Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 111 of 211
Found at i:31293451 original size:22 final size:21
Alignment explanation
Indices: 31293412--31293452 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31293402 ATCAAATAGT
**
31293412 TCAATTCACATCCCATCATTC
1 TCAATTCACATCAAATCATTC
31293433 TCAATTCAACATCAAATCAT
1 TCAATTC-ACATCAAATCAT
31293453 CATTTCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (21 bp):
TCAATTCACATCAAATCATTC
Found at i:31294124 original size:20 final size:19
Alignment explanation
Indices: 31294086--31294124 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
31294076 AGTTTTAAAA
**
31294086 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATAAATTTT
*
31294105 TATTTTTAAAATAAAATTT
1 TATTTTTAAAATAAATTTT
31294124 T
1 T
31294125 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:31299775 original size:72 final size:73
Alignment explanation
Indices: 31299631--31299778 Score: 244
Period size: 72 Copynumber: 2.0 Consensus size: 73
31299621 ATGACACTCA
* * *
31299631 AGAATTTTGAAAATAATTATTCCCTAGGTTATTCAGAACTTACAAGGAAAAAACTACTTGGTCAA
1 AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
31299696 TATTATTG
66 TATTATTG
* *
31299704 AGAATTTCGAAAATAATTATTCCCTAGGTTGTT-AGAACCTATAAGGAAAAAACTACTTGGTAAA
1 AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
31299768 TATTATTG
66 TATTATTG
31299776 AGA
1 AGA
31299779 TGGCATTGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 39 0.56
73 31 0.44
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (73 bp):
AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
TATTATTG
Found at i:31301778 original size:21 final size:22
Alignment explanation
Indices: 31301740--31301783 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
31301730 CGAAGCTCAA
31301740 TCAAAAAGAGGTATTTTGACAT
1 TCAAAAAGAGGTATTTTGACAT
31301762 TCAAAAAGAGGTA-TTTGACAT
1 TCAAAAAGAGGTATTTTGACAT
31301783 T
1 T
31301784 GAAGTACCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
TCAAAAAGAGGTATTTTGACAT
Found at i:31315191 original size:130 final size:130
Alignment explanation
Indices: 31314953--31315222 Score: 427
Period size: 130 Copynumber: 2.1 Consensus size: 130
31314943 TTGATTAATT
* * * *
31314953 AAATTCCATTAATGCAATTAAAACCATTGTAGGTGATTCATTGACTTTTTTTTGTTGTTTGTTCA
1 AAATTCCATTAATGCAATTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTCA
*
31315018 CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTGAGATGTT-TTATCAATA
66 CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGAT-TTGTTATCAATA
31315082 A
130 A
31315083 AAATTCCATTAATGCAATTTAAAACCATTGCAGGTGATTCATTGAC-TTCTTTTATTGATTGTTC
1 AAATTCCATTAATGCAA-TTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTC
* * *
31315147 ACTTTTCTTTTATCAATACTAAAGCTAGAAATGGTGGTTTTTTTATTTCTGATTTGTTATCAATA
65 ACTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGATTTGTTATCAATA
31315212 A
130 A
*
31315213 AAATTTCATT
1 AAATTCCATT
31315223 CCAAACATTT
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 2 0.02
130 100 0.78
131 27 0.21
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (130 bp):
AAATTCCATTAATGCAATTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTCA
CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGATTTGTTATCAATAA
Found at i:31320180 original size:6 final size:6
Alignment explanation
Indices: 31320169--31320194 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31320159 TATCACAAAG
31320169 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
31320195 GAACACACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:31322962 original size:29 final size:29
Alignment explanation
Indices: 31322888--31322991 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
31322878 CACCATTGGT
*
31322888 ACATAGTACTTGATAAATATAACACCGGC
1 ACATAGTACTTGATAACTATAACACCGGC
* * * * * *
31322917 ATAGT-GTGCCTGGTAACTGTAACACCGGT
1 ACA-TAGTACTTGATAACTATAACACCGGC
* *
31322946 ACAAAGTACTTGATAACTATAATCACCGAC
1 ACATAGTACTTGATAACTATAA-CACCGGC
*
31322976 ACATAGTGCTTGATAA
1 ACATAGTACTTGATAA
31322992 ACCCTAATGA
Statistics
Matches: 55, Mismatches: 17, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
29 35 0.64
30 20 0.36
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (29 bp):
ACATAGTACTTGATAACTATAACACCGGC
Found at i:31323077 original size:52 final size:52
Alignment explanation
Indices: 31323015--31323121 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
31323005 GTCATTTATA
31323015 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
1 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
31323067 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
1 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
31323119 TCC
1 TCC
31323122 ATTCTTTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (52 bp):
TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
Found at i:31326427 original size:50 final size:50
Alignment explanation
Indices: 31326312--31326504 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
31326302 GATAATAACA
* * * ** *
31326312 TGCCAAAGCCATGTCCCAGACATGGTTTTACACGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
31326363 TGCCCATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
31326413 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
31326463 TGCCAACGCCATGTCGCAGACATGGTCTTACATGAGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
31326505 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 93 0.74
51 32 0.26
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:31330847 original size:5 final size:5
Alignment explanation
Indices: 31330837--31330872 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
31330827 ATGTTTGAAA
31330837 AAAAT AAAAT AAAAT AAAAT AAATAT ATAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT A-AAAT AAAA
31330873 GTATATATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.72
6 6 0.21
7 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:31335495 original size:22 final size:22
Alignment explanation
Indices: 31335470--31335513 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31335460 GTTTTGCAAT
*
31335470 TACAATTGTATAAAATTTTATA
1 TACAATTATATAAAATTTTATA
31335492 TACAATTATATAAAATTTTATA
1 TACAATTATATAAAATTTTATA
31335514 CAACACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
TACAATTATATAAAATTTTATA
Found at i:31337966 original size:43 final size:43
Alignment explanation
Indices: 31337817--31337985 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 43
31337807 AACTCGTACA
* * * * * *
31337817 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATATCA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
* * *
31337860 ATGCCACTGTCCTAGACAG-GGTCTTACACG--AA-TCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAACACAAAT-CG
* * *
31337901 ATGTCGATGTCCCAGACATGGTCTTACACGTAAACACAAATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
* * *
31337944 ATGCCAAAGTCCCAAACGTGGTCTTACACGAAAACACAAATC
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACAAATC
31337986 AAAAATCACA
Statistics
Matches: 99, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
40 3 0.03
41 26 0.26
43 64 0.65
44 6 0.06
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
Found at i:31344800 original size:29 final size:29
Alignment explanation
Indices: 31344758--31344862 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
31344748 CCATCACTGA
31344758 TACATAGTACCTGATAACTGTAACATCGG
1 TACATAGTACCTGATAACTGTAACATCGG
** * *
31344787 TACATAGTGTCTGATAGCTATAAC-TCCGG
1 TACATAGTACCTGATAACTGTAACAT-CGG
* * *
31344816 TAAAAAGTACCTGATAACTGTAATCACCGG
1 TACATAGTACCTGATAACTGTAA-CATCGG
* *
31344846 CACATAGTTCCTGATAA
1 TACATAGTACCTGATAA
31344863 ATCCTAATGA
Statistics
Matches: 58, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
28 1 0.02
29 40 0.69
30 17 0.29
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (29 bp):
TACATAGTACCTGATAACTGTAACATCGG
Found at i:31346866 original size:40 final size:40
Alignment explanation
Indices: 31346677--31346902 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
31346667 TTGAATGATG
* * * **
31346677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
31346717 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
31346757 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31346797 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
31346837 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTTCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31346878 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31346903 AATGATGAGC
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 155 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31346920 original size:80 final size:79
Alignment explanation
Indices: 31346730--31346935 Score: 197
Period size: 80 Copynumber: 2.6 Consensus size: 79
31346720 GGACTAAGAT
** *
31346730 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
31346793 TAATTCCGGGCTAAGTC
63 TAATACCGGGCTAAGTC
** * * *
31346810 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTTCT
1 CCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
31346874 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAGTC
* * *
31346890 CCGAAGGCATTTGAATGA-TGAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
31346936 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
79 21 0.19
80 85 0.79
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGTC
Found at i:31351985 original size:4 final size:4
Alignment explanation
Indices: 31351976--31352015 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
31351966 TTATGCAATA
31351976 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
31352016 TTCATATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:31352447 original size:3 final size:3
Alignment explanation
Indices: 31352439--31352486 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
31352429 GCAAAAATAC
31352439 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31352487 CAAATTACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:31358216 original size:35 final size:35
Alignment explanation
Indices: 31358177--31358248 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
31358167 TGTTTTATAA
* *
31358177 ATTATACATA-TTTTTATTTTAAATTTAATAAACTC
