Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 126 of 290
Found at i:39555529 original size:65 final size:65
Alignment explanation
Indices: 39555458--39555644 Score: 243
Period size: 65 Copynumber: 2.9 Consensus size: 65
39555448 TATAAGATAA
* * * * *
39555458 ATAATTTGTGTATTTATATTTGGTATTTAAATATCTTATTGAATTATAATCATATTTGTTTTAAT
1 ATAATTTGTGTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATATTTATTTTAAT
* * * *
39555523 ATAATTTGTATATTTATAACTCATATTTAAATATTTTATTAAATTATAATAATATTTATTTTAAT
1 ATAATTTGTGTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATATTTATTTTAAT
* * *
39555588 ATAATTTGTAG-ATTTGTAATTGACATTAAAATATTTTATTGAATTATAATAAT-TTTA
1 ATAATTTGT-GTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATATTTA
39555645 ATAAAATTTG
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
64 4 0.04
65 101 0.96
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (65 bp):
ATAATTTGTGTATTTATAATTGATATTTAAATATTTTATTGAATTATAATAATATTTATTTTAAT
Found at i:39555638 original size:18 final size:20
Alignment explanation
Indices: 39555606--39555644 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
39555596 TAGATTTGTA
39555606 ATTGACATTAAAAT-ATTTT
1 ATTGACATTAAAATAATTTT
*
39555625 ATTGA-ATTATAATAATTTT
1 ATTGACATTAAAATAATTTT
39555644 A
1 A
39555645 ATAAAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTGACATTAAAATAATTTT
Found at i:39556821 original size:17 final size:17
Alignment explanation
Indices: 39556799--39556831 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39556789 CAATCTTATG
39556799 ATGGGGGTCTACGGTAC
1 ATGGGGGTCTACGGTAC
39556816 ATGGGGGTCTACGGTA
1 ATGGGGGTCTACGGTA
39556832 TGGGCATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.42, T:0.24
Consensus pattern (17 bp):
ATGGGGGTCTACGGTAC
Found at i:39557863 original size:159 final size:159
Alignment explanation
Indices: 39557572--39557875 Score: 425
Period size: 159 Copynumber: 1.9 Consensus size: 159
39557562 CAAAAATTGA
* *
39557572 TTACAATGCTTTTTTTTTCTTTGAACAAAATTTTTTCATTCATTTTTTTTTTGTATTTCATTTGT
1 TTACAATGCTTTTTTTTTCTTT-AACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTGT
* * * * * *
39557637 ATTTTTCACTATCTACTAACATTTATATAATGGAAAATTTGCTACTTTAAGCTTTACATCAAATA
65 ATTTGTCACCATCTACTAACATTCATATAATGGAAAAATAGCTACCTTAAGCTTTACATCAAATA
39557702 CCAATTACAATTTCTCTAGCGATGGAACTT
130 CCAATTACAATTTCTCTAGCGATGGAACTT
39557732 TTACAATGCTTCTTTTTTTC-TTATACAAAATCTATTCATTCA-TTTTTTTTTGTATTTCATTTG
1 TTACAATGCTT-TTTTTTTCTTTA-ACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTG
* * * * * *
39557795 TATTTGTCGCCGTTTACTAACATTCATATAGTGGAAAAATAGCTACCTTAAG-TGTTACGTCAAG
64 TATTTGTCACCATCTACTAACATTCATATAATGGAAAAATAGCTACCTTAAGCT-TTACATCAAA
39557859 TACCAATTACAATTTCT
128 TACCAATTACAATTTCT
39557876 TTGCCGATTG
Statistics
Matches: 127, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
158 1 0.01
159 89 0.70
160 29 0.23
161 8 0.06
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (159 bp):
TTACAATGCTTTTTTTTTCTTTAACAAAATCTATTCATTCATTTTTTTTTTGTATTTCATTTGTA
TTTGTCACCATCTACTAACATTCATATAATGGAAAAATAGCTACCTTAAGCTTTACATCAAATAC
CAATTACAATTTCTCTAGCGATGGAACTT
Found at i:39559015 original size:17 final size:17
Alignment explanation
Indices: 39558987--39559031 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
39558977 AACGGGGACT
*
39558987 AAATTGAAAGTGCAATA
1 AAATTTAAAGTGCAATA
*
39559004 AATTTTAAAGTGCAATA
1 AAATTTAAAGTGCAATA
39559021 AAATTTAAAGT
1 AAATTTAAAGT
39559032 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (17 bp):
AAATTTAAAGTGCAATA
Found at i:39560839 original size:188 final size:187
Alignment explanation
Indices: 39560572--39561028 Score: 495
Period size: 188 Copynumber: 2.4 Consensus size: 187
39560562 TCCACTATAG
* * * ** *
39560572 CTTCAAGGATATAAGATTTGTAATTTCATCTTGTTCCATTGCAACTTCAGGGAGATAAGATTCAC
1 CTTCAGGGGTATAAGATTTATAGCTTCATCTTGTT-CATTGCAACTTCAGGGAGATAAGATTCGC
* * ** * * * *
39560637 CATTATAACTTCAATCCAACCCATTGTAACTCCAGGGGTATATAATTTGTAGCTTTATTTTTACT
65 CATTATAGCTTCAATCCAACCCACTACAACTCCAAGGGTATACAATTTATAACTTTA-TTTTACT
* * * ** * *
39560702 CCA-TGCAACTTTAGGGAGATAAGGTTCACTATGGTGGCTTCAAT-TAAATCCGTTGCAA
129 CCACTACAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCT-AACCCATTGCAA
* * * *
39560760 CTTCAGGGGTATAAGATTTATAGCTTCATCTTGCTTCACTGCATCTTTAGGGAGATAAAATTCGC
1 CTTCAGGGGTATAAGATTTATAGCTTCATCTTG-TTCATTGCAACTTCAGGGAGATAAGATTCGC
*** *
39560825 CATTATAGCTTCAATTTGACCCACTACAACTTCAAGGGTATACAATTTATAACTTTATTTTACTC
65 CATTATAGCTTCAATCCAACCCACTACAACTCCAAGGGTATACAATTTATAACTTTATTTTACTC
* * *
39560890 CACTACAACTTCAGGGAGATAAGATTCGCTATGGTAACTTTAATCTGACCCATTGCAA
130 CACTACAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCTAACCCATTGCAA
* * * * * *
39560948 CTTTAGGGGTATAAGGTTTATAGCTTTATCTTGGTCCATTGCAACTTCAGAGAGATAAGATTTGC
1 CTTCAGGGGTATAAGATTTATAGCTTCATCTT-GTTCATTGCAACTTCAGGGAGATAAGATTCGC
* *
39561013 CATTGTAGTTTCAATC
65 CATTATAGCTTCAATC
39561029 TATTCCACTA
Statistics
Matches: 220, Mismatches: 45, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
187 10 0.05
188 206 0.94
189 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (187 bp):
CTTCAGGGGTATAAGATTTATAGCTTCATCTTGTTCATTGCAACTTCAGGGAGATAAGATTCGCC
ATTATAGCTTCAATCCAACCCACTACAACTCCAAGGGTATACAATTTATAACTTTATTTTACTCC
ACTACAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCTAACCCATTGCAA
Found at i:39561029 original size:94 final size:94
Alignment explanation
Indices: 39560572--39561197 Score: 402
Period size: 94 Copynumber: 6.7 Consensus size: 94
39560562 TCCACTATAG
* * * * * * *
39560572 CTTCAAGGATATAAGATTTGTA-ATTTCATCTTGTTCCATTGCAACTTCAGGGAGATAAGATTCA
1 CTTCAGGGGTATAAGATTTATAGCTTT-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCG
* * * *
39560636 CCATTATAACTTCAATCCAACCCATTGTAA
65 CCATTGTAGCTTCAATCTAACCCATTGCAA
* * * * * *
39560666 CTCCAGGGGTATATA-ATTTGTAGCTTTATTTTTACTCCA-TGCAACTTTAGGGAGATAAGGTTC
1 CTTCAGGGGTATA-AGATTTATAGCTTTA-TCTTGCTCCACTGCAACTTCAGGGAGATAAGATTC
* * * * * *
39560729 ACTATGGTGGCTTCAAT-TAAATCCGTTGCAA
64 GCCATTGTAGCTTCAATCT-AACCCATTGCAA
* * * * *
39560760 CTTCAGGGGTATAAGATTTATAGCTTCATCTTGCTTCACTGCATCTTTAGGGAGATAAAATTCGC
1 CTTCAGGGGTATAAGATTTATAGCTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* * * * *
39560825 CATTATAGCTTCAATTTGACCCACTACAA
66 CATTGTAGCTTCAATCTAACCCATTGCAA
* * * * *
39560854 CTTCAAGGGTATACA-ATTTATAACTTTATTTTACTCCACTACAACTTCAGGGAGATAAGATTCG
1 CTTCAGGGGTATA-AGATTTATAGCTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCG
* * * * *
39560918 CTATGGTAACTTTAATCTGACCCATTGCAA
65 CCATTGTAGCTTCAATCTAACCCATTGCAA
* * * * * *
39560948 CTTTAGGGGTATAAGGTTTATAGCTTTATCTTGGTCCATTGCAACTTCAGAGAGATAAGATTTGC
1 CTTCAGGGGTATAAGATTTATAGCTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* ** * **
39561013 CATTGTAGTTTCAATCTATTCCACTAAAA
66 CATTGTAGCTTCAATCTAACCCATTGCAA
* * * * * * * * * ** * *
39561042 CTTTAAGGATATAAGGTTTGTAGCTTTGTCTTGCGCTACTGCAACTTTAGATATATAAGACTCGC
1 CTTCAGGGGTATAAGATTTATAGCTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* ** * ** * *
39561107 AATTGTAATTTCATTCCGACCCACTGTAA
66 CATTGTAGCTTCAATCTAACCCATTGCAA
* * * * * *
39561136 CATCAGGGGTATAGGAATTGTAGCTTTAATC-TGATCCACTGCAAC-TCTAGGGATATAAGATT
1 CTTCAGGGGTATAAGATTTATAGCTTT-ATCTTGCTCCACTGCAACTTC-AGGGAGATAAGATT
39561198 TGTAGCTTCA
Statistics
Matches: 407, Mismatches: 114, Indels: 22
0.75 0.21 0.04
Matches are distributed among these distances:
93 10 0.02
94 382 0.94
95 15 0.04
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (94 bp):
CTTCAGGGGTATAAGATTTATAGCTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
CATTGTAGCTTCAATCTAACCCATTGCAA
Found at i:39561257 original size:94 final size:93
Alignment explanation
Indices: 39561159--39561390 Score: 286
Period size: 94 Copynumber: 2.5 Consensus size: 93
39561149 GGAATTGTAG
*
39561159 CTTTAATCTGATCCACTGCAACTCTAGGGATATAAGATTTGTAGCTTCAT-CTTACACCACTACA
1 CTTTAATCTGACCCACTGCAACT-TAGGGATATAAGATTTGTAGCTTCATCCTT-CACCACTACA
* *
39561223 ACTTCAGGGAGATAAGATTCGCTACGGTAA
64 ACTTCAAGGAGATAAAATTCGCTACGGTAA
* * * * *
39561253 CTTTAATCAGACCCACTGCAACTTCAGTGAGATAAGATTTGTAGCTTCATCCTTCTCCACTGCAA
1 CTTTAATCTGACCCACTGCAACTT-AGGGATATAAGATTTGTAGCTTCATCCTTCACCACTACAA
*
39561318 CTTCAAGGAGATAAAATTCGCTATGGTAA
65 CTTCAAGGAGATAAAATTCGCTACGGTAA
* * * * **
39561347 CTTCAATCTGACCCATTGTAACTTTAGGGGTATGGGATTTGTAG
1 CTTTAATCTGACCCACTGCAAC-TTAGGGATATAAGATTTGTAG
39561391 TTGTAGCTTC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
93 1 0.01
94 111 0.95
95 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (93 bp):
CTTTAATCTGACCCACTGCAACTTAGGGATATAAGATTTGTAGCTTCATCCTTCACCACTACAAC
TTCAAGGAGATAAAATTCGCTACGGTAA
Found at i:39564945 original size:38 final size:38
Alignment explanation
Indices: 39564879--39564951 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
39564869 ACCAGTTTGG
*
39564879 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTAA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTAA
* * *
39564917 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGT
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGT
39564952 GGTACCCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.90
39 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTAA
Found at i:39565009 original size:41 final size:38
Alignment explanation
Indices: 39564916--39565012 Score: 97
Period size: 41 Copynumber: 2.5 Consensus size: 38
39564906 AGCAAAGTTA
*
39564916 ACACCCAGTGTCTCATCG-GCCTAGCCGAAGTAAAGTG
1 ACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTG
** ** * *
39564953 GTACCCAGTACCTCATCGAATCTATCCGAAGTAACAGTATG
1 ACACCCAGTGTCTCATCGAACCTAGCCGAAGTAA-AG--TG
39564994 ACACCCAGTGTCTCATCGA
1 ACACCCAGTGTCTCATCGA
39565013 CTCGAGGTCG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
37 14 0.31
38 12 0.27
39 2 0.04
41 17 0.38
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (38 bp):
ACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTG
Found at i:39566068 original size:16 final size:17
Alignment explanation
Indices: 39566036--39566069 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
39566026 AATCCTTAGA
*
39566036 TTTCTCTTTTATCTTTC
1 TTTCCCTTTTATCTTTC
39566053 TTTCCCTTTT-TCTTTC
1 TTTCCCTTTTATCTTTC
39566069 T
1 T
39566070 CTTTTCTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCCCTTTTATCTTTC
Found at i:39569971 original size:24 final size:24
Alignment explanation
Indices: 39569921--39569997 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
39569911 AACTTTTTCG
* *
39569921 TCTTCACCTCAACCCTTGTAC-TGA
1 TCTTCACCTCAACCCTCGT-CTTCA
*
39569945 TCTTCACCTCGACCCTCGTCTTCA
1 TCTTCACCTCAACCCTCGTCTTCA
* * * *
39569969 TCTTCATCTCTATCCTCGTCTTCG
1 TCTTCACCTCAACCCTCGTCTTCA
39569993 TCTTC
1 TCTTC
39569998 GTCTCCATCG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.13, C:0.40, G:0.08, T:0.39
Consensus pattern (24 bp):
TCTTCACCTCAACCCTCGTCTTCA
Found at i:39572460 original size:17 final size:18
Alignment explanation
Indices: 39572440--39572473 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39572430 AATGAATTGT
*
39572440 TTTATTGTAT-AAATTAA
1 TTTATTGAATGAAATTAA
39572457 TTTATTGAATGAAATTA
1 TTTATTGAATGAAATTA
39572474 TTAATTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTTATTGAATGAAATTAA
Found at i:39572882 original size:21 final size:21
Alignment explanation
Indices: 39572844--39572893 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
39572834 GATTTGGGTG
* * *
39572844 GTTCAGCTCTGACGAGCTTTT
1 GTTCAGCTCTCACAAGCTTCT
*
39572865 GTTCAGCTTTCACAAGCTTCT
1 GTTCAGCTCTCACAAGCTTCT
*
39572886 ATTCAGCT
1 GTTCAGCT
39572894 GTTATGAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (21 bp):
GTTCAGCTCTCACAAGCTTCT
Found at i:39573944 original size:61 final size:61
Alignment explanation
Indices: 39573829--39573945 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
39573819 ATGTGAAATC
* * *
39573829 AACACGGCCCGGAATTCCGTACACGGGCAGACCATACGCCCGTGTAGTTCTAGCAGGCTCT
1 AACACGGCCCGGAATTCCGTACACGGGCAGACCACAAGCCCGTGTACTTCTAGCAGGCTCT
** * * * * *
39573890 AACACGGCTTGGACTTCCTTACACGGGTAGACCACAAGCCCGTGTCCTTTTAGCAG
1 AACACGGCCCGGAATTCCGTACACGGGCAGACCACAAGCCCGTGTACTTCTAGCAG
39573946 AATCGAGCAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.21
Consensus pattern (61 bp):
AACACGGCCCGGAATTCCGTACACGGGCAGACCACAAGCCCGTGTACTTCTAGCAGGCTCT
Found at i:39576271 original size:20 final size:22
Alignment explanation
Indices: 39576235--39576275 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39576225 CTGCAGTGTT
39576235 AAAAATTTTAAATGTTTCCGAA
1 AAAAATTTTAAATGTTTCCGAA
39576257 AAAAATTTT-AA-GTTTCCGA
1 AAAAATTTTAAATGTTTCCGA
39576276 TTTAGTCCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (22 bp):
AAAAATTTTAAATGTTTCCGAA
Found at i:39576578 original size:16 final size:17
Alignment explanation
Indices: 39576539--39576573 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39576529 TTATATCGAC
*
39576539 AAAA-TAAAATATTTTA
1 AAAATTAAAAAATTTTA
39576555 AAAATTAAAAAATTTTA
1 AAAATTAAAAAATTTTA
39576572 AA
1 AA
39576574 TTTAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTAAAAAATTTTA
Found at i:39576994 original size:8 final size:8
Alignment explanation
Indices: 39576961--39577009 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
39576951 TAAATAAGAA
39576961 ATAATAATT
1 ATAATAA-T
39576970 ATAATAAT
1 ATAATAAT
*
39576978 TTAATAAT
1 ATAATAAT
39576986 ATAATAAT
1 ATAATAAT
**
39576994 AT-ATGTT
1 ATAATAAT
39577001 ATAATAAT
1 ATAATAAT
39577009 A
1 A
39577010 ATAGAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
7 5 0.15
8 21 0.64
9 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
ATAATAAT
Found at i:39579525 original size:16 final size:18
Alignment explanation
Indices: 39579504--39579538 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
39579494 TAATGTCTAG
39579504 GAAAATTA-TT-AATTGA
1 GAAAATTAGTTCAATTGA
39579520 GAAAATTAGTTCAATTGA
1 GAAAATTAGTTCAATTGA
39579538 G
1 G
39579539 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (18 bp):
GAAAATTAGTTCAATTGA
Found at i:39581128 original size:19 final size:19
Alignment explanation
Indices: 39581104--39581149 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
39581094 TAGCTATGTA
39581104 CCACACGAC-TGCTCCCAAG
1 CCACACGACGTG-TCCCAAG
*
39581123 CCACACGGGCGTGTCCCAAG
1 CCACAC-GACGTGTCCCAAG
39581143 CCACACG
1 CCACACG
39581150 GGCGTGTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 15 0.62
21 2 0.08
ACGTcount: A:0.24, C:0.46, G:0.22, T:0.09
Consensus pattern (19 bp):
CCACACGACGTGTCCCAAG
Found at i:39581141 original size:20 final size:20
Alignment explanation
Indices: 39581116--39581156 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
39581106 ACACGACTGC
39581116 TCCCAAGCCACACGGGCGTG
1 TCCCAAGCCACACGGGCGTG
39581136 TCCCAAGCCACACGGGCGTG
1 TCCCAAGCCACACGGGCGTG
39581156 T
1 T
39581157 GCCTCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (20 bp):
TCCCAAGCCACACGGGCGTG
Found at i:39582980 original size:17 final size:18
Alignment explanation
Indices: 39582954--39582988 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
39582944 TTAGAATTTT
*
39582954 TTTTTAAAAAATTTATAA
1 TTTTTAAAAAATATATAA
39582972 TTTTT-AAAAATATATAA
1 TTTTTAAAAAATATATAA
39582989 AATTTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTAAAAAATATATAA
Found at i:39582990 original size:27 final size:27
Alignment explanation
Indices: 39582961--39583011 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
39582951 TTTTTTTTAA
*
39582961 AAAATTTATAA-TTTTTAAAAATATAT
1 AAAATTTAAAACTTTTTAAAAATATAT
*
39582987 AAAATTTAAAACTTTTTACAAATAT
1 AAAATTTAAAACTTTTTAAAAATAT
39583012 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATTTAAAACTTTTTAAAAATATAT
Found at i:39582992 original size:19 final size:18
Alignment explanation
Indices: 39582954--39582993 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
39582944 TTAGAATTTT
* *
39582954 TTTTTAAAAAATTTATAA
1 TTTTTAAAAAATATAAAA
39582972 TTTTTAAAAATATATAAAA
1 TTTTTAAAAA-ATATAAAA
39582991 TTT
1 TTT
39582994 AAAACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTAAAAAATATAAAA
Found at i:39585142 original size:21 final size:20
Alignment explanation
Indices: 39585103--39585142 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
39585093 ACATAAATAC
* *
39585103 TAGTTATTATTTAACATATA
1 TAGTTATTAATTAAAATATA
39585123 TAGTTATATAATTAAAATAT
1 TAGTTAT-TAATTAAAATAT
39585143 TTTGTGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TAGTTATTAATTAAAATATA
Found at i:39587632 original size:36 final size:36
Alignment explanation
Indices: 39587592--39587662 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
39587582 AGGAATGAGG
39587592 CAGTCCAAAATCTATTCTCAAACTACGGAATCTTAA
1 CAGTCCAAAATCTATTCTCAAACTACGGAATCTTAA
*
39587628 CAGTCCAAAATCTATTCTCAAATTACGGAATCTTA
1 CAGTCCAAAATCTATTCTCAAACTACGGAATCTTA
39587663 CATTGGAGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (36 bp):
CAGTCCAAAATCTATTCTCAAACTACGGAATCTTAA
Found at i:39595990 original size:22 final size:22
Alignment explanation
Indices: 39595966--39596007 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
39595956 ATTATTTTTA
39595966 AAAATCATAAAA-ATTATAAAC
1 AAAATCATAAAATATTATAAAC
* *
39595987 AAAATTATAAAATATTTTAAA
1 AAAATCATAAAATATTATAAA
39596008 ACTATGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATCATAAAATATTATAAAC
Found at i:39599968 original size:26 final size:26
Alignment explanation
Indices: 39599920--39599973 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
39599910 ATCATCTCTT
* *
39599920 TTCATTACTTTAATGTTATATTAATAA
1 TTCATTACTTTAATATTAAATTAA-AA
39599947 TTCATTA-TTTAATATTAAATTAAAA
1 TTCATTACTTTAATATTAAATTAAAA
39599972 TT
1 TT
39599974 TTTGAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 14 0.56
27 7 0.28
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (26 bp):
TTCATTACTTTAATATTAAATTAAAA
Found at i:39605197 original size:3 final size:3
Alignment explanation
Indices: 39605184--39605251 Score: 91
Period size: 3 Copynumber: 22.7 Consensus size: 3
39605174 CATTTAACAG
* * *
39605184 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA GGA AGA AGA AGG AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
39605232 AGA AAA AAA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AG
39605252 CAGCAGCAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:39606755 original size:16 final size:16
Alignment explanation
Indices: 39606736--39606781 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
39606726 ACTGTAATAA
* *
39606736 AATAGGGATGTAATTG
1 AATAGAGATGTAATGG
*
39606752 AATAGAGCTGTAATGG
1 AATAGAGATGTAATGG
*
39606768 AATAGAGCTGTAAT
1 AATAGAGATGTAAT
39606782 CAATAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (16 bp):
AATAGAGATGTAATGG
Found at i:39606820 original size:46 final size:44
Alignment explanation
Indices: 39606763--39606856 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
39606753 ATAGAGCTGT
* *
39606763 AATGGAATAGAGCTGTAATCAATAATTCA-ACTGTTTGGTTGAATGG
1 AATGGAATAGAGCTATAAT--AGAATT-ATACTGTTTGGTTGAATGG
* **
39606809 AATGGAGTAGAGCTATAATAGAATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTATAATAGAATTATACTGTTTGGTTGAATGG
39606853 AATG
1 AATG
39606857 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.57
46 17 0.40
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGCTATAATAGAATTATACTGTTTGGTTGAATGG
Found at i:39606971 original size:25 final size:25
Alignment explanation
Indices: 39606927--39606977 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
39606917 GTTGATAAAT
39606927 GATTATTGTTATTAAA-TTTTAATAA
1 GATTATTGTTA-TAAATTTTTAATAA
39606952 GATTATTGTTA-AATATTTTTTAATAA
1 GATTATTGTTATAA-A-TTTTTAATAA
39606978 AAATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 1 0.04
