Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 150 of 332
Found at i:49177160 original size:21 final size:22
Alignment explanation
Indices: 49177118--49177166 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
49177108 TTTAATTAAT
**
49177118 AAATAAATAAAAACATTTAATA
1 AAATAAATAAAAACATGAAATA
*
49177140 AAATAAA-AAAAATATGAAATA
1 AAATAAATAAAAACATGAAATA
49177161 ATAATA
1 A-AATA
49177167 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAATAAAAACATGAAATA
Found at i:49184991 original size:51 final size:51
Alignment explanation
Indices: 49184892--49185024 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
49184882 CCATCAAATC
* * *
49184892 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
49184943 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
49184994 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
49185025 CATGTTTCCA
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:49187778 original size:51 final size:51
Alignment explanation
Indices: 49187723--49187847 Score: 142
Period size: 51 Copynumber: 2.5 Consensus size: 51
49187713 ATCTCTAAAA
* * * **
49187723 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
49187774 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
*
49187825 TATAATATCATATCTTTTAAGAT
1 TATAATATCATATCTTATAAGAT
49187848 CATGTTTCCA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Found at i:49188723 original size:13 final size:13
Alignment explanation
Indices: 49188705--49188740 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
49188695 ATTAATTTAT
49188705 TAATATTTTAATG
1 TAATATTTTAATG
49188718 TAATATTTTAATG
1 TAATATTTTAATG
*
49188731 AAATATTTTA
1 TAATATTTTA
49188741 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
TAATATTTTAATG
Found at i:49191069 original size:17 final size:17
Alignment explanation
Indices: 49191026--49191072 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
49191016 AAATTCATGA
*
49191026 AAATG-ATGGTAT-ATG
1 AAATGAATGATATAATG
*
49191041 AAAT-ATTGATATAATG
1 AAATGAATGATATAATG
49191057 AAATGAATGATATAAT
1 AAATGAATGATATAAT
49191073 TTTATGAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAATGAATGATATAATG
Found at i:49192859 original size:15 final size:16
Alignment explanation
Indices: 49192839--49192870 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
49192829 TAATATAAAG
49192839 TGAATTGA-AATATAT
1 TGAATTGAGAATATAT
49192854 TGAATTGAGAATATAT
1 TGAATTGAGAATATAT
49192870 T
1 T
49192871 TGATTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (16 bp):
TGAATTGAGAATATAT
Found at i:49192894 original size:20 final size:20
Alignment explanation
Indices: 49192856--49192895 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49192846 AAATATATTG
*
49192856 AATTGAGAATATATTTGATT
1 AATTGAGAATATATCTGATT
49192876 AATTGA-AATATATACTGATT
1 AATTGAGAATATAT-CTGATT
49192896 GAAAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (20 bp):
AATTGAGAATATATCTGATT
Found at i:49193253 original size:18 final size:18
Alignment explanation
Indices: 49193230--49193325 Score: 122
Period size: 18 Copynumber: 5.3 Consensus size: 18
49193220 TAAATAAAGG
49193230 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* *
49193248 TACTGAATAATTGACTAT
1 TACTGAATAACTGATTAT
* *
49193266 TACTGAATAAAC-GACTGT
1 TACTGAAT-AACTGATTAT
*
49193284 TACTGAATAAATGATTAT
1 TACTGAATAACTGATTAT
*
49193302 TACTGAATAACTGATTAA
1 TACTGAATAACTGATTAT
49193320 TACTGA
1 TACTGA
49193326 TGACTGACTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 2 0.03
18 63 0.94
19 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:49197653 original size:20 final size:20
Alignment explanation
Indices: 49197626--49197670 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
49197616 CAAGTGTGTG
49197626 GTAA-AAATAAAATACATGT
1 GTAATAAATAAAATACATGT
** *
49197645 GTAATAAATATTATACATTT
1 GTAATAAATAAAATACATGT
49197665 GTAATA
1 GTAATA
49197671 CATGTATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (20 bp):
GTAATAAATAAAATACATGT
Found at i:49199589 original size:27 final size:27
Alignment explanation
Indices: 49199559--49199699 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
49199549 GTGATGAAGT
*
49199559 CACCAGATATAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
49199586 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
49199613 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
49199640 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
49199667 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
49199694 CACCAG
1 CACCAG
49199700 GACACTTCCT
Statistics
Matches: 103, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
26 9 0.09
27 90 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:49199631 original size:54 final size:54
Alignment explanation
Indices: 49199559--49199699 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
49199549 GTGATGAAGT
* *
49199559 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
49199613 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
49199667 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
49199700 GACACTTCCT
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:49201932 original size:15 final size:16
Alignment explanation
Indices: 49201912--49201972 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 16
49201902 TAATATAAAG
49201912 TGAATTGAAATATAT-
1 TGAATTGAAATATATC
49201927 TGAATTGAGAATATATC
1 TGAATTGA-AATATATC
49201944 TGATTAGTTGAAATATATAC
1 TGA--A-TTGAAATATAT-C
49201964 TG-ATTGAAA
1 TGAATTGAAA
49201973 ACTGAAAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.20
16 13 0.32
17 4 0.10
19 8 0.20
20 7 0.17
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (16 bp):
TGAATTGAAATATATC
Found at i:49201941 original size:16 final size:15
Alignment explanation
Indices: 49201912--49201961 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
49201902 TAATATAAAG
49201912 TGAATTGAAATATAT
1 TGAATTGAAATATAT
49201927 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
49201943 CTGATTAGTTGAAATATAT
1 -TGA--A-TTGAAATATAT
49201962 ACTGATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:49201966 original size:20 final size:20
Alignment explanation
Indices: 49201931--49201968 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49201921 ATATATTGAA
49201931 TTGAGAATATATCTGATTAG
1 TTGAGAATATATCTGATTAG
49201951 TTGA-AATATATACTGATT
1 TTGAGAATATAT-CTGATT
49201969 GAAAACTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGAGAATATATCTGATTAG
Found at i:49202329 original size:18 final size:18
Alignment explanation
Indices: 49202306--49202398 Score: 107
Period size: 18 Copynumber: 5.2 Consensus size: 18
49202296 ATAAAGGTAT
49202306 TGAATAACTGATTATTAC
1 TGAATAACTGATTATTAC
* * *
49202324 TGAATAATTGACTGTTAC
1 TGAATAACTGATTATTAC
* *
49202342 TGAATAAAC-GACTGTTAC
1 TGAAT-AACTGATTATTAC
*
49202360 TGAATAAATGATTATTAC
1 TGAATAACTGATTATTAC
*
49202378 TGAATAACTGATTAATAC
1 TGAATAACTGATTATTAC
49202396 TGA
1 TGA
49202399 TGACTGACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 2 0.03
18 60 0.94
19 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAATAACTGATTATTAC
Found at i:49214277 original size:14 final size:15
Alignment explanation
Indices: 49214258--49214286 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49214248 AAAGTTAAAA
49214258 TGGA-TTTTCTTGTC
1 TGGATTTTTCTTGTC
49214272 TGGATTTTTCTTGTC
1 TGGATTTTTCTTGTC
49214287 CTTGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.59
Consensus pattern (15 bp):
TGGATTTTTCTTGTC
Found at i:49216416 original size:24 final size:24
Alignment explanation
Indices: 49216389--49216443 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
49216379 ACAGCTTCAT
* *
49216389 ATACATATCCACATGAACACATAC
1 ATACATATACACATAAACACATAC
* *
49216413 ATACTTATACACATAAACACATAT
1 ATACATATACACATAAACACATAC
49216437 ATACATA
1 ATACATA
49216444 CCTTCCACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:49219751 original size:15 final size:15
Alignment explanation
Indices: 49219733--49219791 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
49219723 GAAACCCAGT
49219733 ATAAAGAAATCCAAC
1 ATAAAGAAATCCAAC
*
49219748 ATAAAGAAATACC-AT
1 ATAAAGAAAT-CCAAC
* * *
49219763 ATAGAGAAGTCCAAG
1 ATAAAGAAATCCAAC
*
49219778 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
49219792 ATGAAAATAC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.56, C:0.15, G:0.14, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAC
Found at i:49220845 original size:27 final size:26
Alignment explanation
Indices: 49220810--49220921 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
49220800 AGCATGGCTG
*
49220810 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
49220836 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGACAGAGCCA
49220864 CCAGAACAGATATATGTGGA-AGAGCCA
1 CCAGAACAGATA-ATGT-GACAGAGCCA
* * *
49220891 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGACAGAGCCA
49220918 CCAG
1 CCAG
49220922 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 6 0.08
27 49 0.66
28 19 0.26
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:49220874 original size:54 final size:54
Alignment explanation
Indices: 49220810--49220921 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
49220800 AGCATGGCTG
* *
49220810 CCAGAACAGATA-ATGT-GACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGA-AGAGCCACCAGAT-CAGATAAATGTGGCAGAGCCA
*
49220864 CCAGAACAGATATATGTGGAAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATATATGTGGAAGAGCCACCAGATCAGATAAATGTGGCAGAGCCA
49220918 CCAG
1 CCAG
49220922 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 35 0.66
55 16 0.30
56 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGAAGAGCCACCAGATCAGATAAATGTGGCAGAGCCA
Found at i:49222335 original size:25 final size:24
Alignment explanation
Indices: 49222302--49222358 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
49222292 AACTCTTACT
49222302 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
49222328 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
49222352 CCTTATC
1 CCTTATC
49222359 CCCTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:49222364 original size:24 final size:25
Alignment explanation
Indices: 49222302--49222365 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
49222292 AACTCTTACT
*
49222302 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
49222328 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
49222352 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
49222366 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:49222695 original size:18 final size:18
Alignment explanation
Indices: 49222672--49222714 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49222662 AAAATTCATT
* *
49222672 GAAAATCACAGAAATCCA
1 GAAAATCAAAAAAATCCA
*
49222690 GAAAATCAAAAAAATCCT
1 GAAAATCAAAAAAATCCA
49222708 GAAAATC
1 GAAAATC
49222715 TCGAAAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.58, C:0.19, G:0.09, T:0.14
Consensus pattern (18 bp):
GAAAATCAAAAAAATCCA
Found at i:49228670 original size:27 final size:27
Alignment explanation
Indices: 49228635--49228743 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
49228625 AGCATGGCTG
* *
49228635 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
49228661 CCAGATACAGATATATGTGGCAGAGCCA
1 CCAGA-ACAGATATATGTGGCAGAGCCA
*
49228689 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
49228716 CCAGATCAAATAAATGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
49228743 C
1 C
49228744 TAGGACGCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.07
27 52 0.70
28 17 0.23
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:49230167 original size:25 final size:24
Alignment explanation
Indices: 49230134--49230190 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
49230124 AACTCTTGCT
49230134 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
49230160 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
49230184 CCTTATC
1 CCTTATC
49230191 CCCTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:49230196 original size:24 final size:25
Alignment explanation
Indices: 49230134--49230197 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
49230124 AACTCTTGCT
*
49230134 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
49230160 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
49230184 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
49230198 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:49254558 original size:11 final size:11
Alignment explanation
Indices: 49254544--49254569 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49254534 CATGAGATAT
49254544 TCGAGAAAGTA
1 TCGAGAAAGTA
49254555 TCGAGAAAGTA
1 TCGAGAAAGTA
49254566 TCGA
1 TCGA
49254570 CGTTCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (11 bp):
TCGAGAAAGTA
Found at i:49256188 original size:28 final size:27
Alignment explanation
Indices: 49256125--49256249 Score: 187
Period size: 28 Copynumber: 4.6 Consensus size: 27
49256115 ATATTAAGTC
* *
49256125 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
49256152 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
49256180 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
49256208 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
49256235 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49256250 GCACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 39 0.42
28 54 0.58
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49256270 original size:56 final size:56
Alignment explanation
Indices: 49256125--49256249 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 56
49256115 ATATTAAGTC
* * * *
49256125 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
* * *
49256180 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
49256235 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49256250 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 38 0.59
56 26 0.41
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCAAACT
Found at i:49257927 original size:42 final size:43
Alignment explanation
Indices: 49257856--49257959 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 43
49257846 TATCGACTCA
*
49257856 TGATTTACATGTAGGACCATGTCCGGGACA-TCGGCATCG-TATT
1 TGATTT-CATGTAAGACCATGTCCGGGACAGT-GGCATCGATATT
* * *
49257899 TGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCCGGGACAGTGGCATCGATATT
*
49257942 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
49257960 CGTCTAGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCCGGGACAGTGGCATCGATATT
Found at i:49257976 original size:43 final size:43
Alignment explanation
Indices: 49257821--49257977 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
49257811 TGTGTTATTG
* *
49257821 TGTAAGACCATGTGTGGGACGTTGGTATCGACTCA--TGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-T-ATTTGA-TTACA
* * * * * *
49257865 TGTAGGACCATGTCCGGGACATCGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
*
49257907 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTACA
* *
49257950 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
49257978 TGTACGAGTT
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 36 0.40
44 24 0.27
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:49266489 original size:39 final size:40
Alignment explanation
Indices: 49266444--49266611 Score: 97
Period size: 40 Copynumber: 4.2 Consensus size: 40
49266434 CGGGGTTTAG
* * *
49266444 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
49266483 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * * **
49266523 CCGGATATAGTCGCTAGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
49266563 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
49266604 CCGGATAT
1 CCGGATAT
49266612 CATTCGAGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 18 0.17
40 60 0.56
41 26 0.24
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:49266602 original size:41 final size:40
Alignment explanation
Indices: 49266467--49266611 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
49266457 CTCGCACAAG
* * * * *
49266467 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
49266507 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
49266547 GCCTT-TGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
49266588 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49266612 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:49276475 original size:39 final size:40
Alignment explanation
Indices: 49276430--49276540 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
49276420 CGGGGTTTAG
* * *
49276430 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
49276469 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
49276509 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
49276541 ATCTTAGTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:49276500 original size:40 final size:40
Alignment explanation
Indices: 49276453--49276596 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
49276443 CTCGCACAAG
* * * *
49276453 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
*
49276493 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
** * *
49276533 GCCTTC-GGATCTT-AGTCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAACCCGGATATAGTCGC-TAGCACAAAT
*
49276573 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAACCCGGATAT
49276597 CATTCGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 15 0.17
40 62 0.72
41 9 0.10
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
Found at i:49286942 original size:21 final size:25