1 ATTATA-ATATTTTTTATTTCAAATGTAATAAACTC
* *
31358212 ATTATATTATTTTTTATTTCGAATGTAATAAACTC
1 ATTATAATATTTTTTATTTCAAATGTAATAAACTC
31358247 AT
1 AT
31358249 CACATCAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (35 bp):
ATTATAATATTTTTTATTTCAAATGTAATAAACTC
Found at i:31358447 original size:23 final size:24
Alignment explanation
Indices: 31358408--31358452 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
31358398 TGATTTAATT
31358408 TAATTTATTTCTATTTTATTATTA
1 TAATTTATTTCTATTTTATTATTA
* *
31358432 TAATTT-TTTTTATTTTTTTAT
1 TAATTTATTTCTATTTTATTAT
31358453 CAATTTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TAATTTATTTCTATTTTATTATTA
Found at i:31358814 original size:13 final size:13
Alignment explanation
Indices: 31358796--31358825 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31358786 AACTAATGAT
31358796 ATATTAAAATAAA
1 ATATTAAAATAAA
*
31358809 ATATTAAATTAAA
1 ATATTAAAATAAA
31358822 ATAT
1 ATAT
31358826 AAAGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATTAAAATAAA
Found at i:31358835 original size:19 final size:18
Alignment explanation
Indices: 31358798--31358836 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
31358788 CTAATGATAT
*
31358798 ATTAAAATAAAATATTAA
1 ATTAAAATAAAAGATTAA
31358816 ATTAAAATATAAAGATTAA
1 ATTAAAATA-AAAGATTAA
31358835 AT
1 AT
31358837 CTCAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTAAAATAAAAGATTAA
Found at i:31363244 original size:111 final size:111
Alignment explanation
Indices: 31363057--31363262 Score: 322
Period size: 111 Copynumber: 1.9 Consensus size: 111
31363047 AATTCTGCAT
* * * *
31363057 TGGGTAAATCCATCTAGACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
1 TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
31363122 TTGAGCAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
66 TTGAGCAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
* * * *
31363168 TGGGTAAATCCACCAAAACTTACCGTAACACATATGTTCGCAGAGAGTGAAGATGAACTATCTAT
1 TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
**
31363233 TTGAGTGAAGTGTATTGTATGCGTGTTGCT
66 TTGAGCAAAGTGTATTGTATGCGTGTTGCT
31363263 AATATTCATA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 85 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (111 bp):
TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
TTGAGCAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
Found at i:31363990 original size:15 final size:15
Alignment explanation
Indices: 31363970--31363999 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31363960 TGTATTTTAG
*
31363970 CATATGTATTAAAAT
1 CATATGTAATAAAAT
31363985 CATATGTAATAAAAT
1 CATATGTAATAAAAT
31364000 ATCATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
CATATGTAATAAAAT
Found at i:31365648 original size:28 final size:26
Alignment explanation
Indices: 31365617--31365670 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
31365607 ATATTACTTA
31365617 TAAAATATTATTATTTTAAGTAAAATAT
1 TAAAATATTATTATTTTAA--AAAATAT
*
31365645 TAAATTATTATTATTTTAAAAAATAT
1 TAAAATATTATTATTTTAAAAAATAT
31365671 AATTCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
28 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAATATTATTATTTTAAAAAATAT
Found at i:31366315 original size:21 final size:22
Alignment explanation
Indices: 31366275--31366315 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31366265 TATTGCACCT
*
31366275 TAAAAAATTTATTATTAATTAA
1 TAAAAAATTTATTATAAATTAA
*
31366297 TAAAAATTTTA-TATAAATT
1 TAAAAAATTTATTATAAATT
31366316 GAAATTCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAAAATTTATTATAAATTAA
Found at i:31372428 original size:21 final size:21
Alignment explanation
Indices: 31372402--31372462 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
31372392 GGGTACATGA
31372402 GCGTGTGGAATG-GCCACACGG
1 GCGTGTGGAA-GAGCCACACGG
*
31372423 GCGTGTGGGAGAGCCACACGG
1 GCGTGTGGAAGAGCCACACGG
** *
31372444 ATGTGTGGTAGAGCCACAC
1 GCGTGTGGAAGAGCCACAC
31372463 AGCCGTATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.21, C:0.23, G:0.41, T:0.15
Consensus pattern (21 bp):
GCGTGTGGAAGAGCCACACGG
Found at i:31377873 original size:27 final size:27
Alignment explanation
Indices: 31377843--31377897 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
31377833 ATTTACAAGA
* *
31377843 TTAGCATAAATGTTAATTAAATTTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
*
31377870 TTAGTATAAAGGTTAATTAAAATTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
31377897 T
1 T
31377898 CCCTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (27 bp):
TTAGCATAAAGGTTAATTAAAATTTAG
Found at i:31379616 original size:54 final size:54
Alignment explanation
Indices: 31379550--31379942 Score: 384
Period size: 54 Copynumber: 7.3 Consensus size: 54
31379540 TATGGTCTGT
* * * * *
31379550 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCAT
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * * * *
31379604 TGATTTACGATCACAACCTTTTACTTA-TAGGATTTTACGAATCTCACAGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCAC
* * * * * * *
31379658 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * * * *
31379712 TGATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTTGCGGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * *
31379766 TGATTTACGA-AATGACCTTTTACTTACGAGATTTTACGAATCTCACGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-C
** * **
31379819 TGATTTAAAATCACGACCTTTTACTTAC-AGGATTTTATGAATCTCTTGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCA-C
* * * *
31379873 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCAT
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCAC
*
31379927 TGATTTATGATCACGA
1 TGATTTACGATCACGA
31379943 TCTTCTGCAT
Statistics
Matches: 283, Mismatches: 50, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
52 1 0.00
53 43 0.15
54 236 0.83
55 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (54 bp):
TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
Found at i:31379863 original size:161 final size:162
Alignment explanation
Indices: 31379550--31379933 Score: 470
Period size: 161 Copynumber: 2.4 Consensus size: 162
31379540 TATGGTCTGT
* * * *
31379550 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGAT
1 TGATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGAT
* * * * *
31379615 CACAACCTTTTACTTATAGGATTTTACGAATCTCACAGTCCGCTGATTTACAATCATGACATTTT
66 AACAACCTTTTACTTAGAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTT
*
31379680 ACATACGAGATTTAACGAATCTCGCAGTCCGC
131 ACATACGAGATTTAACGAATCTCGCAGTCAGC
* * **
31379712 TGATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTTGCGGTCCGCTGATTTACGA-
1 TGATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGAT
** * *
31379776 AATGACCTTTTACTTACGA-GATTTTACGAATCTCACGGTCAGCTGATTTAAAATCACGACCTTT
66 AACAACCTTTTACTTA-GAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTT
* * * ***
31379840 TACTTAC-AGGATTTTATGAATCTCTTGGTCAGC
130 TACATACGA-GATTTAACGAATCTCGCAGTCAGC
** *
31379873 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCATTGATTTA
1 TGATTTATGATCACGACCTTTTACTTACGA-GATTTTATGAATCTCGCGGTCCATTGATTTA
31379934 TGATCACGAT
Statistics
Matches: 188, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
160 2 0.01
161 129 0.69
162 57 0.30
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (162 bp):
TGATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGAT
AACAACCTTTTACTTAGAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTT
ACATACGAGATTTAACGAATCTCGCAGTCAGC
Found at i:31379942 original size:108 final size:108
Alignment explanation
Indices: 31379550--31379940 Score: 452
Period size: 108 Copynumber: 3.6 Consensus size: 108
31379540 TATGGTCTGT
** * * * * *
31379550 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
* * * *
31379615 CACAACCTTTTACTTATAGGATTTTACGAATCTCACAGTCCGC
66 CACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
* * * * * *
31379658 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCGCTGATTTATGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
31379723 CACAACCTTTTACTTAC-GAGATTTTATGAATCT-TGCGGTCCGC
66 CACAACCTTTTACTTACAG-GATTTTATGAATCTCT-CGGTCCGC
* * **
31379766 TGATTTACGAA--ATGACCTTTTACTTACGAGATTTTACGAATCTCACGGT-CAGCTGATTTAAA
1 TGATTTAC-AATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-CTGATTTATG
* * *
31379828 ATCACGACCTTTTACTTACAGGATTTTATGAATCTCTTGGTCAGC
64 ATCACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
* * *
31379873 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCATTGATTTATGA
1 TGATTTACAATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCACTGATTTATGA
31379937 TCAC
65 TCAC
31379941 GATCTTCTGC
Statistics
Matches: 238, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
106 3 0.01
107 89 0.37
108 142 0.60
109 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (108 bp):
TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
CACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
Found at i:31379962 original size:215 final size:215
Alignment explanation
Indices: 31379564--31379972 Score: 509
Period size: 215 Copynumber: 1.9 Consensus size: 215
31379554 TTATGATCAC
* * * * **
31379564 GACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGATCACAACCTTTTACT
1 GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCACTGATTTAAAATCACAACCTTTTACT
* * * *
31379629 TATAGGATTTTACGAATCTCACAGTCCGCTGATTTACAATCATGACATTTTACATACGAGATTTA
66 TACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGAGATTTA
* * * *
31379694 ACGAATCTCGCAGTCCGCTGATTTATGATCACAACCTTTTACTTACGAGATTTT-ATGAATCTTG
131 ACGAATCTCGCAGTCCACTGATTTATGATCACAACCTTCTACATACAAGATTTTCA-GAATCTTG
31379758 CGGTCCGCTGATTTACGAAAT
195 CGGTCCGCTGATTTACGAAAT
* *
31379779 GACCTTTTACTTACGAGATTTTACGAATCTCACGG-TCAGCTGATTTAAAATCACGACCTTTTAC
1 GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCA-CTGATTTAAAATCACAACCTTTTAC
* *** * *
31379843 TTACAGGATTTTATGAATCTCTTGGTCAGCTGATTTACAATCACGACCTTCTACTTAC-ATGATT
65 TTACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGA-GATT
* * * * * * *
31379907 TTATGAATCTCGCGGTCCATTGATTTATGATCACGATCTTCTGCATACAAGATTTTCAGAATCTT
129 TAACGAATCTCGCAGTCCACTGATTTATGATCACAACCTTCTACATACAAGATTTTCAGAATCTT
31379972 G
194 G
31379973 TGTATTACAA
Statistics