25 11 0.48
26 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
GATTATTGTTATAAATTTTTAATAA
Found at i:39607001 original size:55 final size:57
Alignment explanation
Indices: 39606953--39607068 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 57
39606943 TTTTAATAAG
* **
39606953 ATTATTGTTAAATATTTTTTAAT-AAA-AATAAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAACAATAAATAATTTAATCATATTTTAACATA
* * * *
39607008 ATTATTATTAAATATAATTTAATAAAACAATATATAATTTAATAACATTATTAATATA
1 ATTATTATTAAATATAATTTAATAAAACAATAAATAATTTAATCATATT-TTAACATA
39607066 ATT
1 ATT
39607069 TTTAATAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 20 0.39
56 3 0.06
57 18 0.35
58 10 0.20
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTATTATTAAATATAATTTAATAAAACAATAAATAATTTAATCATATTTTAACATA
Found at i:39607072 original size:24 final size:24
Alignment explanation
Indices: 39607045--39607090 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
39607035 CAATATATAA
*
39607045 TTTAATAA-CATTATTAATATAATT
1 TTTAATAATAATT-TTAATATAATT
39607069 TTTAATAATAATTTTAATATAA
1 TTTAATAATAATTTTAATATAA
39607091 AATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAATAATAATTTTAATATAATT
Found at i:39607080 original size:55 final size:57
Alignment explanation
Indices: 39606953--39607093 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 57
39606943 TTTTAATAAG
* * * *
39606953 ATTATTGTTAAATAT-TTTTTAAT-AAAAATAAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATATAATTTTAATAAAAAATAAATAATTTAATAACATTTTAACATA
* *
39607008 ATTATTATTAAATATAA-TTTAATAAAACAATATATAATTTAATAACATTATTAATATA
1 ATTATTATTAAATATAATTTTAATAAAA-AATAAATAATTTAATAACATT-TTAACATA
*
39607066 A-T-TT-TT-AATAATAATTTTAATATAAAAT
1 ATTATTATTAAAT-ATAATTTTAATAAAAAAT
39607094 TATTATTATG
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
54 3 0.04
55 29 0.40
56 14 0.19
57 19 0.26
58 8 0.11
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTATTATTAAATATAATTTTAATAAAAAATAAATAATTTAATAACATTTTAACATA
Found at i:39609578 original size:40 final size:40
Alignment explanation
Indices: 39609534--39609614 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
39609524 TTAGTTATAC
39609534 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
39609574 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
39609614 T
1 T
39609615 AGAGTTCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (40 bp):
TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
Found at i:39610803 original size:21 final size:22
Alignment explanation
Indices: 39610777--39610823 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
39610767 CTCTGCTCAA
*
39610777 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
39610798 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
39610820 ACTC
1 ACTC
39610824 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:39614939 original size:33 final size:34
Alignment explanation
Indices: 39614875--39614942 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
39614865 GCTCAAATCC
*
39614875 ATCATCTCCTAAATGGGAAACGAACTTGAAAATG
1 ATCATCTCCTAAATAGGAAACGAACTTGAAAATG
*
39614909 ATCATCTCCTGAATAGGAAAC-AACTTGAAAATG
1 ATCATCTCCTAAATAGGAAACGAACTTGAAAATG
39614942 A
1 A
39614943 CACTTATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (34 bp):
ATCATCTCCTAAATAGGAAACGAACTTGAAAATG
Found at i:39615136 original size:13 final size:13
Alignment explanation
Indices: 39615118--39615145 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39615108 TCATTTAATT
39615118 TTTATAAAAAAAA
1 TTTATAAAAAAAA
39615131 TTTATAAAAAAAA
1 TTTATAAAAAAAA
39615144 TT
1 TT
39615146 GAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTTATAAAAAAAA
Found at i:39620520 original size:23 final size:22
Alignment explanation
Indices: 39620494--39620538 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
39620484 ATAATTTTCA
39620494 AAAATAGATTATGATTTTTTTTG
1 AAAAT-GATTATGATTTTTTTTG
**
39620517 AAAATTTTTATGATTTTTTTTG
1 AAAATGATTATGATTTTTTTTG
39620539 GATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (22 bp):
AAAATGATTATGATTTTTTTTG
Found at i:39620527 original size:22 final size:20
Alignment explanation
Indices: 39620502--39620559 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 20
39620492 CAAAAATAGA
39620502 TTATGATTTTTTTTGAAAATTT
1 TTATGATTTTTTTTG--AATTT
*
39620524 TTATGATTTTTTTTGGATTT
1 TTATGATTTTTTTTGAATTT
39620544 TTATTGATATTTTTTT
1 TTA-TGAT-TTTTTTT
39620560 TTAATTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 7 0.21
21 4 0.12
22 22 0.67
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TTATGATTTTTTTTGAATTT
Found at i:39620566 original size:11 final size:11
Alignment explanation
Indices: 39620507--39620567 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 11
39620497 ATAGATTATG
39620507 ATTTTTTTTGAA
1 ATTTTTTTTG-A
* *
39620519 AATTTTTATG-
1 ATTTTTTTTGA
*
39620529 ATTTTTTTTGG
1 ATTTTTTTTGA
*
39620540 ATTTTTATTGA
1 ATTTTTTTTGA
*
39620551 TATTTTTTTTTA
1 -ATTTTTTTTGA
39620563 ATTTT
1 ATTTT
39620568 CAAGTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
10 8 0.21
11 14 0.36
12 17 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.70
Consensus pattern (11 bp):
ATTTTTTTTGA
Found at i:39624542 original size:22 final size:22
Alignment explanation
Indices: 39624517--39624559 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39624507 TGTAATAATA
*
39624517 ATATTTTAATTTTAGAATATAT
1 ATATTTTAATTTTAAAATATAT
*
39624539 ATATTTTAGTTTTAAAATATA
1 ATATTTTAATTTTAAAATATA
39624560 ATTACATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTTTAATTTTAAAATATAT
Found at i:39625116 original size:41 final size:41
Alignment explanation
Indices: 39625069--39625174 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
39625059 AAAAGGTAAG
*
39625069 CAATAGTAGTGTTTTTGGTCCAAACGGCGTAAAA-AGTTGAA
1 CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAACA-TTGAA
* *
39625110 CAATAGTGACGT-TTTTT-GTCCAAATGCCGTAAAACATTGAG
1 CAATAGT-A-GTGTTTTTGGTCCAAACGCCGTAAAACATTGAA
* *
39625151 CAATAATAGCGTTTTTGGT-CAAAC
1 CAATAGTAGTGTTTTTGGTCCAAAC
39625175 TCCGCGAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 1 0.02
40 10 0.19
41 34 0.63
42 7 0.13
43 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (41 bp):
CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAACATTGAA
Found at i:39625637 original size:21 final size:21
Alignment explanation
Indices: 39625613--39625738 Score: 123
Period size: 21 Copynumber: 5.9 Consensus size: 21
39625603 TCTAAAACTC
39625613 TAAACCTTAAACCATAAACCA
1 TAAACCTTAAACCATAAACCA
*
39625634 TAAACCATAAACCATAAA-CA
1 TAAACCTTAAACCATAAACCA
* **
39625654 CTAAACTTTAAATAATAAA-CA
1 -TAAACCTTAAACCATAAACCA
39625675 CTAAACCTTAAAGCC-TAAACCA
1 -TAAACCTTAAA-CCATAAACCA
*
39625697 TAAAACCATAAACCATAAACCA
1 T-AAACCTTAAACCATAAACCA
* *
39625719 TAAACTCTAAAACCTTAAAC
1 TAAAC-CTTAAACCATAAAC
39625739 ACTAAAAACT
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.02
21 55 0.63
22 30 0.34
ACGTcount: A:0.54, C:0.25, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACCA
Found at i:39625729 original size:14 final size:13
Alignment explanation
Indices: 39625590--39625723 Score: 92
Period size: 14 Copynumber: 9.5 Consensus size: 13
39625580 ATGACTTTCT
*
39625590 CTAAACCCTAAAC
1 CTAAACCATAAAC
39625603 TCTAAAACTC-TAAAC
1 -CT-AAAC-CATAAAC
39625618 CTTAAACCATAAAC
1 C-TAAACCATAAAC
39625632 CATAAACCATAAAC
1 C-TAAACCATAAAC
39625646 CATAAA-CACTAAAC
1 C-TAAACCA-TAAAC
* **
39625660 TTTAAATAATAAAC
1 -CTAAACCATAAAC
*
39625674 ACTAAACCTTAAAGC
1 -CTAAACCATAAA-C
39625689 CTAAACCATAAAAC
1 CTAAACCAT-AAAC
39625703 CATAAACCATAAAC
1 C-TAAACCATAAAC
39625717 CATAAAC
1 C-TAAAC
39625724 TCTAAAACCT
Statistics
Matches: 101, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
13 3 0.03
14 74 0.73
15 23 0.23
16 1 0.01
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (13 bp):
CTAAACCATAAAC
Found at i:39625738 original size:7 final size:7
Alignment explanation
Indices: 39625613--39625723 Score: 111
Period size: 7 Copynumber: 15.7 Consensus size: 7
39625603 TCTAAAACTC
*
39625613 TAAACCT
1 TAAACCA
39625620 TAAACCA
1 TAAACCA
39625627 TAAACCA
1 TAAACCA
39625634 TAAACCA
1 TAAACCA
39625641 TAAACCA
1 TAAACCA
39625648 TAAA-CA
1 TAAACCA
**
39625654 CTAAACTT
1 -TAAACCA
**
39625662 TAAATAA
1 TAAACCA
39625669 TAAA-CA
1 TAAACCA
*
39625675 CTAAACCT
1 -TAAACCA
39625683 TAAAGCC-
1 TAAA-CCA
39625690 TAAACCA
1 TAAACCA
39625697 TAAAACCA
1 T-AAACCA
39625705 TAAACCA
1 TAAACCA
39625712 TAAACCA
1 TAAACCA
39625719 TAAAC
1 TAAAC
39625724 TCTAAAACCT
Statistics
Matches: 89, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
6 5 0.06
7 74 0.83
8 10 0.11
ACGTcount: A:0.55, C:0.25, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:39625743 original size:15 final size:15
Alignment explanation
Indices: 39625628--39625745 Score: 58
Period size: 14 Copynumber: 8.2 Consensus size: 15
39625618 CTTAAACCAT
39625628 AAACCATAAAC-C-A
1 AAACCATAAACACTA
39625641 TAAACCATAAACACT-
1 -AAACCATAAACACTA
** * *
39625656 AAACTTTAAATAAT-
1 AAACCATAAACACTA
39625670 AAA-CACTAAAC-CTTA
1 AAACCA-TAAACAC-TA
*
39625685 AAGCC-TAAAC-CATA
1 AAACCATAAACAC-TA
39625699 AAACCATAAAC-C-A
1 AAACCATAAACACTA
*
39625712 TAAACCATAAACTCTA
1 -AAACCATAAACACTA
*
39625728 AAACCTTAAACACTA
1 AAACCATAAACACTA
39625743 AAA
1 AAA
39625746 ACTAAATTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
13 1 0.01
14 52 0.64
15 26 0.32
16 2 0.02
ACGTcount: A:0.56, C:0.25, G:0.01, T:0.19
Consensus pattern (15 bp):
AAACCATAAACACTA
Found at i:39626218 original size:42 final size:42
Alignment explanation
Indices: 39626144--39626223 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
39626134 AATTTTAATT
* * *
39626144 AAGTTGAGCAATAGTGTGTTTTTGGCTTCAAACGCCGCAAAA
1 AAGTTGAGCAATAGTGTGTTTTTAGCTCCAAACACCGCAAAA
