Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 65 of 203
Found at i:20848169 original size:20 final size:21
Alignment explanation
Indices: 20848132--20848171 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20848122 TTTTGGGTTT
20848132 TAACTAAAACATTCAATTTTCA
1 TAACTAAAACA-TCAATTTTCA
20848154 TAACTAAAAC-TCAATTTT
1 TAACTAAAACATCAATTTT
20848172 AAAGTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
TAACTAAAACATCAATTTTCA
Found at i:20849891 original size:24 final size:24
Alignment explanation
Indices: 20849841--20849893 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
20849831 TTTCTAGAAG
* * *
20849841 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGAATTTATTAGCACAATAT
*
20849865 ATTTAGAATTTATTAGCACAATTT
1 ATTTAGAATTTATTAGCACAATAT
20849889 ATTTA
1 ATTTA
20849894 ACCTACTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCACAATAT
Found at i:20851838 original size:24 final size:24
Alignment explanation
Indices: 20851810--20851861 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
20851800 TTTTTAGAAG
*
20851810 ATTTAATATTTATTAGTATAATAT
1 ATTTAATATTTATTAGCATAATAT
*
20851834 ATTTAATATTTATTAGCATAATTT
1 ATTTAATATTTATTAGCATAATAT
20851858 ATTT
1 ATTT
20851862 GACCTACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTAATATTTATTAGCATAATAT
Found at i:20851896 original size:26 final size:26
Alignment explanation
Indices: 20851866--20851918 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20851856 TTATTTGACC
*
20851866 TACGAATTTAGCTTATAAATAATCTT
1 TACGAATTTAACTTATAAATAATCTT
*
20851892 TACGAATTTAACTTATAAATAGTCTT
1 TACGAATTTAACTTATAAATAATCTT
20851918 T
1 T
20851919 TTTTTATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (26 bp):
TACGAATTTAACTTATAAATAATCTT
Found at i:20859843 original size:13 final size:13
Alignment explanation
Indices: 20859825--20859850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20859815 TTTGATTCAT
20859825 ATTAGCCTTGGGC
1 ATTAGCCTTGGGC
20859838 ATTAGCCTTGGGC
1 ATTAGCCTTGGGC
20859851 TCTTCGGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
ATTAGCCTTGGGC
Found at i:20866899 original size:33 final size:29
Alignment explanation
Indices: 20866861--20866935 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 29
20866851 CAACTATAAG
20866861 TGCCGAATGCACATATTCACTTATACCCACCTA
1 TGCCGAATGCACATA-T-A--TATACCCACCTA
*
20866894 TGCCGAATGCATACATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATACCCACCTA
20866925 TGCCGAATGCA
1 TGCCGAATGCA
20866936 TACATATACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 1 0.03
31 21 0.54
33 11 0.28
34 1 0.03
35 5 0.13
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (29 bp):
TGCCGAATGCACATATATATACCCACCTA
Found at i:20866925 original size:31 final size:31
Alignment explanation
Indices: 20866882--20866943 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
20866872 CATATTCACT
20866882 TATACCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
*
20866913 TATATCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
20866944 CACACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (31 bp):
TATACCCACCTATGCCGAATGCATACATATA
Found at i:20867200 original size:41 final size:41
Alignment explanation
Indices: 20867129--20867326 Score: 193
Period size: 41 Copynumber: 4.8 Consensus size: 41
20867119 TTTAAACAGA
* * * * *
20867129 TTCACTGGCACTTCA-CCTGATAGACTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCGTATAGTCTAATTCAG
* * * *
20867170 TTTACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTAATTCAG
** * * * *
20867211 TTCACTTGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTAATTCAG
* * *
20867252 TTCACCGGCACTAAGCCTGCT-GGACGTATAGTCCAATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTAATTCAG
*
20867293 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCT
1 TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCT
20867327 GAACAATTTC
Statistics
Matches: 129, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
40 3 0.02
41 125 0.97
42 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTAATTCAG
Found at i:20867259 original size:82 final size:82
Alignment explanation
Indices: 20867128--20867323 Score: 218
Period size: 82 Copynumber: 2.4 Consensus size: 82
20867118 ATTTAAACAG
* * * * *
20867128 ATTCACTGGCACTTCA-CCTGATAGACTTATAGTCTAATTCCGTTTACCGGCACTTAGCCTGCTA
1 ATTCACTGGCACTT-AGCCTGCTAGACTTATAGCCTAATTCAGTTCACCGGCACTAAGCCTGCT-
*
20867192 GG-CCTATAG-CCTGATTCA
64 GGACCTATAGTCC-AATTCA
* * * * *
20867210 GTTCACTTGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCGGCACTAAGCCTGCTGG
1 ATTCACTGGCACTTAGCCTGCTAGACTTATAGCCTAATTCAGTTCACCGGCACTAAGCCTGCTGG
*
20867275 ACGTATAGTCCAATTCA
66 ACCTATAGTCCAATTCA
* *
20867292 ATTCACCGGCACTTAGCCTGCTAGACGTATAG
1 ATTCACTGGCACTTAGCCTGCTAGACTTATAG
20867324 TCTGAACAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
81 3 0.03
82 88 0.95
83 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
ATTCACTGGCACTTAGCCTGCTAGACTTATAGCCTAATTCAGTTCACCGGCACTAAGCCTGCTGG
ACCTATAGTCCAATTCA
Found at i:20869251 original size:21 final size:22
Alignment explanation
Indices: 20869209--20869251 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
20869199 GGGTTGTTAC
* **
20869209 ATTTCTTATTTTACTATTTTTG
1 ATTTCTTATATTACTAAATTTG
20869231 ATTTCTT-TATTACTAAATTTG
1 ATTTCTTATATTACTAAATTTG
20869252 TTCATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTCTTATATTACTAAATTTG
Found at i:20869608 original size:19 final size:19
Alignment explanation
Indices: 20869584--20869656 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
20869574 AATCTTCAGG
20869584 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20869603 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
20869622 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20869641 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20869657 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20869682 original size:22 final size:21
Alignment explanation
Indices: 20869584--20869682 Score: 84
Period size: 19 Copynumber: 4.9 Consensus size: 21
20869574 AATCTTCAGG
*
20869584 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
20869603 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
20869622 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
20869641 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
20869663 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
20869683 TTAATTTGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 45 0.66
22 12 0.18
23 11 0.16
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:20874246 original size:16 final size:17
Alignment explanation
Indices: 20874225--20874259 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20874215 AGGCCAAACA
20874225 AATCAAAT-CAAGATTC
1 AATCAAATACAAGATTC
20874241 AATCAAATACAAGATTC
1 AATCAAATACAAGATTC
20874258 AA
1 AA
20874260 GGACGATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
AATCAAATACAAGATTC
Found at i:20880749 original size:25 final size:25
Alignment explanation
Indices: 20880721--20880838 Score: 91
Period size: 25 Copynumber: 4.6 Consensus size: 25
20880711 CTTATGAGTG
*
20880721 TCCCGATTTATGGCTCTTTAGAGCT
1 TCCCGATTAATGGCTCTTTAGAGCT
* * *
20880746 TCCCAATTAAAGGCTCATTCATGAGCT
1 TCCCGATTAATGGCTC-TTTA-GAGCT
*
20880773 TCCCGATTAATGGCT-TTTCGGAGCT
1 TCCCGATTAATGGCTCTTT-AGAGCT
**
20880798 TCCCG-TTACATGGCT-TACATGAGCT
1 TCCCGATTA-ATGGCTCTTTA-GAGCT
20880823 TCCC-ATTATATGGCTC
1 TCCCGATTA-ATGGCTC
20880839 GAGGGAGTGC
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
24 3 0.04
25 50 0.68
26 3 0.04
27 18 0.24
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTTAGAGCT
Found at i:20881850 original size:18 final size:18
Alignment explanation
Indices: 20881816--20881851 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20881806 TATGGGGGTT
* *
20881816 ACATTTTTTTAATTATTA
1 ACATTTTTTGAAATATTA
20881834 ACATTTTTTGAAATATTA
1 ACATTTTTTGAAATATTA
20881852 TATTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
ACATTTTTTGAAATATTA
Found at i:20896612 original size:117 final size:117
Alignment explanation
Indices: 20896406--20896758 Score: 706
Period size: 117 Copynumber: 3.0 Consensus size: 117
20896396 TTTTTCGTCC
20896406 CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
1 CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
20896471 TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
66 TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
20896523 CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
1 CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
20896588 TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
66 TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
