTAAAAATAACTTAAGAAAACCAGTCTCTTTTTCAAACCCAAAAGTATTCACCATGGCCACTCT
*
40991701 GAATCCGCTCCGGCTCCAAGTCACCCACATCAAGGCTCACCTGCAAGGTTAAAGAAGGGATGAGT
131 GAATCCCCTCCGGCTCCAAGTCACCCACATCAAGGCTCACCTGCAAGGTTAAAGAAGGGATGAGT
40991766 TTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGGGCC
196 TTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGGGCC
40991831 TAAGCCCATTCAGGTAACAGTGATAATGGG
261 TAAGCCCATTCAGGTAACAGTGATAATGGG
*
40991861 CCCAGAAAATCAAAGAAGAAAATAAAGTTAAAATGGCCTTATTACAACCTAAAAATTAAATAGCA
1 CCCAGAAAATCAAAGAAGAAAATAAAGTTAAAATGGCCTTATTACAACCCAAAAATTAAATAGCA
40991926 ATTAAAAATAACTTAAGAAAACCAGTCTCTTTTTCAAACCCAAAAGTATTCACCATGGCCACTCT
66 ATTAAAAATAACTTAAGAAAACCAGTCTCTTTTTCAAACCCAAAAGTATTCACCATGGCCACTCT
40991991 GAATCCCCTCCGGCTCCAAGTCACCCACATCAAGGCTCACCTGCAAGGTTAAAGAAGGGATGAGT
131 GAATCCCCTCCGGCTCCAAGTCACCCACATCAAGGCTCACCTGCAAGGTTAAAGAAGGGATGAGT
*
40992056 TTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGTCCAAGTCAGCTCAAGCCCATTGGGCC
196 TTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGGGCC
*
40992121 TAAGCCCATTCAGGTAACAGTGATACTGGG
261 TAAGCCCATTCAGGTAACAGTGATAATGGG
40992151 ACAGAGCCCT
Statistics
Matches: 285, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 285 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (290 bp):
CCCAGAAAATCAAAGAAGAAAATAAAGTTAAAATGGCCTTATTACAACCCAAAAATTAAATAGCA
ATTAAAAATAACTTAAGAAAACCAGTCTCTTTTTCAAACCCAAAAGTATTCACCATGGCCACTCT
GAATCCCCTCCGGCTCCAAGTCACCCACATCAAGGCTCACCTGCAAGGTTAAAGAAGGGATGAGT
TTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGGGCC
TAAGCCCATTCAGGTAACAGTGATAATGGG
Found at i:40993698 original size:48 final size:49
Alignment explanation
Indices: 40993627--40993724 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
40993617 CATCATTTTA
*
40993627 AAGCACAACATGTTAGCTGA-TTTTCCCTTTAACATCTAAGGCACATGC
1 AAGCACAACATGTTAGCCGATTTTTCCCTTTAACATCTAAGGCACATGC
*
40993675 AAGCACAACATGTTAGCCGATTTTTCCCTTTAGCATCTAAGGCACATGC
1 AAGCACAACATGTTAGCCGATTTTTCCCTTTAACATCTAAGGCACATGC
40993724 A
1 A
40993725 TGGTCATTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 19 0.40
49 28 0.60
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (49 bp):
AAGCACAACATGTTAGCCGATTTTTCCCTTTAACATCTAAGGCACATGC
Found at i:40995912 original size:128 final size:128
Alignment explanation
Indices: 40995680--40995912 Score: 324
Period size: 128 Copynumber: 1.8 Consensus size: 128
40995670 GACGAGATTT
* * *
40995680 GATATTTGACAATTTGCGGAATCTTGCCCTTACGTGTTGGGTTGCATTCGCGTTTGCTCAAAATA
1 GATATTTGACAATTTGCGGAATCCTGCCCTAACGTGTTGGGTTGCATTCGCGATTGCTCAAAATA
* * *
40995745 ATCAAATATCACTTCAAAATTTCACTCATGTCTTTTAAAATCCCTTGAGCGAAAGTGATACGC
66 ATCAAATATCACTTCAAAACTTCACTCATATCTTCTAAAATCCCTTGAGCGAAAGTGATACGC
* * * * *
40995808 GATATTTGGCAATTTGTGGAATCCTGCCCTAACGTGTTGGGTTGCAATT-TCGATTGTTTAAAAT
1 GATATTTGACAATTTGCGGAATCCTGCCCTAACGTGTTGGGTTGC-ATTCGCGATTGCTCAAAAT
* * *
40995872 AATCAAATATCCCTTCAAGACTTCATTCATATCTTCTAAAA
65 AATCAAATATCACTTCAAAACTTCACTCATATCTTCTAAAA
40995913 ATTATTTAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 87 0.97
129 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (128 bp):
GATATTTGACAATTTGCGGAATCCTGCCCTAACGTGTTGGGTTGCATTCGCGATTGCTCAAAATA
ATCAAATATCACTTCAAAACTTCACTCATATCTTCTAAAATCCCTTGAGCGAAAGTGATACGC
Found at i:40997258 original size:52 final size:52
Alignment explanation
Indices: 40997174--40997320 Score: 231
Period size: 52 Copynumber: 2.8 Consensus size: 52
40997164 TAAGATTTTT
* ** *
40997174 CACACGGCCTGGCACACGGGCGTGTGGTTTGGCTGTGTGACCCCTGTACCTA
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTGTGACCCCTGTACCTA
*
40997226 CACACGGCCTAGCACATGGGCGTGTGACTTGGCCGTGTGACCCCTGTACCTA
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTGTGACCCCTGTACCTA
* *
40997278 CACACGGCCTAGCACACGAGCGTGTGACTTGGCCATGTGACCC
