Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 67 of 290
Found at i:20315128 original size:17 final size:17
Alignment explanation
Indices: 20315106--20315141 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20315096 TAATTTTTAA
20315106 TTGCTAAAATATAATAT
1 TTGCTAAAATATAATAT
*
20315123 TTGCTAGAATATAATAT
1 TTGCTAAAATATAATAT
20315140 TT
1 TT
20315142 AGAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (17 bp):
TTGCTAAAATATAATAT
Found at i:20315328 original size:17 final size:17
Alignment explanation
Indices: 20315306--20315340 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20315296 TAGGCTTCAC
20315306 TGGTGCCGCCTATGGCA
1 TGGTGCCGCCTATGGCA
20315323 TGGTGCCGCCTATGGCA
1 TGGTGCCGCCTATGGCA
20315340 T
1 T
20315341 AGGCTTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (17 bp):
TGGTGCCGCCTATGGCA
Found at i:20315371 original size:27 final size:27
Alignment explanation
Indices: 20315323--20315390 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
20315313 GCCTATGGCA
* * *
20315323 TGGTGCCGCCTATGGCATAGGCTTCAC
1 TGGTGCCGCCTCTGCCACAGGCTTCAC
20315350 TGGTGCCGCCTCTGCCACAGGCTTCAC
1 TGGTGCCGCCTCTGCCACAGGCTTCAC
** *
20315377 CAGTGTCGCCTCTG
1 TGGTGCCGCCTCTG
20315391 GCTTGCCCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACAGGCTTCAC
Found at i:20317147 original size:93 final size:92
Alignment explanation
Indices: 20316988--20317204 Score: 296
Period size: 93 Copynumber: 2.3 Consensus size: 92
20316978 TGATGCCATA
* *
20316988 GTATCTTTC-AACTATGGTCTTACTCATTTTC-TGTCATGTTGCCGTGGTATCTTTCAACCATGG
1 GTATCTTTCAAAC-ATGGTCTTACTCA-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGG
* *
20317051 TCTTATTCATA-TCCCCGTCATGTTGTCATG
64 TCTTA--CATATTCCACATCATGTTGTCATG
*
20317081 GTATCTTTCAAACATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAAACATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
* *
20317146 TTACATATTTCATATCATGTTGTCATG
66 TTACATATTCCACATCATGTTGTCATG
* *
20317173 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAAACATGGTCTTACTCATTTCAT
20317205 TTCAGAAAGC
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
91 4 0.04
92 48 0.43
93 56 0.50
94 3 0.03
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
GTATCTTTCAAACATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
TTACATATTCCACATCATGTTGTCATG
Found at i:20317202 original size:46 final size:46
Alignment explanation
Indices: 20316976--20317204 Score: 282
Period size: 46 Copynumber: 5.0 Consensus size: 46
20316966 TTATCTTCGA
* * *
20316976 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * * **
20317022 CATGTTGCCGTGGTATCTTTCAACCATGGTCTTATTCATATCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTCATGT
* * *
20317069 CATGTTGTCATGGTATCTTTCAAACATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
20317115 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATGT
* *
20317161 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
20317205 TTCAGAAAGC
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 118 0.75
47 39 0.25
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:20323595 original size:22 final size:22
Alignment explanation
Indices: 20323570--20323620 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
20323560 GCATTATTAT
20323570 GCACTGAAATGCTATACAGAGA
1 GCACTGAAATGCTATACAGAGA
20323592 GCACTGAAATGCTATACAGAGA
1 GCACTGAAATGCTATACAGAGA
20323614 GCACTGA
1 GCACTGA
20323621 CGTGTTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.18
Consensus pattern (22 bp):
GCACTGAAATGCTATACAGAGA
Found at i:20324914 original size:46 final size:46
Alignment explanation
Indices: 20324854--20325123 Score: 353
Period size: 46 Copynumber: 5.8 Consensus size: 46