Alignment explanation
Indices: 49286917--49286968 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 25
49286907 TTAATGTATC
49286917 TTTGATGA-AA-TT-AAGCATGA-T
1 TTTGATGAGAATTTGAAGCATGAGT
*
49286938 TTTGATGAGAATTTGAAGTATGAGT
1 TTTGATGAGAATTTGAAGCATGAGT
49286963 TTTGAT
1 TTTGAT
49286969 CATGTTAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 2 0.08
24 7 0.27
25 7 0.27
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (25 bp):
TTTGATGAGAATTTGAAGCATGAGT
Found at i:49287335 original size:11 final size:12
Alignment explanation
Indices: 49287316--49287358 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
49287306 AGTCGTCTCA
*
49287316 AGATAAAGG-AC
1 AGATGAAGGCAC
49287327 AGATGAAGGTCAC
1 AGATGAAGG-CAC
49287340 AGATGAAGGTCAC
1 AGATGAAGG-CAC
49287353 AGATGA
1 AGATGA
49287359 GTAGCTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 8 0.28
13 21 0.72
ACGTcount: A:0.44, C:0.12, G:0.30, T:0.14
Consensus pattern (12 bp):
AGATGAAGGCAC
Found at i:49287343 original size:13 final size:13
Alignment explanation
Indices: 49287325--49287358 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
49287315 AAGATAAAGG
49287325 ACAGATGAAGGTC
1 ACAGATGAAGGTC
49287338 ACAGATGAAGGTC
1 ACAGATGAAGGTC
49287351 ACAGATGA
1 ACAGATGA
49287359 GTAGCTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.15
Consensus pattern (13 bp):
ACAGATGAAGGTC
Found at i:49294306 original size:46 final size:46
Alignment explanation
Indices: 49294239--49294360 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 46
49294229 TATGTGTGCT
* ** *
49294239 AGTGTAAGACATGTCTAGGACATGCATCAGCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCATCAAGACGAGAGCC
* * *
49294285 AGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCATCAAGACGAGAGCC
49294331 AGTGTAAGACATGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
49294361 TCTTAGATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 3 0.04
46 58 0.87
47 6 0.09
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATCAAGACGAGAGCC
Found at i:49303423 original size:23 final size:21
Alignment explanation
Indices: 49303397--49303449 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
49303387 TTGAGGAGTG
* *
49303397 TAGGGATTGTTGTGGCCGAATTT
1 TAGGGATT-TTGTGG-AGAAGTT
49303420 TAGGAGGATTTTGTGGAGAAGTT
1 TA-G-GGATTTTGTGGAGAAGTT
49303443 TAGGGAT
1 TAGGGAT
49303450 AGTTTGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.15
22 1 0.04
23 9 0.35
24 7 0.27
25 5 0.19
ACGTcount: A:0.23, C:0.04, G:0.38, T:0.36
Consensus pattern (21 bp):
TAGGGATTTTGTGGAGAAGTT
Found at i:49304499 original size:18 final size:17
Alignment explanation
Indices: 49304468--49304501 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49304458 TTCTGGGCTA
*
49304468 TGTGGGCCATGTGGGCG
1 TGTGGGCCACGTGGGCG
49304485 TGTGGGCCCACGTGGGC
1 TGTGGG-CCACGTGGGC
49304502 CGCAATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.06, C:0.24, G:0.50, T:0.21
Consensus pattern (17 bp):
TGTGGGCCACGTGGGCG
Found at i:49304684 original size:27 final size:27
Alignment explanation
Indices: 49304611--49304690 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
49304601 CTAGACCCCG
* * *
49304611 TATATGATAAAATGACTATTTTGCCCT
1 TATATGGTAAGATGACTGTTTTGCCCT
** *
49304638 TATATGGTAAGATGGTTGTTTCGCCCT
1 TATATGGTAAGATGACTGTTTTGCCCT
49304665 TATATGGTAAGATGACTGTTTTGCCC
1 TATATGGTAAGATGACTGTTTTGCCC
49304691 CTATGTGTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
TATATGGTAAGATGACTGTTTTGCCCT
Found at i:49307424 original size:22 final size:22
Alignment explanation
Indices: 49307396--49307440 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
49307386 GACAAATTAC
*
49307396 ATGGTGTATTGTTATGGGACTA
1 ATGGTGTATTCTTATGGGACTA
49307418 ATGGTGTATTCTTATGGGACTA
1 ATGGTGTATTCTTATGGGACTA
49307440 A
1 A
49307441 CTTGTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.40
Consensus pattern (22 bp):
ATGGTGTATTCTTATGGGACTA
Found at i:49308615 original size:23 final size:23
Alignment explanation
Indices: 49308583--49308630 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
49308573 TGTCCCGAAG
*
49308583 CACACTGGCGTGTGCTATGTCTT
1 CACACAGGCGTGTGCTATGTCTT
*
49308606 CACACAGGCGTGTGCTATTTCTT
1 CACACAGGCGTGTGCTATGTCTT
49308629 CA
1 CA
49308631 TAGGGCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (23 bp):
CACACAGGCGTGTGCTATGTCTT
Found at i:49313726 original size:9 final size:9
Alignment explanation
Indices: 49313712--49313736 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49313702 GACTAAAATG
49313712 TGAAATAAA
1 TGAAATAAA
49313721 TGAAATAAA
1 TGAAATAAA
49313730 TGAAATA
1 TGAAATA
49313737 TGTGGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:49314269 original size:35 final size:35
Alignment explanation
Indices: 49314204--49314385 Score: 130
Period size: 35 Copynumber: 5.1 Consensus size: 35
49314194 TACTTACTTG
* * * *
49314204 TATGGCCTAATACACATGGTTCATTATATCATCACA
1 TATGGCCAAATATACA-AGTTCAATATATCATCACA
* *
49314240 TATGGCCAAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
** * * *
49314275 TATGATCGAATATACAAGTTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * * * *
49314310 TGTAGTCGAATATTCAAGTTTAATATAACATTACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * *
49314345 TGTGGCCAAATATATATAAGTTTAATACATCATCACA
1 TATGGCC-AA-ATATACAAGTTCAATATATCATCACA
49314382 TATG
1 TATG
49314386 TACATACCTA
Statistics
Matches: 115, Mismatches: 29, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
35 76 0.66
36 15 0.13
37 24 0.21
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:49317609 original size:20 final size:20
Alignment explanation
Indices: 49317566--49317607 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
49317556 TAAAGAAAGT
49317566 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
49317586 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
49317605 AAA
1 AAA
49317608 ATTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:49324318 original size:17 final size:18
Alignment explanation
Indices: 49324275--49324325 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
49324265 TTTAACAATT
*
49324275 AATAATTATTTTATGATCA
1 AATAA-TATTTTATAATCA
49324294 AGATAATATTTTATAAT-A
1 A-ATAATATTTTATAATCA
*
49324312 AATAATATCTTATA
1 AATAATATTTTATA
49324326 TAGATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 11 0.38
20 4 0.14
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (18 bp):
AATAATATTTTATAATCA
Found at i:49328059 original size:40 final size:40
Alignment explanation
Indices: 49328004--49328145 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
49327994 TATTCGAATG
49328004 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49328044 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
49328084 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
49328124 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49328146 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 14 0.15
40 75 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49333247 original size:34 final size:34
Alignment explanation
Indices: 49333204--49333331 Score: 166
Period size: 34 Copynumber: 3.8 Consensus size: 34
49333194 TTTAACTTAG
* * *
49333204 TGTTGTGCAAATGATGAGCTATTCTATGATTGAA
1 TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
* *
49333238 TGTTGTGCAAATGATAAGTTGTTCTATGGCTGAA
1 TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
* * * *
49333272 TTTTGTGAAAATGATAAGTTGTTTTATGGTTGAA
1 TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
*
49333306 TGTTGTGCAAATGATGAGTTATTCTA
1 TGTTGTGCAAATGATAAGTTATTCTA
49333332 CAACTGAATG
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (34 bp):
TGTTGTGCAAATGATAAGTTATTCTATGGTTGAA
Found at i:49344521 original size:17 final size:17
Alignment explanation
Indices: 49344495--49344533 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
49344485 GAAGGCGATA
49344495 GACTTACGACAGAGATG
1 GACTTACGACAGAGATG
* *
49344512 GACTTTCGACAGTGATG
1 GACTTACGACAGAGATG
49344529 GACTT
1 GACTT
49344534 GCGATGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (17 bp):
GACTTACGACAGAGATG
Found at i:49353201 original size:24 final size:25
Alignment explanation
Indices: 49353149--49353201 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
49353139 TTCTACAATT
** *
49353149 TTTTTGAAATAATCTCTTTAGGGAG
1 TTTTTGAAATAATCTCTTTAGAAAA
*
49353174 TTTTT-AAATACTCTCTTTAGAAAA
1 TTTTTGAAATAATCTCTTTAGAAAA
49353198 TTTT
1 TTTT
49353202 CTCTTTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.49
Consensus pattern (25 bp):
TTTTTGAAATAATCTCTTTAGAAAA
Found at i:49354814 original size:89 final size:89
Alignment explanation
Indices: 49354663--49354827 Score: 312
Period size: 89 Copynumber: 1.9 Consensus size: 89
49354653 TACACTACAG
*