1 CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTGTGACCC
40997321 AAGTCAGATA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 87 1.00
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (52 bp):
CACACGGCCTAGCACACGGGCGTGTGACTTGGCCGTGTGACCCCTGTACCTA
Found at i:40999196 original size:20 final size:20
Alignment explanation
Indices: 40999159--40999196 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40999149 GCATTACTGT
*
40999159 ATAATTCATAACATTTACAG
1 ATAATTCATAACAATTACAG
*
40999179 ATAATTCATGACAATTAC
1 ATAATTCATAACAATTAC
40999197 TATTCATTTT
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:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
ATAATTCATAACAATTACAG
Found at i:41028176 original size:24 final size:24
Alignment explanation
Indices: 41028142--41028187 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
41028132 AAGAAAAATC
* *
41028142 TGGTATTGATTGGCCAAACCTATA
1 TGGTATAGATTGACCAAACCTATA
41028166 TGGTATAGATTGACCAAACCTA
1 TGGTATAGATTGACCAAACCTA
41028188 AAATTCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (24 bp):
TGGTATAGATTGACCAAACCTATA
Found at i:41028650 original size:48 final size:48
Alignment explanation
Indices: 41028584--41028860 Score: 491
Period size: 48 Copynumber: 5.8 Consensus size: 48
41028574 GAATGTGAAA
* *
41028584 GTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATATATATGTG
1 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
*
41028632 GTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
41028680 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
41028728 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
*
41028776 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTG
1 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
* * *
41028824 GTAAAGCTGAATGGCTAATGTGAAATATGTAGGAGAT
1 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
41028861 GTGTGTATAN
Statistics
Matches: 221, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 221 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
Found at i:41033043 original size:27 final size:27
Alignment explanation
Indices: 41033005--41033082 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
41032995 ATTGTCGTTC
*
41033005 TGGTG-AATTATGAAAGGAACGTCTTTG
1 TGGTGCAA-TATGAAAGGAACGCCTTTG
* *
41033032 TGGTGCAATATGAAAGGAAAGCCTTTT
1 TGGTGCAATATGAAAGGAACGCCTTTG
* *
41033059 TGGCGCAACATGAAAGGAACGCCT
1 TGGTGCAATATGAAAGGAACGCCT
41033083 CTATAGAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGTGCAATATGAAAGGAACGCCTTTG
Found at i:41037722 original size:24 final size:24
Alignment explanation
Indices: 41037668--41037723 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
41037658 TCCTCATATT
* * *
41037668 CTTCATCTTCATTTTTACCTTGAG
1 CTTCATCTTCATCTTTACCTTCAC
* *
41037692 CTCCATCTTCATCTTTATCTTCAC
1 CTTCATCTTCATCTTTACCTTCAC
41037716 CTTCATCT
1 CTTCATCT
41037724 CGTTCCTCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.32, G:0.04, T:0.48
Consensus pattern (24 bp):
CTTCATCTTCATCTTTACCTTCAC
Found at i:41039119 original size:42 final size:42
Alignment explanation
Indices: 41039070--41039177 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
41039060 TGAGATTACG
* *
41039070 TGTAAGACTATATCTGGGATATGATATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATC-TCA
* * * *
41039112 TGTAAGACCATAGCTGGGCTATTGCCATCTATATGAGATCTCA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGATCTCA
41039155 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
41039178 TCATTGGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 20 0.36
43 35 0.62
44 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATCTCA
Found at i:41046689 original size:41 final size:41
Alignment explanation
Indices: 41046628--41046748 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 41