39626186 AAGTTG-GACAATAGTGGTGTTTTTAG-TCCAAACACCGC
1 AAGTTGAG-CAATAGT-GTGTTTTTAGCTCCAAACACCGC
39626224 GAATATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.03
42 23 0.70
43 9 0.27
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
AAGTTGAGCAATAGTGTGTTTTTAGCTCCAAACACCGCAAAA
Found at i:39626363 original size:118 final size:116
Alignment explanation
Indices: 39626215--39626736 Score: 629
Period size: 116 Copynumber: 4.5 Consensus size: 116
39626205 TTTTTAGTCC
* * * * *
39626215 AAACACCGCGAATAT-TTATTGAA-AGATTGCAAAACGTTGTCGTCTTTACCTGCGCTTTTAGTG
1 AAACGCCGCGAATATGTT-TT-AAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTG
* *
39626278 GCGTTTTTACTAAAACGCCACAAAAGTATATGCGTTAGTGTCGTTTTCAAAAAAA
64 GCGTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTC--AAAAA
* * *
39626333 AAACGCCACGAATATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGC
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * *
39626398 ATTTTTACTAAAACGCCACAAAAGGATATGCGTTAGCGGCGTTTTCACAAA
66 GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAA
* * * * * *
39626449 AAACACCGCGAATATGTTTTACGAGTTTGCAAAATGTTGCCATTTTTATCTGTGTTTTTAGTGGC
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * * *
39626514 GTTTTTACTAGAACCCCGA-AAAAGGATATGCATTAGTGGCATTTTCACAAAA
66 GTTTTTACTAAAACGCC-ACAAAAGGATATGCGTTAGTGGCGTTTTCA-AAAA
* * * *
39626566 AAACGTCGCGAATATGTTTTAAGAGTTTGCAAAATGTTGTC-TTTTTATCTGTGTTTTTAGTGGT
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* ** * * *
39626630 GTTTTTACTAAAAAGCCGTAAAAGGATATGTGTTAGTGGTGTTTTCACAAA
66 GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAA
** * *
39626681 AAACGTTGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTAGCTGCGTT
1 AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTT
39626737 AGTGGCGCTT
Statistics
Matches: 350, Mismatches: 48, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
115 41 0.12
116 171 0.49
117 43 0.12
118 93 0.27
119 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (116 bp):
AAACGCCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCAAAAA
Found at i:39630282 original size:43 final size:43
Alignment explanation
Indices: 39630215--39630338 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
39630205 AGCTCGTACA
* * * * *
39630215 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAACG
* * * * *
39630257 ATGCTACTATCCCAGACAGGGTCTTATATGAAATCATATAACG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAACG
* *
39630300 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACAT
39630339 CTCGGTAATC
Statistics
Matches: 64, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 4 0.06
43 60 0.94
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAACG
Found at i:39639322 original size:17 final size:18
Alignment explanation
Indices: 39639302--39639337 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39639292 TAATCTTGTT
39639302 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
39639319 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
39639337 T
1 T
39639338 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:39639381 original size:6 final size:6
Alignment explanation
Indices: 39639370--39639394 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39639360 TAACTTTGAG
39639370 TAGAAT TAGAAT TAGAAT TAGAAT T
1 TAGAAT TAGAAT TAGAAT TAGAAT T
39639395 TCTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TAGAAT
Found at i:39652226 original size:13 final size:13
Alignment explanation
Indices: 39652208--39652233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39652198 GCAGTATACC
39652208 TACATACATACAT
1 TACATACATACAT
39652221 TACATACATACAT
1 TACATACATACAT
39652234 GTATATATAA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
TACATACATACAT
Found at i:39667836 original size:34 final size:35
Alignment explanation
Indices: 39667797--39667867 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
39667787 AAACCAATAG
39667797 AAAACTC-TCTCTAATAAAAACCAATAAAATTATT
1 AAAACTCGTCTCTAATAAAAACCAATAAAATTATT
* *
39667831 AAAACTCTGTCTCTAATAGAAACCAATAGAATTATT
1 AAAACTC-GTCTCTAATAAAAACCAATAAAATTATT
39667867 A
1 A
39667868 TTCCCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 7 0.21
36 26 0.79
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (35 bp):
AAAACTCGTCTCTAATAAAAACCAATAAAATTATT
Found at i:39667883 original size:22 final size:22
Alignment explanation
Indices: 39667855--39667907 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
39667845 AATAGAAACC
*
39667855 AATAGAATTATTATTCCCAAGA-
1 AATAGAATTACTATTCCCAA-AT
*
39667877 AATAGAATTGCTATTCCCAAAT
1 AATAGAATTACTATTCCCAAAT
39667899 AATAGAATT
1 AATAGAATT
39667908 TATACTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (22 bp):
AATAGAATTACTATTCCCAAAT
Found at i:39671880 original size:239 final size:238
Alignment explanation
Indices: 39671433--39671910 Score: 735
Period size: 239 Copynumber: 2.0 Consensus size: 238
39671423 TAAACCTATG
* *
39671433 ATGATTATAGTGTTTGTCACTCTTAGCTAAGAATCTCCTTTCAGTCTCATCCTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
* * * *
39671498 ACCACCTAGGTTCTCCCTCGGTCTCACCTAGGCATATAGATATCCTCTTGGTTTCACTATTAGAC
66 ACAACCTAGGTTCTCCCTCAGTCTCACCTAGGCATATAGATATCCTCTTGATCTCACTATTAGAC
* * *
39671563 ACAAGTGTATCAAAGTCCTACACGATAGAGTCTCTTCTCAGTCTCATCTATCTAAATTTTCCACT
131 ACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATTTTCCACT
*
39671628 AGAGGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
196 AGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
39671671 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
* *
39671736 GCAACCTAGGTTCTCCTCTCAGTCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCA-
66 ACAACCTAGGTTCTCC-CTCAGTCTCACCTAGGCATATAGATATCCTCTTGATCTCACTATT-AG
* * ** *
39671800 ACACAAGTGTAACAAAGTCCTACATGATAGAATCTCCTCTTAGTCTTGTTTATCTAAATATTT-C
129 ACACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAAT-TTTCC
* **
39671864 ATTAGAAGTTTCAATTCTAGTATAATATGCAATTTAATACACTTGA
193 ACTAGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
39671910 A
1 A
39671911 CAAACAACCA
Statistics
Matches: 217, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
238 77 0.35
239 136 0.63
240 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (238 bp):
ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
ACAACCTAGGTTCTCCCTCAGTCTCACCTAGGCATATAGATATCCTCTTGATCTCACTATTAGAC
ACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATTTTCCACT
AGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
Found at i:39676877 original size:55 final size:54
Alignment explanation
Indices: 39676794--39676905 Score: 188
Period size: 55 Copynumber: 2.1 Consensus size: 54
39676784 CCAAAGTAGG
* *
39676794 AAAAATATTAAGTTAGGAGATATATAATAGCAGAGGAAAGGAATGAAGGATTATA
1 AAAAACATTAAGTTAGGAGAAATATAATAGCAGAGGAAAGGAATGAAGGATTA-A
*
39676849 AAAAACATTAAGTTAGGAGAAATATAATAGTAGAGGAAAGGAATGAAGGATTAA
1 AAAAACATTAAGTTAGGAGAAATATAATAGCAGAGGAAAGGAATGAAGGATTAA
39676903 AAA
1 AAA
39676906 GAAATTTAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 4 0.07
55 50 0.93
ACGTcount: A:0.54, C:0.02, G:0.23, T:0.21
Consensus pattern (54 bp):
AAAAACATTAAGTTAGGAGAAATATAATAGCAGAGGAAAGGAATGAAGGATTAA
Found at i:39677946 original size:22 final size:22
Alignment explanation
Indices: 39677920--39677982 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
39677910 TCTTCGATTA
39677920 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* ** *
39677942 TTAGCGCATCCGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCCGT
* * *
39677964 ATAGCACTTTAGCGCTCTC
1 TTAGCACATTAGTGCTCTC
39677983 TGTTCAATAG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.35
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:39685074 original size:22 final size:22
Alignment explanation
Indices: 39685012--39685076 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
39685002 CTCCGATTAT
* *
39685012 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
*
39685034 TAGCACATTCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
39685056 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
39685077 TCAATAGTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.38
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:39695729 original size:32 final size:32
Alignment explanation
Indices: 39695693--39695756 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
39695683 AATTCCACAC
* *
39695693 GCCCGTGTGGCCCATACAGCCCAATTGGTCGA
1 GCCCGTGTCGCCCACACAGCCCAATTGGTCGA
* * *
39695725 GCCCGTGTCTCGCACACGGCCCAATTGGTCGA
1 GCCCGTGTCGCCCACACAGCCCAATTGGTCGA
39695757 ACATGTGTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (32 bp):
GCCCGTGTCGCCCACACAGCCCAATTGGTCGA
Found at i:39695765 original size:32 final size:32
Alignment explanation
Indices: 39695711--39695776 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
39695701 GGCCCATACA
* * *
39695711 GCCCAATTGGTCGAGCCCGTGTCTCGCACACG
1 GCCCAATTGGTCGAACACGTGTCTCACACACG
* *
39695743 GCCCAATTGGTCGAACATGTGTCTCATACACG
1 GCCCAATTGGTCGAACACGTGTCTCACACACG
39695775 GC
1 GC
39695777 TTTGCTTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (32 bp):
GCCCAATTGGTCGAACACGTGTCTCACACACG
Found at i:39698392 original size:24 final size:24
Alignment explanation
Indices: 39698334--39698392 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 24
39698324 CTTTATTTTT
39698334 TATATAATTTAAAATAAACTAAAA
1 TATATAATTTAAAATAAACTAAAA
39698358 TAT-TACTATTTAAAACT-AA-TAAAA
1 TATATA--ATTTAAAA-TAAACTAAAA
39698382 TATATAGATTT
1 TATATA-ATTT
39698393 TTAATATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 2 0.07
24 15 0.50
25 12 0.40
26 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (24 bp):
TATATAATTTAAAATAAACTAAAA
Found at i:39699937 original size:31 final size:30
Alignment explanation
Indices: 39699849--39699937 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 30