49354663 GTTGAGACACACGCTCGTGTCTCAGGTCGTATGGACATTCAAATTAGGGTCACATGGCTTTGTCC
1 GTTGAGACACACGCTCATGTCTCAGGTCGTATGGACATTCAAATTAGGGTCACATGGCTTTGTCC
49354728 CAACCCGTGTCGTGTGACCCACAC
66 CAACCCGTGTCGTGTGACCCACAC
*
49354752 GTTGAGACACACGCTCATGTCTCAGGTCGTGTGGACATTCAAATTAGGGTCACATGGCTTTGTCC
1 GTTGAGACACACGCTCATGTCTCAGGTCGTATGGACATTCAAATTAGGGTCACATGGCTTTGTCC
49354817 CAACCCGTGTC
66 CAACCCGTGTC
49354828 TATGCCTGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (89 bp):
GTTGAGACACACGCTCATGTCTCAGGTCGTATGGACATTCAAATTAGGGTCACATGGCTTTGTCC
CAACCCGTGTCGTGTGACCCACAC
Found at i:49356994 original size:137 final size:138
Alignment explanation
Indices: 49356745--49357011 Score: 320
Period size: 137 Copynumber: 1.9 Consensus size: 138
49356735 ATGGGGCCTC
* * ** *
49356745 CTCACACAAGCAGATGGTTAGAATGTAAGCTACACAATGCTGCTTACACAAGCTGATAAGTATCC
1 CTCACACAAACAGATGGTCAGAATGTAAGCTACACAATGCCACTCACACAAGCTGATAAGTATCC
* * * * * * *
49356810 ACAACTAATATCAGACCTTAGCCATCGGTAGGACATTTAGGACCAGCACCCGGAACATCGTAACC
66 ACAACAAATACCAGAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCGAAACATCGTAACC
49356875 TGGGTCTG
131 TGGGTCTG
* * * *
49356883 CTCACACAAACTGATGGTCAGAATGT-AGCTACACGATGCCACTCACACAAGTTGATGAGTATCC
1 CTCACACAAACAGATGGTCAGAATGTAAGCTACACAATGCCACTCACACAAGCTGATAAGTATCC
** * * * * *
49356947 GTAACAAATGCCGGAACTCAACCATCGGTAGGACATTCAGGATCAGCACCTGAAACATGGTAACC
66 ACAACAAATACCAGAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCGAAACATCGTAACC
49357012 CTAATAACAT
Statistics
Matches: 106, Mismatches: 23, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
137 83 0.78
138 23 0.22
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (138 bp):
CTCACACAAACAGATGGTCAGAATGTAAGCTACACAATGCCACTCACACAAGCTGATAAGTATCC
ACAACAAATACCAGAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCGAAACATCGTAACC
TGGGTCTG
Found at i:49363572 original size:40 final size:40
Alignment explanation
Indices: 49363478--49363622 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49363468 TACTCGAATG
*
49363478 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
49363519 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
49363559 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
49363599 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49363623 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:49371574 original size:41 final size:39
Alignment explanation
Indices: 49371506--49371638 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 39
49371496 CTCGAATGAT
* *
49371506 ATCCGGGCTAAGTCCCAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGCGACTAC
* *
49371546 ATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTAT
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACTAC
* * * *
49371586 ATCCGGGCTAAGTCCCGAAGGCATTTATTGCTAGTGACCAT
1 ATCCGGGCTAAGT-CCGAAGGCATTT-GTGCTAGCGACTAC
*
49371627 ATCCGGGTTAAG
1 ATCCGGGCTAAG
49371639 ACACCGAAGG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 42 0.52
41 38 0.47
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACTAC
Found at i:49371581 original size:40 final size:40
Alignment explanation
Indices: 49371506--49371611 Score: 151
Period size: 40 Copynumber: 2.6 Consensus size: 40
49371496 CTCGAATGAT
* *
49371506 ATCCGGGCTAAGTCCCAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGCGACTAC
* *
49371546 ATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACTAT
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGCGACTAC
49371586 ATCCGGGCTAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGT-CCGAAGGCATTT
49371612 ATTGCTAGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.71
41 16 0.27
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGCGACTAC
Found at i:49371655 original size:81 final size:80
Alignment explanation
Indices: 49371504--49371656 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 80
49371494 TACTCGAATG
* *
49371504 ATATCCGGGCTAAGTCCCAAGGCTTTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAGGCTTTTGTGCTAAGCGACCACATCCGGACTAAGAACCGAAGGCA
*
49371569 TTTGTGCTAGCGACT
66 CTTGTGCTAGCGACT
* * **
49371584 ATATCCGGGCTAAGTCCCGAAGGCATTTAT-TGCT-AGTGACCATATCCGGGTTAAGACACCGAA
1 ATATCCGGGCTAAGTCCC-AAGGC-TTT-TGTGCTAAGCGACCACATCCGGACTAAGA-ACCGAA
49371647 GGC-CTTGTGC
62 GGCACTTGTGC
49371657 GAGTGGTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
80 18 0.29
81 28 0.45
82 15 0.24
83 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCAAGGCTTTTGTGCTAAGCGACCACATCCGGACTAAGAACCGAAGGCA
CTTGTGCTAGCGACT
Found at i:49371668 original size:81 final size:81
Alignment explanation
Indices: 49371504--49371685 Score: 185
Period size: 81 Copynumber: 2.3 Consensus size: 81
49371494 TACTCGAATG
* *
49371504 ATATCCGGGCTAAGTCCC-AAGGCTTTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACCACATCCGGACTAAGAACCGAAGGC
* *
49371568 ATTTGTGCTAGCGACT
66 ACTTGTGCGAGCGACT
* * **
49371584 ATATCCGGGCTAAGTCCCGAAGGCATTTAT-TGCT-AGTGACCATATCCGGGTTAAGACACCGAA
1 ATATCCGGGCTAAGTCCCGAAGGC-TTT-TGTGCTAAGCGACCACATCCGGACTAAGA-ACCGAA
* **
49371647 GGC-CTTGTGCGAGTGGTT
63 GGCACTTGTGCGAGCGACT
**
49371665 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49371686 ATGCTTGATT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
80 31 0.36
81 38 0.45
82 15 0.18
83 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACCACATCCGGACTAAGAACCGAAGGC
ACTTGTGCGAGCGACT
Found at i:49377699 original size:23 final size:23
Alignment explanation
Indices: 49377667--49377717 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
49377657 TTGTATGAGT
* * **
49377667 CTTACTATTTTAGCTCGTTAGAG
1 CTTACCATTTTAGCCCAATAGAG
49377690 CTTACCATTTTAGCCCAATAGAG
1 CTTACCATTTTAGCCCAATAGAG
49377713 CTTAC
1 CTTAC
49377718 TCTCCATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (23 bp):
CTTACCATTTTAGCCCAATAGAG
Found at i:49384117 original size:40 final size:41
Alignment explanation
Indices: 49384051--49384299 Score: 281
Period size: 41 Copynumber: 6.1 Consensus size: 41
49384041 AATAGTGACA
*
49384051 CTAAAAACCAGAGCATTA-CGGCGCTTTCGGTAAAACACCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* *
49384091 CTAAAAACCAGA-CATTAGCGGTGCTTTCTGTAAAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* * ** * * *
49384131 CTAAAAACTAGAGAATTAGCTGG-GCTTTATGTAAAGCACCA
1 CTAAAAACCAGAGCATTAGC-GGCGCTTTCGGTAAAACGCCG
*
49384172 CTAAAAGCCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* * * *
49384213 CTAAAACCCAAAGCATTAGCGGCGCTTTCGATAAAACGCTG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
* ** * *
49384254 CTAAAAACCGGAGCATTAATGGTGCTTTCAGT-AAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
49384294 CTAAAA
1 CTAAAA
49384300 GTCATATAAC
Statistics
Matches: 175, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 5 0.03
40 57 0.33
41 111 0.63
42 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
CTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCG
Found at i:49384399 original size:53 final size:54
Alignment explanation
Indices: 49384312--49384427 Score: 144
Period size: 53 Copynumber: 2.2 Consensus size: 54
49384302 CATATAACCC
* * * * * *
49384312 CTAAAACCTTAAACCTCAAAAAATCTTAAGCACTAATCTATAACC-CTAAAACA
1 CTAAACCCCTAAACCTCAAAAAACCCTAAACACTAAACTATAACCTCTAAAACA
* * *
49384365 CTAAACCCCTAAACCTTAAAAAACCCTAAACACTAAACTATAACCTTTAAAACC
1 CTAAACCCCTAAACCTCAAAAAACCCTAAACACTAAACTATAACCTCTAAAACA
49384419 CTAAACCCC
1 CTAAACCCC
49384428 AAAAAACATC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 38 0.72
54 15 0.28
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (54 bp):
CTAAACCCCTAAACCTCAAAAAACCCTAAACACTAAACTATAACCTCTAAAACA
Found at i:49384401 original size:17 final size:17
Alignment explanation
Indices: 49384353--49384401 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
49384343 ACTAATCTAT
49384353 AACCCTAAAACACT--AA
1 AACCCT-AAACACTAAAA
*
49384369 ACCCCTAAAC-CTTAAAA
1 AACCCTAAACAC-TAAAA
49384386 AACCCTAAACACTAAA
1 AACCCTAAACACTAAA
49384402 CTATAACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 5 0.19
16 5 0.19
17 15 0.56
18 1 0.04
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (17 bp):
AACCCTAAACACTAAAA
Found at i:49387939 original size:25 final size:25
Alignment explanation
Indices: 49387911--49387959 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
49387901 GAAAGTAGAT
49387911 GAAGAGAAAAGAA-AAGAAAAAAAAA
1 GAAG-GAAAAGAATAAGAAAAAAAAA
49387936 GAAGGAAAAGAATAAGAAAAAAAA
1 GAAGGAAAAGAATAAGAAAAAAAA
49387960 CTGAATCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (25 bp):
GAAGGAAAAGAATAAGAAAAAAAAA
Found at i:49394734 original size:43 final size:42
Alignment explanation
Indices: 49394684--49394796 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
49394674 TCACATGTAT
*
49394684 CACATCCATTATGAACTCGGACCACTCAACGAGCTC-AGATGC
1 CACATCCATAATGAACTCGGACCACTCAACGAGCTCGA-ATGC
* * **