20896640 CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
1 CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
20896705 TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
66 TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
20896757 CC
1 CC
20896759 CCAAAAAAAT
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 236 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (117 bp):
CCTTTATTACATTAGGGCTTTTGGGTTCTTCCATATCGGATCCAATTACAAGTACTTTTCGGGCT
TTTAACCCAATATTTTATAATTTGATCCACCCTAATATTTTTTTTCCTATTT
Found at i:20898719 original size:28 final size:28
Alignment explanation
Indices: 20898687--20898743 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20898677 TTTTTGAGAG
20898687 TAAGAACATCTGACTCTAGGTTGATTAA
1 TAAGAACATCTGACTCTAGGTTGATTAA
20898715 TAAGAACATCTGACTCTAGGTTGATTAA
1 TAAGAACATCTGACTCTAGGTTGATTAA
20898743 T
1 T
20898744 TGAAATCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (28 bp):
TAAGAACATCTGACTCTAGGTTGATTAA
Found at i:20899399 original size:30 final size:30
Alignment explanation
Indices: 20899354--20899418 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
20899344 CACAAGAGAG
* * * * *
20899354 TGTGTCTAGCCCATGTGGCACACATGGGCT
1 TGTGTCCAGCCCATGTAGAACACATAGGCA
*
20899384 TGTGTCCAGCTCATGTAGAACACATAGGCA
1 TGTGTCCAGCCCATGTAGAACACATAGGCA
20899414 TGTGT
1 TGTGT
20899419 ACAAGCCGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (30 bp):
TGTGTCCAGCCCATGTAGAACACATAGGCA
Found at i:20901218 original size:31 final size:35
Alignment explanation
Indices: 20901183--20901253 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 35
20901173 AGAAACAACC
20901183 ATAAAAATAAA-AAAAT-AGT-TCAA-AAAATAA-A
1 ATAAAAATAAACAAAATAAGTCT-AAGAAAATAACA
20901214 AT-AAAATAAACAAAATAAGTCTAAGAAAATAACA
1 ATAAAAATAAACAAAATAAGTCTAAGAAAATAACA
20901248 ATAAAA
1 ATAAAA
20901254 CAACTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
30 8 0.24
31 7 0.21
32 5 0.15
33 8 0.24
34 3 0.09
35 3 0.09
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (35 bp):
ATAAAAATAAACAAAATAAGTCTAAGAAAATAACA
Found at i:20902763 original size:17 final size:17
Alignment explanation
Indices: 20902722--20902755 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20902712 ATGATAATAA
*
20902722 AATAAAACT-AAGGAAT
1 AATAAAAATAAAGGAAT
20902738 AATAAAAATAAAGGAAT
1 AATAAAAATAAAGGAAT
20902755 A
1 A
20902756 TAATAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAGGAAT
Found at i:20902882 original size:23 final size:23
Alignment explanation
Indices: 20902854--20902897 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20902844 CATGAACAGA
*
20902854 ATAATAA-TAAACAAATGGAAAGC
1 ATAATAAGAAAACAAA-GGAAAGC
20902877 ATAATAAGAAAACAAAGGAAA
1 ATAATAAGAAAACAAAGGAAA
20902898 ATACATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (23 bp):
ATAATAAGAAAACAAAGGAAAGC
Found at i:20903203 original size:13 final size:13
Alignment explanation
Indices: 20903185--20903215 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20903175 AAGAGGAGAG
20903185 GGTGTGGGGTGAC
1 GGTGTGGGGTGAC
*
20903198 GGTGTGGGGTGAG
1 GGTGTGGGGTGAC
20903211 GGTGT
1 GGTGT
20903216 TGGATTTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.03, G:0.65, T:0.26
Consensus pattern (13 bp):
GGTGTGGGGTGAC
Found at i:20903952 original size:20 final size:21
Alignment explanation
Indices: 20903923--20903980 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
20903913 TTATTTTTTA
*
20903923 TAATTAAAAATTAAT-TGAAT
1 TAATTAAAAAATAATATGAAT
*
20903943 TAATTCAAAAATAATATGAAAT
1 TAATTAAAAAATAATATG-AAT
*
20903965 AAAGTTAAAAGAATAA
1 TAA-TTAAAA-AATAA
20903981 GTAGAATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
21 2 0.07
22 5 0.17
23 5 0.17
24 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (21 bp):
TAATTAAAAAATAATATGAAT
Found at i:20906918 original size:25 final size:25
Alignment explanation
Indices: 20906890--20906969 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
20906880 CTTCCAAGCA
* *
20906890 AAATATCAGGAAGCTCATGAGAGCT
1 AAATATCAGGAAGCTCGTGAGAGCC
* *
20906915 AAATAACAGGAAGCTTGTGAGAGCC
1 AAATATCAGGAAGCTCGTGAGAGCC
* * *
20906940 AAGTATCGGGAAGCTCGCGAGAGCC
1 AAATATCAGGAAGCTCGTGAGAGCC
20906965 AAATA
1 AAATA
20906970 CTGGGATGCT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (25 bp):
AAATATCAGGAAGCTCGTGAGAGCC
Found at i:20907974 original size:42 final size:42
Alignment explanation
Indices: 20907892--20908051 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 42
20907882 AACTCGCATA
* * * *
20907892 ATGCC-ATATACCAGATATGGTCTTACATGCTATCAT-ATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACG-AATC-TCATATCG
**
20907934 ATGCCAATATCCCAGTTATGGTCTTACACGAATCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAATCTCATATCG
* * * *
20907976 ATGCAAATTTCCCAAACATGGTCTTACATGAATCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAATCTCATATCG
* *
20908018 AGGCCAATGTCCCAGACATGGTCTTACACGAATC
1 ATGCCAATATCCCAGACATGGTCTTACACGAATC
20908052 ACATCTCAGA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 79 0.78
43 21 0.21
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAATCTCATATCG
Found at i:20909589 original size:16 final size:16
Alignment explanation
Indices: 20909568--20909649 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 16
20909558 AACGAAATTT
20909568 TCATACAATATTTCTA
1 TCATACAATATTTCTA
* ***
20909584 TCATACTATAGACCT-
1 TCATACAATATTTCTA
20909599 T-A-A-AATAATTTCTA
1 TCATACAAT-ATTTCTA
20909613 TCATA-AAT-TTTCT-
1 TCATACAATATTTCTA
*
20909626 TCATACGATATTTCTA
1 TCATACAATATTTCTA
20909642 TCATACAA
1 TCATACAA
20909650 CTCTCCCCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
12 2 0.04
13 9 0.18
14 9 0.18
15 7 0.14
16 22 0.45
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.41
Consensus pattern (16 bp):
TCATACAATATTTCTA
Found at i:20915948 original size:25 final size:25
Alignment explanation
Indices: 20915920--20915999 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
20915910 GTAAACGAGC
20915920 AGCTCTTTCGAGCCATATAACGGGA
1 AGCTCTTTCGAGCCATATAACGGGA
* * *
20915945 AGCTCATGT-GAGCTATACAACGGGA
1 AGCTC-TTTCGAGCCATATAACGGGA
* * * *
20915970 AGCTCTTGCGAGCCAAATATCGGAA
1 AGCTCTTTCGAGCCATATAACGGGA
20915995 AGCTC
1 AGCTC
20916000 AAGAGAGCCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.93
26 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCTCTTTCGAGCCATATAACGGGA
Found at i:20916019 original size:50 final size:50
Alignment explanation
Indices: 20915920--20916045 Score: 128
Period size: 50 Copynumber: 2.5 Consensus size: 50
20915910 GTAAACGAGC
* * * * * *
20915920 AGCTCTTTCGAGCCATATAACGGGAAGCTCATGTGAGCTATACAACGGGA
1 AGCTCTTGCGAGCCAAATAACGGAAAGCTCAAGAGAGCCATACAACGGGA
* *
20915970 AGCTCTTGCGAGCCAAATATCGGAAAGCTCAAGAGAGCCATTA-ATCGGGA
1 AGCTCTTGCGAGCCAAATAACGGAAAGCTCAAGAGAGCCA-TACAACGGGA
* * *
20916020 AGCTCATGAGAGCTAAATAACAGGAA
1 AGCTCTTGCGAGCCAAATAAC-GGAA
20916046 GTTCGTAAGA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
50 56 0.90
51 6 0.10
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (50 bp):
AGCTCTTGCGAGCCAAATAACGGAAAGCTCAAGAGAGCCATACAACGGGA
Found at i:20916045 original size:25 final size:25
Alignment explanation
Indices: 20915936--20916046 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
20915926 TTCGAGCCAT
* *
20915936 ATAACGGGAAGCTCATGTGAGCTAT
1 ATAACGGGAAGCTCATGAGAGCTAA
* * * *
20915961 ACAACGGGAAGCTCTTGCGAGCCAA
1 ATAACGGGAAGCTCATGAGAGCTAA
* * * *
20915986 ATATCGGAAAGCTCAAGAGAGC-CA
1 ATAACGGGAAGCTCATGAGAGCTAA
*
20916010 TTAATCGGGAAGCTCATGAGAGCTAA
1 ATAA-CGGGAAGCTCATGAGAGCTAA
*
20916036 ATAACAGGAAG
1 ATAACGGGAAG
20916047 TTCGTAAGAC
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
24 3 0.05
25 58 0.89
26 4 0.06
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGAGAGCTAA
Found at i:20916073 original size:75 final size:75
Alignment explanation
Indices: 20915929--20916070 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
20915919 CAGCTCTTTC
* * * * ** *
20915929 GAGCCATATAACGGGAAGCTCATGTGAGCTATACAACGGGAAGCTCTTGCGAGCCAAATATCGGA
1 GAGCCATATAACGGGAAGCTCATGAGAGCTAAACAACAGGAAGCTCGTAAGACCCAAATATCGGA
20915994 AAGCTCAAGA
66 AAGCTCAAGA
* * *
20916004 GAGCCAT-TAATCGGGAAGCTCATGAGAGCTAAATAACAGGAAGTTCGTAAGACCCAAGTATCAG
1 GAGCCATATAA-CGGGAAGCTCATGAGAGCTAAACAACAGGAAGCTCGTAAGACCCAAATATC-G
20916068 GAA
64 GAA
20916071 GCTTGTGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
74 3 0.05
75 48 0.87
76 4 0.07
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.18
Consensus pattern (75 bp):
GAGCCATATAACGGGAAGCTCATGAGAGCTAAACAACAGGAAGCTCGTAAGACCCAAATATCGGA
AAGCTCAAGA
Found at i:20921230 original size:40 final size:40