Matches: 162, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
214 3 0.02
215 158 0.98
216 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (215 bp):
GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCACTGATTTAAAATCACAACCTTTTACT
TACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGAGATTTA
ACGAATCTCGCAGTCCACTGATTTATGATCACAACCTTCTACATACAAGATTTTCAGAATCTTGC
GGTCCGCTGATTTACGAAAT
Found at i:31380005 original size:23 final size:22
Alignment explanation
Indices: 31379978--31380130 Score: 85
Period size: 23 Copynumber: 6.6 Consensus size: 22
31379968 TCTTGTGTAT
31379978 TACAATACAGTTCGTAGAAATTC
1 TACAATACAGTTCG-AGAAATTC
* * *
31380001 TACAATACAATTC-ACAGTATTGC
1 TACAATACAGTTCGAGA-AATT-C
* * *
31380024 TATAAATACAGTTCGTTGTAATTC
1 TA-CAATACAGTTCG-AGAAATTC
* * *
31380048 TACAACACAATTC-ACAATATTTC
1 TACAATACAGTTCGAGAA-A-TTC
* * *
31380071 TATAAATACAGTTCACAGTAATTC
1 TA-CAATACAGTTC-GAGAAATTC
* *
31380095 TACAATACAGTTCGCGACATTC
1 TACAATACAGTTCGAGAAATTC
31380117 TACAATACAGTTCG
1 TACAATACAGTTCG
31380131 CAACATTTTT
Statistics
Matches: 95, Mismatches: 25, Indels: 21
0.67 0.18 0.15
Matches are distributed among these distances:
21 3 0.03
22 23 0.24
23 38 0.40
24 25 0.26
25 4 0.04
26 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (22 bp):
TACAATACAGTTCGAGAAATTC
Found at i:31380035 original size:47 final size:47
Alignment explanation
Indices: 31379981--31380103 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
31379971 TGTGTATTAC
* *
31379981 AATACAGTTCGTAGAAATTCTACAATACAATTCACAGTATTGCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
* * *
31380028 AATACAGTTCGTTGTAATTCTACAACACAATTCACAATATTTCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
**
31380075 AATACAGTTCACAGTAATTCTACAATACA
1 AATACAGTTCGTAGTAATTCTACAATACA
31380104 GTTCGCGACA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (47 bp):
AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
Found at i:31380095 original size:24 final size:24
Alignment explanation
Indices: 31379981--31380201 Score: 93
Period size: 24 Copynumber: 9.4 Consensus size: 24
31379971 TGTGTATTAC
** * *
31379981 AATACAGTTCGTAGAAATTCTA-C
1 AATACAGTTCACAGTAATTCTATA
*
31380004 AATACAATTCACAGT-ATTGCTATA
1 AATACAGTTCACAGTAATT-CTATA
*** *
31380028 AATACAGTTCGTTGTAATTCTA-C
1 AATACAGTTCACAGTAATTCTATA
* * * *
31380051 AACACAATTCACAATATTTCTATA
1 AATACAGTTCACAGTAATTCTATA
*
31380075 AATACAGTTCACAGTAATTCTA-C
1 AATACAGTTCACAGTAATTCTATA
* *
31380098 AATACAGTTCGC-G-ACATTCTA-C
1 AATACAGTTCACAGTA-ATTCTATA
* ** * * *
31380120 AATACAGTTCGCAACATTTTTGTA
1 AATACAGTTCACAGTAATTCTATA
* **
31380144 AATATAGTTCACAAAATATTCTAT-
1 AATACAGTTCACAGTA-ATTCTATA
*
31380168 AATATAGTTCAC-G-ACATTTCTATA
1 AATACAGTTCACAGTA-A-TTCTATA
31380192 AATACAGTTC
1 AATACAGTTC
31380202 GTAGCATTTC
Statistics
Matches: 149, Mismatches: 38, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
21 1 0.01
22 25 0.17
23 49 0.33
24 67 0.45
25 7 0.05
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (24 bp):
AATACAGTTCACAGTAATTCTATA
Found at i:31380117 original size:22 final size:22
Alignment explanation
Indices: 31380091--31380137 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
31380081 GTTCACAGTA
*
31380091 ATTCTACAATACAGTTCGCGAC
1 ATTCTACAATACAGTTCGCAAC
31380113 ATTCTACAATACAGTTCGCAAC
1 ATTCTACAATACAGTTCGCAAC
31380135 ATT
1 ATT
31380138 TTTGTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (22 bp):
ATTCTACAATACAGTTCGCAAC
Found at i:31380219 original size:72 final size:69
Alignment explanation
Indices: 31380074--31380239 Score: 181
Period size: 72 Copynumber: 2.4 Consensus size: 69
31380064 ATATTTCTAT
** * *
31380074 AAATACAGTTCACAGTAATTCTACAATACAGTTCGCGACATTCTACAATACAGTTCGCAACATTT
1 AAATACAGTTCACAAAAATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCGCAACATTT
* *
31380139 TTGT
66 CTGC
* * * * *
31380143 AAATATAGTTCACAAAATATTCTATAATATAGTTCACGACATTTCTATAAATACAGTTCGTAGCA
1 AAATACAGTTCACAAAA-ATTCTACAATACAGTTCACGACA-TTCTA-AAATACAGTTCGCAACA
31380208 TTTCTGC
63 TTTCTGC
* *
31380215 AAATACAGTTCGC-AATATTCTACAA
1 AAATACAGTTCACAAAAATTCTACAA
31380240 CATGGTTCGT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
69 14 0.18
70 28 0.35
71 7 0.09
72 30 0.38
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (69 bp):
AAATACAGTTCACAAAAATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCGCAACATTT
CTGC
Found at i:31380233 original size:70 final size:68
Alignment explanation
Indices: 31380074--31380239 Score: 188
Period size: 70 Copynumber: 2.4 Consensus size: 68
31380064 ATATTTCTAT
* * *
31380074 AAATACAGTTCACAGTAATTCTACAATACAGTTCGCGACATTCTACAATACAGTTCGCAACATTT
1 AAATACAGTTCACAAT-ATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCGCAACATTT
* *
31380139 TTGT
65 CTGC
* * * * *
31380143 AAATATAGTTCACAAAATATTCTATAATATAGTTCACGACATTTCTATAAATACAGTTCGTAGCA
1 AAATACAGTTCAC--AATATTCTACAATACAGTTCACGACA-TTCTA-AAATACAGTTCGCAACA
31380208 TTTCTGC
62 TTTCTGC
*
31380215 AAATACAGTTCGCAATATTCTACAA
1 AAATACAGTTCACAATATTCTACAA
31380240 CATGGTTCGT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
69 12 0.15
70 31 0.39
71 7 0.09
72 30 0.38
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (68 bp):
AAATACAGTTCACAATATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCGCAACATTTC
TGC
Found at i:31380637 original size:14 final size:14
Alignment explanation
Indices: 31380618--31380644 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31380608 TAACTTGGAT
31380618 TAAATCTATTAAAA
1 TAAATCTATTAAAA
31380632 TAAATCTATTAAA
1 TAAATCTATTAAA
31380645 TTTATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATCTATTAAAA
Found at i:31381809 original size:18 final size:19
Alignment explanation
Indices: 31381773--31381811 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
31381763 TCTTAAACTG
31381773 ATGTGGTCCAAAGAAATTA
1 ATGTGGTCCAAAGAAATTA
31381792 ATGTGGTCCAAA-AAATTA
1 ATGTGGTCCAAAGAAATTA
31381810 AT
1 AT
31381812 TAGTACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (19 bp):
ATGTGGTCCAAAGAAATTA
Found at i:31385222 original size:21 final size:21
Alignment explanation
Indices: 31385206--31385259 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
31385196 AAATATGTTG
*
31385206 AATAATAATACTTATATCTTT
1 AATAATAATACTTATATATTT
31385227 AATAATAATACTTATAATATTT
1 AATAATAATACTTAT-ATATTT
31385249 AATAATAATAC
1 AATAATAATAC
31385260 AATAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATAATACTTATATATTT
Found at i:31385266 original size:21 final size:20
Alignment explanation
Indices: 31385206--31385266 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
31385196 AAATATGTTG
* *
31385206 AATAATAATACTTATATCTTT
1 AATAATAATACATA-ATATTT
31385227 AATAATAATACTTATAATATTT
1 AATAATAATAC--ATAATATTT
31385249 AATAATAATACAATAATA
1 AATAATAATAC-ATAATA
31385267 AAAATATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.49
22 16 0.46
23 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATAATACATAATATTT
Found at i:31385925 original size:93 final size:94
Alignment explanation
Indices: 31385812--31385985 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 94
31385802 CTGTGTTACG
* * *
31385812 TAATTAATGGAAGCAATAAAAA-ACATTGCTAAATCAACCAAAATGCTGAATGTTAGG-TATTTA
1 TAATTAATGGAAGCAATAAAAAGA-ATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTA
*
31385875 TGGGGAATTATATATTAAAGCTTTGATACA
65 TGGGGAATTATAAATTAAAGCTTTGATACA
** * * *
31385905 TAATTAATGTCAGGAATAAAAAGAATTGTTAAAGCAACCAAATTACAGAATGTTAGGATATTTAT
1 TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
31385970 GGGGAATTATAAATTA
66 GGGGAATTATAAATTA
31385986 TTCATACGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 47 0.67
94 23 0.33
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (94 bp):
TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
GGGGAATTATAAATTAAAGCTTTGATACA
Found at i:31386759 original size:19 final size:20
Alignment explanation
Indices: 31386715--31386760 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
31386705 AATATAAAAA
*
31386715 CTAAAAAATCATTAAAATTT
1 CTAAAAAATCATTAAAAATT
* *
31386735 CCAAAATATCA-TAAAAATT
1 CTAAAAAATCATTAAAAATT
31386754 CTAAAAA
1 CTAAAAA
31386761 GCCCTCAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (20 bp):
CTAAAAAATCATTAAAAATT
Found at i:31386760 original size:20 final size:19
Alignment explanation
Indices: 31386704--31386760 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
31386694 TATATTTTTT
31386704 AAAT-ATAAAAA--CTAAA
1 AAATCATAAAAATTCTAAA
* *
31386720 AAATCATTAAAATTTCCAAA
1 AAATCA-TAAAAATTCTAAA
*
31386740 ATATCATAAAAATTCTAAA
1 AAATCATAAAAATTCTAAA
31386759 AA
1 AA
31386761 GCCCTCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 5 0.16
19 12 0.39
20 9 0.29
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATCATAAAAATTCTAAA
Found at i:31386882 original size:14 final size:14
Alignment explanation
Indices: 31386849--31386883 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31386839 AGTGTTGTGA
*
31386849 AAAAAGTACTTTAG
1 AAAAATTACTTTAG
*
31386863 AAAAATTACTTTTG
1 AAAAATTACTTTAG
31386877 AAAAATT
1 AAAAATT
31386884 TGATAGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (14 bp):
AAAAATTACTTTAG
Found at i:31392787 original size:18 final size:18
Alignment explanation
Indices: 31392734--31392800 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
31392724 TAATAATTAT
31392734 AAATTTAAAATATTTAGAAA
1 AAATTTAAAAT-TTTA-AAA
*** *
31392754 ATTAATTTAGTTTTTTATAA
1 A--AATTTAAAATTTTAAAA
*
31392774 AATTTTAAAATTTTAAAA
1 AAATTTAAAATTTTAAAA
31392792 AAATTTAAA
1 AAATTTAAA
31392801 CACTAAACCC
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 20 0.57
20 4 0.11
21 4 0.11
22 7 0.20
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AAATTTAAAATTTTAAAA
Found at i:31395205 original size:3 final size:3
Alignment explanation
Indices: 31395197--31395244 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
31395187 TAAGCCTTTG
31395197 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31395245 TATTGGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31395731 original size:17 final size:16
Alignment explanation
Indices: 31395709--31395872 Score: 84
Period size: 17 Copynumber: 9.8 Consensus size: 16
31395699 GAATTTTTTC