49394726 TCGCATCCATAATGAATTTAGACCACTCAACGAGCTCGAATGC
1 -CACATCCATAATGAACTCGGACCACTCAACGAGCTCGAATGC
** * *
49394769 CACATATATCATGAACCCGGACCACTCA
1 CACATCCATAATGAACTCGGACCACTCA
49394797 CTGATTTTGG
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 20 0.36
43 35 0.62
44 1 0.02
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (42 bp):
CACATCCATAATGAACTCGGACCACTCAACGAGCTCGAATGC
Found at i:49397894 original size:15 final size:15
Alignment explanation
Indices: 49397850--49397895 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
49397840 TCTAGGGCAA
*
49397850 AGAAATCCAAGATAA
1 AGAAATCCAAGATAC
49397865 AGAAATCCAAGATAC
1 AGAAATCCAAGATAC
*
49397880 AGAAATCTAAGATAC
1 AGAAATCCAAGATAC
49397895 A
1 A
49397896 ATATCATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
AGAAATCCAAGATAC
Found at i:49399710 original size:22 final size:22
Alignment explanation
Indices: 49399676--49399723 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
49399666 AAACAGGGTC
* *
49399676 ACACGCCCGTGTGGACACAGGG
1 ACACACCCATGTGGACACAGGG
49399698 ACACACCCATGTGGACACAGGG
1 ACACACCCATGTGGACACAGGG
49399720 ACAC
1 ACAC
49399724 GCTCGTGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.29, T:0.08
Consensus pattern (22 bp):
ACACACCCATGTGGACACAGGG
Found at i:49401749 original size:43 final size:43
Alignment explanation
Indices: 49401688--49401778 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
49401678 ATCACATGTA
* * *
49401688 TCACATCCATTATGAACTCGGACCACTCAATGAGCTCAGATGC
1 TCACATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
* *
49401731 TCACATCCATAATGAACTCAGACCAGTCAACGAGCTCGGATGC
1 TCACATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
49401774 T-ACAT
1 TCACAT
49401779 ATATCACGAA
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:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
TCACATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:49405155 original size:13 final size:13
Alignment explanation
Indices: 49405139--49405173 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
49405129 AATGATTTCA
*
49405139 TGAAAATTTCGTT
1 TGAAAATTTCGTC
49405152 TGAAAATTTCGTC
1 TGAAAATTTCGTC
*
49405165 CGAAAATTT
1 TGAAAATTT
49405174 TGACGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (13 bp):
TGAAAATTTCGTC
Found at i:49406264 original size:23 final size:24
Alignment explanation
Indices: 49406234--49406303 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
49406224 TGACATTGCG
* *
49406234 CTAAGTGAAATAAGACCATGGC-T
1 CTAAGTGAAATAAGTCCATGGCAA
**
49406257 CTAAGTGAAATAAGTTTATGGCAA
1 CTAAGTGAAATAAGTCCATGGCAA
*
49406281 CCAAGTGAAATAAGTCCATGGCA
1 CTAAGTGAAATAAGTCCATGGCA
49406304 TTGTGCTAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAA
Found at i:49406419 original size:51 final size:51
Alignment explanation
Indices: 49406340--49406538 Score: 344
Period size: 51 Copynumber: 3.9 Consensus size: 51
49406330 TGAACCTTAG
* *
49406340 GAATAAAATAGCTTTAGACACAATTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
49406391 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
49406442 GAATAAAATAGCTTTGGACACAAGTATGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
49406493 GAATAAAATAGCTTTGGATACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
49406539 CGTGCATCTG
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 140 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:49410658 original size:46 final size:48
Alignment explanation
Indices: 49410476--49410695 Score: 192
Period size: 46 Copynumber: 4.7 Consensus size: 48
49410466 TCAGTTGTGT
* *
49410476 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACCTA-ACG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACCGAGACGTA
* * ** *
49410522 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAAC-ATTGGGAC-TA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACCGAGACGTA
* * *
49410570 GTGCTAGTGTAAGACATGTCTGGGATATGCATCGGC--CTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTAC-CGAGACGTA
* *
49410617 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTA-CGAGAGGT-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACCGAGACGTA
* *
49410662 GTG--AGTATAAGACCATGTCTGGGACATGGCATCA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCA
49410696 ACACAGATAT
Statistics
Matches: 141, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 8 0.06
45 14 0.10
46 69 0.49
47 28 0.20
48 22 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACCGAGACGTA
Found at i:49411792 original size:20 final size:21
Alignment explanation
Indices: 49411734--49411792 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
49411724 GTTAATGGCC
*
49411734 ACACGGGCGTGTTGCCCTTCT
1 ACACGGGCGTGTTGCCCTACT
*
49411755 ACACAGGCGTGTTGCCCTACT
1 ACACGGGCGTGTTGCCCTACT
*
49411776 ACATGGGCGTG-TGCCCT
1 ACACGGGCGTGTTGCCCT
49411793 GTTCCAGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 6 0.18
21 28 0.82
ACGTcount: A:0.14, C:0.32, G:0.29, T:0.25
Consensus pattern (21 bp):
ACACGGGCGTGTTGCCCTACT
Found at i:49413847 original size:92 final size:93
Alignment explanation
Indices: 49413736--49413905 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
49413726 GCCCATAAGT
* * *
49413736 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49413801 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
49413829 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
49413893 CGAGTTCGGATGC
66 CGAGCTCGGATGC
49413906 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 65 0.92
93 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:49413902 original size:46 final size:46
Alignment explanation
Indices: 49413728--49413902 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
49413718 TGTAACCCGC
* * *
49413728 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
49413774 CCATAAGTGAACTCGGACTTAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
49413824 CTC-T---CGAACTC-GACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
49413866 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49413903 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 8 0.07
43 1 0.01
45 6 0.06
46 77 0.72
47 6 0.06
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:49413921 original size:46 final size:46
Alignment explanation
Indices: 49413733--49413921 Score: 119
Period size: 46 Copynumber: 4.1 Consensus size: 46
49413723 CCCGCCCATA
** * *
49413733 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
*
49413778 AAGTGAACTCGGACTTAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * *
49413828 --CGAACTC-GACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCT-CAACCATCCT
*
49413871 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
49413917 AGTGA
1 AGTGA
49413922 CATGTCACTT
Statistics
Matches: 111, Mismatches: 14, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
44 8 0.07
45 8 0.07
46 79 0.71
47 6 0.05
48 3 0.03
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:49416283 original size:15 final size:15
Alignment explanation
Indices: 49416261--49416337 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
49416251 AAGAAACCGA
49416261 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
49416276 ATAGAGAAA-CC-AG
1 ATAAAGAAATCCAAG
49416289 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
49416304 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
49416320 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49416335 ATA
1 ATA
49416338 CGATACTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 2 0.04
14 10 0.19
15 39 0.75
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49416294 original size:29 final size:29
Alignment explanation
Indices: 49416251--49416337 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
49416241 CAAAGATAAC
49416251 AAGAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCAGAATAAAGAAATCCAAGATA
*
49416279 GAGAAACCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCAGAATAAAGAAATCCAAG-ATA
* * *
49416308 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCAGAATAAAGAAATCCAAGATA
49416338 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.18
29 20 0.40
30 19 0.38
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCAGAATAAAGAAATCCAAGATA
Found at i:49419359 original size:93 final size:93
Alignment explanation
Indices: 49419246--49419416 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49419236 GCCCATAAGT
* *
49419246 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49419311 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* * *
49419339 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
49419404 CGAGTTCGGATGC
66 CAAGCTCGGATGC
49419417 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:49419413 original size:46 final size:46
Alignment explanation