Alignment explanation
Indices: 20921173--20921391 Score: 174
Period size: 40 Copynumber: 5.5 Consensus size: 40
20921163 TAATTATTGA
* *
20921173 TGATTGCACAAACGTGCCCCTATTGGTACTTCAGTACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCT
* * *
20921213 TAATTGCACATACGTGCCCATGTTTGTACTTC-GATACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAG-TACCCT
* * * * ** ** *
20921253 TGATTGTACAGACATGCCCTTGCTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCT
20921293 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACACC-
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTAC-CCT
* * * ** * ** *
20921333 TAAATGCACTTATTTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCT
*
20921373 TGAATGCAC-TAACGTGCCC
1 TGATTGCACAT-ACGTGCCC
20921392 TTGATTGTAC
Statistics
Matches: 142, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
39 4 0.03
40 135 0.95
41 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCT
Found at i:20921371 original size:120 final size:120
Alignment explanation
Indices: 20921173--20921402 Score: 302
Period size: 120 Copynumber: 1.9 Consensus size: 120
20921163 TAATTATTGA
*
20921173 TGATTGCACAAACGTGCCCCTATTGGTACTTCAGTACCCTTAATTGCACATACGTGCCCATGTTT
1 TGATTGCACAAACGTGCCCCTATTGGTACTTCAGTACCCTTAAATGCACATACGTGCCCATGTTT
* * * *
20921238 GTACTTCGATACCCTTGATTGTAC-AGACATGCCCTTGCTTGTACTTTGGTACCCC
66 GTACTTCGATACCCCTGAATGCACTA-ACATGCCCTTGATTGTACTTTGGTACCCC
* * * ** *
20921293 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACACC-TAAATGCACTTATTTGCCCCTGTT
1 TGATTGCACAAACGTGCCCCTATTGGTACTTCAGTAC-CCTTAAATGCACATACGTGCCCATGTT
* * *
20921357 TGTACTTTGGTACCCCTGAATGCACTAACGTGCCCTTGATTGTACT
65 TGTACTTCGATACCCCTGAATGCACTAACATGCCCTTGATTGTACT
20921403 CTAGTAATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
120 91 0.97
121 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (120 bp):
TGATTGCACAAACGTGCCCCTATTGGTACTTCAGTACCCTTAAATGCACATACGTGCCCATGTTT
GTACTTCGATACCCCTGAATGCACTAACATGCCCTTGATTGTACTTTGGTACCCC
Found at i:20926129 original size:24 final size:24
Alignment explanation
Indices: 20926097--20926147 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
20926087 GATATTAAAG
20926097 TCGTCGAAACCTTTCTTTCATCAC
1 TCGTCGAAACCTTTCTTTCATCAC
20926121 TCGTCGAAACCTTTCTTTCATCAC
1 TCGTCGAAACCTTTCTTTCATCAC
20926145 TCG
1 TCG
20926148 ATCAAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.33, G:0.10, T:0.37
Consensus pattern (24 bp):
TCGTCGAAACCTTTCTTTCATCAC
Found at i:20926806 original size:30 final size:30
Alignment explanation
Indices: 20926772--20926831 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
20926762 CACAAAATAG
20926772 GTAAAATGACCAAAATACCCTTAAAGGGTA
1 GTAAAATGACCAAAATACCCTTAAAGGGTA
20926802 GTAAAATGACCAAAATACCCTTAAAGGGTA
1 GTAAAATGACCAAAATACCCTTAAAGGGTA
20926832 AAATGACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (30 bp):
GTAAAATGACCAAAATACCCTTAAAGGGTA
Found at i:20927048 original size:26 final size:28
Alignment explanation
Indices: 20927009--20927086 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
20926999 AAGTAAACTT
* * *
20927009 TTACTGGCAGCTTTGTTGCGATA-A-TG
1 TTACTGGCAACTTTGCTGCGATACATTA
20927035 TTACTGGCAACTTTGCTGCGATACTATTA
1 TTACTGGCAACTTTGCTGCGATAC-ATTA
*
20927064 TTACTGGCAACTTTGCTGTGATA
1 TTACTGGCAACTTTGCTGCGATA
20927087 TTGGTGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 21 0.47
28 1 0.02
29 23 0.51
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (28 bp):
TTACTGGCAACTTTGCTGCGATACATTA
Found at i:20927229 original size:28 final size:28
Alignment explanation
Indices: 20927195--20927248 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
20927185 CTGTACTGAA
20927195 ACTGTATTGGGCTAAGGCCCACACTGTT
1 ACTGTATTGGGCTAAGGCCCACACTGTT
20927223 ACTGTATTGGGCTAAGGCCCACACTG
1 ACTGTATTGGGCTAAGGCCCACACTG
20927249 CACTGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (28 bp):
ACTGTATTGGGCTAAGGCCCACACTGTT
Found at i:20927253 original size:33 final size:33
Alignment explanation
Indices: 20927195--20927281 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 33
20927185 CTGTACTGAA
20927195 ACTGTATTGGGCTAAGG-CC-CA---CACTGTT
1 ACTGTATTGGGCTAAGGCCCACACTGCACTGTT
20927223 ACTGTATTGGGCTAAGGCCCACACTGCACTGTT
1 ACTGTATTGGGCTAAGGCCCACACTGCACTGTT
* * * * *
20927256 ATTGAATAGGGCTCAGGCCCAGACTG
1 ACTGTATTGGGCTAAGGCCCACACTG
20927282 TTACTGCTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 17 0.35
29 2 0.04
30 2 0.04
33 28 0.57
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (33 bp):
ACTGTATTGGGCTAAGGCCCACACTGCACTGTT
Found at i:20927258 original size:28 final size:28
Alignment explanation
Indices: 20927195--20927259 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
20927185 CTGTACTGAA
*
20927195 ACTGTATTGGGCTAAGGCCCACACTGTT
1 ACTGTATTGGGCTAAGGCCCACACTGTC
20927223 ACTGTATTGGGCTAAGGCCCACACTG-C
1 ACTGTATTGGGCTAAGGCCCACACTGTC
20927250 ACTGTTATTG
1 ACTG-TATTG
20927260 AATAGGGCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (28 bp):
ACTGTATTGGGCTAAGGCCCACACTGTC
Found at i:20935529 original size:41 final size:40
Alignment explanation
Indices: 20935484--20935586 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 40
20935474 TGGTTCAGTA
*
20935484 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAAACATATAGTCTGAAATATTT
* * * *
20935525 CACCGGCATTAAGCCTGCTAAACATTTTGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAAACATATAGTCTGAAATATTT
*
20935566 CACCGGCAATAAGCCTGCTAA
1 CACCGGC-ATTAGCCTGCTAA
20935587 GCTCTAAGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
40 2 0.04
41 50 0.93
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAAACATATAGTCTGAAATATTT
Found at i:20935600 original size:41 final size:41
Alignment explanation
Indices: 20935484--20935600 Score: 103
Period size: 41 Copynumber: 2.9 Consensus size: 41
20935474 TGGTTCAGTA
* * * * * *
20935484 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAAACATTA-AGCCTGAAGTGTTT
* ** *
20935525 CACCGGCATTAAGCCTGCTAAACATTTTGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAAACATTAAGCCTGAAGTGTTT
*
20935566 CACCGGCAATAAGCCTGCTAAGC-TCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAAACAT-TAAGCCTGAA
20935601 AATCTCAATT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 60 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAAACATTAAGCCTGAAGTGTTT
Found at i:20938485 original size:26 final size:26
Alignment explanation
Indices: 20938427--20938536 Score: 96
Period size: 26 Copynumber: 4.2 Consensus size: 26
20938417 ATGGGGTTGG
* ** *
20938427 GATACTGTTACTAGCAATTTTG-AGC
1 GATACTGTTACTGGCAGCTTTGCTGC
*
20938452 GATACTGTTGCTGGCAGCTTTGCTGC
1 GATACTGTTACTGGCAGCTTTGCTGC
* * *
20938478 GATACTGTTACTAGTAGCTTTCCTGC
1 GATACTGTTACTGGCAGCTTTGCTGC
* *
20938504 GATACTATTATTACTGGCAACTTTGCTGC
1 GATAC---TGTTACTGGCAGCTTTGCTGC
20938533 GATA
1 GATA
20938537 TTGGTGAGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
25 18 0.27
26 29 0.43
29 20 0.30
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (26 bp):
GATACTGTTACTGGCAGCTTTGCTGC
Found at i:20953214 original size:128 final size:128
Alignment explanation
Indices: 20952950--20953253 Score: 382
Period size: 128 Copynumber: 2.4 Consensus size: 128
20952940 TACATTTTTA
* * * * * *
20952950 CCCAAAACCC-CCAAACATTTGTACTTTTCCTCTAAAACTTTTACTCCCCTCCCATCCCACCCCT
1 CCCAAAACCCTCAAAAC-TTTTTAATTTTCC-CCAAAACTTTTACTCCCCTCCAATCCCACCCCC
* * * *
20953014 ATCTACCCCAAACTCATTTACCCCCATTTTACTCCCCCATTTATTTTCCGCTAAAATTTTACTTT
64 ATCTACCCCAAACCCATTTACCCCCATTTTACTCCCCCATTTAATTTCCGCTAAAAGTTTACTTC
* * *
20953079 CGCAAAACCCTCAAAACTTTTTATTTTTCCCCAAAACTTTTACTCCCCTCCAATCTCACCCCCAT
1 CCCAAAACCCTCAAAACTTTTTAATTTTCCCCAAAACTTTTACTCCCCTCCAATCCCACCCCCAT
* * *
20953144 CTACCCTAAACCCATTT-CCCCCATTTTACTCCCTCTATTTAATTTCC-TTCAAAAGTTTAC-TC
66 CTACCCCAAACCCATTTACCCCCATTTTACTCCC-CCATTTAATTTCCGCT-AAAAGTTTACTTC
*
20953206 CCCAAAAACCCTCAAAACTTTTTAATTTCCCCCAAAACTTTTACTCCC
1 CCC-AAAACCCTCAAAACTTTTTAATTTTCCCCAAAACTTTTACTCCC
20953254 TCCCACTTTC
Statistics
Matches: 153, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
127 20 0.13
128 108 0.71
129 20 0.13
130 5 0.03
ACGTcount: A:0.27, C:0.38, G:0.01, T:0.34
Consensus pattern (128 bp):
CCCAAAACCCTCAAAACTTTTTAATTTTCCCCAAAACTTTTACTCCCCTCCAATCCCACCCCCAT
CTACCCCAAACCCATTTACCCCCATTTTACTCCCCCATTTAATTTCCGCTAAAAGTTTACTTC
Found at i:20953376 original size:70 final size:70
Alignment explanation
Indices: 20953296--20953441 Score: 265
Period size: 70 Copynumber: 2.1 Consensus size: 70
20953286 CCCATCCCAC
* *
20953296 CTCCCATCTACCCCAAACCCATTTCCCCCCTCAATTTTATTTTTGAATTTTTTCCCTCAAAAATT
1 CTCCCCTCTACCCCAAACCCATTTCCCCCCTCAATTTTATTTTTGAATTTTTTCCCCCAAAAATT
20953361 TTACT
66 TTACT
*