41046618 TGGGGTTATT
41046628 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTA-GTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
41046670 TGAGATTAGTGTAAAACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTAGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
41046712 TGAGATCCCA-TTTAAGACCATATTTGGGATATGGCAT
1 TGAGAT--TAGTGTAAGACCATATCTGGGATATGGCAT
41046749 TTGTATGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 19 0.28
42 31 0.46
43 16 0.24
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (41 bp):
TGAGATTAGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:41046928 original size:15 final size:15
Alignment explanation
Indices: 41046908--41046939 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
41046898 AGCTAGATAT
41046908 GTGATGAATCCCTCG
1 GTGATGAATCCCTCG
41046923 GTGATGAATCCCTCG
1 GTGATGAATCCCTCG
41046938 GT
1 GT
41046940 AAGGTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (15 bp):
GTGATGAATCCCTCG
Found at i:41048596 original size:68 final size:64
Alignment explanation
Indices: 41048480--41048739 Score: 226
Period size: 68 Copynumber: 4.0 Consensus size: 64
41048470 TGGATGATAC
** * * *
41048480 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
41048544 A
64 A
*
41048545 AGACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGC
1 AG--A-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGC
*
41048609 TACG
61 TACA
* * * * *
41048613 GGATATATGTATCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
41048676 TACA
61 TACA
* * *
41048680 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGCT
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCT
41048740 GAACTATATG
Statistics
Matches: 158, Mismatches: 22, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 20 0.13
64 19 0.12
65 7 0.04
66 17 0.11
67 34 0.22
68 52 0.33
69 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACA
Found at i:41051037 original size:17 final size:17
Alignment explanation
Indices: 41051017--41051050 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41051007 TGCCTTGTTT
41051017 GTGGCTGAGTGAGTTGA
1 GTGGCTGAGTGAGTTGA
41051034 GTGGCTGAGTGAGTTGA
1 GTGGCTGAGTGAGTTGA
41051051 ATGTATATGC
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:0.18, C:0.06, G:0.47, T:0.29
Consensus pattern (17 bp):
GTGGCTGAGTGAGTTGA
Found at i:41061009 original size:73 final size:73
Alignment explanation
Indices: 41060932--41061079 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
41060922 CGATCACATG
41060932 AAGTGGAAAAAACAACACTCAGTTTCAGAAGCTGCGAAAAGGGGGGAAATAAAAGGGAAAAAAAA
1 AAGTGGAAAAAACAACACTCAGTTTCAGAAGCTGCGAAAAGGGGGGAAATAAAAGGGAAAAAAAA
41060997 AGGGCAAA
66 AGGGCAAA
41061005 AAGTGGAAAAAACAACACTCAGTTTCAGAAGCTGCGAAAAGGGGGGAAATAAAAGGGAAAAAAAA
1 AAGTGGAAAAAACAACACTCAGTTTCAGAAGCTGCGAAAAGGGGGGAAATAAAAGGGAAAAAAAA
41061070 AGGGCAAA
66 AGGGCAAA
41061078 AA
1 AA
41061080 ATGGGAAATG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.53, C:0.11, G:0.27, T:0.09
Consensus pattern (73 bp):
AAGTGGAAAAAACAACACTCAGTTTCAGAAGCTGCGAAAAGGGGGGAAATAAAAGGGAAAAAAAA
AGGGCAAA
Found at i:41061933 original size:41 final size:41
Alignment explanation
Indices: 41061888--41061970 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
41061878 CTCATTTGAC
*
41061888 TTTTGATTTAATTAAATTATTA-AAAGGTTTGATGATAAGGT
1 TTTTGATTTAATTAAATTATTACAAA-GTTTCATGATAAGGT
* *
41061929 TTTTGATTTAATTTATTTATTACAAAGTTTCATGATAAGGT
1 TTTTGATTTAATTAAATTATTACAAAGTTTCATGATAAGGT
41061970 T
1 T
41061971 GACAGAGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 35 0.92
42 3 0.08
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.49
Consensus pattern (41 bp):
TTTTGATTTAATTAAATTATTACAAAGTTTCATGATAAGGT
Found at i:41065465 original size:17 final size:17
Alignment explanation