Indices: 49419238--49419413 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
49419228 TGTAACCCGC
* * * *
49419238 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
49419284 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
49419334 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
49419377 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49419414 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:49421955 original size:50 final size:50
Alignment explanation
Indices: 49421899--49421996 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
49421889 CTACTTTTAT
* *
49421899 AAAAGTCCTGCACATGTATAAATTATAGACCATTTGAAATAAAATATATA
1 AAAAGTCCTACACATGCATAAATTATAGACCATTTGAAATAAAATATATA
49421949 AAAAGTCCTACACATGCATAAATTATAGACCATTTGAAATAAAATATA
1 AAAAGTCCTACACATGCATAAATTATAGACCATTTGAAATAAAATATA
49421997 CATTATCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (50 bp):
AAAAGTCCTACACATGCATAAATTATAGACCATTTGAAATAAAATATATA
Found at i:49425059 original size:31 final size:31
Alignment explanation
Indices: 49425012--49425127 Score: 180
Period size: 31 Copynumber: 3.8 Consensus size: 31
49425002 CAATCTCAGT
49425012 ATAT-ACTGGGCCGAAGCCTTTACATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
* *
49425042 ATATCACTGGGCTGAAGCCTTTTCATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
* *
49425073 ATATCATTGGGCCGAAGCCTTTTCATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
*
49425104 ATATCACTGGACCGAAGCCTTTAC
1 ATATCACTGGGCCGAAGCCTTTAC
49425128 TGTAACAGTA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 74 0.95
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTACATTATTC
Found at i:49425360 original size:25 final size:25
Alignment explanation
Indices: 49425332--49425441 Score: 111
Period size: 26 Copynumber: 4.4 Consensus size: 25
49425322 CTAGAGGCCT
*
49425332 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
49425357 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTGGGGCAAA
*
49425383 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-GATAAACTGGGGCAAA
* * *
49425408 AGCCCTTTTTGGT-AACTAGGGC-AT
1 AGCCC-TTTTGATAAACTGGGGCAAA
49425432 AGCCCTTTTG
1 AGCCCTTTTG
49425442 CACTTCCTCC
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.06
24 15 0.19
25 24 0.31
26 33 0.43
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:49425381 original size:26 final size:25
Alignment explanation
Indices: 49425345--49425440 Score: 131
Period size: 26 Copynumber: 3.8 Consensus size: 25
49425335 CTCTTTTAAT
*
49425345 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTTGGTA
*
49425371 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTTGGTA
49425397 AACTGGGGCAAAGCCCTTTTTGGT-
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
49425421 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49425441 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.28
25 14 0.22
26 33 0.51
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:49427691 original size:27 final size:27
Alignment explanation
Indices: 49427652--49427714 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
49427642 GGGGTATTTC
* *
49427652 GGTATTTCAGTATTTTTACCCTACAAG
1 GGTATTTCGGTATTTCTACCCTACAAG
49427679 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTATTTCTACCCTACAAG
49427706 GGTATTTCG
1 GGTATTTCG
49427715 ATAATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTATTTCTACCCTACAAG
Found at i:49427734 original size:27 final size:27
Alignment explanation
Indices: 49427704--49427829 Score: 85
Period size: 27 Copynumber: 4.7 Consensus size: 27
49427694 CTACCCTACA
*
49427704 AGGGTATTTCGATAATTTTGTAAATTG
1 AGGGTATTTCGATAATTTTGTAAATCG
*** *
49427731 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTATTTCGATAATTTTGTAAATCG
* * ** *
49427758 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTGTAAATCG
* ** **
49427785 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGATAATTTTGTAAATCG
49427812 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
49427830 CACAAATCAG
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.05
27 74 0.95
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTGTAAATCG
Found at i:49427843 original size:27 final size:27
Alignment explanation
Indices: 49427813--49428050 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
49427803 TACAGGTCGA
** * *
49427813 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
49427840 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
49427867 GGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
49427894 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
49427921 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
49427948 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
49427975 AGGTATTTTAGTACTTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
49428002 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
49428029 GGGTATTTTGGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
49428051 CTTATCCACT
Statistics
Matches: 186, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:49427871 original size:81 final size:80
Alignment explanation
Indices: 49427752--49428050 Score: 348
Period size: 81 Copynumber: 3.7 Consensus size: 80
49427742 ATAATTCTGT
* * * ** * * * ** *
49427752 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACA-AACAAGGGT
* *
49427817 ATTTCAGTAATTTCAC
65 ATTTTAGTAATTTTAC
* * *
49427833 AAATCAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTTGTAATTTTACAAACCAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-CAAGGGT
*
49427898 ATTTTGGTAATTTTAC
65 ATTTTAGTAATTTTAC
* * *
49427914 AAA-CTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTATAAACAAAAGG
1 AAATC-AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC-AAGGG
*
49427978 TATTTTAGTACTTTTAC
64 TATTTTAGTAATTTTAC
* *
49427995 AAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAA
1 AAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAA
49428051 CTTATCCACT
Statistics
Matches: 189, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.01
81 186 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
AAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACAAGGGTA
TTTTAGTAATTTTAC
Found at i:49433734 original size:27 final size:26
Alignment explanation
Indices: 49433686--49433737 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49433676 GCGAGGTTGC
*
49433686 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49433712 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49433738 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49434470 original size:27 final size:27
Alignment explanation
Indices: 49434408--49434470 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
49434398 ACCTTCCAGG
* *
49434408 GGTATTTCAGTATTTCTACCCTACAAG
1 GGTATTTCGGTATTTCTACCCTACAAC
49434435 GGTATTTCGGTATTTCTACCCTACAAC
1 GGTATTTCGGTATTTCTACCCTACAAC
49434462 GGTATTTCG
1 GGTATTTCG
49434471 ATAATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTATTTCTACCCTACAAC
Found at i:49434545 original size:27 final size:26
Alignment explanation
Indices: 49434515--49434806 Score: 278
Period size: 27 Copynumber: 10.8 Consensus size: 26
49434505 TTTAAATCGG
* *
49434515 GGGTACTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTACAA-ACAA
*** ** *
49434542 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-AACAA
* * *
49434569 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
49434596 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
* *
49434623 GGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
49434650 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
49434677 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
49434704 GTGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* * *
49434731 GGGTATTTTAGTACTTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
49434758 GGGTATTTTGGTAATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
49434785 GGGTATTATGGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
49434807 CTTATCCACT
Statistics
Matches: 225, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 220 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:49434627 original size:54 final size:54
Alignment explanation
Indices: 49434514--49434806 Score: 327
Period size: 54 Copynumber: 5.4 Consensus size: 54
49434504 CTTTAAATCG
* ** * *** ** *
49434514 GGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAATTTTAC-AGGTC
1 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
* * * *
49434567 GAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACTA
1 G-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
*
49434622 GGGGTATTTTTGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
* * * * *
49434676 GGGGTATTTTGGTAATTTTATAAACCAAGTGTATTTTGGTAATTTTATAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