39699839 CTGTATATAT
* * *
39699849 AAATTTTAA-TTTGATGTAATTATACACGTA
1 AAATTTTAATTTTAATTTAA-TATATACGTA
* * * * *
39699879 AAACTCTAATTGTAATTTAAATGTATACTTA
1 AAATTTTAATTTTAATTT-AATATATACGTA
39699910 AAATTTTAATTTTAATTTAATCATATAC
1 AAATTTTAATTTTAATTTAAT-ATATAC
39699938 ATTTAAATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
30 10 0.23
31 32 0.73
32 2 0.05
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATTTTAATTTTAATTTAATATATACGTA
Found at i:39700166 original size:3 final size:3
Alignment explanation
Indices: 39700158--39700190 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
39700148 ATTTATCCTG
39700158 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39700191 ATTTTGCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:39704372 original size:22 final size:22
Alignment explanation
Indices: 39704325--39704372 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
39704315 ATGTTGTTAA
*
39704325 TTTATTACTTTATTTTAATATC
1 TTTATTAATTTATTTTAATATC
39704347 TTTATTATATTTACTTTT-ATAT-
1 TTTATTA-ATTTA-TTTTAATATC
39704369 TTTA
1 TTTA
39704373 ATATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTAATTTATTTTAATATC
Found at i:39704431 original size:30 final size:32
Alignment explanation
Indices: 39704395--39704472 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 32
39704385 TCATGATTAC
39704395 TATATATTAGTGTATAT-TTTT-T-TATTTATA
1 TATATATTA-TGTATATGTTTTATATATTTATA
*
39704425 TATATATATATGTATATGTTTTAATATATTTATG
1 TATATAT-TATGTATATGTTTT-ATATATTTATA
39704459 TATATACTTATGTA
1 TATATA-TTATGTA
39704473 GCATTATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 14 0.34
31 6 0.15
33 1 0.02
34 19 0.46
35 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (32 bp):
TATATATTATGTATATGTTTTATATATTTATA
Found at i:39704463 original size:12 final size:12
Alignment explanation
Indices: 39704417--39704472 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
39704407 TATATTTTTT
*
39704417 TATTTATATATA
1 TATTTATGTATA
*
39704429 TATATATGTATA
1 TATTTATGTATA
* *
39704441 TGTTT-T-AATA
1 TATTTATGTATA
39704451 TATTTATGTATA
1 TATTTATGTATA
*
39704463 TACTTATGTA
1 TATTTATGTA
39704473 GCATTATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 25 0.74
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (12 bp):
TATTTATGTATA
Found at i:39704588 original size:24 final size:25
Alignment explanation
Indices: 39704547--39704602 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
39704537 TATGTATATC
*
39704547 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
39704571 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
39704596 TATATAT
1 TATATAT
39704603 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:39704657 original size:10 final size:11
Alignment explanation
Indices: 39704615--39704665 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
39704605 TATTGTGTAT
39704615 ATATTTTA-AC
1 ATATTTTATAC
39704625 ATTATTAGTTATAC
1 A-TATT--TTATAC
*
39704639 ATCTTTTATAC
1 ATATTTTATAC
39704650 -TATTTTATAC
1 ATATTTTATAC
39704660 ATATTT
1 ATATTT
39704666 CTAATATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 10 0.29
11 15 0.44
13 6 0.18
14 3 0.09
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (11 bp):
ATATTTTATAC
Found at i:39704782 original size:9 final size:9
Alignment explanation
Indices: 39704764--39704800 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39704754 TCATTTCTAA
39704764 TATATATAT
1 TATATATAT
*
39704773 TATATGTAT
1 TATATATAT
*
39704782 TTTATATAT
1 TATATATAT
39704791 TATATATAT
1 TATATATAT
39704800 T
1 T
39704801 TTAATGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TATATATAT
Found at i:39704789 original size:18 final size:18
Alignment explanation
Indices: 39704766--39704803 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
39704756 ATTTCTAATA
*
39704766 TATATATTATATGTATTT
1 TATATATTATATATATTT
39704784 TATATATTATATATATTT
1 TATATATTATATATATTT
39704802 TA
1 TA
39704804 ATGTTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:39704880 original size:24 final size:24
Alignment explanation
Indices: 39704853--39704898 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
39704843 ATATTTTTTT
*
39704853 ATATCATCTTATGTACATATATAA
1 ATATCATCTTATATACATATATAA
* *
39704877 ATATTATGTTATATACATATAT
1 ATATCATCTTATATACATATAT
39704899 GTAATATGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATCATCTTATATACATATATAA
Found at i:39705092 original size:37 final size:35
Alignment explanation
Indices: 39705027--39705096 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
39705017 TTATATATAG
39705027 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
39705064 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
39705097 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:39705231 original size:25 final size:24
Alignment explanation
Indices: 39705203--39705258 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
39705193 GTTATATTTT
*
39705203 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
39705228 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
39705251 CACTATTA
1 CACTATTA
39705259 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:39712240 original size:16 final size:17
Alignment explanation
Indices: 39712208--39712240 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
39712198 TTTATAAGTA
*
39712208 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
39712225 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
39712241 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:39712586 original size:46 final size:46
Alignment explanation
Indices: 39712526--39712791 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
39712516 TTTGACATGA
* * * * * *
39712526 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
39712572 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
39712618 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
39712664 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
39712710 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
39712748 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
39712792 AGAGCACACT
Statistics
Matches: 197, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 151 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:39712756 original size:38 final size:38
Alignment explanation
Indices: 39712705--39712780 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
39712695 CATTTCATAT
39712705 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
39712743 CAGGTTGCCATGGTATCTTTCAACCATTGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
39712781 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:39721022 original size:73 final size:73
Alignment explanation
Indices: 39720930--39722211 Score: 790
Period size: 72 Copynumber: 16.8 Consensus size: 73
39720920 TCAATTTCTG
* *
39720930 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
39720995 GAGGTATT
66 GAGGTATT
* * *
39721003 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
39721068 GAGGTATT
66 GAGGTATT
* * * * *
39721076 GTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGGGCC
1 TTCAA---------TT---TCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
*
39721141 TCAGGACACGCTGAGGTAAT
54 TCAGGACACGCTGAGGTATT
* * * *
39721161 CTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGACACGC
39721225 TGAGGTAATT
65 TGAGGT-ATT
* * ** ** * * * * * * * * *
39721235 TT-AATTCCTGCTTTTCAATTTGTATTTTTCAA-AAAAAAT-CAACTCATATTGCG-AGAG-GTG
1 TTCAATTTCTGTTTTTCAA-----A--AATCAACTCATATTGCGA--GA-AGTGAGTTGAGCCTC
* * *
39721295 AGTTGA-GC-CTCAGGACACGTT
56 AG--GACACGCTGAGG-TA--TT
* * *
39721316 GAGGT-AATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 ---TTCAATTTC--TGT-T-TT-TC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
* *
39721380 AAGACATGCTGAGGTATT
56 AGGACACGCTGAGGTATT
* * * * *
39721398 TTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGG-CACA
1 TTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGACACG
* *
39721462 TTGAGGTAAT
64 CTGAGGTATT
* * ** * * * * * * * *
39721472 TTCAATTTCTGCTTTTCAATTTATATTTTTCAA-AAAAATT-CAACCCATATTGCG-AGAG-GTG
1 TTCAATTTCTGTTTTTCAA---A-A---ATCAACTCATATTGCGA--GA-AGTGAGTTGAGCCTC
* * *
39721533 AGTTGA-AC-CTCAGGACACGCTGAG
56 AG--GACACGCTGAGG-TA---T--T
* * * *
39721557 GT-AATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 TTCAATTTC--TGT-T-TT-TC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
*
39721621 ACATGCTGAGGTATT
59 ACACGCTGAGGTATT
* * * *
39721636 TTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACG
*
39721701 CTGAGGTAAT
64 CTGAGGTATT
** * *
39721711 TTCAATTTCTGTTGTTAAAAAAATCAACTCATTTTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTCAATTTCTGTT-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGC
*
39721776 TGAGGTAAT
65 TGAGGTATT
* * * *
39721785 TTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
39721849 GAGGTATT
66 GAGGTATT
* * * *
39721857 TTCAATTTTTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAC
1 TTCAATTTCTGTTTTTC-----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
*
39721922 ACGCTGAGGTAAT
61 ACGCTGAGGTATT
* * * *
39721935 TTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGACACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
*
39721999 GAGGTAAT
66 GAGGTATT
* * * * * *
39722007 TTCAATTTCT-ATTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
39722071 GAGGTATT
66 GAGGTATT
* *
39722079 TTCAATTTCTG-TTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACA
1 TTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG---ACA
*
39722142 TGCTGAGGTATT
62 CGCTGAGGTATT
* * *
39722154 TTCAATTTCTGTCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTCAATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
39722212 ATCACACACT
Statistics
Matches: 934, Mismatches: 178, Indels: 190
0.72 0.14 0.15