Indices: 41065443--41065481 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
41065433 AAGTTAGATA
*
41065443 AAATAATTAAAATAAAT
1 AAATAACTAAAATAAAT
*
41065460 AAATAACTAAGATAAAT
1 AAATAACTAAAATAAAT
41065477 AAATA
1 AAATA
41065482 GAACAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAACTAAAATAAAT
Found at i:41065949 original size:8 final size:8
Alignment explanation
Indices: 41065936--41065960 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41065926 TAAAAAGTTG
41065936 AAATAATA
1 AAATAATA
41065944 AAATAATA
1 AAATAATA
41065952 AAATAATA
1 AAATAATA
41065960 A
1 A
41065961 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:41068529 original size:34 final size:34
Alignment explanation
Indices: 41068491--41068567 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
41068481 GACAGTATTC
*
41068491 TAATTTTTTGTACATAATTAACTATTT-TAATTTT
1 TAATTTTTTGTACATAATTAAATATTTGT-ATTTT
**
41068525 TAA-TTTTTGTAGTTAATTAAATATTTGTATTTT
1 TAATTTTTTGTACATAATTAAATATTTGTATTTT
*
41068558 AAATATTTTT
1 TAAT-TTTTT
41068568 ACTTACCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 27 0.75
34 4 0.11
35 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (34 bp):
TAATTTTTTGTACATAATTAAATATTTGTATTTT
Found at i:41077989 original size:27 final size:27
Alignment explanation
Indices: 41077947--41078011 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
41077937 ACCCCTAATA
* *
41077947 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACTGTAATA-CCCCTGTAG
* * *
41077974 GGTAAAGTGACTGTAATACCCTTGTAT
1 GGTAAAATGACTGTAATACCCCTGTAG
41078001 GGTAAAATGAC
1 GGTAAAATGAC
41078012 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAG
Found at i:41078854 original size:25 final size:25
Alignment explanation
Indices: 41078821--41078890 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
41078811 AGGAAGTGCT
*
41078821 AAAAGGGCTCTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
41078846 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
41078871 GAAAGAGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41078891 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:41081995 original size:55 final size:55
Alignment explanation
Indices: 41081911--41082023 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
41081901 TCTGAGGAAT
41081911 CCAGGAAAAGAGAATTGTAAAACACTGGCATTGAGGAGCGGAAAGACATTAGAGC
1 CCAGGAAAAGAGAATTGTAAAACACTGGCATTGAGGAGCGGAAAGACATTAGAGC
* * *
41081966 CCAGGGAAAGAGCATTGTAAAGCACTGGCATTGAGGAGCGGAAAGACATTAGAGC
1 CCAGGAAAAGAGAATTGTAAAACACTGGCATTGAGGAGCGGAAAGACATTAGAGC
41082021 CCA
1 CCA
41082024 ACACCGTCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.39, C:0.17, G:0.30, T:0.14
Consensus pattern (55 bp):
CCAGGAAAAGAGAATTGTAAAACACTGGCATTGAGGAGCGGAAAGACATTAGAGC
Found at i:41082766 original size:56 final size:56
Alignment explanation
Indices: 41082680--41082789 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 56
41082670 TACGTATAGA
** * * *
41082680 CAAATTTATTTTTCCTACTGGCTTTATTATTTTAGACTTTCAAGCAGATAAAGAGG
1 CAAATTTATTTTTCCTACTGAATTTATTATTCTAGACTTTAAAGCAGACAAAGAGG
* * * *
41082736 CAAATTTATTTTTCTTGCTGAATTTGTTATTCTAGACTTTAAAGTAGACAAAGA
1 CAAATTTATTTTTCCTACTGAATTTATTATTCTAGACTTTAAAGCAGACAAAGA
41082790 AGTACCAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (56 bp):
CAAATTTATTTTTCCTACTGAATTTATTATTCTAGACTTTAAAGCAGACAAAGAGG
Found at i:41085174 original size:88 final size:89
Alignment explanation
Indices: 41085071--41085248 Score: 322
Period size: 89 Copynumber: 2.0 Consensus size: 89
41085061 TTATAAACCG
*
41085071 TAACTCATCCGTATAACATTATTTGTG-CCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
1 TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
41085135 AAATAATATCAGTAATCCGTCAAT
66 AAATAATATCAGTAATCCGTCAAT
*
41085159 TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTTGGGT
1 TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
*
41085224 GAATAATATCAGTAATCCGTCAAT
66 AAATAATATCAGTAATCCGTCAAT
41085248 T
1 T
41085249 CATTATCGTT
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 26 0.30
89 60 0.70
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (89 bp):
TAACTCATCCCTATAACATTATTTGTGCCCGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
AAATAATATCAGTAATCCGTCAAT
Found at i:41086424 original size:27 final size:27
Alignment explanation
Indices: 41086393--41086487 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
41086383 TTAGTTTACC
** *
41086393 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
* *
41086420 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACCCAAA-TACCCTCGATTTGTA
*
41086447 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
*
41086474 AAATTACCGAAATA
1 AAATTACCCAAATA
41086488 AGATAGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 49 0.86
28 5 0.09
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCGATTTGTA
Found at i:41086522 original size:27 final size:27
Alignment explanation
Indices: 41086492--41086553 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
41086482 GAAATAAGAT
*
41086492 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCATCGATTTAC
41086519 AGAATTACCATTTTACCATCGATTTAC
1 AGAATTACCATTTTACCATCGATTTAC
*
41086546 AAAATTAC
1 AGAATTAC
41086554 TGAAATACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (27 bp):
AGAATTACCATTTTACCATCGATTTAC
Found at i:41086629 original size:27 final size:26
Alignment explanation
Indices: 41086599--41086698 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 26
41086589 CCTCGATCAA
41086599 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCT-GTTTG
*
41086626 TAAAATTACCAAAATACCCCTAATTTG
1 TAAAATTACCAAAATACCCCT-GTTTG
* * **
41086653 TGAAATTACCGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGT-TTG
*
41086680 TAGAATTACCAAAATACCC
1 TAAAATTACCAAAATACCC
41086699 TTGTAGGGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCTGTTTG
Found at i:41086703 original size:27 final size:27
Alignment explanation
Indices: 41086656--41086797 Score: 212
Period size: 27 Copynumber: 5.3 Consensus size: 27
41086646 TAATTTGTGA
*
41086656 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
41086683 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41086710 AGTTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
41086737 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41086764 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
41086791 AATTACC
1 AATTACC
41086798 ATTTTGCCCC
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:41087223 original size:6 final size:6
Alignment explanation
Indices: 41087196--41087254 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
41087186 ATTCACATTT
* *
41087196 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGATTC
41087245 T-AGTTC TGAT
1 TGA-TTC TGAT
41087255 AATGTTTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 3 0.07
6 37 0.82
7 4 0.09
8 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:41095208 original size:89 final size:89
Alignment explanation
Indices: 41095052--41095230 Score: 272
Period size: 89 Copynumber: 2.0 Consensus size: 89
41095042 TTATAAACCG
* * *
41095052 TAACTCATCCGTATAACATTATTTGTGCATGTTGAACCTATTAGAAATTCAAAGGATACTGGGGT
1 TAACTCATCCGTATAACATTATTTGTACATGTTGAACCTATTAGAAATTCAAAGGATACTCGAGT
41095117 GAATAAT-ATCAGTAATCCGTCAAT
66 GAATAATAATC-GTAATCCGTCAAT
* * *
41095141 TAACTCATCTGTATAACATTATTTGTAC-TCGTTGTACCTATTTGAAATTCAAAGGATACTCGAG
1 TAACTCATCCGTATAACATTATTTGTACAT-GTTGAACCTATTAGAAATTCAAAGGATACTCGAG
41095205 TGAATAATAATCGTAATCCGTCAAT
65 TGAATAATAATCGTAATCCGTCAAT
41095230 T
1 T
41095231 CATTATCGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 1 0.01
89 78 0.95