*
31395709 TTTTGAAAACACGATAA
1 TTTTG-AAACACGAAAA
**
31395726 TTTTG-AACTAC-AATT
1 TTTTGAAAC-ACGAAAA
31395741 TTTTTGAAAACACGAAAA
1 TT-TTG-AAACACGAAAA
*
31395759 TTTTTGAGACACGAAAA
1 -TTTTGAAACACGAAAA
*
31395776 -TTTGAAAACAC-AAAT
1 TTTTG-AAACACGAAAA
* **
31395791 TTTTGAAACATGAATTTT
1 TTTTGAAACACGAA--AA
* *
31395809 TTTTAAAACACAAAAA
1 TTTTGAAACACGAAAA
31395825 TTTTTGAAAACACGAAAAA
1 -TTTTG-AAACACG-AAAA
* *
31395844 TTTTGAATCACGAGAAT
1 TTTTGAAACACGA-AAA
31395861 TTTTGAAACACG
1 TTTTGAAACACG
31395873 GGAAATTTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
15 18 0.16
16 17 0.15
17 40 0.36
18 31 0.28
19 6 0.05
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (16 bp):
TTTTGAAACACGAAAA
Found at i:31395764 original size:18 final size:18
Alignment explanation
Indices: 31395741--31395983 Score: 152
Period size: 18 Copynumber: 13.9 Consensus size: 18
31395731 AACTACAATT
31395741 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
31395759 TTTTTG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
31395776 --TTTGAAAACAC--AAA
1 TTTTTGAAAACACGAAAA
* **
31395790 TTTTTG-AAACATGAATT
1 TTTTTGAAAACACGAAAA
* *
31395807 TTTTTTAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
31395825 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
31395843 ATTTTG-AATCACGAGAA
1 TTTTTGAAAACACGAAAA
*
31395860 TTTTTG-AAACACGGGAAATT
1 TTTTTGAAAACAC--GAAA-A
*
31395880 TTTTTGAAAACACTAAAA
1 TTTTTGAAAACACGAAAA
* * *
31395898 ATTTCG-AAACACCG-GAA
1 TTTTTGAAAACA-CGAAAA
* *
31395915 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
* *
31395933 TTTTT-AAAATATC-AGAA
1 TTTTTGAAAACA-CGAAAA
* * *
31395950 TTTTTGAAAACATGAGGAT
1 TTTTTGAAAACACGA-AAA
31395969 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
31395984 TTTTTCGATT
Statistics
Matches: 169, Mismatches: 39, Indels: 35
0.70 0.16 0.14
Matches are distributed among these distances:
14 3 0.02
15 9 0.05
16 9 0.05
17 59 0.35
18 63 0.37
19 14 0.08
20 6 0.04
21 6 0.04
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:31395828 original size:19 final size:20
Alignment explanation
Indices: 31395740--31395901 Score: 80
Period size: 17 Copynumber: 9.2 Consensus size: 20
31395730 GAACTACAAT
31395740 TTTTTTGAAAACACG-AAAA
1 TTTTTTGAAAACACGAAAAA
*
31395759 -TTTTTG-AGACACG-AAAA
1 TTTTTTGAAAACACGAAAAA
31395776 ---TTTGAAAACAC---AAA
1 TTTTTTGAAAACACGAAAAA
* *
31395790 -TTTTTG-AAACATG--AAT
1 TTTTTTGAAAACACGAAAAA
*
31395806 TTTTTTTAAAACAC-AAAAA
1 TTTTTTGAAAACACGAAAAA
31395825 -TTTTTGAAAACACGAAAAA
1 TTTTTTGAAAACACGAAAAA
* *
31395844 --TTTTG-AATCACG-AGAA
1 TTTTTTGAAAACACGAAAAA
* *
31395860 -TTTTTG-AAACACGGGAAAT
1 TTTTTTGAAAACAC-GAAAAA
*
31395879 TTTTTTGAAAACACTAAAAA
1 TTTTTTGAAAACACGAAAAA
31395899 TTT
1 TTT
31395902 CGAAACACCG
Statistics
Matches: 113, Mismatches: 16, Indels: 27
0.72 0.10 0.17
Matches are distributed among these distances:
14 3 0.03
15 9 0.08
16 14 0.12
17 31 0.27
18 29 0.26
19 9 0.08
20 12 0.11
21 6 0.05
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (20 bp):
TTTTTTGAAAACACGAAAAA
Found at i:31395936 original size:17 final size:17
Alignment explanation
Indices: 31395916--31395971 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
31395906 ACACCGGAAT
31395916 TTTTGAAAACATGAAGA
1 TTTTGAAAACATGAAGA
* * *
31395933 TTTTTAAAATATCAGAA-T
1 TTTTGAAAACAT--GAAGA
*
31395951 TTTTGAAAACATGAGGA
1 TTTTGAAAACATGAAGA
31395968 TTTT
1 TTTT
31395972 TTGAAACACG
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
16 2 0.07
17 14 0.48
18 10 0.34
19 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (17 bp):
TTTTGAAAACATGAAGA
Found at i:31395936 original size:55 final size:55
Alignment explanation
Indices: 31395825--31395937 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 55
31395815 AACACAAAAA
* * *
31395825 TTTTTGAAAACACGAAAAATTTTGAATCACGAGAATTTTTGAAACACGGGAAATT
1 TTTTTGAAAACACGAAAAATTTCGAAACACGAGAATTTTTGAAACACAGGAAATT
* *
31395880 TTTTTGAAAACACTAAAAATTTCGAAACACCG-GAATTTTTGAAA-ACATGAAGATT
1 TTTTTGAAAACACGAAAAATTTCGAAACA-CGAGAATTTTTGAAACACAGGAA-ATT
31395935 TTT
1 TTT
31395938 AAAATATCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 5 0.10
55 44 0.86
56 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (55 bp):
TTTTTGAAAACACGAAAAATTTCGAAACACGAGAATTTTTGAAACACAGGAAATT
Found at i:31396292 original size:5 final size:5
Alignment explanation
Indices: 31396268--31396309 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
31396258 TACCTTGTTT
* *
31396268 ATTAA AATAA TTTAAA ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATT-AA ATTAA ATTAA ATTAA ATTAA ATTAA A
31396310 AATATAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:31396527 original size:17 final size:17
Alignment explanation
Indices: 31396504--31396545 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
31396494 TTTTTTTCTT
*
31396504 TTTTTCTTTC-CTTTTT
1 TTTTTCTTTCTCTTTTC
31396520 TCTTTTC-TTCTCTTTTC
1 T-TTTTCTTTCTCTTTTC
31396537 TTTTTCTTT
1 TTTTTCTTT
31396546 TTTCTAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTCTCTTTTC
Found at i:31396535 original size:28 final size:27
Alignment explanation
Indices: 31396491--31396550 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
31396481 ACTTGGGCCC
*
31396491 TTTT-TTTTTTCT-TTTTTTCTTTCCTT
1 TTTTCTTTTTTCTCTTTTCT-TTTCCTT
*
31396517 TTTTCTTTTCTTCTCTTTTCTTTTTCTT
1 TTTTCTTTT-TTCTCTTTTCTTTTCCTT
31396545 TTTTCT
1 TTTTCT
31396551 AATAGGCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 4 0.14
28 16 0.55
29 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (27 bp):
TTTTCTTTTTTCTCTTTTCTTTTCCTT
Found at i:31396638 original size:19 final size:19
Alignment explanation
Indices: 31396604--31396640 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31396594 CTGCTACTGA
*
31396604 TGGCCTGCTGATTTGGGCC
1 TGGCCTGCTGAGTTGGGCC
*
31396623 TGGCCTGCTGCGTTGGGC
1 TGGCCTGCTGAGTTGGGC
31396641 TGCTGCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.41, T:0.30
Consensus pattern (19 bp):
TGGCCTGCTGAGTTGGGCC
Found at i:31396839 original size:25 final size:25
Alignment explanation
Indices: 31396801--31396864 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
31396791 CTTTTTTCTT
31396801 TTCCTTCATT-CTTCTTTCC-CTTTTC
1 TTCCTTC-TTCCTTCTTTCCTC-TTTC
*
31396826 TTCCTTCTTCCTTCTTTCTTCTTTC
1 TTCCTTCTTCCTTCTTTCCTCTTTC
31396851 TTCCTTACTTCCTT
1 TTCCTT-CTTCCTT
31396865 TCCTGATCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 2 0.06
25 25 0.71
26 8 0.23
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (25 bp):
TTCCTTCTTCCTTCTTTCCTCTTTC
Found at i:31397041 original size:23 final size:22
Alignment explanation
Indices: 31396989--31397041 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
31396979 TTTGCTCTTT
*
31396989 TTCTT-TTTTTTTTCTTTTTGC
1 TTCTTGTTTTTTCTCTTTTTGC
*
31397010 TTGC-GGTTTTTTCTCTTCTTTGC
1 TT-CTTGTTTTTTCTCTT-TTTGC
31397033 TTCTTGTTT
1 TTCTTGTTT
31397042 GTTTTGCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 11 0.44
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.72
Consensus pattern (22 bp):
TTCTTGTTTTTTCTCTTTTTGC
Found at i:31397433 original size:29 final size:30
Alignment explanation
Indices: 31397352--31397433 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
31397342 GGGCAAAAAA
*
31397352 TAATTTCAAGAAAGTTTAAGGGTTAAAATG
1 TAATTTCAAAAAAGTTTAAGGGTTAAAATG
** *
31397382 TAATTTTGAAAAAGTTTAGGGGTTAAAATG
1 TAATTTCAAAAAAGTTTAAGGGTTAAAATG
31397412 TAATTTCAAAAAAG-TTAAGGGT
1 TAATTTCAAAAAAGTTTAAGGGT
31397434 CGAATTGCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 7 0.16
30 38 0.84
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (30 bp):
TAATTTCAAAAAAGTTTAAGGGTTAAAATG
Found at i:31397733 original size:76 final size:78
Alignment explanation
Indices: 31397669--31398540 Score: 929
Period size: 76 Copynumber: 11.2 Consensus size: 78
31397659 TTGACCTTTA
* * * *
31397669 AAAAATAGAAATT-GAAAAATACATCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
31397733 AGTTGA-TTTTTG
66 AGTTGATTTTTTG
* * * * *
31397745 AAAAACAAAAATT-GAAAAATACCTCGGTATGTGACTCGAGGCTCAACTCACCTCTAGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
31397809 AGTTGA-TTTTTG
66 AGTTGATTTTTTG
* * * * * *
31397821 AAAAGCAAAAATT-GAAAAATACCTTGGTATGTGACCCGAGGCTCAACTCACCTGTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
31397885 AGTTGATTTTTTGAAG
66 AGTTGATTTTTT---G
* *
31397901 AGCAAAAAAAAAATTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 A--AAAACAGAAATTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
31397966 ATGAGTTGATTTTTTTG
63 ATGAGTTGA-TTTTTTG
* *
31397983 AAAAACAAAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
31398048 AGTTGA-TTATTG
66 AGTTGATTTTTTG
** * *
31398060 AAAAAACAGAAATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCACCTCTCGTAAT
1 -AAAAACAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
31398124 ATGAGTTGA-TTTTTG
63 ATGAGTTGATTTTTTG
* * **
31398139 AAAAACA-AATTTAAAAGAAATACCTCGGCATATG-TTCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAATTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
**
31398202 GAGTCAATTTTTTTG
65 GAGTTGA-TTTTTTG
* * ** * *
31398217 AAAAATAGAAATTAAAAGAAATAACTCGGCATGTG-TTCGAGG-TTAACTCACCTCTCGCAATAC
1 AAAAACAGAAATTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
31398280 GAGTTGATTTTTTT
65 GAGTTGATTTTTTG
** * * *
31398294 AAAAACAGAAATTAAAAAAAATATTTTGGCGTGCGACCCGAGGCTCAACTCACCTCTCGC-A-AT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
31398357 GAGTTGATTTTTTTG
65 GAGTTGA-TTTTTTG
* * * * *
31398372 AAAAATAGAAATT--AAAAATATCTCAGC--GTAACCCAAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
31398433 AGTTGATCTTTTTG
66 AGTTGAT-TTTTTG
** * * * * * * *
31398447 AAAAATGGAAATT--GAAAATACCTCAGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
31398510 AGTTGGTTTTTTG
66 AGTTGATTTTTTG
* *
31398523 AAAAACATAAATTGAAAA
1 AAAAACAGAAATTAAAAA
31398541 TATAATTCTT
Statistics
Matches: 697, Mismatches: 73, Indels: 50
0.85 0.09 0.06
Matches are distributed among these distances:
73 25 0.04
74 2 0.00
75 50 0.07
76 205 0.29
77 86 0.12
78 83 0.12
79 144 0.21
80 31 0.04
82 12 0.02
83 2 0.00
84 51 0.07
85 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (78 bp):
AAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTG
Found at i:31398232 original size:155 final size:157
Alignment explanation
Indices: 31397683--31398540 Score: 923
Period size: 155 Copynumber: 5.5 Consensus size: 157
31397673 ATAGAAATTG
* *
31397683 AAAAATACATCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * * *
31397746 AAAACAAAAATT-GAA-AAATACCTCGGTATGTGACTCGAGGCTCAACTCACCTCTAGCAATATG
66 AAAACAGAAATTAAAAGAAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATG
* *
31397809 AGTTGA-TTTTTGAAAAGCAAAAATT-G
130 AGTTGATTTTTTGAAAAACAAAAATTAA
* * * *
31397835 AAAAATACCTTGGTATGTGACCCGAGGCTCAACTCACCTGTCGCAATATGAGTTGATTTTTTGAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT--T
* *
31397900 GAGCAAAAAAAAAATTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
64 GA--AAAACAGAAATTAAAAGAAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAA
31397965 TATGAGTTGATTTTTTTGAAAAACAAAAATTAA
126 TATGAGTTGA-TTTTTTGAAAAACAAAAATTAA
* *
31397998 AAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTATTGA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-
** * *
31398061 AAAAACAGAAATTTAAAAGAAATACCTTAGCATGTGTCCGAGGCTCAACTCACCTCTCGTAATAT
65 AAAAACAGAAA-TTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATAT
*
31398126 GAGTTGA-TTTTTGAAAAAC-AAATTTAA
129 GAGTTGATTTTTTGAAAAACAAAAATTAA
* ** **
31398153 AAGAAATACCTCGGCATATG-TTCGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTG
1 AA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** * *
31398217 AAAAATAGAAATTAAAAGAAATAACTCGGCATGTGTTCGAGG-TTAACTCACCTCTCGCAATACG
65 AAAAACAGAAATTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATG
* *
31398281 AGTTGATTTTTTTAAAAACAGAAATTAAA
130 AGTTGATTTTTTGAAAAACAAAAATT-AA
** * * *
31398310 AAAAATATTTTGGCGTGCGACCCGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTTTTGA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * * *
31398373 AAAATAGAAATT--AA-AAATATCTCAGC--GTAACCCAAGGCTCAACTCACCTCTCGCAATATG
66 AAAACAGAAATTAAAAGAAATACCTCGGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATG
***
31398433 AGTTGATCTTTTTGAAAAATGGAAATT--
130 AGTTGAT-TTTTTGAAAAACAAAAATTAA
* * * * * * * *
31398460 GAAAATACCTCAGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTG-GTTTTTTGA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
*
31398524 AAAACATAAATTGAAAA
66 AAAACAGAAATT-AAAA
31398541 TATAATTCTT
Statistics
Matches: 604, Mismatches: 74, Indels: 54
0.83 0.10 0.07
Matches are distributed among these distances:
150 39 0.06
151 22 0.04
152 98 0.16
153 18 0.03
154 31 0.05
155 107 0.18
156 55 0.09
157 31 0.05
158 53 0.09
159 25 0.04
160 52 0.09
161 3 0.00
162 18 0.03
163 52 0.09
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (157 bp):
AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
AAAACAGAAATTAAAAGAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAAACAAAAATTAA
Found at i:31399406 original size:12 final size:11
Alignment explanation
Indices: 31399391--31399442 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
31399381 TTCATCTTGA
31399391 TTTTTATTTTT
1 TTTTTATTTTT
*
31399402 CTTTTCATTTTT
1 -TTTTTATTTTT
*
31399414 GTTTTTGTTTTT
1 -TTTTTATTTTT
*
31399426 TTTTTGTTGTTT
1 TTTTTATT-TTT
31399438 TTTTT
1 TTTTT
31399443 TGTTTCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:31399411 original size:18 final size:18
Alignment explanation
Indices: 31399390--31399424 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31399380 TTTCATCTTG
31399390 ATTTTTATTTTTCTTTTC
1 ATTTTTATTTTTCTTTTC
* *
31399408 ATTTTTGTTTTTGTTTT
1 ATTTTTATTTTTCTTTT
31399425 TTTTTTGTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (18 bp):
ATTTTTATTTTTCTTTTC
Found at i:31399429 original size:17 final size:17
Alignment explanation
Indices: 31399409--31399443 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31399399 TTTCTTTTCA
31399409 TTTTTGTT-TTTGTTTTT
1 TTTTTGTTGTTT-TTTTT
31399426 TTTTTGTTGTTTTTTTT
1 TTTTTGTTGTTTTTTTT
31399443 T
1 T
31399444 GTTTCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (17 bp):
TTTTTGTTGTTTTTTTT
Found at i:31399435 original size:14 final size:13
Alignment explanation
Indices: 31399409--31399443 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
31399399 TTTCTTTTCA
*
31399409 TTTTTGTTTTTGT
1 TTTTTTTTTTTGT
31399422 TTTTTTTTTGTTGT
1 TTTTTTTTT-TTGT
31399436 TTTTTTTT
1 TTTTTTTT
31399444 GTTTCCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:31399456 original size:14 final size:13
Alignment explanation
Indices: 31399409--31399446 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
31399399 TTTCTTTTCA
*
31399409 TTTTTGTTT-TTG
1 TTTTTTTTTGTTG
31399421 TTTTTTTTTTGTTG
1 -TTTTTTTTTGTTG
31399435 TTTTTTTTTGTT
1 TTTTTTTTTGTT
31399447 TCCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTGTTG
Found at i:31401615 original size:107 final size:107
Alignment explanation
Indices: 31401429--31401650 Score: 390
Period size: 107 Copynumber: 2.1 Consensus size: 107
31401419 AAACACAATA
* * *
31401429 AAAGAATTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAATGAATGATCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
*
31401494 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCTG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
* *
31401536 AAAGATTTGAAATAAGTTAGATAAAGAAAATGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
31401601 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
31401643 AAAGATTT
1 AAAGATTT
31401651 CACAACTCCC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.52, C:0.11, G:0.18, T:0.19
Consensus pattern (107 bp):
AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
Found at i:31412560 original size:79 final size:82
Alignment explanation
Indices: 31412449--31412633 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
31412439 GCTACTCGTT
* * *
31412449 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31412512 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
31412529 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
31412592 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
31412609 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31412634 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:31412633 original size:40 final size:40
Alignment explanation
Indices: 31412430--31412633 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
31412420 CGGAATTTAA
** *
31412430 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
31412470 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31412510 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31412549 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31412589 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31412629 CCGGA
1 CCGGA
31412634 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31415031 original size:11 final size:11
Alignment explanation
Indices: 31415015--31415039 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31415005 ACTCGGGAAG
31415015 ATCAGAGGTGT
1 ATCAGAGGTGT
31415026 ATCAGAGGTGT
1 ATCAGAGGTGT
31415037 ATC
1 ATC
31415040 CTTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (11 bp):
ATCAGAGGTGT
Found at i:31416575 original size:18 final size:17
Alignment explanation
Indices: 31416552--31416804 Score: 157
Period size: 18 Copynumber: 14.4 Consensus size: 17
31416542 AACTACAATT
31416552 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACAC-GAAA
*
31416570 TTTTTG-AGACACGAAA
1 TTTTTGAAAACACGAAA
*
31416586 -ATTT-AAAACCAC-AAA
1 TTTTTGAAAA-CACGAAA
31416601 TTTTTG-AAACACGAAA
1 TTTTTGAAAACACGAAA
*
31416617 TTGTTTTTCAAAACACGAAAA
1 ---TTTTTGAAAACACG-AAA
*
31416638 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACG-AAA
31416656 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGA-AA
31416673 TTTTTG-AAACACGAGAAA
1 TTTTTGAAAACAC--GAAA
*
31416691 TTTTTTTGAAAACACTAAAA
1 --TTTTTGAAAACAC-GAAA
* * * *
31416711 ATTTCG-AAACACAGGAG
1 TTTTTGAAAACAC-GAAA
31416728 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
* *
31416746 TTTTT-AAAATACCAAAA
1 TTTTTGAAAACA-CGAAA
*
31416763 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA--AA
*
31416782 TTTTTG-AAACACGAAT
1 TTTTTGAAAACACGAAA
31416798 TTTTTGA
1 TTTTTGA
31416805 TTTTAAAAAA
Statistics
Matches: 187, Mismatches: 25, Indels: 47
0.72 0.10 0.18
Matches are distributed among these distances:
15 11 0.06
16 25 0.13
17 51 0.27
18 61 0.33
19 14 0.07
20 16 0.09
21 9 0.05
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:31416667 original size:35 final size:35
Alignment explanation
Indices: 31416520--31416804 Score: 214
Period size: 35 Copynumber: 8.2 Consensus size: 35
31416510 GAATTTTTTC
* **
31416520 TTTTGAAAACACGAGAA-TTTTG-AACTAC-AATTT
1 TTTTGAAAACACGAAAATTTTTGAAAC-ACGAAAAT
* *
31416553 TTTTGAAAACACGGAAATTTTTGAGACACGAAAA-
1 TTTTGAAAACACGAAAATTTTTGAAACACGAAAAT
*
31416587 -TTT-AAAAC-C-ACAAATTTTTGAAACACGAAATTGT
1 TTTTGAAAACACGA-AAATTTTTGAAACACGAAA--AT
* *
31416621 TTTTCAAAACACGAAAATTTTTGAAAATACGAAAAT
1 TTTTGAAAACACGAAAATTTTTG-AAACACGAAAAT
*
31416657 TTTTG-AAACACGAGAATTTTTGAAACACGAGAAATTT
1 TTTTGAAAACACGAAAATTTTTGAAACACGA-AAA--T
* * * * *
31416694 TTTTGAAAACACTAAAAATTTCGAAACAC-AGGAGT
1 TTTTGAAAACACGAAAATTTTTGAAACACGA-AAAT
* * * *
31416729 TTTTGAAAACACGAAGATTTTTAAAATACCAAAAT
1 TTTTGAAAACACGAAAATTTTTGAAACACGAAAAT
* * *
31416764 TTTTGAAAACACGAGGATTTTTTGAAACACG-AATT
1 TTTTGAAAACACGA-AAATTTTTGAAACACGAAAAT
31416799 TTTTGA
1 TTTTGA
31416805 TTTTAAAAAA
Statistics
Matches: 200, Mismatches: 34, Indels: 34
0.75 0.13 0.13
Matches are distributed among these distances:
31 19 0.09
32 5 0.03
33 18 0.09
34 14 0.07
35 75 0.38
36 21 0.10
37 19 0.09
38 29 0.14
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (35 bp):
TTTTGAAAACACGAAAATTTTTGAAACACGAAAAT
Found at i:31416802 original size:17 final size:17
Alignment explanation
Indices: 31416552--31416796 Score: 167
Period size: 17 Copynumber: 13.9 Consensus size: 17
31416542 AACTACAATT
*
31416552 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
*
31416570 TTTTTGAGACACGAAAA
1 TTTTTGAAACACGAAAA
*
31416587 --TTT-AAA-ACCACAAA
1 TTTTTGAAACACGA-AAA
*
31416601 TTTTTGAAACACGAAATTG
1 TTTTTGAAACACGAAA--A
*
31416620 TTTTTCAAAACACGAAAA
1 TTTTT-GAAACACGAAAA
*
31416638 TTTTTGAAAATACGAAAA
1 TTTTTG-AAACACGAAAA
*