20953366 CTCCCCTCTACCCCAACCCCATTTCCCCCCTCAATTTTATTTTTGAATTTTTTCCCCCAAAAATT
1 CTCCCCTCTACCCCAAACCCATTTCCCCCCTCAATTTTATTTTTGAATTTTTTCCCCCAAAAATT
20953431 TTACT
66 TTACT
20953436 CTCCCC
1 CTCCCC
20953442 ATTTACTTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.22, C:0.38, G:0.01, T:0.38
Consensus pattern (70 bp):
CTCCCCTCTACCCCAAACCCATTTCCCCCCTCAATTTTATTTTTGAATTTTTTCCCCCAAAAATT
TTACT
Found at i:20959772 original size:2 final size:2
Alignment explanation
Indices: 20959767--20959800 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
20959757 CTCTCACTTC
*
20959767 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20959801 TTTCCCCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:20964715 original size:18 final size:18
Alignment explanation
Indices: 20964692--20964728 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20964682 AAATTAGTTC
20964692 TATACTTCTAGCTAGGTG
1 TATACTTCTAGCTAGGTG
20964710 TATACTTCTAGCTAGGTG
1 TATACTTCTAGCTAGGTG
20964728 T
1 T
20964729 TAATTTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (18 bp):
TATACTTCTAGCTAGGTG
Found at i:20965243 original size:29 final size:30
Alignment explanation
Indices: 20965210--20965276 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
20965200 AAATCAAAAT
*
20965210 TTTATATATAAAATTACACA-AAACTA-AA
1 TTTATATACAAAATTACACATAAACTATAA
* *
20965238 GTTTATGTACATAATTACACATTAAACTATAA
1 -TTTATATACAAAATTACACA-TAAACTATAA
20965270 TTTATAT
1 TTTATAT
20965277 TGGTATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 17 0.55
31 12 0.39
32 2 0.06
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTATATACAAAATTACACATAAACTATAA
Found at i:20966357 original size:6 final size:6
Alignment explanation
Indices: 20966346--20966372 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20966336 CCATATCATC
20966346 TCCCAT TCCCAT TCCCAT TCCCAT TCC
1 TCCCAT TCCCAT TCCCAT TCCCAT TCC
20966373 AAATATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCCAT
Found at i:20969699 original size:15 final size:16
Alignment explanation
Indices: 20969664--20969701 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20969654 TTATCATGTG
20969664 TTTATCTTTTTAAAATA
1 TTTAT-TTTTTAAAATA
*
20969681 TTTATTTTTTAATAT-
1 TTTATTTTTTAAAATA
20969696 TTTATT
1 TTTATT
20969702 ATATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 9 0.45
17 5 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTTTTAAAATA
Found at i:20971520 original size:130 final size:130
Alignment explanation
Indices: 20971194--20971585 Score: 401
Period size: 130 Copynumber: 3.0 Consensus size: 130
20971184 CAATAAATTG
* * * *
20971194 TTGTTAAATATTATAATATTAGCAATGACTTTAAAATGTTGTTACATAATTTAATTTTTTACCTA
1 TTGTTAAACATTAAAATATTAGCAATAACTTTAAAATGTTGTTACATAATTTAA-TTTTTACTTA
* * * * * *
20971259 TTAACCGTAACAACACAATTTGTCGTTGTGAATTATTAATAAAATGTGTAACAACCAAACAAGTT
65 TTAATCGCAACGACACGATTTGTCATTGTGAATTATTAATAAAATTTGTAACAACCAAACAAGTT
*
20971324 G
130 A
* * *** * * * *
20971325 TT-TCTAAACGTTAAAATATTAACTGCAACATTAAAATGTTGTTGCATAAATTAATTTTATGCTT
1 TTGT-TAAACATTAAAATATTAGCAATAACTTTAAAATGTTGTTACATAATTTAATTTT-TACTT
* * * * * *
20971389 ATTCATCGCAACGACATGATTTGTCATTGTGAATTCTTAATAAAATTTGTAACAA-GACACGAGT
64 ATTAATCGCAACGACACGATTTGTCATTGTGAATTATTAATAAAATTTGTAACAACCAAACAAGT
20971453 TA
129 TA
* **
20971455 TTGTTAAACATTAAAATATTAGCAATAACTTTAAAATGTCGTTATGTAATTTAATATTTTACTTA
1 TTGTTAAACATTAAAATATTAGCAATAACTTTAAAATGTTGTTACATAATTTAAT-TTTTACTTA
* * * * * * * *
20971520 TTAATAGCAATGATACGATTTGTCATTGTGAATTATTAATAAATTTTTTAACGACAAAATAAGTT
65 TTAATCGCAACGACACGATTTGTCATTGTGAATTATTAATAAAATTTGTAACAACCAAACAAGTT
20971585 A
130 A
20971586 GTAACAACCT
Statistics
Matches: 205, Mismatches: 51, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
130 104 0.51
131 101 0.49
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (130 bp):
TTGTTAAACATTAAAATATTAGCAATAACTTTAAAATGTTGTTACATAATTTAATTTTTACTTAT
TAATCGCAACGACACGATTTGTCATTGTGAATTATTAATAAAATTTGTAACAACCAAACAAGTTA
Found at i:20973087 original size:23 final size:23
Alignment explanation
Indices: 20973055--20973098 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
20973045 AAATTATAAT
* *
20973055 AAAAAGAAAAAA-AGAAACAAACG
1 AAAAAAAAAAAAGA-AATCAAACG
20973078 AAAAAAAAAAAAGAAATCAAA
1 AAAAAAAAAAAAGAAATCAAA
20973099 TAAGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAAAGAAATCAAACG
Found at i:20977044 original size:17 final size:20
Alignment explanation
Indices: 20977032--20977068 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20977022 TATTATGTTT
20977032 TATTA-TATATTATATATTA
1 TATTATTATATTATATATTA
20977051 TATTATTATATTATATAT
1 TATTATTATATTATATAT
20977069 AAAGTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTATATTATATATTA
Found at i:20977068 original size:7 final size:7
Alignment explanation
Indices: 20977032--20977061 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
20977022 TATTATGTTT
20977032 TATTATA
1 TATTATA
20977039 TATTATA
1 TATTATA
20977046 TATTATA
1 TATTATA
20977053 TTATTATA
1 -TATTATA
20977061 T
1 T
20977062 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:20977069 original size:17 final size:17
Alignment explanation
Indices: 20977017--20977069 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
20977007 AATAATAAAG
* *
20977017 ATAT-TTATTATGTTTT
1 ATATATTATTATATTAT
20977033 AT-TATATATTATA-TAT
1 ATATAT-TATTATATTAT
20977049 -TATATTATTATATTAT
1 ATATATTATTATATTAT
20977065 ATATA
1 ATATA
20977070 AAGTAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 9 0.30
16 11 0.37
17 10 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATATTATTATATTAT
Found at i:20977896 original size:37 final size:36
Alignment explanation
Indices: 20977855--20977927 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
20977845 TAATATTGAC
* * *
20977855 TTGAAAATGGAAAAGTGAATTTTGAATTGAATTGTGA
1 TTGAAAATGAAAAAGTGAA-ATTGAATTGAAATGTGA
*
20977892 TTGAAAGTGAAAAAGTGAAATTGAATTGAAATGTGA
1 TTGAAAATGAAAAAGTGAAATTGAATTGAAATGTGA
20977928 AATTGGAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 15 0.47
37 17 0.53
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.32
Consensus pattern (36 bp):
TTGAAAATGAAAAAGTGAAATTGAATTGAAATGTGA
Found at i:20977904 original size:36 final size:37
Alignment explanation
Indices: 20977855--20977927 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
20977845 TAATATTGAC
* *
20977855 TTGAAAATGG-AAAAGTGAATTTTGAATTGAATTGTGA
1 TTGAAAATGGAAAAAGTGAA-ATTGAATTGAAATGTGA
*
20977892 TTGAAAGT-GAAAAAGTGAAATTGAATTGAAATGTGA
1 TTGAAAATGGAAAAAGTGAAATTGAATTGAAATGTGA
20977928 AATTGGAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.32
Consensus pattern (37 bp):
TTGAAAATGGAAAAAGTGAAATTGAATTGAAATGTGA
Found at i:20985491 original size:17 final size:17
Alignment explanation
Indices: 20985471--20985506 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20985461 CCATAAAAAG
*
20985471 AACTAAAAATAACAATA
1 AACTAAAAATAAAAATA
*
20985488 AACTTAAAATAAAAATA
1 AACTAAAAATAAAAATA
20985505 AA
1 AA
20985507 AATTGTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (17 bp):
AACTAAAAATAAAAATA
Found at i:20986616 original size:41 final size:41
Alignment explanation
Indices: 20986571--20986662 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
20986561 ACTGACACTT
* * *
20986571 AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAATCTGAAATGTTTCACCGGCAATA
* *
20986612 AGCCTGCTAGACATAAAATCTGAATTGTTTCACTGGCAATA
1 AGCCTGCTAGACATAAAATCTGAAATGTTTCACCGGCAATA
20986653 AGCCTGCTAG
1 AGCCTGCTAG
20986663 GTGCTAAGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAATCTGAAATGTTTCACCGGCAATA
Found at i:20987445 original size:79 final size:79
Alignment explanation
Indices: 20987295--20987452 Score: 187
Period size: 79 Copynumber: 2.0 Consensus size: 79
20987285 ACAAATACAA
**
20987295 TATACATACCTTTAATCAAACCCAAAAGTTTATACATGTATATTTATATATATATTCCTGCCTTA
1 TATACATACCTTTAATCAAACCCAAAAGTTTATACATGTATATACATATATATATT-CTGCCTTA
*
20987360 TGTATACATATATAT
65 TATATACATATATAT
* * * *
20987375 TATACATACCTTTGATTAAA-CCAAGAA-TTTATACATGTATATACATATATGTATT-TGAATCT
1 TATACATACCTTTAATCAAACCCAA-AAGTTTATACATGTATATACATATATATATTCTG--CCT
*
20987437 TGTATATACATATATA
63 TATATATACATATATA
20987453 ACCCTCATAC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
77 2 0.03
79 45 0.67
80 20 0.30
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (79 bp):
TATACATACCTTTAATCAAACCCAAAAGTTTATACATGTATATACATATATATATTCTGCCTTAT
ATATACATATATAT
Found at i:20990188 original size:13 final size:13
Alignment explanation
Indices: 20990153--20990196 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
20990143 AAATAGGACG
*
20990153 AATAAAATAATAA
1 AATAAAACAATAA
*