Matches are distributed among these distances:
72 193 0.21
73 178 0.19
74 129 0.14
75 98 0.10
76 44 0.05
77 7 0.01
78 71 0.08
79 19 0.02
80 32 0.03
81 9 0.01
82 4 0.00
83 12 0.01
84 31 0.03
85 84 0.09
86 7 0.01
87 3 0.00
88 5 0.01
89 4 0.00
91 4 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
GAGGTATT
Found at i:39721354 original size:74 final size:74
Alignment explanation
Indices: 39721260--39722211 Score: 860
Period size: 74 Copynumber: 12.6 Consensus size: 74
39721250 CAATTTGTAT
*
39721260 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATT
1 TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
39721325 TCAATTTCTG
65 TCAATTTCTG
* ** * * *
39721335 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
39721400 CAATTTTTG
66 CAATTTCTG
* * **
39721409 TCTTTC-AAAAAATCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGG-CACATTGAGGTAAT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAAT
39721472 TTCAATTTCTG
64 TTCAATTTCTG
*** ** * * * * * * * * *
39721483 CTTTTCAATTTATATTTTTCAA-AAAAATTCAACCCATATTGCGAGAGGTGAG--T-TGAAC-CT
1 -TTTTCAA---A-A-AAATCAACTCATATT---GCGAGA--G-GTGAGTTGAGCCTCAGGACACG
* * * **
39721543 CAGGACACGCTGAGGT-AATTTCAATTTCTG
54 C-TG--A-GGTAATTTCAA------TTTCTG
* ** * * *
39721573 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
39721638 CAATTTTTG
66 CAATTTCTG
*
39721647 TCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
39721712 TCAATTTCTG
65 TCAATTTCTG
* **
39721722 TTGTT-AAAAAAATCAACTCATTTTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
39721786 TCAATTTCTG
65 TCAATTTCTG
* ** * * *
39721796 TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
39721859 CAATTTTTG
66 CAATTTCTG
* *
39721868 TTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
1 -TTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
39721933 ATTTCAATTTCTG
62 ATTTCAATTTCTG
* * *
39721946 TTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
39722009 CAATTTCTA
66 CAATTTCTG
* * ** * * *
39722018 TTTTC--AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
39722081 CAATTTCTG
66 CAATTTCTG
* * *
39722090 TTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTGAGGTAT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAA
39722153 TTTCAATTTCTG
63 TTTCAATTTCTG
* *
39722165 TCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
39722212 ATCACACACT
Statistics
Matches: 711, Mismatches: 119, Indels: 92
0.77 0.13 0.10
Matches are distributed among these distances:
72 191 0.27
73 40 0.06
74 197 0.28
75 104 0.15
76 40 0.06
77 6 0.01
78 59 0.08
79 14 0.02
80 7 0.01
81 3 0.00
82 11 0.02
83 2 0.00
84 7 0.01
85 17 0.02
86 1 0.00
89 6 0.01
90 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
CAATTTCTG
Found at i:39721472 original size:238 final size:220
Alignment explanation
Indices: 39721247--39722211 Score: 1287
Period size: 238 Copynumber: 4.3 Consensus size: 220
39721237 AATTCCTGCT
* *
39721247 TTTCAATTTGTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
39721312 CGTTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
* *
39721377 CTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGATGT
128 CTCAAGACATGCTGAGGTATTTTCAATTTTTGT-TTTCAAAAAATCAACTCATATTGCGAGAGGT
**
39721442 GAGTTGAGCCTCAAGG-CACATTGAGGTAA
192 GAGTTGAGCCTC-AGGACACGCTGAGGTAA
*
39721471 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACCCATATTGCGAGAGGTGAGT
1 TTTCAATTTCTG--------------TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGT
*
39721536 TGAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGA
51 TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAATCAACTCATATTGCGA
39721601 GAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACT
114 GAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGT-TTTC-AAAAAATCAACT
*
39721666 CATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
177 CATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * **
39721710 TTTCAATTTCTGTTGTT-AAAAAAATCAACTCATTTTGCGAGAAATGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
39721774 GCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
66 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
*
39721839 AAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGG
131 AAGACATGCTGAGGTATTTTCAATTTTTG-TTTTC----AAAAAATCAACTCATATTGCGAGAGG
*
39721904 TGAGTTGAGCCTCGGGACACGCTGAGGTAA
191 TGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * *
39721934 TTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGACAC
1 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * *
39721996 GCTGAGGTAATTTCAATTTCTATTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTC
66 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* * * *
39722061 AAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGT
131 AAGACATGCTGAGGTATTTTCAATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
39722126 TGAGCCTC-GGTCCACATGCTGAGGTAT
196 TGAGCCTCAGG---ACACGCTGAGGTAA
* * *
39722153 TTTCAATTTCTGTCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
39722212 ATCACACACT
Statistics
Matches: 673, Mismatches: 41, Indels: 57
0.87 0.05 0.07
Matches are distributed among these distances:
216 2 0.00
217 37 0.05
219 24 0.04
220 4 0.01
221 110 0.16
222 129 0.19
223 64 0.10
224 83 0.12
225 4 0.01
237 7 0.01
238 148 0.22
239 61 0.09
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (220 bp):
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
AAGACATGCTGAGGTATTTTCAATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTAA
Found at i:39721557 original size:90 final size:88
Alignment explanation
Indices: 39721396--39721572 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 88
39721386 TGCTGAGGTA
* * * * *
39721396 TTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGGCAC
1 TTTTCAATTTATATCTTTCAAAAAATCAACCCATACTGCGAGAGGTGAGTTGAACCTCAAGGCAC
*
39721461 ATTGAGGTAATTTCAATTTCTGC
66 ACTGAGGTAATTTCAATTTCTGC
* *
39721484 TTTTCAATTTATATTTTTCAAAAAAATTCAACCCATATTGCGAGAGGTGAGTTGAACCTC-AGGA
1 TTTTCAATTTATATCTTTC-AAAAAA-TCAACCCATACTGCGAGAGGTGAGTTGAACCTCAAGG-
*
39721548 CACGCTGAGGTAATTTCAATTTCTG
63 CACACTGAGGTAATTTCAATTTCTG
39721573 TTGTCAAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
88 16 0.21
89 9 0.12
90 52 0.68
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (88 bp):
TTTTCAATTTATATCTTTCAAAAAATCAACCCATACTGCGAGAGGTGAGTTGAACCTCAAGGCAC
ACTGAGGTAATTTCAATTTCTGC
Found at i:39721687 original size:149 final size:147
Alignment explanation
Indices: 39721484--39722206 Score: 938
Period size: 149 Copynumber: 4.9 Consensus size: 147
39721474 CAATTTCTGC
* * * *
39721484 TTTTCAATTTATATTTTTCAAAAAAATTCAACCCATATTGCGAGAGGTGAGTTGAACCTCAGGAC
1 TTTTCAATTTCT-GTTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
39721549 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
63 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
*
39721614 CCTCAAGACATGCTGAGGTA
128 CCTCAAGACACGCTGAGGTA
* *
39721634 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
39721699 CGCTGAGGTAATTTCAATTTCTGTTGTT-AAAAAAATCAACTCATTTTGCGAGAAATGAGTTGAG
64 CGCTGAGGTAATTTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
*
39721763 CCTCAGGACACGCTGAGGTA
128 CCTCAAGACACGCTGAGGTA
* * ** * *
39721783 ATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * **
39721847 CTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA
66 CTGAGGTAATTTCAATTTCTG-TTTTC---AAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
**
39721912 GCCTCGGGACACGCTGAGGTA
127 GCCTCAAGACACGCTGAGGTA
* * * *
39721933 ATTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * *
39721997 CTGAGGTAATTTCAATTTCTATTTTC--AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCT
66 CTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
39722060 CAAGACACGTTGAGGTA
131 CAAGACACGCTGAGGTA
*
39722077 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCAC
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* * * **
39722141 ATGCTGAGGTATTTTCAATTTCTGTCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGA
63 ACGCTGAGGTAATTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
39722205 GC
127 GC
39722207 TTCAGATCAC
Statistics
Matches: 506, Mismatches: 54, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
144 65 0.13
145 35 0.07
146 61 0.12
147 26 0.05
148 8 0.02
149 163 0.32
150 148 0.29
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
CAAGACACGCTGAGGTA
Found at i:39721851 original size:72 final size:73
Alignment explanation
Indices: 39721498--39722211 Score: 914
Period size: 72 Copynumber: 9.6 Consensus size: 73
39721488 CAATTTATAT
* *
39721498 TTTTCAAAAAAATTCAACCCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATT
1 TTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
39721563 TCAATTTCTG
64 TCAATTTCTG
* ** * * *
39721573 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
39721638 CAATTTTTG
65 CAATTTCTG
*
39721647 TCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 T-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
39721712 TCAATTTCTG
64 TCAATTTCTG
* * **
39721722 TTGTTAAAAAAATCAACTCATTTTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
39721787 CAATTTCTG
65 CAATTTCTG
* ** * * *
39721796 TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
39721860 AATTTTTG
66 AATTTCTG
* *
39721868 TTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
1 -TTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
39721933 ATTTCAATTTCTG
61 ATTTCAATTTCTG
* * *
39721946 TTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
39722010 AATTTCTA
66 AATTTCTG
* * ** * * *
39722018 TTTTC-AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
39722082 AATTTCTG
66 AATTTCTG
* * *
39722090 TTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTGAGGTATT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
39722154 TTCAATTTCTG
63 TTCAATTTCTG
* *