31416656 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
31416673 TTTTTGAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
*
31416691 TTTTTTTGAAAACACTAAAA
1 --TTTTTG-AAACACGAAAA
* * * *
31416711 ATTTCGAAACAC-AGGAG
1 TTTTTGAAACACGA-AAA
*
31416728 TTTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
* * *
31416746 TTTTTAAAATACCAAAA
1 TTTTTGAAACACGAAAA
* *
31416763 TTTTTGAAAACACGAGGAT
1 TTTTTG-AAACACGA-AAA
31416782 TTTTTGAAACACGAA
1 TTTTTGAAACACGAA
31416797 TTTTTTGATT
Statistics
Matches: 176, Mismatches: 33, Indels: 37
0.72 0.13 0.15
Matches are distributed among these distances:
13 3 0.02
14 5 0.03
15 3 0.02
16 4 0.02
17 61 0.35
18 61 0.35
19 13 0.07
20 19 0.11
21 7 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:31417327 original size:23 final size:23
Alignment explanation
Indices: 31417297--31417357 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 23
31417287 ACAACTTGGG
31417297 CCCTTTTTTTTTCTTTTTTTCTT
1 CCCTTTTTTTTTCTTTTTTTCTT
31417320 CCC---TTTTTTC--TTTTTCTT
1 CCCTTTTTTTTTCTTTTTTTCTT
*
31417338 CTCTTTTCTTTTTCTTTTTT
1 CCCTTTT-TTTTTCTTTTTT
31417358 CTACTGGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
18 10 0.32
20 7 0.23
21 1 0.03
22 6 0.19
23 3 0.10
24 4 0.13
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (23 bp):
CCCTTTTTTTTTCTTTTTTTCTT
Found at i:31417599 original size:7 final size:7
Alignment explanation
Indices: 31417587--31417648 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
31417577 TAAAAAATTA
31417587 TTTTCTT
1 TTTTCTT
31417594 TTTTCTT
1 TTTTCTT
31417601 TTTTC-T
1 TTTTCTT
*
31417607 TTTCCTT
1 TTTTCTT
*
31417614 CTTTCTT
1 TTTTCTT
* * **
31417621 CTTCCCC
1 TTTTCTT
31417628 TTTTCTT
1 TTTTCTT
*
31417635 CTTTCTT
1 TTTTCTT
31417642 TTTTCTT
1 TTTTCTT
31417649 CCTTACTTCC
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCTT
Found at i:31417606 original size:14 final size:14
Alignment explanation
Indices: 31417587--31417649 Score: 65
Period size: 14 Copynumber: 4.6 Consensus size: 14
31417577 TAAAAAATTA
* *
31417587 TTTTCTTTTTTCTT
1 TTTTCTTCTTCCTT
31417601 TTTTCTT-TTCCTT
1 TTTTCTTCTTCCTT
* **
31417614 CTTTCTTCTTCCCC
1 TTTTCTTCTTCCTT
*
31417628 TTTTCTTCTTTCTT
1 TTTTCTTCTTCCTT
31417642 TTTTCTTC
1 TTTTCTTC
31417650 CTTACTTCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTTCTTCCTT
Found at i:31417788 original size:9 final size:9
Alignment explanation
Indices: 31417756--31417788 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
31417746 TCCCTTTCCC
31417756 TCTTTTTCT
1 TCTTTTTCT
*
31417765 CCTTTTTCT
1 TCTTTTTCT
31417774 TCTTTTT-T
1 TCTTTTTCT
31417782 TCTTTTT
1 TCTTTTT
31417789 GCTTGCGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:31419006 original size:21 final size:21
Alignment explanation
Indices: 31418972--31419016 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
31418962 TTAGAAATGA
*
31418972 TTTTTAAATTTTTAAAAAATAT
1 TTTTTAAATATTTAAAAAAT-T
*
31418994 TTTTTAAA-ATTTAAATAATT
1 TTTTTAAATATTTAAAAAATT
31419014 TTT
1 TTT
31419017 AAAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTAAATATTTAAAAAATT
Found at i:31419124 original size:17 final size:18
Alignment explanation
Indices: 31419097--31419130 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31419087 TAATAATTTA
31419097 TTTTGAAATAAAATAAAG
1 TTTTGAAATAAAATAAAG
*
31419115 TTTT-AAATAATATAAA
1 TTTTGAAATAAAATAAA
31419131 ATTATAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TTTTGAAATAAAATAAAG
Found at i:31423187 original size:42 final size:42
Alignment explanation
Indices: 31423120--31423272 Score: 164
Period size: 42 Copynumber: 3.6 Consensus size: 42
31423110 TAAAATTTTA
* * * *
31423120 TGTTCAGCTCTT-TGGAGCTTTTGTTTAATTCATATGAGTTTC
1 TGTTAAGCTCTTAT-GAGCTTCTGTTTAATCCATATGGGTTTC
* * * *
31423162 CGTTAAGCTCTTTTGAGCTTCTGTTTAACCCCTATGGGTTTC
1 TGTTAAGCTCTTATGAGCTTCTGTTTAATCCATATGGGTTTC
* * * *
31423204 TGTTCAGCTCTTATGAGCTTCTGTTCAATCCTTATGGGTTTT
1 TGTTAAGCTCTTATGAGCTTCTGTTTAATCCATATGGGTTTC
* *
31423246 TGTTTAGCTCTCATGAGCTTCTGTTTA
1 TGTTAAGCTCTTATGAGCTTCTGTTTA
31423273 GCCTCTAGGC
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 92 0.99
43 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (42 bp):
TGTTAAGCTCTTATGAGCTTCTGTTTAATCCATATGGGTTTC
Found at i:31423218 original size:21 final size:21
Alignment explanation
Indices: 31423120--31423270 Score: 81
Period size: 21 Copynumber: 7.2 Consensus size: 21
31423110 TAAAATTTTA
*
31423120 TGTTCAGCTCTT-TGGAGCTTT
1 TGTTCAGCTCTTAT-GAGCTTC
* ** * *
31423141 TGTTTAATTCATATGAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
* * *
31423162 CGTTAAGCTCTTTTGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * * * *
31423183 TGTTTAACCCCTATGGGTTTC
1 TGTTCAGCTCTTATGAGCTTC
31423204 TGTTCAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * *
31423225 TGTTCA-ATCCTTATGGGTTTT
1 TGTTCAGCT-CTTATGAGCTTC
* *
31423246 TGTTTAGCTCTCATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
31423267 TGTT
1 TGTT
31423271 TAGCCTCTAG
Statistics
Matches: 90, Mismatches: 37, Indels: 6
0.68 0.28 0.05
Matches are distributed among these distances:
20 1 0.01
21 87 0.97
22 2 0.02
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:31426299 original size:21 final size:21
Alignment explanation
Indices: 31426273--31426313 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31426263 ATCTGTTAAA
31426273 TATGTAAATAATATATTTAGT
1 TATGTAAATAATATATTTAGT
*
31426294 TATGTAAATATTATATTTAG
1 TATGTAAATAATATATTTAG
31426314 GAAATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
TATGTAAATAATATATTTAGT
Found at i:31431799 original size:92 final size:92
Alignment explanation
Indices: 31431657--31431826 Score: 227
Period size: 92 Copynumber: 1.8 Consensus size: 92
31431647 GAAATAAATA
* *
31431657 TTATGAGCAATCTGAAGTGTTATCAGGGGAGAATATTTAGCCTACGGGCCTTACACTATGTGCAC
1 TTATGAGCAATCTGAAGTGTTATCAGGGGAGAAAATTTAGCCTACAGGCCTTACACTATGTGCAC
*
31431722 CTGGTGTCTTATCGGTTGGAATAGCTC
66 CTGGCGTCTTATCGGTTGGAATAGCTC
* * * *
31431749 TTATGAGCAATTTGACA-TGTTATC-GGGAGAGAAAATTTAGCCTATAGGCCTTGCACTATTTGC
1 TTATGAGCAATCTGA-AGTGTTATCAGGG-GAGAAAATTTAGCCTACAGGCCTTACACTATGTGC
* *
31431812 ATCTGGCGTGTTATC
64 ACCTGGCGTCTTATC
31431827 AAATGGTCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 3 0.04
92 63 0.94
93 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (92 bp):
TTATGAGCAATCTGAAGTGTTATCAGGGGAGAAAATTTAGCCTACAGGCCTTACACTATGTGCAC
CTGGCGTCTTATCGGTTGGAATAGCTC
Found at i:31434382 original size:17 final size:18
Alignment explanation
Indices: 31434360--31434401 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
31434350 TAAATGAAAG
*
31434360 AAGAAAC-ATAAAAGAGA
1 AAGAAACAAAAAAAGAGA
*
31434377 AAGAAAACAAAAAAAGAGG
1 AAG-AAACAAAAAAAGAGA
31434396 AAGAAA
1 AAGAAA
31434402 AATGGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 7 0.33
19 11 0.52
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (18 bp):
AAGAAACAAAAAAAGAGA
Found at i:31448739 original size:5 final size:5
Alignment explanation
Indices: 31448703--31448736 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
31448693 AAGGAAAAAT
* *
31448703 ATGAT ATGAC ATGAC ATGAC ATGAC ATGAT ATGA
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGA
31448737 TATTGTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (5 bp):
ATGAC
Found at i:31449404 original size:65 final size:66
Alignment explanation
Indices: 31449325--31449457 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 66
31449315 ATGAGAGCTT
* *
31449325 AGACTAGGCCCCCAAAA-GGGTTACTAAACCGAGAA-GAGGACATCCAAAAATAGAGCAAAACAA
1 AGACAAGGCCCCCAAAAGGGGTTACTAAACCGA-AAGGAGGACATCAAAAAATAGAGCAAAACAA
31449388 GG
65 GG
* *
31449390 AGACAAGGCCCCCAAAAGGGGTTATTAAACCGAAAGGAGGACATCAAAAAATAGAGCAGAACAAG
1 AGACAAGGCCCCCAAAAGGGGTTACTAAACCGAAAGGAGGACATCAAAAAATAGAGCAAAACAAG
31449455 G
66 G
31449456 AG
1 AG
31449458 GACGACAACC
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 18 0.29
66 44 0.71
ACGTcount: A:0.47, C:0.20, G:0.25, T:0.09
Consensus pattern (66 bp):
AGACAAGGCCCCCAAAAGGGGTTACTAAACCGAAAGGAGGACATCAAAAAATAGAGCAAAACAAG
G
Found at i:31452631 original size:5 final size:5
Alignment explanation
Indices: 31452621--31452649 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
31452611 ATAAGGAAAA
31452621 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
31452650 TATAGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:31455947 original size:51 final size:51
Alignment explanation
Indices: 31455881--31455991 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 51
31455871 AATGAATTTA
*
31455881 TTTCTCATTTTCATTTAGGAGAAAACCACATTCATTTCCAAATGATTTCAT-T
1 TTTC-CATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATG-TTTCATAT
* ** *
31455933 TTTCCATTTTCATTTTGGAGAAAACCTTAATCGTTTCCAAATGTTTCATAT
1 TTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGTTTCATAT
31455984 TTCTCCAT
1 TT-TCCAT
31455992 GCCACCATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 6 0.12
51 37 0.71
52 9 0.17
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (51 bp):
TTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGTTTCATAT
Found at i:31456686 original size:173 final size:173
Alignment explanation
Indices: 31456397--31456743 Score: 622
Period size: 173 Copynumber: 2.0 Consensus size: 173
31456387 CCCCTAAAGT
* *
31456397 TACCCTGAACCTGAGCATACTGGTTTTGATGTTGCAACACAGGTACTAGGGTGTCGTGACATCGA
1 TACCCTGAACCTGAGCATACTGCTTTTGATGTTGCAACACAGGTACTAGGATGTCGTGACATCGA
**
31456462 TCCAGTATAAGAAATACTTACAAGCCAAGGGCGTTTTGGTTTGTACAGTGAAAAGTTAAACAAAA
66 TCCAGTATAAGAAATACTTACAAGCCAAGGGCGTTTTGGTTTACACAGTGAAAAGTTAAACAAAA
*
31456527 GAGTGTGAGTTGACCTAGGGTTGAGGACGATGGCAAAGCTAAC
131 GAGTGTGAGTTGACCTAGGGTTAAGGACGATGGCAAAGCTAAC
*
31456570 TACCCTGAACCTGAGCATACTGCTTTTGATGTTGCAACATAGGTACTAGGATGTCGTGACATCGA
1 TACCCTGAACCTGAGCATACTGCTTTTGATGTTGCAACACAGGTACTAGGATGTCGTGACATCGA
* *
31456635 TCCAGTATAAGAAATACTTACGAGCCAGGGGCGTTTTGGTTTACACAGTGAAAAGTTAAACAAAA
66 TCCAGTATAAGAAATACTTACAAGCCAAGGGCGTTTTGGTTTACACAGTGAAAAGTTAAACAAAA
31456700 GAGTGTGAGTTGACCTAGGGTTAAGGACGATGGCAAAGCTAAC
131 GAGTGTGAGTTGACCTAGGGTTAAGGACGATGGCAAAGCTAAC
31456743 T
1 T
31456744 CTATAAATAG
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 166 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (173 bp):