20990166 TAAT-AGACAATAA
1 -AATAAAACAATAA
20990179 AATAAAACAATAA
1 AATAAAACAATAA
20990192 AATAA
1 AATAA
20990197 TAAACTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 3 0.12
13 20 0.77
14 3 0.12
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (13 bp):
AATAAAACAATAA
Found at i:20990191 original size:23 final size:23
Alignment explanation
Indices: 20990139--20990183 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
20990129 AGAAGAAACG
*
20990139 ACAAAAATAGGACGAATAAAATA
1 ACAATAATAGGACGAATAAAATA
*
20990162 ATAATAATA-GAC-AATAAAATA
1 ACAATAATAGGACGAATAAAATA
20990183 A
1 A
20990184 AACAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 3 0.15
23 7 0.35
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.18
Consensus pattern (23 bp):
ACAATAATAGGACGAATAAAATA
Found at i:20990655 original size:5 final size:5
Alignment explanation
Indices: 20990645--20990676 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
20990635 AATAAATATG
20990645 AATAA AATAA AATAA AATAAA AATAA AATAA A
1 AATAA AATAA AATAA AAT-AA AATAA AATAA A
20990677 TTAGGGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:20990672 original size:11 final size:11
Alignment explanation
Indices: 20990627--20990676 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
20990617 AAACAATAAT
20990627 AAATAATAAAT-
1 AAATAA-AAATA
**
20990638 AAATATGAATA
1 AAATAAAAATA
20990649 AAAT-AAAATA
1 AAATAAAAATA
20990659 AAATAAAAATA
1 AAATAAAAATA
20990670 AAATAAA
1 AAATAAA
20990677 TTAGGGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 11 0.33
11 22 0.67
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:21001310 original size:19 final size:20
Alignment explanation
Indices: 21001283--21001322 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21001273 AAATAAATTA
*
21001283 AAGAAATGAATTAAA-AAGG
1 AAGAAATGAATAAAATAAGG
*
21001302 AAGAGATGAATAAAATAAGG
1 AAGAAATGAATAAAATAAGG
21001322 A
1 A
21001323 GGGAAGAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGAAATGAATAAAATAAGG
Found at i:21002823 original size:27 final size:27
Alignment explanation
Indices: 21002792--21002969 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21002782 TAAATTGTAC
21002792 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21002819 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21002845 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21002873 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21002901 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21002928 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21002955 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21002970 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21002906 original size:82 final size:81
Alignment explanation
Indices: 21002793--21002948 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21002783 AAATTGTACA
* *
21002793 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21002857 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21002874 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21002939 TGCGAGTTGA
65 TGCGAATTGA
21002949 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21002960 original size:82 final size:81
Alignment explanation
Indices: 21002789--21002969 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21002779 GATTAAATTG
* *
21002789 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21002854 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21002870 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21002934 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21002952 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21002970 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21006088 original size:23 final size:23
Alignment explanation
Indices: 21006062--21006109 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21006052 TCCTTTTTTT
21006062 AAATTCTAATTTTCTAGGATAAA
1 AAATTCTAATTTTCTAGGATAAA
21006085 AAATTCTAATTTTCTAGGATAAA
1 AAATTCTAATTTTCTAGGATAAA
21006108 AA
1 AA
21006110 CCAACAGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (23 bp):
AAATTCTAATTTTCTAGGATAAA
Found at i:21011042 original size:36 final size:37
Alignment explanation
Indices: 21011002--21011072 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
21010992 TTTTCTACCA
* * * *
21011002 AAGTTTTTC-TTTAAGTTTATGGAATATGTTCATCCC
1 AAGTTTCTCTTTTAAGTTCATGGAAAATGTCCATCCC
21011038 AAGTTTCTCTTTTAAGTTCATGGAAAATGTCCATC
1 AAGTTTCTCTTTTAAGTTCATGGAAAATGTCCATC
21011073 TACAATGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (37 bp):
AAGTTTCTCTTTTAAGTTCATGGAAAATGTCCATCCC
Found at i:21012213 original size:21 final size:19
Alignment explanation
Indices: 21012189--21012243 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
21012179 ATTTCCATGG
21012189 TATCAATACAAATTAGAAAAA
1 TATCAATACAAATT--AAAAA
* * *
21012210 TATCAATACTAAGTAAAAT
1 TATCAATACAAATTAAAAA
21012229 TATCAATACTAAATT
1 TATCAATAC-AAATT
21012244 TGTAGTCTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.46
20 3 0.11
21 12 0.43
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (19 bp):
TATCAATACAAATTAAAAA
Found at i:21015264 original size:20 final size:20
Alignment explanation
Indices: 21015239--21015277 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21015229 ACTCAATCGA
*
21015239 AGATAATTAATTATTTAATT
1 AGATAATTAAGTATTTAATT
*
21015259 AGATAATTAGGTATTTAAT
1 AGATAATTAAGTATTTAAT
21015278 CGATCATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
AGATAATTAAGTATTTAATT
Found at i:21015774 original size:33 final size:34
Alignment explanation
Indices: 21015725--21015789 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
21015715 TTTTTGTACA
*
21015725 TAATTAAAATATTTTTATTTTTGAAT-TTTTTAGT
1 TAATTAAAATAATTTTATTTTT-AATATTTTTAGT
21015759 TAATT-AAATAATTTTATTTTTAATATTTTTA
1 TAATTAAAATAATTTTATTTTTAATATTTTTA
21015790 CTTACATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 3 0.10
33 21 0.72
34 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (34 bp):
TAATTAAAATAATTTTATTTTTAATATTTTTAGT
Found at i:21029010 original size:50 final size:49
Alignment explanation
Indices: 21028900--21029149 Score: 234
Period size: 50 Copynumber: 4.9 Consensus size: 49
21028890 ACATTAAGAG
* *
21028900 GATGAG-A-TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGA
1 GATGAGAAGTCCCATGTAAGACCATGTCT-GGACATGGCATTGGCA-C--CGA
* *
21028951 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGCACATGGCGTTGGCACCGA
1 G---ATGAGAAGTCCCATGTAAGACCATGTCTGG-ACATGGCATTGGCACCGA
* * *
21029004 GATGAGAGGTCCCATGTAAGACCAAGTCTGAGACATGGCGTTGGCACCGA
1 GATGAGAAGTCCCATGTAAGACCATGTCTG-GACATGGCATTGGCACCGA
** * * *
21029054 GATGAGAAGTCCCCCGTAAGACCATGTCTAGGACATGACATGGGCACCTA
1 GATGAGAAGTCCCATGTAAGACCATGTCT-GGACATGGCATTGGCACCGA
* * * * *
21029104 TATGAGAACTGCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GATGAGAAGTCCCATGTAAGACCATGTCT-GGACATGGCATTGGCA
21029150 GTACAAGAAA
Statistics
Matches: 168, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
50 122 0.73
51 3 0.02
53 3 0.02
54 5 0.03
55 3 0.02
56 32 0.19
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (49 bp):
GATGAGAAGTCCCATGTAAGACCATGTCTGGACATGGCATTGGCACCGA
Found at i:21043818 original size:3 final size:3
Alignment explanation
Indices: 21043810--21043848 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
21043800 TAATATTTTC
21043810 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
21043849 TATTTTATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21045838 original size:27 final size:26
Alignment explanation
Indices: 21045802--21046027 Score: 308
Period size: 27 Copynumber: 8.4 Consensus size: 26
21045792 CCCCAAAATA
21045802 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCC-CATAG
*
21045829 GGTAAAATGACCGAAATATCCCTCATAG
1 GGTAAAATGACCAAAATA-CCC-CATAG
21045857 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCC-ATAG
* * * *
21045884 GGTAAAATCATCGAAATACACCATAG
1 GGTAAAATGACCAAAATACCCCATAG
*
21045910 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATA-CCCCATAG
21045937 GGTAAAATGACCAAAATACCGCCATAG
1 GGTAAAATGACCAAAATACC-CCATAG
*
21045964 GGTAAAATGACCAAAATACCCCATAA
1 GGTAAAATGACCAAAATACCCCATAG
* *
21045990 GGTAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCAAAATACCC-CATAG
21046017 GGTAAAATGAC
1 GGTAAAATGAC
21046028 TATTATGGCC
Statistics
Matches: 180, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 48 0.27
27 106 0.59
28 26 0.14
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (26 bp):
GGTAAAATGACCAAAATACCCCATAG
Found at i:21045937 original size:53 final size:53
Alignment explanation
Indices: 21045802--21046027 Score: 328
Period size: 53 Copynumber: 4.2 Consensus size: 53