90 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (89 bp):
TAACTCATCCGTATAACATTATTTGTACATGTTGAACCTATTAGAAATTCAAAGGATACTCGAGT
GAATAATAATCGTAATCCGTCAAT
Found at i:41097051 original size:26 final size:26
Alignment explanation
Indices: 41097021--41097073 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
41097011 ATATATTAGG
*
41097021 AACACTCGATTTTTATTACTTTAGCC
1 AACACTCAATTTTTATTACTTTAGCC
41097047 AACACTCAATTTTTATTACTTTAGCC
1 AACACTCAATTTTTATTACTTTAGCC
41097073 A
1 A
41097074 TTTTACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.42
Consensus pattern (26 bp):
AACACTCAATTTTTATTACTTTAGCC
Found at i:41098512 original size:40 final size:40
Alignment explanation
Indices: 41098457--41099341 Score: 1530
Period size: 40 Copynumber: 22.1 Consensus size: 40
41098447 CGGATGATAA
*
41098457 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098497 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098537 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098577 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098617 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098657 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098697 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098737 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098777 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098817 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098857 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098897 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098937 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41098977 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41099017 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41099057 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
41099097 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
* **
41099137 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTAG
1 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
* * *
41099177 CGAAGGCATTTGTGCGAGTTACTATAT-CCAGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTA-ATCCCGGGCTAAGTCC
* * *
41099217 CGAAGGCATTTGTGCAAGTTACTATAT-CCGGGCTAGGTCC
1 CGAAGGCATTTGTGCTAGTGACTA-ATCCCGGGCTAAGTCC
* * * *
41099257 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCT
1 CGAAGGCATTTGTGCTAGTGACTAAT-CCCGGGCTAAGTCC
* * *
41099297 CGAAGGCATTTGAGCGAGT-AGCTATAT-CC-GGCTAAATCC
1 CGAAGGCATTTGTGCTAGTGA-CTA-ATCCCGGGCTAAGTCC
41099336 CGAAGG
1 CGAAGG
41099342 TACTTGGTTC
Statistics
Matches: 821, Mismatches: 18, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
38 2 0.00
39 15 0.02
40 800 0.97
41 2 0.00
42 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCC
Found at i:41107159 original size:40 final size:40
Alignment explanation
Indices: 41106689--41107186 Score: 715
Period size: 40 Copynumber: 12.5 Consensus size: 40
41106679 CGGATGATAA
*
41106689 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
41106729 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
41106769 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
41106809 CCTGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
41106849 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
41106888 CCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
41106928 CCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
41106968 CCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
41107008 CCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
41107049 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
41107089 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
41107129 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
41107169 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
41107187 TACTTGGTTT
Statistics
Matches: 438, Mismatches: 15, Indels: 11