TACCCTGAACCTGAGCATACTGCTTTTGATGTTGCAACACAGGTACTAGGATGTCGTGACATCGA
TCCAGTATAAGAAATACTTACAAGCCAAGGGCGTTTTGGTTTACACAGTGAAAAGTTAAACAAAA
GAGTGTGAGTTGACCTAGGGTTAAGGACGATGGCAAAGCTAAC
Found at i:31458594 original size:79 final size:81
Alignment explanation
Indices: 31458492--31458676 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
31458482 GCTCCTCGTT
* *
31458492 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31458555 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
31458572 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
31458636 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
31458652 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31458677 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:31458676 original size:40 final size:40
Alignment explanation
Indices: 31458492--31458676 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
31458482 GCTCCTCGTT
* *
31458492 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
31458532 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
31458572 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
31458611 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
31458652 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31458677 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:31466346 original size:40 final size:40
Alignment explanation
Indices: 31466164--31466346 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
31466154 GCTCCTCGTT
* *
31466164 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
31466204 CAAATGCCTTC-GGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
31466242 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
31466281 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
31466322 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31466347 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 34 0.28
39 35 0.29
40 41 0.34
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:31471917 original size:13 final size:13
Alignment explanation
Indices: 31471894--31471926 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
31471884 AACAGTAAAT
31471894 TGTTATTTGTTTTA
1 TGTT-TTTGTTTTA
31471908 TGTTTTTGTTTTA
1 TGTTTTTGTTTTA
31471921 TGTTTT
1 TGTTTT
31471927 CTGTATAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TGTTTTTGTTTTA
Found at i:31482609 original size:21 final size:21
Alignment explanation
Indices: 31482583--31482624 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31482573 AGTACCATAG
*
31482583 GAAATTAAATGTTTTATACAT
1 GAAATTAAATCTTTTATACAT
31482604 GAAATTAAATCTTTTATACAT
1 GAAATTAAATCTTTTATACAT
31482625 TTATAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
GAAATTAAATCTTTTATACAT
Found at i:31486727 original size:40 final size:38
Alignment explanation
Indices: 31486674--31486749 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
31486664 GAAAAGGGAG
*
31486674 AAAAAAATCAATAAAAAAAGGAAAACGATTGCCAGTTTAA
1 AAAAAAAGCAAT-AAAAAA-GAAAACGATTGCCAGTTTAA
* * *
31486714 AAAAAAAGGAATAAAAAAGAGAACGATTGGCAGTTT
1 AAAAAAAGCAATAAAAAAGAAAACGATTGCCAGTTT
31486750 TTTAAAGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 16 0.50
39 6 0.19
40 10 0.31
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (38 bp):
AAAAAAAGCAATAAAAAAGAAAACGATTGCCAGTTTAA
Found at i:31492894 original size:44 final size:44
Alignment explanation
Indices: 31492805--31493224 Score: 397
Period size: 44 Copynumber: 9.5 Consensus size: 44
31492795 GCAGATCAGT
* * *
31492805 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* *
31492849 GAAGATGCAGATCTTGTCTTCCCATATTGGTAGCGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * * *
31492893 GAAGAAAGCAAATCTTGTCTTCATTTATTGG-CGTGAAGTAGGTC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
31492937 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
31492981 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
31493025 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
31493069 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTA-AGAAGT-GAATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG-ATC
* *
31493113 GAAGATGCAGATCTTGTCTTCCCATACTGGT-GACGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAG-CGAAGTAGATC
* * *
31493157 GAAGAAAGCAGATCTTGTCTTCATATATTGGT-GTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
*
31493201 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
31493225 GCACCGACAG
Statistics
Matches: 302, Mismatches: 60, Indels: 28
0.77 0.15 0.07
Matches are distributed among these distances:
43 70 0.23
44 165 0.55
45 67 0.22
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:31493042 original size:132 final size:132
Alignment explanation
Indices: 31492805--31493211 Score: 697
Period size: 132 Copynumber: 3.1 Consensus size: 132
31492795 GCAGATCAGT
31492805 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * * * *
31492870 CCATATTGGTAGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATTTATTGGCGTGAAGTAGG
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGA
31492935 TC
131 TC
*
31492937 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
*
31493002 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGA
31493067 TC
131 TC
* * *
31493069 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGAATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
31493134 CCATACTGGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGTGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGA
31493199 TC
131 TC
31493201 GAAGATAGCAG
1 GAAGATAGCAG
31493212 ATCTTGCCTT
Statistics
Matches: 260, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 260 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGA
TC
Found at i:31493321 original size:44 final size:44
Alignment explanation
Indices: 31493258--31493463 Score: 265
Period size: 44 Copynumber: 4.7 Consensus size: 44
31493248 TGACCTCAGC
*
31493258 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
31493302 CCTATCTCCCTGGTCAGCAGTGGAATAGGGTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
31493346 TCTATCTCCCTGGGCAGTAGTGGAAT-GGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGG-TTGAAGATTGTGA-AT
* * *
31493390 CCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
31493434 CCTATCTCCCTGAGT-AGCAGTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
31493464 GGAAAATAGC
Statistics
Matches: 140, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.02
44 132 0.94
45 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:31493524 original size:132 final size:132
Alignment explanation
Indices: 31493205--31493527 Score: 322
Period size: 132 Copynumber: 2.4 Consensus size: 132
31493195 TAGATCGAAG
* * * * * *
31493205 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCTCAGCCCTATCTCCCTG
1 ATAGCAGATCTTGCCTCCCTGCACCGATAGTGAAGCAGATCGAAGACGTCAGTCCTATCTCCCTG
* *
31493270 GTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
66 GTCAGCAGTGGAATAGGTTAAAGATCGTGAACCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
*
31493335 AG
131 AA
* ** * * *
31493337 ATTG-AGAATTCTAT--CTCCCTGGGCAG-TAGTGGAATG--GATTGAAGATTGT-AGGTCCTAT
1 ATAGCAG-A-TCT-TGCCTCCCTGCACCGATAGT-GAA-GCAGATCGAAGA-CGTCA-GTCCTAT
* * *
31493395 CTCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAGT-AGCAGTGGAG
59 CTCCCTGGTCAGCAGTGGAATAGGTTAAAGATCGTGAACCCTATCTCCCTG-GTCAGCAGTGGAA
31493459 TA-GGTGGAAA
123 TAGGGT-GAAA
* *
31493469 ATAGCAGATCTTGCCTCCCTACACCGATAGTGAAGCAGATCGAGGACGTCAGTCCTATC
1 ATAGCAGATCTTGCCTCCCTGCACCGATAGTGAAGCAGATCGAAGACGTCAGTCCTATC
31493528 GCCTTGATGT
Statistics
Matches: 149, Mismatches: 26, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
130 1 0.01
131 19 0.13
132 108 0.72
133 20 0.13
134 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (132 bp):
ATAGCAGATCTTGCCTCCCTGCACCGATAGTGAAGCAGATCGAAGACGTCAGTCCTATCTCCCTG
GTCAGCAGTGGAATAGGTTAAAGATCGTGAACCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
AA
Found at i:31493863 original size:44 final size:44
Alignment explanation
Indices: 31493770--31493874 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
31493760 ATGGCAAATT
* *
31493770 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
* * * *
31493814 CTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT-AATC
*
31493858 TTATCTCTCTGAAGTTG
1 TTATCTCCCTGAAGTTG
31493875 TAGAGAGCAG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
Found at i:31494338 original size:20 final size:21
Alignment explanation
Indices: 31494306--31494348 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
31494296 ATCTTCGAGG
31494306 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
31494327 ATATGC-ATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
31494347 AT
1 AT
31494349 GTAATCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:31494357 original size:19 final size:19
Alignment explanation
Indices: 31494305--31494359 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
31494295 AATCTTCGAG
*
31494305 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
31494324 GATATATGCATCTTAGATAT
1 GATATGT-AATCTTAGATAT
31494344 GATATGTAATCTTAGA
1 GATATGTAATCTTAGA
31494360 AGATGTGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:31496474 original size:42 final size:42
Alignment explanation
Indices: 31496428--31496507 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
31496418 ATGAAACAAT
* *
31496428 TATACTGGCACATAAGTGTACCATCAGA-TAAACCAAAGCAAA
1 TATACTAGCACATAAGTGAACCATC-GACTAAACCAAAGCAAA
*
31496470 TATACTAGCACATAAGTGAATCATCGACTAAACCAAAG
1 TATACTAGCACATAAGTGAACCATCGACTAAACCAAAG
31496508 TATAGGCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (42 bp):
TATACTAGCACATAAGTGAACCATCGACTAAACCAAAGCAAA
Found at i:31498031 original size:14 final size:15
Alignment explanation
Indices: 31498006--31498034 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31497996 TTATTTTGTG
31498006 TTTACTATGTGTGAA
1 TTTACTATGTGTGAA
31498021 TTTAC-ATGTGTGAA
1 TTTACTATGTGTGAA
31498035 AGTTTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (15 bp):
TTTACTATGTGTGAA
Found at i:31499245 original size:43 final size:43
Alignment explanation
Indices: 31499184--31499307 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