21045792 CCCCAAAATA
*
21045802 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATATCCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATA-CCC-CATAG
* * * *
21045857 GGTAAAATGACCAAAATACCCCTATAGGGTAAAATCATCGAAATACACCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAG
* *
21045910 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCGCCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACC-CCATAG
* *
21045964 GGTAAAATGACCAAAATA-CCCCATAAGGTAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCC-CATAG
21046017 GGTAAAATGAC
1 GGTAAAATGAC
21046028 TATTATGGCC
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
52 1 0.01
53 87 0.56
54 25 0.16
55 41 0.27
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (53 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAG
Found at i:21045964 original size:80 final size:80
Alignment explanation
Indices: 21045802--21046027 Score: 346
Period size: 80 Copynumber: 2.8 Consensus size: 80
21045792 CCCCAAAATA
*
21045802 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATATCCCTCATAGGGTAAAATGA
1 GGTAAAATCACCAAAATACCC-CATAGGGTAAAATGACCGAAATA-CCCTCATAGGGTAAAATGA
21045867 CCAAAATACCCCTATAG
64 CCAAAATACCCCTATAG
* * * *
21045884 GGTAAAATCATCGAAATACACCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACC
1 GGTAAAATCACCAAAATACCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACC
21045949 AAAATACCGCC-ATAG
66 AAAATACC-CCTATAG
* * *
21045964 GGTAAAATGACCAAAATACCCCATAAGGTAAAATGACCGAAATACCCTTATAGGGTAAAATGAC
1 GGTAAAATCACCAAAATACCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGAC
21046028 TATTATGGCC
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 89 0.68
81 25 0.19
82 17 0.13
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (80 bp):
GGTAAAATCACCAAAATACCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACC
AAAATACCCCTATAG
Found at i:21053602 original size:22 final size:22
Alignment explanation
Indices: 21053574--21053616 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21053564 ATCCTCAATA
21053574 TGTAGCCTTGAAAAAGATAAGT
1 TGTAGCCTTGAAAAAGATAAGT
21053596 TGTAGCCTTGAAAAAGATAAG
1 TGTAGCCTTGAAAAAGATAAG
21053617 GAAAGAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (22 bp):
TGTAGCCTTGAAAAAGATAAGT
Found at i:21054658 original size:38 final size:38
Alignment explanation
Indices: 21054589--21054666 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
21054579 ATGAAAGTCA
*
21054589 CAAATAATTCGAGGGGTTACTCGTAGCTCTTTCCCNCG
1 CAAATAATTCGAGGGGTTACTCGTAGCTCTTTCCCTCG
21054627 CAAATAATTCGAGGGGTTACTC-TCA-CTTCTTTCCCTCG
1 CAAATAATTCGAGGGGTTACTCGT-AGC-TCTTTCCCTCG
21054665 CA
1 CA
21054667 CAAGTACCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 2 0.05
38 35 0.95
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.31
Consensus pattern (38 bp):
CAAATAATTCGAGGGGTTACTCGTAGCTCTTTCCCTCG
Found at i:21056502 original size:9 final size:9
Alignment explanation
Indices: 21056488--21056514 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
21056478 TAGGAACTTT
21056488 CTCTATTAA
1 CTCTATTAA
21056497 CTCTATTAA
1 CTCTATTAA
21056506 CTCTATTAA
1 CTCTATTAA
21056515 GGCAGGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCTATTAA
Found at i:21057584 original size:28 final size:28
Alignment explanation
Indices: 21057552--21057605 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
21057542 ACAAATTGAA
21057552 TCTTGGAAAGAAAAAATTCCTCAAGTCG
1 TCTTGGAAAGAAAAAATTCCTCAAGTCG
21057580 TCTTGGAAAGAAAAAATTCCTCAAGT
1 TCTTGGAAAGAAAAAATTCCTCAAGT
21057606 GGTCGAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (28 bp):
TCTTGGAAAGAAAAAATTCCTCAAGTCG
Found at i:21059277 original size:17 final size:17
Alignment explanation
Indices: 21059255--21059292 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
21059245 AATGTCAAGG
21059255 TCGTCTTTTATAAGTAA
1 TCGTCTTTTATAAGTAA
21059272 TCGTCTTTTATAAGTAA
1 TCGTCTTTTATAAGTAA
21059289 TCGT
1 TCGT
21059293 GGCTTAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (17 bp):
TCGTCTTTTATAAGTAA
Found at i:21070571 original size:19 final size:19
Alignment explanation
Indices: 21070512--21070571 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
21070502 TTGGTTTAAA
21070512 ATTTTATATATATATTA-TT
1 ATTTTATATAT-TATTATTT
*
21070531 GTTTTA-ATAGTT-TATATGTT
1 ATTTTATATA-TTAT-TAT-TT
21070551 ATTTTATATATTATTATTT
1 ATTTTATATATTATTATTT
21070570 AT
1 AT
21070572 ATTAAACTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 10 0.30
20 12 0.36
21 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTTTATATATTATTATTT
Found at i:21073935 original size:43 final size:43
Alignment explanation
Indices: 21073855--21073938 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
21073845 GCCAACAACT
*
21073855 TGACTGCCTCCGAACGTACCAACACCCAAAGTGTGAATACTGC
1 TGACCGCCTCCGAACGTACCAACACCCAAAGTGTGAATACTGC
* * * * *
21073898 TGACCGCCTCCGGACGTACTAACATCCAGAGTTTGAATACT
1 TGACCGCCTCCGAACGTACCAACACCCAAAGTGTGAATACT
21073939 CCAATAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
TGACCGCCTCCGAACGTACCAACACCCAAAGTGTGAATACTGC
Found at i:21081891 original size:25 final size:25
Alignment explanation
Indices: 21081847--21081942 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
21081837 CCTCTACTGC
* * *
21081847 TTCTTTGATCCTCTACTGGTGTTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
* *
21081872 TTCTTTGTTCTTCTGGTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
*
21081897 TTCTTTGTTCCTCTGCTGGTGCTGT
1 TTCTTTGTTCCTCTGCTGGTGCTGG
21081922 TTCTTTGTTCCTCTGCTGGTG
1 TTCTTTGTTCCTCTGCTGGTG
21081943 TTTTGTTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.02, C:0.21, G:0.26, T:0.51
Consensus pattern (25 bp):
TTCTTTGTTCCTCTGCTGGTGCTGG
Found at i:21081915 original size:19 final size:19
Alignment explanation
Indices: 21081891--21081954 Score: 58
Period size: 25 Copynumber: 3.1 Consensus size: 19
21081881 CTTCTGGTGG
21081891 TGCTGGTTCTTTGTTCCTC
1 TGCTGGTTCTTTGTTCCTC
21081910 TGCTGGTGCTGTTTCTTTGTTCCTC
1 TGC---TG--G-TTCTTTGTTCCTC
21081935 TGCTGGTGT-TTTGTTCCTC
1 TGCTGGT-TCTTTGTTCCTC
21081954 T
1 T
21081955 TCTCCACCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
19 15 0.39
20 2 0.05
22 4 0.11
24 1 0.03
25 16 0.42
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.53
Consensus pattern (19 bp):
TGCTGGTTCTTTGTTCCTC
Found at i:21083336 original size:28 final size:28
Alignment explanation
Indices: 21083268--21083355 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
21083258 TCAGAGCTAG
* **
21083268 GTTTATGTTAAATAAATGTGTATCTAATAT
1 GTTTATGTTAAACAAATG-GTAAATAA-AT
*
21083298 GTGTATGTTAAACAAATGGTAAATAAAT
1 GTTTATGTTAAACAAATGGTAAATAAAT
*
21083326 GTTTATGTTAAACAAATTGTAAATAAAT
1 GTTTATGTTAAACAAATGGTAAATAAAT
21083354 GT
1 GT
21083356 GTATAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 30 0.58
29 6 0.12
30 16 0.31
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (28 bp):
GTTTATGTTAAACAAATGGTAAATAAAT
Found at i:21083903 original size:13 final size:13
Alignment explanation
Indices: 21083851--21083903 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
21083841 AAACACTCAA
21083851 ATTTTTCAAAAGC
1 ATTTTTCAAAAGC
* * *
21083864 ACTTCTCAAAAGA
1 ATTTTTCAAAAGC
*
21083877 ACTTTTTC-ACAGC
1 A-TTTTTCAAAAGC
21083890 ATTTTTCAAAAGC
1 ATTTTTCAAAAGC
21083903 A
1 A
21083904 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
12 6 0.20
13 20 0.67
14 4 0.13
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (13 bp):
ATTTTTCAAAAGC
Found at i:21089217 original size:33 final size:33
Alignment explanation
Indices: 21089180--21089289 Score: 148
Period size: 33 Copynumber: 3.3 Consensus size: 33
21089170 TACTCTATGT
*
21089180 TTGGTGTGTTGGTTGGATTAGCTCTTTTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
21089213 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
** * * *
21089246 TTGGTGTGTTGGAGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
21089279 TCTGGTGTGTT
1 T-TGGTGTGTT
21089290 TTGGAGGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
33 59 0.87
34 9 0.13
ACGTcount: A:0.12, C:0.10, G:0.37, T:0.41
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:21089298 original size:36 final size:36
Alignment explanation
Indices: 21089240--21089326 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
21089230 TTAGCTCTTA
**
21089240 TGAGCAT-TGGTGTG--TTGGAGGGATTGGCTCGTG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTAACTCGTG
21089273 TGAGCATCTGGTGTGTTTTGGAGGGATTAACTCGTG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTAACTCGTG
*
21089309 TGAGCATCTAGTGTGTTT
1 TGAGCATCTGGTGTGTTT
21089327 GGTTGGACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 7 0.15