39722165 TCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 T-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
39722212 ATCACACACT
Statistics
Matches: 561, Mismatches: 64, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
72 191 0.34
73 40 0.07
74 122 0.22
75 104 0.19
76 40 0.07
77 6 0.01
78 58 0.10
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (73 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTG
Found at i:39723089 original size:19 final size:19
Alignment explanation
Indices: 39723067--39723120 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
39723057 GCCCATTAAG
39723067 CCCAAAAAAAACCTAACCC
1 CCCAAAAAAAACCTAACCC
39723086 CCCAAAAAAAACCTAACCC
1 CCCAAAAAAAACCTAACCC
* *
39723105 CCAAAAAAAAAGCTAA
1 CCCAAAAAAAACCTAA
39723121 GAAACCCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.57, C:0.35, G:0.02, T:0.06
Consensus pattern (19 bp):
CCCAAAAAAAACCTAACCC
Found at i:39724190 original size:17 final size:15
Alignment explanation
Indices: 39724168--39724206 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
39724158 ATTATTATTG
39724168 TTACTATTATCAATCTA
1 TTACTATTATCAA--TA
*
39724185 TTACTATTATTAATA
1 TTACTATTATCAATA
39724200 TTACTAT
1 TTACTAT
39724207 GTAGTAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (15 bp):
TTACTATTATCAATA
Found at i:39724373 original size:35 final size:37
Alignment explanation
Indices: 39724332--39724407 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 37
39724322 TCATGATTAC
*
39724332 TATATAT-TAGTGTATATATTTTT-TTAT-TTTATATA
1 TATATATATA-TGTATATATTTTTAATATATTTATATA
* *
39724367 TATATATATATGTATATGTTTTTAATATATTTATGTA
1 TATATATATATGTATATATTTTTAATATATTTATATA
39724404 TATA
1 TATA
39724408 CTTATGTAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 19 0.54
36 5 0.14
37 11 0.31
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (37 bp):
TATATATATATGTATATATTTTTAATATATTTATATA
Found at i:39724530 original size:24 final size:25
Alignment explanation
Indices: 39724489--39724544 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
39724479 TATGTATATC
*
39724489 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
39724513 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
39724538 TATATAT
1 TATATAT
39724545 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:39724625 original size:19 final size:19
Alignment explanation
Indices: 39724601--39724637 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
39724591 CTATTTTATA
*
39724601 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
39724620 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
39724638 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:39725160 original size:25 final size:24
Alignment explanation
Indices: 39725132--39725187 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
39725122 GTTATATTTT
*
39725132 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
39725157 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
39725180 CACTATTA
1 CACTATTA
39725188 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:39728036 original size:28 final size:28
Alignment explanation
Indices: 39728004--39728190 Score: 259
Period size: 28 Copynumber: 6.7 Consensus size: 28
39727994 ACTTGATATT
39728004 TCGCACACTAAGTGCCATAC-CAAATGTC
1 TCGCACACTAAGTGCCATACTC-AATGTC
* *
39728032 TCGCACACTAAGTGTCATATTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
39728060 TCGCACACTAAGTGCCATACTCAACGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
39728088 TTGCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
39728116 TCTCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* ***
39728144 TTGCACACTAAGTGTTGTACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
**
39728172 TCATACACTAAGTGCCATA
1 TCGCACACTAAGTGCCATA
39728191 TATAGTCGAA
Statistics
Matches: 138, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
28 137 0.99
29 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATGTC
Found at i:39728236 original size:40 final size:40
Alignment explanation
Indices: 39728176--39728266 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
39728166 AATGTCTCAT
*
39728176 ACACTAAGTGCCATATATAGTCGAAGCTATCTTAAATCGC
1 ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
* *
39728216 ACACAAAGTGCCGTATATAGTCAAAGCTATCTTAAATCGC
1 ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
39728256 ACACTAAGTGC
1 ACACTAAGTGC
39728267 TAAACATAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
Found at i:39729433 original size:10 final size:10
Alignment explanation
Indices: 39729414--39729463 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
39729404 TTAAATTCTA
39729414 AAAGATAAAT
1 AAAGATAAAT
39729424 ATAA-ATAAAT
1 A-AAGATAAAT
*
39729434 AAAGATAATT
1 AAAGATAAAT
39729444 AAAGATAAAT
1 AAAGATAAAT
39729454 GAAA-ATAAAT
1 -AAAGATAAAT
39729464 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:39732602 original size:21 final size:21
Alignment explanation
Indices: 39732576--39732637 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
39732566 GGATGATGAA
39732576 CCGTGCGACGGAGAGGAAGAG
1 CCGTGCGACGGAGAGGAAGAG
*
39732597 CCGTGCGACGGAGAGGAGGAG
1 CCGTGCGACGGAGAGGAAGAG
* * *
39732618 CCGTGTGACGAAAAGGAAGA
1 CCGTGCGACGGAGAGGAAGA
39732638 ATAGGAGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.18, G:0.45, T:0.06
Consensus pattern (21 bp):
CCGTGCGACGGAGAGGAAGAG
Found at i:39733103 original size:7 final size:6
Alignment explanation
Indices: 39733081--39733122 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
39733071 AAGAAGAGAT
*
39733081 AAAAT- AAAATA AAAATGA AAAATAA AAAATA AAAGTA AAAAT
1 AAAATA AAAATA AAAAT-A AAAAT-A AAAATA AAAATA AAAAT
39733123 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 5 0.16
6 15 0.47
7 12 0.38
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:39733104 original size:13 final size:12
Alignment explanation
Indices: 39733081--39733122 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
39733071 AAGAAGAGAT
39733081 AAAAT-AAAATA
1 AAAATAAAAATA
39733092 AAAATGAAAAATAA
1 AAAAT-AAAAAT-A
*
39733106 AAAATAAAAGTA
1 AAAATAAAAATA
39733118 AAAAT
1 AAAAT
39733123 TGGGTTGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.19
12 6 0.22
13 10 0.37
14 6 0.22
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:39745486 original size:21 final size:21
Alignment explanation
Indices: 39745460--39745502 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
39745450 TTAAAGTGTC
39745460 TTAGCTACTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
*
39745481 TTAGCTCCTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
39745502 T
1 T
39745503 GTGTCCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAGCTACTACACGTTTTAAA
Found at i:39749440 original size:21 final size:21
Alignment explanation
Indices: 39749414--39749456 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
39749404 TTAAAGTGTC
39749414 TTAGCTACTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
*
39749435 TTAGCTCCTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
39749456 T
1 T
39749457 GTGTCCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAGCTACTACACGTTTTAAA
Found at i:39752875 original size:19 final size:20
Alignment explanation
Indices: 39752834--39752877 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
39752824 GTGAGAGTGC
*
39752834 AAAAGAAAAGAAAACCAAGA
1 AAAAGAAAAGAAAAACAAGA
* *
39752854 AAAAGAAAGGAAAAATAA-A
1 AAAAGAAAAGAAAAACAAGA
39752873 AAAAG
1 AAAAG
39752878 GGAATGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGAAAAACAAGA
Found at i:39756061 original size:27 final size:28
Alignment explanation
Indices: 39756031--39756099 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
39756021 TTTTAATGCT
39756031 TGTTTTTAATATGTCATAGT-TAGTACA
1 TGTTTTTAATATGTCATAGTCTAGTACA
* * * *
39756058 TGTTATTAATTTGTCTTAGTCTATTACA
1 TGTTTTTAATATGTCATAGTCTAGTACA
*
39756086 TATTTTTAATATGT
1 TGTTTTTAATATGT
39756100 TCTAGCTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.54
Consensus pattern (28 bp):
TGTTTTTAATATGTCATAGTCTAGTACA
Found at i:39756094 original size:28 final size:27
Alignment explanation
Indices: 39756033--39756099 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
39756023 TTAATGCTTG
*
39756033 TTTTTAATATGTCATAGTTAGTACATG
1 TTTTTAATATGTCATAGTTAGTACATA
* * * *
39756060 TTATTAATTTGTCTTAGTCTATTACATA
1 TTTTTAATATGTCATAGT-TAGTACATA
39756088 TTTTTAATATGT
1 TTTTTAATATGT
39756100 TCTAGCTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.54
Consensus pattern (27 bp):
TTTTTAATATGTCATAGTTAGTACATA
Found at i:39757569 original size:23 final size:23
Alignment explanation
Indices: 39757543--39757619 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
39757533 TTTAGCTCGA
* *
39757543 TTCGTTTAGCGTTTGTAAACATG
1 TTCGTTTAGTGTTCGTAAACATG
**
39757566 TTCGTTTAGTGTTCGCGAACATG
1 TTCGTTTAGTGTTCGTAAACATG
*
39757589 TTCGTTTAGTGTTCGTCAACATG
1 TTCGTTTAGTGTTCGTAAACATG
*
39757612 TTCATTTA
1 TTCGTTTA
39757620 TATTCACGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (23 bp):
TTCGTTTAGTGTTCGTAAACATG
Found at i:39764693 original size:30 final size:31
Alignment explanation
Indices: 39764657--39764714 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
39764647 ACTTAACAAG
39764657 CAAATGCCTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAATTTAA
*
39764687 CAAATGCCTTTAAAATAATAACAAAATT
1 CAAATGCCTCTAAAATAATAACAAAATT
39764715 AGTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAACAAAATTTAA
Found at i:39775222 original size:20 final size:21
Alignment explanation
Indices: 39775194--39775233 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
39775184 TGCTGGACAG
39775194 GAGCCGGAATG-GAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
39775214 GAGCTGGAATGAGAGTGTTT
1 GAGCCGGAATGAGAGTGTTT