31499174 ATTTTCGATA
*
31499184 TGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCATCAA-C
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATC
*
31499226 TTGTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATC
1 -TGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATC
** * *
31499270 TGTAATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
31499308 TGTACAAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 65 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATC
Found at i:31506091 original size:28 final size:28
Alignment explanation
Indices: 31506016--31506091 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
31506006 TTTATAGAAC
* * *
31506016 AGATAGTCCTTGACGGACATTCCACGTA
1 AGATAGTCCTTGGCGGACTTTCCACATA
** *
31506044 AGATAGTCCTTGGCATACTTTTCACATA
1 AGATAGTCCTTGGCGGACTTTCCACATA
*
31506072 AGATAGTCATTGGCGGACTT
1 AGATAGTCCTTGGCGGACTT
31506092 CCCCTTTTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (28 bp):
AGATAGTCCTTGGCGGACTTTCCACATA
Found at i:31507594 original size:45 final size:45
Alignment explanation
Indices: 31507538--31507632 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
31507528 TACTATGTGA
*
31507538 ACCGAACATCATTGATTAGTAAGCTGGTTGCTATGTGCTG-ATCAC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATC-C
* *
31507583 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATCC
31507628 ACCGA
1 ACCGA
31507633 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 42 0.93
46 3 0.07
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATCC
Found at i:31510298 original size:29 final size:29
Alignment explanation
Indices: 31510265--31510320 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
31510255 ATTTAAAAAA
* *
31510265 AATTATATACAAAAATGGTATGTCAGCCC
1 AATTATATACAAAAATAGTATGCCAGCCC
* *
31510294 AATTATGTACCAAAATAGTATGCCAGC
1 AATTATATACAAAAATAGTATGCCAGC
31510321 TACAGTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (29 bp):
AATTATATACAAAAATAGTATGCCAGCCC
Found at i:31510784 original size:27 final size:26
Alignment explanation
Indices: 31510754--31510810 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
31510744 GTAATTATTT
31510754 TTTTAAAAAATTTA-AAGGGATTAGTAA
1 TTTTAAAAAA--TAGAAGGGATTAGTAA
** *
31510781 TTTTTTAAAATAGAAGGGATTAGTTA
1 TTTTAAAAAATAGAAGGGATTAGTAA
31510807 TTTT
1 TTTT
31510811 TTTATGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.08
26 16 0.62
27 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (26 bp):
TTTTAAAAAATAGAAGGGATTAGTAA
Found at i:31511016 original size:104 final size:104
Alignment explanation
Indices: 31510837--31511214 Score: 509
Period size: 104 Copynumber: 3.6 Consensus size: 104
31510827 TTACTAATTA
* * * **
31510837 TTATAAATTATTTCTGTTTAGTTTA--GTTT-TTGTAATTTTTTATGAATGTAATTTTTTTTAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTATT
31510899 ATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
66 ATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
31510938 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTATTAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTT-TTTTTAT
31511003 TATTATTTT-AAGTTATTTTGTTAGTAATTTATGATTAGG
65 TATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
31511042 TTATAAATTGTTTGTGCTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTGT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAA----TTTTT-T
* *
31511107 TTTTTAAATTATTTTAAAGTTATTTTTTTAGTAATTTATGATTAGG
61 TTATT--ATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * *
31511153 TTATAAATT-ATT-TGTTTAGTTTAATGTGTATTTTGATTTATTATG-ATGTAATTTTTTTTATT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTATT
31511215 TCTTTGACAT
Statistics
Matches: 248, Mismatches: 17, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
101 23 0.09
103 9 0.04
104 112 0.45
105 13 0.05
107 2 0.01
108 13 0.05
109 28 0.11
110 10 0.04
111 38 0.15
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.60
Consensus pattern (104 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTATT
ATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:31511140 original size:215 final size:201
Alignment explanation
Indices: 31510837--31511214 Score: 522
Period size: 215 Copynumber: 1.8 Consensus size: 201
31510827 TTACTAATTA
*
31510837 TTATAAATTATTTCTGTTTAGTTTAGTTTTTGTAATTTTTTATGAATGTAATTTTTTTTAAAATT
1 TTATAAATTATTTCTGCTTAGTTTAGTTTTTGTAATTTTTTATGAATGTAATTTTTTTTAAAATT
* *
31510902 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGT
66 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTAGTTTAATGT
* *
31510967 TTATTGTGATTTTTTATGAATGTAATTTATTATTATTATTATTTTAAGTTATTTTGTTAGTAATT
129 GTATTGTGATTTATTATG-ATGTAATTT-TTATTATTATTATTTTAAGTTATTTTGTTAGTAATT
31511032 TATGATTAGG
192 TATGATTAGG
* * *
31511042 TTATAAATTGTTTGTGCTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTGT
1 TTATAAATTATTTCTGCTTAGTTTA--GTTT-TTGTAATTTTTTATGAATGTAA------TTT-T
* *
31511107 TTTTTAAATTATTTTAAAGTTATTTTTTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTAG
56 TTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTAG
* *
31511172 TTTAATGTGTATTTTGATTTATTATGATGTAATTTTTTTTATT
121 TTTAATGTGTATTGTGATTTATTATGATGTAATTTTTATTATT
31511215 TCTTTGACAT
Statistics
Matches: 151, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
205 22 0.15
207 4 0.03
208 21 0.14
211 7 0.05
212 9 0.06
213 29 0.19
214 5 0.03
215 54 0.36
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.60
Consensus pattern (201 bp):
TTATAAATTATTTCTGCTTAGTTTAGTTTTTGTAATTTTTTATGAATGTAATTTTTTTTAAAATT
ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGT
ATTGTGATTTATTATGATGTAATTTTTATTATTATTATTTTAAGTTATTTTGTTAGTAATTTATG
ATTAGG
Found at i:31511240 original size:19 final size:20
Alignment explanation
Indices: 31511203--31511240 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31511193 TTATGATGTA
* *
31511203 ATTTTTTTTATTTCTTTGAC
1 ATTTTTTTGATTTCATTGAC
31511223 ATTTTTTTGATTT-ATTGA
1 ATTTTTTTGATTTCATTGA
31511241 AATGTTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTTTTTTGATTTCATTGAC
Found at i:31513824 original size:48 final size:48
Alignment explanation
Indices: 31513763--31513871 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 48
31513753 CTTTATATTT
* ** *
31513763 ATTT-AATTGAGATTTATTACAACATTAAAACTTGGAACAAATTTTGTA
1 ATTTAAATT-AGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
*
31513811 ATTTAAATTAGATTAATTGCAACATTAAAACAAGGAACAAAATTTGTA
1 ATTTAAATTAGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
*
31513859 ATATAAATTAGAT
1 ATTTAAATTAGAT
31513872 ACATTGGAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 50 0.93
49 4 0.07
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (48 bp):
ATTTAAATTAGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
Found at i:31518275 original size:6 final size:6
Alignment explanation
Indices: 31518264--31518291 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31518254 TAAATTACTT
31518264 GAAAAA GAAAAA GAAAAA GAAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAA
31518292 TACTTAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:31520845 original size:32 final size:33
Alignment explanation
Indices: 31520778--31520845 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
31520768 TCTTGTTGGG
* * *
31520778 TTTGATTTTCCTTTGTGGTAGGTCTATGTCGGA
1 TTTGATTTTCCTTTGTGGTAGATCTATGCCAGA
31520811 TTTGA-TTTCCTTTGTGGTAGCATCTAT-CCAGA
1 TTTGATTTTCCTTTGTGGTAG-ATCTATGCCAGA
31520843 TTT
1 TTT
31520846 CATCAGCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTGATTTTCCTTTGTGGTAGATCTATGCCAGA
Found at i:31523067 original size:16 final size:16
Alignment explanation
Indices: 31523046--31523079 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31523036 AGAAAATAAA
31523046 AAAATAGCACAAAGAG
1 AAAATAGCACAAAGAG
* *
31523062 AAAATAGGAGAAAGAG
1 AAAATAGCACAAAGAG
31523078 AA
1 AA
31523080 GAAAGATGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATAGCACAAAGAG
Found at i:31528753 original size:37 final size:37
Alignment explanation
Indices: 31528705--31528825 Score: 119
Period size: 37 Copynumber: 3.2 Consensus size: 37
31528695 AGTTCAGAGT
31528705 AAAA-AAAAATCAAAATCAAAAAGAAAAAGAAAAAGA
1 AAAAGAAAAATCAAAATCAAAAAGAAAAAGAAAAAGA
*
31528741 AAAAGAAAAATCAAAGTC-AAAAG-AAAA-AAAAAGA
1 AAAAGAAAAATCAAAATCAAAAAGAAAAAGAAAAAGA
*
31528775 AAAATCAATCAAAGTCAAAAT-AAAAGTATGAAAAAGAAAAAG-
1 AAAA-GAA--AAA-TCAAAATCAAAA--A-GAAAAAGAAAAAGA
31528817 AAAAGAAAA
1 AAAAGAAAA
31528826 GAAGAGGCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
34 11 0.16
35 6 0.09
36 9 0.13
37 15 0.21
38 9 0.13
39 2 0.03
40 1 0.01
41 3 0.04
42 8 0.11
43 6 0.09
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (37 bp):
AAAAGAAAAATCAAAATCAAAAAGAAAAAGAAAAAGA
Found at i:31528768 original size:6 final size:6
Alignment explanation
Indices: 31528722--31528750 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
31528712 AATCAAAATC
31528722 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
31528751 TCAAAGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31528768 original size:18 final size:18
Alignment explanation
Indices: 31528705--31528768 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
31528695 AGTTCAGAGT
*
31528705 AAAA-AAAAATCAAAATC
1 AAAAGAAAAATCAAAGTC
** *
31528722 AAAAAGAAAAAGAAAAAG-A
1 -AAAAGAAAAA-TCAAAGTC
31528741 AAAAGAAAAATCAAAGTC
1 AAAAGAAAAATCAAAGTC
31528759 AAAAGAAAAA
1 AAAAGAAAAA
31528769 AAAAGAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 4 0.11
18 24 0.67
19 5 0.14
20 3 0.08
ACGTcount: A:0.78, C:0.06, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAAGAAAAATCAAAGTC
Found at i:31528770 original size:32 final size:32
Alignment explanation
Indices: 31528734--31528815 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
31528724 AAAGAAAAAG
31528734 AAAAAGAAAAAGAAAAATCAAAGTCAAAAGAA
1 AAAAAGAAAAAGAAAAATCAAAGTCAAAAGAA
* *
31528766 AAAAA-AAGAAA-AATCAATCAAAGTCAAAATAA
1 AAAAAGAA-AAAGAA-AAATCAAAGTCAAAAGAA
* *
31528798 AAGTATGAAAAAGAAAAA
1 AA-AAAGAAAAAGAAAAA
31528816 GAAAAGAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
31 4 0.10
32 26 0.65
33 6 0.15
34 4 0.10
ACGTcount: A:0.73, C:0.06, G:0.11, T:0.10
Consensus pattern (32 bp):
AAAAAGAAAAAGAAAAATCAAAGTCAAAAGAA
Done.