* * * * *
49434730 AGGGTATTTTAGTACTTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACTA
1 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
* *
49434784 AGGGTATTATGGTAATTTTACAA
1 GGGGTATTTTGGTAATTTTACAA
49434807 CTTATCCACT
Statistics
Matches: 207, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.00
54 203 0.98
55 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTA
Found at i:49434627 original size:81 final size:80
Alignment explanation
Indices: 49434514--49434806 Score: 329
Period size: 81 Copynumber: 3.6 Consensus size: 80
49434504 CTTTAAATCG
* * * * ** *
49434514 GGGGTACTTTGGTAATTTTAC-AAGTCAAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTTAGTAATTTTACA-AACAAGGGTATTTT
*
49434578 AGTAATTTCACAAA-TCA
64 AGTAATTTTACAAACT-A
* * * * *
49434595 GGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTTGTAATTTTACAAACCAGGGGTATTTTG
1 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAA-CAAGGGTATTTTA
49434660 GTAATTTTACAAACTA
65 GTAATTTTACAAACTA
* * * * *
49434676 GGGGTATTTTGGTAATTTTATAAACCAAGTGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAA-CAAGGGTATTTTA
*
49434741 GTACTTTTACAAACTA
65 GTAATTTTACAAACTA
* * *
49434757 GGGGTATTTTGGTAATTTTATAAACTAAGGGTATTATGGTAATTTTACAA
1 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAA
49434807 CTTATCCACT
Statistics
Matches: 182, Mismatches: 27, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
81 178 0.98
82 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACAAGGGTATTTTAG
TAATTTTACAAACTA
Found at i:49442627 original size:31 final size:31
Alignment explanation
Indices: 49442588--49442703 Score: 189
Period size: 31 Copynumber: 3.8 Consensus size: 31
49442578 CAATCTCAGT
*
49442588 ATAT-ACTGGGCTGAAGCCTTTACATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
*
49442618 ATATCACTGGGCCGAAGCCTTTTCATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
*
49442649 ATATCACTGGGCCGAAGCCTTTTCATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
*
49442680 ATATCACTGGGTCGAAGCCTTTAC
1 ATATCACTGGGCCGAAGCCTTTAC
49442704 TGTAACAGTA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 4 0.05
31 77 0.95
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTACATTATTC
Found at i:49442936 original size:25 final size:25
Alignment explanation
Indices: 49442908--49442988 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 25
49442898 CTGGAGGCCT
49442908 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
49442933 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
**
49442959 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
49442984 AGCCC
1 AGCCC
49442989 ATTTCGGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
24 1 0.02
25 21 0.41
26 29 0.57
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:49442993 original size:25 final size:26
Alignment explanation
Indices: 49442921--49443016 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
49442911 CTCTTTTAAT
* *
49442921 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
49442947 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
49442973 AACTGGGGC-AAAGCCCATTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
49442997 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
49443017 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.28
25 14 0.22
26 33 0.51
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:49445223 original size:15 final size:15
Alignment explanation
Indices: 49445205--49445237 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
49445195 AAAATCATGA
49445205 AAATT-TCACAGATAT
1 AAATTCTCACAGA-AT
49445220 AAATTCTCACAGAAT
1 AAATTCTCACAGAAT
49445235 AAA
1 AAA
49445238 CACAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATTCTCACAGAAT
Found at i:49454526 original size:16 final size:16
Alignment explanation
Indices: 49454507--49454549 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
49454497 TTATTTTTCT
49454507 TATATATTCTTTTATA
1 TATATATTCTTTTATA
* *
49454523 TATAT-TT-TATTATG
1 TATATATTCTTTTATA
49454537 TATATATTCTTTT
1 TATATATTCTTTT
49454550 TTTACTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATATTCTTTTATA
Found at i:49460863 original size:46 final size:45
Alignment explanation
Indices: 49460741--49460864 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 45
49460731 TAAGATGAGT
*
49460741 GCTAGTGTAAGACATCTCTGGGACATGCATCGGCCTCGAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT-A
* * * *
49460787 GCCAGTGTAAGACATGTATGGGTCATGCATCGG-CTACGAGAGGT-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA
* *
49460831 GTTAGTGTAAGACCATGTCTGAGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
49460865 ACACAAATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
44 10 0.15
45 13 0.20
46 42 0.65
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
Found at i:49464465 original size:43 final size:43
Alignment explanation
Indices: 49464417--49464657 Score: 401
Period size: 43 Copynumber: 5.6 Consensus size: 43
49464407 CCGGTATTAC
*
49464417 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
*
49464460 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
49464503 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
* *
49464546 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
* *
49464589 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
* * *
49464632 GCTTGCTAGGCACAAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
49464658 TAATACCAGC
Statistics
Matches: 188, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 188 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
Found at i:49464700 original size:38 final size:38
Alignment explanation
Indices: 49464655--49464773 Score: 139
Period size: 38 Copynumber: 3.1 Consensus size: 38
49464645 AAAGGCCCAA
* * *
49464655 ATATAATACCAGCACTAGGCCTACGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
*
49464693 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
** * * *
49464731 ATATTTTACCAGTACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTACGGG-ATTTAA-CCCGG
49464771 ATA
1 ATA
49464774 CACATCAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 58 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
Found at i:49469627 original size:20 final size:20
Alignment explanation
Indices: 49469602--49469639 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49469592 TTATGTGTTA
49469602 ATGTTTCATATTTTATATTG
1 ATGTTTCATATTTTATATTG
49469622 ATGTTTCATATTTTATAT
1 ATGTTTCATATTTTATAT
49469640 ACTGTTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (20 bp):
ATGTTTCATATTTTATATTG
Found at i:49483956 original size:65 final size:65
Alignment explanation
Indices: 49483852--49483982 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
49483842 AGTCCCATGC
* *
49483852 ATCAGATAATAATAACATAGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
1 ATCAGATAATAATAACATAGCATGCAATAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
* * *
49483917 ATCAGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTTAGGTCAACCTT
1 ATCAGATAATAATAACATAGCATGCAATAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
49483982 A
1 A
49483983 ACCCTAGGGG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (65 bp):
ATCAGATAATAATAACATAGCATGCAATAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
Found at i:49488155 original size:65 final size:65
Alignment explanation
Indices: 49488048--49488178 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
49488038 AGTCCCATGC
49488048 ATCAGATAATAATAAAATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAAAATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
* * *
49488113 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAATAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAAAATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
49488178 A
1 A
49488179 ACCCTAGGGG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAAAATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:49496760 original size:40 final size:40
Alignment explanation
Indices: 49496676--49496859 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
49496666 TTGAATGCTG
* * * *
49496676 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
49496715 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
49496756 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
49496796 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
49496836 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49496860 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:49496813 original size:80 final size:81
Alignment explanation
Indices: 49496676--49496856 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
49496666 TTGAATGCTG
* * *
49496676 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