39775234 GGTTGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.07, G:0.40, T:0.28
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Found at i:39781770 original size:21 final size:20
Alignment explanation
Indices: 39781729--39781771 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
39781719 TTTAAAAATT
39781729 AAAAATTATTAAAATTCTAA
1 AAAAATTATTAAAATTCTAA
* * *
39781749 AAAACATTTTTAATATTTTAA
1 AAAA-ATTATTAAAATTCTAA
39781770 AA
1 AA
39781772 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATTAAAATTCTAA
Found at i:39781792 original size:29 final size:32
Alignment explanation
Indices: 39781725--39781797 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 32
39781715 TATGTTTAAA
*
39781725 AATTAAAAATTATTAAAATTCTAAAAAACATT
1 AATTAAATATTATTAAAATTCTAAAAAACATT
* *
39781757 --TTTAATATT-TTAAAATT-TTAAAAA-ATT
1 AATTAAATATTATTAAAATTCTAAAAAACATT
39781784 AATTAAATACTTAT
1 AATTAAATA-TTAT
39781798 GTGTCATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
27 3 0.09
28 6 0.18
29 14 0.42
30 9 0.27
31 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTAAATATTATTAAAATTCTAAAAAACATT
Found at i:39783548 original size:24 final size:25
Alignment explanation
Indices: 39783511--39783558 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39783501 TTTTATAAAT
39783511 AAAAAATTTATTT-ATTAAAAACAA
1 AAAAAATTTATTTAATTAAAAACAA
*
39783535 AAAAAATATT-TTTAATTATAAACA
1 AAAAAAT-TTATTTAATTAAAAACA
39783559 TTAATTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAAATTTATTTAATTAAAAACAA
Found at i:39785849 original size:45 final size:45
Alignment explanation
Indices: 39785782--39786079 Score: 241
Period size: 45 Copynumber: 6.6 Consensus size: 45
39785772 TTAAAGGATA
* * * *
39785782 CCATAGCGTCTTTCAACCATGGTCTTATTAATTTCTGACAT-GATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAG-TG
* *
39785827 CCATAGTGTCTTTCAACTATGGTCTTTTTCATTTCCG-TCAT-GTTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGAT-ATAG-TG
* * * * *
39785872 -CATAATATCTTTCAATTATAGTCTTATTCATTTC-CAGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGA-TATAGTG
* * * *
39785916 TCATGGTGTCTTTCAACTATGATCTTATTCATTT-TCGGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCT-GATATAGTG
* ** *
39785961 TCATAGTGTCTTTCAACTATGGTAGTATTCATTTCTGGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAGTG
* * * *
39786006 CCAAAGTTTCTTTCAACTATGGTTTTATTCATTT-TCAGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGA-TATAGTG
* * * * *
39786051 TCACAATGTCTTTTAACTATGGTTTTATT
1 CCATAGTGTCTTTCAACTATGGTCTTATT
39786080 TGTTTTTCAA
Statistics
Matches: 207, Mismatches: 37, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
44 34 0.16
45 172 0.83
46 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (45 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAGTG
Found at i:39786002 original size:90 final size:90
Alignment explanation
Indices: 39785789--39786079 Score: 311
Period size: 90 Copynumber: 3.2 Consensus size: 90
39785779 ATACCATAGC
* * **
39785789 GTCTTTCAACCATGGTCTTATTAATTTCTGACAT-GATGCCATAGTGTCTTTCAACTATGGTCTT
1 GTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG-TGCCATAGTGTCTTTCAACTATGGTCTT
* *
39785853 TTTCA-TTTCCGTCAT-GT-TGCATAAT
65 ATTCATTTTCAGT-ATAGTGT-CATAAT
* * * ** * * *
39785878 ATCTTTCAATTATAGTCTTATTCATTTCCAGTATAGTGTCATGGTGTCTTTCAACTATGATCTTA
1 GTCTTTCAACTATGGTCTTATTCATTTCTGGTATAGTGCCATAGTGTCTTTCAACTATGGTCTTA
* *
39785943 TTCATTTTCGGTATAGTGTCATAGT
66 TTCATTTTCAGTATAGTGTCATAAT
** * * *
39785968 GTCTTTCAACTATGGTAGTATTCATTTCTGGTATAGTGCCAAAGTTTCTTTCAACTATGGTTTTA
1 GTCTTTCAACTATGGTCTTATTCATTTCTGGTATAGTGCCATAGTGTCTTTCAACTATGGTCTTA
*
39786033 TTCATTTTCAGTATAGTGTCACAAT
66 TTCATTTTCAGTATAGTGTCATAAT
* *
39786058 GTCTTTTAACTATGGTTTTATT
1 GTCTTTCAACTATGGTCTTATT
39786080 TGTTTTTCAA
Statistics
Matches: 164, Mismatches: 34, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
89 56 0.34
90 107 0.65
91 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (90 bp):
GTCTTTCAACTATGGTCTTATTCATTTCTGGTATAGTGCCATAGTGTCTTTCAACTATGGTCTTA
TTCATTTTCAGTATAGTGTCATAAT
Found at i:39786079 original size:135 final size:134
Alignment explanation
Indices: 39785828--39786071 Score: 314
Period size: 135 Copynumber: 1.8 Consensus size: 134
39785818 GACATGATGC
** * *
39785828 CATAGTGTCTTTCAACTATGGTCTTTTTCATTTCCGTCATGTTGCATAATATCTTTCAATTATAG
1 CATAGTGTCTTTCAACTATGGTAGTATTCATTTCCGTCATGTTGCATAATATCTTTCAACTATAG
***
39785893 TCTTATTCATTTCCAGTATAGTGTCATGGTGTCTTTCAACTATGATCTTATTCATTTTCGGTATA
66 TCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATGATCTTATTCATTTTCGGTATA
39785958 GTGT
131 GTGT
* *
39785962 CATAGTGTCTTTCAACTATGGTAGTATTCATTTCTGGT-ATAG-TGCCA-AAGTTTCTTTCAACT
1 CATAGTGTCTTTCAACTATGGTAGTATTCATTTC-CGTCAT-GTTG-CATAA-TATCTTTCAACT
* * * *
39786024 ATGGTTTTATTCATTTTCAGTATAGTGTCACAATGTCTTTTAACTATG
62 ATAGTCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATG
39786072 GTTTTATTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
134 37 0.40
135 56 0.60
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (134 bp):
CATAGTGTCTTTCAACTATGGTAGTATTCATTTCCGTCATGTTGCATAATATCTTTCAACTATAG
TCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATGATCTTATTCATTTTCGGTATA
GTGT
Found at i:39788968 original size:73 final size:73
Alignment explanation
Indices: 39788849--39789050 Score: 269
Period size: 73 Copynumber: 2.8 Consensus size: 73
39788839 CAGACATATT
** ** *
39788849 AATTGCTTGTCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAACCTTTATGTC
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
39788914 AATACATC
66 AATACATC
*
39788922 AATTGCTCATCTGAGCTGACCATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
39788987 AATACATC
66 AATACATC
* * * ** * * **
39788995 AGTTGCTCATTTGAACTGAACATATAATTGTGTCAGGTTACCTGTCCGGGCTAAAA
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAA
39789051 CTTAATGTAG
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 113 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
AATACATC
Found at i:39793008 original size:8 final size:8
Alignment explanation
Indices: 39792985--39793032 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
39792975 TAGCTAATTG
39792985 TTTTATTT
1 TTTTATTT
39792993 TATTTATTT
1 T-TTTATTT
*
39793002 CTTTATTT
1 TTTTATTT
39793010 TTTTATTT
1 TTTTATTT
39793018 TTTTACTTT
1 TTTTA-TTT
39793027 TTTTAT
1 TTTTAT
39793033 AAATTAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 21 0.58
9 15 0.42
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTATTT
Found at i:39793008 original size:17 final size:16
Alignment explanation
Indices: 39792986--39793032 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
39792976 AGCTAATTGT
39792986 TTTATTTTATTTATTTC
1 TTTATTTT-TTTATTTC
*
39793003 TTTATTTTTTTATTTT
1 TTTATTTTTTTATTTC
39793019 TTTACTTTTTTTAT
1 TTTA-TTTTTTTAT
39793033 AAATTAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTATTTC
Found at i:39793015 original size:20 final size:20
Alignment explanation
Indices: 39792985--39793030 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
39792975 TAGCTAATTG
*
39792985 TTTTATTTTATTTATTT-CT
1 TTTTTTTTTATTTATTTACT
*
39793004 TTATTTTTTTATTTTTTTACT
1 TT-TTTTTTTATTTATTTACT
39793025 TTTTTT
1 TTTTTT
39793031 ATAAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 17 0.74
21 4 0.17
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTATTTATTTACT
Found at i:39794301 original size:12 final size:12
Alignment explanation
Indices: 39794284--39794308 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39794274 TCTTATTTTT
39794284 ATAACAATTAAG
1 ATAACAATTAAG
39794296 ATAACAATTAAG
1 ATAACAATTAAG
39794308 A
1 A
39794309 GAAAATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAACAATTAAG
Found at i:39801918 original size:15 final size:15
Alignment explanation
Indices: 39801898--39801928 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39801888 CCAACCTTCA
39801898 AATTTTACCTCAATT
1 AATTTTACCTCAATT
39801913 AATTTTACCTCAATT
1 AATTTTACCTCAATT
39801928 A
1 A
39801929 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:39804125 original size:11 final size:11
Alignment explanation
Indices: 39804109--39804135 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39804099 TAGAAATTAG
39804109 TTTGTGAAACT
1 TTTGTGAAACT
39804120 TTTGTGAAACT
1 TTTGTGAAACT
39804131 TTTGT
1 TTTGT
39804136 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:39805609 original size:15 final size:16
Alignment explanation
Indices: 39805575--39805617 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
39805565 AATTTTATGA
*
39805575 AATTATATATCATATAT
1 AATTATAT-TAATATAT
39805592 AATTATATTAATAT-T
1 AATTATATTAATATAT
*
39805607 AATTATTTTAA
1 AATTATATTAA
39805618 ATTGTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTATATTAATATAT
Found at i:39805669 original size:91 final size:92
Alignment explanation
Indices: 39805534--39805726 Score: 286
Period size: 91 Copynumber: 2.1 Consensus size: 92
39805524 TTGATTTTAG
* *
39805534 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCA-TA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTA-AATTA
*
39805597 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
*
39805624 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTA
39805689 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
39805717 CAAATTCATA
1 TAAATTCATA
39805727 AACTATAATC
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
90 17 0.18
91 33 0.35
92 10 0.11
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:39805774 original size:48 final size:52
Alignment explanation
Indices: 39805704--39805802 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
39805694 AATAATTATT
39805704 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
39805752 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
39805803 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Done.