0.94 0.03 0.02
Matches are distributed among these distances:
39 18 0.04
40 417 0.95
41 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:41109205 original size:37 final size:37
Alignment explanation
Indices: 41109152--41109223 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
41109142 GGTAGTTGGA
*
41109152 TAAGATGATTTTAGAAAGACCACCAGGAAGTTTACGC
1 TAAGATGATTTCAGAAAGACCACCAGGAAGTTTACGC
41109189 TAAGATGATTTCAGAAAGACCACCAGGAAGTTTAC
1 TAAGATGATTTCAGAAAGACCACCAGGAAGTTTAC
41109224 CTAGTAACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (37 bp):
TAAGATGATTTCAGAAAGACCACCAGGAAGTTTACGC
Found at i:41112942 original size:34 final size:34
Alignment explanation
Indices: 41112899--41112966 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
41112889 AGAATTCACG
**
41112899 CCTATACAAGGAAGCAACAAAGTGCTGCCACGAC
1 CCTATACAAGGAAGCAACAAAGTGCCACCACGAC
*
41112933 CCTATACAAGGAAGCAACGAAGTGCCACCACGAC
1 CCTATACAAGGAAGCAACAAAGTGCCACCACGAC
41112967 GCTCGTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (34 bp):
CCTATACAAGGAAGCAACAAAGTGCCACCACGAC
Found at i:41113796 original size:6 final size:6
Alignment explanation
Indices: 41113785--41113819 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
41113775 TGTTTTACTA
* *
41113785 TTATTT TTATTT TTATCT TTATTT CTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
41113820 CCATTGTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:41115722 original size:61 final size:61
Alignment explanation
Indices: 41115596--41115722 Score: 132
Period size: 61 Copynumber: 2.1 Consensus size: 61
41115586 ATGTGAAATC
* * * * *
41115596 AACACGGCCTGGACTTCCATACATGGGCAAACCACACGCCTGTGTAGTTCTAGCAGGCTTT
1 AACACGACCTGGACTTCCATACATGGGCAAACCACACGCCTGTCTAGTTCTAACAGCCTTG
* * * * *
41115657 AACACGACTTGGACTTCCTTACATGGGTAGATCACACGCCCGTGTCTA-TT-TAACAGCCTTG
1 AACACGACCTGGACTTCCATACATGGGCAAACCACACG-CC-TGTCTAGTTCTAACAGCCTTG
41115718 AACAC
1 AACAC
41115723 AGATTGAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
61 45 0.83
62 4 0.07
63 5 0.09
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (61 bp):
AACACGACCTGGACTTCCATACATGGGCAAACCACACGCCTGTCTAGTTCTAACAGCCTTG
Found at i:41117521 original size:17 final size:18
Alignment explanation
Indices: 41117488--41117521 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41117478 GTGCCTTACA
41117488 TGTATGGCCCTACATGCC
1 TGTATGGCCCTACATGCC
41117506 TGTATGGCCC-ACATGC
1 TGTATGGCCCTACATGC
41117522 TCGTGTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (18 bp):
TGTATGGCCCTACATGCC
Found at i:41121307 original size:40 final size:40
Alignment explanation
Indices: 41121115--41121300 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
41121105 TTGAATGATG
* * * * *
41121115 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
41121155 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41121195 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41121235 TCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41121276 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
41121301 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 115 0.91
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41127430 original size:40 final size:40
Alignment explanation
Indices: 41127368--41127463 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
41127358 CCATCTCCGT
* * *
41127368 CCAACCCAACACACC-A-TGTGGGGATAAGATCAACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
* * *
41127406 CCAGCCCTACACATCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
41127446 CCAACCCTACACACCAAG
1 CCAACCCTACACACCAAG
41127464 AGATACCGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 12 0.25
39 1 0.02
40 35 0.73
ACGTcount: A:0.38, C:0.36, G:0.14, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
Done.