34 7 0.15
36 34 0.71
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.37
Consensus pattern (36 bp):
TGAGCATCTGGTGTGTTTTGGAGGGATTAACTCGTG
Found at i:21090858 original size:19 final size:19
Alignment explanation
Indices: 21090822--21090859 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21090812 ATCTCATCCA
* *
21090822 TGTGTGACACATGGCCACG
1 TGTGTGACACACGACCACG
21090841 TGTGTGACACACGACCACG
1 TGTGTGACACACGACCACG
21090860 CGACACGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (19 bp):
TGTGTGACACACGACCACG
Found at i:21096240 original size:14 final size:14
Alignment explanation
Indices: 21096221--21096259 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
21096211 AATGACTAAT
21096221 AGAATACAATGTGG
1 AGAATACAATGTGG
*
21096235 AGAATA-AAAGTGG
1 AGAATACAATGTGG
21096248 AGAATACAATGT
1 AGAATACAATGT
21096260 TGAGGACCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.49, C:0.05, G:0.26, T:0.21
Consensus pattern (14 bp):
AGAATACAATGTGG
Found at i:21098947 original size:35 final size:35
Alignment explanation
Indices: 21098897--21098966 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
21098887 CACTGTTGTC
* * *
21098897 TGATTCTAGTTTATATCAGGATACATGGATTACCA
1 TGATTCTAGTATATATCAAGATACATGGATAACCA
*
21098932 TGATTCTAGTATATATCAAGATACGTGGATAACCA
1 TGATTCTAGTATATATCAAGATACATGGATAACCA
21098967 ATATGACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (35 bp):
TGATTCTAGTATATATCAAGATACATGGATAACCA
Found at i:21100669 original size:75 final size:75
Alignment explanation
Indices: 21100541--21100697 Score: 278
Period size: 75 Copynumber: 2.1 Consensus size: 75
21100531 GGTTCAATAA
* * * *
21100541 AAATGATTTTTTTTTCCGAGTTTTACTCTACCCGAATATTGTAATATAATAAATATTATATTATT
1 AAATAATTTTTCTTTCCGAGTTTTACTCTACACGAATATTGTAATATAATAAATATTATATTAGT
21100606 TTTATATGTT
66 TTTATATGTT
21100616 AAATAATTTTTCTTTCCGAGTTTTACTCTACACGAATATTGTAATATAATAAATATTATATTAGT
1 AAATAATTTTTCTTTCCGAGTTTTACTCTACACGAATATTGTAATATAATAAATATTATATTAGT
21100681 TTTATATGTT
66 TTTATATGTT
21100691 AAATAAT
1 AAATAAT
21100698 AATTATATAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (75 bp):
AAATAATTTTTCTTTCCGAGTTTTACTCTACACGAATATTGTAATATAATAAATATTATATTAGT
TTTATATGTT
Found at i:21104430 original size:3 final size:3
Alignment explanation
Indices: 21104422--21104460 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
21104412 CCATAAAATA
21104422 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21104461 CTTCATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21104886 original size:78 final size:78
Alignment explanation
Indices: 21104780--21104935 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
21104770 CTATCAACGA
21104780 TTTTTATTTTAGGCAACAAAAATAAAAAAAATTGCAATTTAAGTACTCATGTTACATAATTCAGT
1 TTTTTATTTTAGGCAACAAAAATAAAAAAAATTGCAATTTAAGTACTCATGTTACATAATTCAGT
21104845 CACTTTGGTCACT
66 CACTTTGGTCACT
*
21104858 TTTTTATTTTAGGCACCAAAAATAAAAAAAATTGCAATTTAAGTACTCATGTTACATAATTCAGT
1 TTTTTATTTTAGGCAACAAAAATAAAAAAAATTGCAATTTAAGTACTCATGTTACATAATTCAGT
21104923 CACTTTGGTCACT
66 CACTTTGGTCACT
21104936 CTTGTTAAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (78 bp):
TTTTTATTTTAGGCAACAAAAATAAAAAAAATTGCAATTTAAGTACTCATGTTACATAATTCAGT
CACTTTGGTCACT
Found at i:21107673 original size:28 final size:28
Alignment explanation
Indices: 21107642--21107699 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
21107632 TTAGTTTTAC
21107642 AAATAAATCTCCAAAATGAAGTTCTAAA
1 AAATAAATCTCCAAAATGAAGTTCTAAA
* * *
21107670 AAATATATCTTCAAAATGAAGTTTTAAA
1 AAATAAATCTCCAAAATGAAGTTCTAAA
21107698 AA
1 AA
21107700 TATTAGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.29
Consensus pattern (28 bp):
AAATAAATCTCCAAAATGAAGTTCTAAA
Found at i:21111606 original size:82 final size:82
Alignment explanation
Indices: 21111469--21111632 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
21111459 TGCAATTTCT
* *
21111469 GCCCTTGTATGCTATTCATTTTTTGGTTTATTTCAAAGATTGTTTATATTAATTTATTTGATATT
1 GCCCTTGTATGCTATTCATCTTTTGGTTTATTTCAAAGATTGCTTATATTAATTTATTTGATATT
21111534 CCTTTTAATTCTTTAGC
66 CCTTTTAATTCTTTAGC
21111551 GCCCTTGTATGCTATTCATCTTTTGGTTTATTTCAAAGATTGCTTATATTAATTTATTTGATATT
1 GCCCTTGTATGCTATTCATCTTTTGGTTTATTTCAAAGATTGCTTATATTAATTTATTTGATATT
21111616 CCTTTTAATTCTTTAGC
66 CCTTTTAATTCTTTAGC
21111633 TTTTAGTATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (82 bp):
GCCCTTGTATGCTATTCATCTTTTGGTTTATTTCAAAGATTGCTTATATTAATTTATTTGATATT
CCTTTTAATTCTTTAGC
Found at i:21124025 original size:44 final size:44
Alignment explanation
Indices: 21123962--21124102 Score: 246
Period size: 44 Copynumber: 3.2 Consensus size: 44
21123952 ATTTAAGCCA
* *
21123962 CAAGTCATATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
21124006 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* *
21124050 CAAGTCCTATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTA
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
21124094 CAAGTCCTA
1 CAAGTCCTA
21124103 ACCCGCAGTG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:21127746 original size:42 final size:42
Alignment explanation
Indices: 21127687--21127798 Score: 188
Period size: 42 Copynumber: 2.7 Consensus size: 42
21127677 GAAGGTTATG
*
21127687 AGAGCTAAACGAAAACCCATAAGGGTTAAACTAAAGCTCAAA
1 AGAGCTGAACGAAAACCCATAAGGGTTAAACTAAAGCTCAAA
* *
21127729 AGAGCTGAATGAAAACCCATAAGGGTTAAACTGAAGCTCAAA
1 AGAGCTGAACGAAAACCCATAAGGGTTAAACTAAAGCTCAAA
*
21127771 AGAGCTGAACGAAAACCCATAAAGGTTA
1 AGAGCTGAACGAAAACCCATAAGGGTTA
21127799 CCTGAAACTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
AGAGCTGAACGAAAACCCATAAGGGTTAAACTAAAGCTCAAA
Found at i:21129848 original size:41 final size:41
Alignment explanation
Indices: 21129791--21129899 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
21129781 GACTATACGT
* * *
21129791 CTAGCAGGCTAAGTGCCGGTGATTTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
21129832 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
21129873 CTAGCAGGCCAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
21129900 TTAAATTAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:21132725 original size:11 final size:11
Alignment explanation
Indices: 21132709--21132765 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
21132699 TTATATACTA
21132709 AATAAAATAAT
1 AATAAAATAAT
21132720 AATAAAAT-AT
1 AATAAAATAAT
21132730 AATTAAAAATAA-
1 AA-T-AAAATAAT
*
21132742 AATCAAAATATT
1 AAT-AAAATAAT
*
21132754 AATAAACTAAT
1 AATAAAATAAT
21132765 A
1 A
21132766 TTTATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.11
11 23 0.61
12 10 0.26
13 1 0.03
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:21134617 original size:21 final size:20
Alignment explanation
Indices: 21134547--21134617 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
21134537 AGTTAAATAA
* *
21134547 TAAAGAATCAATTCAAACAG
1 TAAAGAATCGATTCAAAAAG
* * *
21134567 TAATGAATCGATTTAAAACAA
1 TAAAGAATCGATTCAAAA-AG
* *
21134588 CAAACAATCGATTCAAAGAAG
1 TAAAGAATCGATTCAAA-AAG
21134609 TAAAGAATC
1 TAAAGAATC
21134618 AATTTAAGAC
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
20 14 0.38
21 22 0.59
22 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAAGAATCGATTCAAAAAG
Found at i:21134617 original size:42 final size:43
Alignment explanation
Indices: 21134551--21134765 Score: 222
Period size: 42 Copynumber: 5.0 Consensus size: 43
21134541 AAATAATAAA
* * *
21134551 GAATCAATTCAAA-CAGTAATGAATCGATTTAAAACAACAAA-
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
* * *
21134592 CAATCGATTCAAAGAAGTAAAGAATCAATTTAAGACAACAATTAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAA--AT
* * * *
21134637 GAATCAATT-AAAGAAGCAAATAACCGATTTAAAACAACAATAAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAAC-A-AAT
* * * *
21134681 GAATTGATTCAAATAAGTAAAGAATCAATTTTAAACAACAAAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
* *
21134724 -AATCGATTCAAAGAAGAAAAAAATCGATTTAAAACAACAAAT
1 GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
21134766 TTAGTAACAA
Statistics
Matches: 140, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
41 11 0.08
42 59 0.42
43 3 0.02
44 35 0.25
45 31 0.22
46 1 0.01
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.23
Consensus pattern (43 bp):
GAATCGATTCAAAGAAGTAAAGAATCGATTTAAAACAACAAAT
Found at i:21134706 original size:89 final size:85
Alignment explanation
Indices: 21134575--21134764 Score: 242
Period size: 89 Copynumber: 2.2 Consensus size: 85
21134565 AGTAATGAAT
21134575 CGATTTAAAACAAC-AAACAATCGATTCAAAGAAGTAAAGAATCAA-TTTAAGACAACAATTATG
1 CGATTTAAAACAACAAAACAATCGATTCAAAGAAGTAAAGAATCAATTTTAA-ACAACAA--AT-
* *
21134638 AATCAATT-AAAGAAGCAAATAAC
62 AATCAATTCAAAGAAGAAAAAAAC