49496740 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
49496756 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
49496817 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
49496836 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
49496857 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:49496880 original size:39 final size:38
Alignment explanation
Indices: 49496757--49496906 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
49496747 GTTATTAATT
* ** * *
49496757 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
49496797 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
49496836 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
49496876 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
49496907 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:49509501 original size:24 final size:26
Alignment explanation
Indices: 49509445--49509509 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 26
49509435 CCACAACTCA
*
49509445 TATGAGCTTACTGATATATCAGCTTG
1 TATGAGCTTACTGATATATCAGCTCG
* *
49509471 TAAGAGCTTACTG-T-TTTCAGCTCG
1 TATGAGCTTACTGATATATCAGCTCG
*
49509495 TATGAGCTTATTGAT
1 TATGAGCTTACTGAT
49509510 TCAACTCGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 19 0.58
25 2 0.06
26 12 0.36
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (26 bp):
TATGAGCTTACTGATATATCAGCTCG
Found at i:49512423 original size:24 final size:24
Alignment explanation
Indices: 49512395--49512444 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
49512385 GATTGTTTTG
49512395 AATGAATGTGTGATTGAATAAGTT
1 AATGAATGTGTGATTGAATAAGTT
49512419 AATGAATGTGTGATTGAATAAGTT
1 AATGAATGTGTGATTGAATAAGTT
49512443 AA
1 AA
49512445 ATTTGATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
AATGAATGTGTGATTGAATAAGTT
Found at i:49512899 original size:43 final size:42
Alignment explanation
Indices: 49512744--49512900 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
49512734 ATGTGTTTTG
* * * *
49512744 TGTAAGACCACGTCTGAGATGTTGGCATCAAATTATGTTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATC-GATTATG-ATTACA
* * * * * *
49512788 TGTAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TATGATTACA
* * *
49512830 TGTAAGGCC-CTGTCTGGGATAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TATGATTACA
49512873 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
49512901 TGTATATGCT
Statistics
Matches: 86, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 28 0.33
43 33 0.38
44 25 0.29
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTATGATTACA
Found at i:49520467 original size:13 final size:13
Alignment explanation
Indices: 49520451--49520475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49520441 GTTTAATTAT
49520451 TTAATTAGTTTAG
1 TTAATTAGTTTAG
49520464 TTAATTAGTTTA
1 TTAATTAGTTTA
49520476 ATAAACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAG
Found at i:49520776 original size:27 final size:27
Alignment explanation
Indices: 49520746--49520809 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
49520736 ACTTCAGCCA
49520746 TTTATTTTTCTTACAAATTAATTTAAT
1 TTTATTTTTCTTACAAATTAATTTAAT
* * *** *
49520773 TTTATTATTATTATTTATTAATTTACT
1 TTTATTTTTCTTACAAATTAATTTAAT
49520800 TTT-TTTTTCT
1 TTTATTTTTCT
49520810 CTTGGCAGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTTTTCTTACAAATTAATTTAAT
Found at i:49526752 original size:46 final size:46
Alignment explanation
Indices: 49526697--49526824 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
49526687 GGTTGAGCAT
* * * *
49526697 CCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGC
* * *
49526743 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGC
* *
49526789 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49526825 GTGGGTTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGC
Found at i:49532549 original size:40 final size:40
Alignment explanation
Indices: 49532475--49532738 Score: 322
Period size: 40 Copynumber: 6.6 Consensus size: 40
49532465 AACCCAAGTA
* * * *
49532475 CCTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTC-ACTAGCACAAATG
* *
49532514 GCTTCGGGTCTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
* *
49532554 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
*
49532594 CCTTCGGGACTTAGCCC-AGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGA-ATATAGTCACTAGCACAAATG
*
49532634 CCTTCGGGACTTAGCCC-AGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGA-ATATAGTCACTAGCACAAATG
* *
49532674 CCTTCGGGACTTAG-CCGGATATAGTAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGT--C-ACTAGCACAAATG
*
49532716 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGAATAT
49532739 CATCCGAATA
Statistics
Matches: 203, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
39 18 0.09
40 149 0.73
41 2 0.01
42 26 0.13
43 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
Found at i:49532593 original size:80 final size:80
Alignment explanation
Indices: 49532475--49532736 Score: 361
Period size: 80 Copynumber: 3.3 Consensus size: 80
49532465 AACCCAAGTA
* * * * * *
49532475 CCTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAATGGCTTCGGGTCTTAGCCCGAATATA
1 CCTTCGGGACTTAGCCCGGATGTAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATA
49532538 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
*
49532554 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-AGATGTA
1 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGA-ATATA
49532618 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
* *
49532634 CCTTCGGGACTTAGCCCAGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAG-CCGGATATAG
1 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
*
49532698 TAACTACTCGCACAAATG
66 T--C-ACTAGCACAAATG
49532716 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
49532737 ATCATCCGAA
Statistics
Matches: 164, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
79 21 0.13
80 109 0.66
81 2 0.01
82 32 0.20
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
TCACTAGCACAAATG
Found at i:49535409 original size:46 final size:46
Alignment explanation
Indices: 49535353--49535528 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
49535343 TGGTTGAGCA
*
49535353 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
49535399 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
49535446 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
49535492 -CCTGAGCCCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49535529 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 60 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49535509 original size:93 final size:93
Alignment explanation
Indices: 49535350--49535520 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49535340 GGATGGTTGA
* * * *
49535350 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACCCGTTGAGT
49535415 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
49535443 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCTGAGCCCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACCCGTTGAG
49535507 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
49535521 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACCCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:49537313 original size:5 final size:6
Alignment explanation
Indices: 49537298--49537342 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
49537288 TCCTCCTATC
* * *
49537298 TTTTTA TTTTTA TTTTTG TTTTTA TTTTTG TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
49537343 CAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:49537319 original size:12 final size:12
Alignment explanation
Indices: 49537298--49537337 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
49537288 TCCTCCTATC
*
49537298 TTTTTATTTTTA
1 TTTTTGTTTTTA
49537310 TTTTTGTTTTTA
1 TTTTTGTTTTTA
49537322 TTTTTGTTTTTA
1 TTTTTGTTTTTA
49537334 TTTT
1 TTTT
49537338 CATTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTA
Found at i:49540553 original size:40 final size:40
Alignment explanation
Indices: 49540489--49540713 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
49540479 CAATTGAGGA
* * *
49540489 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTAGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
49540529 TTATTTCCAGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
49540569 TTATTCCCAGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
49540609 TTATTTCCGGGTTAGGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
49540649 CTATTAT-CGGGTTAAGTCTCGAAGGCATTTGTGCTGGTTG
1 TTATT-TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
49540689 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
49540714 TAATTGGGTT
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 159 0.99
41 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Done.