* * *
21134661 CGATTTAAAACAACAATAATGAATTGATTCAAATAAGTAAAGAATCAATTTTAAACAACAAATAA
1 CGATTTAAAACAACAA-AA-CAATCGATTCAAAGAAGTAAAGAATCAATTTTAAACAACAAATAA
* *
21134726 TCGATTCAAAGAAGAAAAAAAT
64 TCAATTCAAAGAAGAAAAAAAC
21134748 CGATTTAAAACAACAAA
1 CGATTTAAAACAACAAA
21134765 TTTAGTAACA
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
86 22 0.24
87 31 0.34
88 2 0.02
89 32 0.35
90 5 0.05
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (85 bp):
CGATTTAAAACAACAAAACAATCGATTCAAAGAAGTAAAGAATCAATTTTAAACAACAAATAATC
AATTCAAAGAAGAAAAAAAC
Found at i:21136179 original size:21 final size:21
Alignment explanation
Indices: 21136149--21136188 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21136139 TTTTTTTAAA
21136149 ATTTT-AAAAATTCAAAAAATT
1 ATTTTAAAAAATT-AAAAAATT
*
21136170 ATTTTTAAAAATTAAAAAA
1 ATTTTAAAAAATTAAAAAA
21136189 CTTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTTAAAAAATTAAAAAATT
Found at i:21136428 original size:9 final size:9
Alignment explanation
Indices: 21136411--21136447 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21136401 TGAGTTTTCG
21136411 AATTCGAAT
1 AATTCGAAT
*
21136420 AACTCGAAT
1 AATTCGAAT
*
21136429 AATTCGAGT
1 AATTCGAAT
21136438 AATTCGAAT
1 AATTCGAAT
21136447 A
1 A
21136448 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21136696 original size:30 final size:31
Alignment explanation
Indices: 21136662--21136721 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21136652 AAACCTTTTA
*
21136662 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
21136692 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
21136722 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21137001 original size:17 final size:17
Alignment explanation
Indices: 21136981--21137027 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
21136971 CACATTTTAT
21136981 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
21136998 ATTATTTAGTCATT-TTGA
1 ATTATTTA-T-ATTATTGA
21137016 A-TATTTATATTA
1 ATTATTTATATTA
21137028 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.11
16 1 0.04
17 14 0.52
18 6 0.22
19 3 0.11
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:21142747 original size:19 final size:18
Alignment explanation
Indices: 21142714--21142751 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21142704 GCAAACATAT
21142714 AATATATTTTATAATTAAA
1 AATATATTTTATAA-TAAA
21142733 AATAT-TTTTATTAATAAA
1 AATATATTTTA-TAATAAA
21142751 A
1 A
21142752 CTGGCTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATATTTTATAATAAA
Found at i:21154153 original size:38 final size:39
Alignment explanation
Indices: 21154021--21154154 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
21154011 TTTGGATAAA
* * ** * *
21154021 AAAATGCCGCTAAAAATCAAGCATTAGCACCGCTTTTCA
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTCG
*
21154060 AAAACCGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT-G
1 AAAA-CGCCGCTAAAAATCGAGCATTAGCGGCG-TTTTTCG
* *
21154100 GAAATGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTCG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTCG
*
21154138 AAAAGCGCCGCAAAAAA
1 AAAA-CGCCGCTAAAAA
21154155 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
37 5 0.06
38 18 0.23
39 25 0.32
40 26 0.33
41 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTCG
Found at i:21154299 original size:13 final size:14
Alignment explanation
Indices: 21154276--21154305 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
21154266 TTAATTATCA
21154276 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
21154290 TTAT-GTTTAGGGT
1 TTATAGTTTAGGGT
21154303 TTA
1 TTA
21154306 AGATTTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:21154348 original size:15 final size:14
Alignment explanation
Indices: 21154329--21154363 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
21154319 ACTATTTTAA
21154329 GGTTTAGAGATTAT
1 GGTTTAGAGATTAT
*
21154343 GTGTTTAGGGATTAT
1 G-GTTTAGAGATTAT
21154358 GGTTTA
1 GGTTTA
21154364 TGGTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGAGATTAT
Found at i:21155236 original size:7 final size:7
Alignment explanation
Indices: 21155148--21155290 Score: 83
Period size: 7 Copynumber: 20.1 Consensus size: 7
21155138 AACTAATAAT
21155148 GGGTTTA
1 GGGTTTA
*
21155155 GGGATTA
1 GGGTTTA
*
21155162 CGGTTTA
1 GGGTTTA
*
21155169 TGGTTTA
1 GGGTTTA
*
21155176 TGGTTTAA
1 GGGTTT-A
*
21155184 GGG-TTG
1 GGGTTTA
21155190 GGGTTTA
1 GGGTTTA
*
21155197 AGGTTTA
1 GGGTTTA
*
21155204 GGGGTTA
1 GGGTTTA
*
21155211 GGGGTTA
1 GGGTTTA
* *
21155218 GGGGCTAA
1 -GGGTTTA
21155226 GGGTTTA
1 GGGTTTA
21155233 GGGTTTA
1 GGGTTTA
* * *
21155240 TGTTTTT
1 GGGTTTA
* *
21155247 TGATTTA
1 GGGTTTA
21155254 GGGTTTAA
1 GGGTTT-A
**
21155262 GGG-ACA
1 GGGTTTA
21155268 GGGTTTA
1 GGGTTTA
21155275 GGGGTTTA
1 -GGGTTTA
21155283 GGGTTTA
1 GGGTTTA
21155290 G
1 G
21155291 ATTAATTAGT
Statistics
Matches: 105, Mismatches: 25, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
6 7 0.07
7 79 0.75
8 19 0.18
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:21161988 original size:43 final size:43
Alignment explanation
Indices: 21161928--21162018 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
21161918 CTTTGAGTTC
* * *
21161928 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
21161970 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
21162013 ATTACC
1 ATTACC
21162019 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:21162450 original size:42 final size:43
Alignment explanation
Indices: 21162367--21162484 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 43
21162357 ATGTTTTTTT
* * * * *
21162367 TAAATGTTATGTTTT-TAGCGGCGTTTTTG-CGAGAAGCGTCGC
1 TAAAAGTTATGTTTTACAGCGGCGTTTGTGAC-AAAAGTGTCGC
* * *
21162409 TAAAGGTT-TGTTTTATAGCGGTGTTTGTGACAAAAGTGTCGC
1 TAAAAGTTATGTTTTACAGCGGCGTTTGTGACAAAAGTGTCGC
*
21162451 TAAAAGTTATGTTTTGCAGCGGCGTTTGTGACAA
1 TAAAAGTTATGTTTTACAGCGGCGTTTGTGACAA
21162485 GCCCCGCTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 6 0.09
42 35 0.55
43 23 0.36
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (43 bp):
TAAAAGTTATGTTTTACAGCGGCGTTTGTGACAAAAGTGTCGC
Found at i:21162472 original size:43 final size:42
Alignment explanation
Indices: 21162404--21162484 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
21162394 TGCGAGAAGC
* * *
21162404 GTCGCTAAAGGTTTGTTTTATAGCGGTGTTTGTGACAAAAGT
1 GTCGCTAAAAGTTTGTTTTACAGCGGCGTTTGTGACAAAAGT
*
21162446 GTCGCTAAAAGTTATGTTTTGCAGCGGCGTTTGTGACAA
1 GTCGCTAAAAGTT-TGTTTTACAGCGGCGTTTGTGACAA
21162485 GCCCCGCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 12 0.35
43 22 0.65
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.36
Consensus pattern (42 bp):
GTCGCTAAAAGTTTGTTTTACAGCGGCGTTTGTGACAAAAGT
Found at i:21166225 original size:16 final size:16
Alignment explanation
Indices: 21166201--21166234 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21166191 GAGTCTGTCA
21166201 AACCCTAGAGTTCGCC
1 AACCCTAGAGTTCGCC
* *
21166217 AACCTTAGAGTTCTCC
1 AACCCTAGAGTTCGCC
21166233 AA
1 AA
21166235 ATGATGAATT
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:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (16 bp):
AACCCTAGAGTTCGCC
Found at i:21169078 original size:12 final size:12
Alignment explanation
Indices: 21169056--21169086 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
21169046 TTTTATTTTC
21169056 TTAGTTTAATTAT
1 TTAG-TTAATTAT
21169069 TTAGTTAATTAT
1 TTAGTTAATTAT
21169081 TTAGTT
1 TTAGTT
21169087 TTTATAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (12 bp):
TTAGTTAATTAT
Found at i:21171590 original size:27 final size:25
Alignment explanation
Indices: 21171541--21171611 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 25
21171531 GGTCCCAATG
* *
21171541 GGAAGGTACTATGGAAGGGTATCGT
1 GGAAGGTACTATGGGAGGATATCGT
*
21171566 TGAAGGATACTCATGGGAGGATATCGT
1 GGAAGG-TACT-ATGGGAGGATATCGT
21171593 GGAAGGGTACTTATGGGAG
1 GGAA-GGTAC-TATGGGAG
21171612 AGTACCATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 5 0.13
26 4 0.11
27 26 0.68
28 3 0.08
ACGTcount: A:0.28, C:0.08, G:0.39, T:0.24
Consensus pattern (25 bp):
GGAAGGTACTATGGGAGGATATCGT
Found at i:21171964 original size:36 final size:36
Alignment explanation
Indices: 21171917--21171997 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
21171907 AAATATCCTA
**
21171917 CTCCCACACATGGGTGAAAGCTTAC-AGGGGGTCTTG
1 CTCCCACACATGGAAGAAAGCTTACGA-GGGGTCTTG
* * *
21171953 CTCCCATACATGGAAGGAGGCTTACGAGGGGTCTTG
1 CTCCCACACATGGAAGAAAGCTTACGAGGGGTCTTG
*
21171989 CTCCTACAC
1 CTCCCACAC
21171998 TTGGGGAAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (36 bp):
CTCCCACACATGGAAGAAAGCTTACGAGGGGTCTTG
Done.