20324844 TTCGACATGA
* * * * *
20324854 TGCCATAGTATCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
* ** ** *
20324900 TGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATGTCACGT
* **
20324947 TGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* *
20324993 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* *
20325039 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
20325085 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
20325124 TTCAGAAAGC
Statistics
Matches: 208, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 3 0.01
46 162 0.78
47 43 0.21
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:20327237 original size:11 final size:11
Alignment explanation
Indices: 20327221--20327268 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
20327211 CCTTTTATAC
20327221 TAATAAAATAA
1 TAATAAAATAA
*
20327232 TAATAAAATATCT
1 TAATAAAATA--A
* *
20327245 TATTAAAATAT
1 TAATAAAATAA
20327256 TAATAAAATAA
1 TAATAAAATAA
20327267 TA
1 TA
20327269 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:20328965 original size:16 final size:16
Alignment explanation
Indices: 20328921--20328967 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
20328911 TGTTTTTGCG
20328921 GTTATTATTATTGTT-
1 GTTATTATTATTGTTA
20328936 GATT-TT-TT-TTGTTA
1 G-TTATTATTATTGTTA
20328950 GTTATTATTATTGTTA
1 GTTATTATTATTGTTA
20328966 GT
1 GT
20328968 AAAAAATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 5 0.19
16 10 0.37
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (16 bp):
GTTATTATTATTGTTA
Found at i:20328997 original size:15 final size:15
Alignment explanation
Indices: 20328977--20329005 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20328967 TAAAAAATCC
20328977 TTATTATTATTGTTG
1 TTATTATTATTGTTG
20328992 TTATTATTATTGTT
1 TTATTATTATTGTT
20329006 AGTAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (15 bp):
TTATTATTATTGTTG
Found at i:20329002 original size:41 final size:40
Alignment explanation
Indices: 20328944--20329084 Score: 168
Period size: 41 Copynumber: 3.5 Consensus size: 40
20328934 TTGATTTTTT
20328944 TTGTTAGTTATTATTATTGTTAGTAAAAAATCCTTATTATTA
1 TTGTTAGTTATTATTATTGTTAGTAAAAAA-CC-TATTATTA
20328986 TTGTT-GTTATTATTATTGTTAGTAAAAAA-CTATTATTA
1 TTGTTAGTTATTATTATTGTTAGTAAAAAACCTATTATTA
* *
20329024 -GGATT-GTTGGTTATTATTGTTAGTAAAAAAACCCTA--ATTA
1 TTG-TTAGTT-ATTATTATTGTTAGT-AAAAAA-CCTATTATTA
20329064 TTGTTAGTTATTATTATTGTT
1 TTGTTAGTTATTATTATTGTT
20329085 GATTTATTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
37 1 0.01
38 13 0.15
39 15 0.17
40 23 0.26
41 28 0.32
42 8 0.09
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (40 bp):
TTGTTAGTTATTATTATTGTTAGTAAAAAACCTATTATTA
Found at i:20329081 original size:16 final size:17
Alignment explanation
Indices: 20329060--20329094 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20329050 AAAAACCCTA
20329060 ATTATTGTT-AGTTATT
1 ATTATTGTTGAGTTATT
*
20329076 ATTATTGTTGATTTATT
1 ATTATTGTTGAGTTATT
20329093 AT
1 AT
20329095 AATTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (17 bp):
ATTATTGTTGAGTTATT
Found at i:20330641 original size:21 final size:22
Alignment explanation
Indices: 20330617--20330657 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20330607 GATGCAGTTG
*
20330617 GTGATGATGGTTA-CAATAGTA
1 GTGATCATGGTTATCAATAGTA
*
20330638 GTGATCATTGTTATCAATAG
1 GTGATCATGGTTATCAATAG
20330658 GTCGATAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (22 bp):
GTGATCATGGTTATCAATAGTA
Found at i:20334625 original size:35 final size:33
Alignment explanation
Indices: 20334586--20334662 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 33
20334576 ATAATTTTAA
*
20334586 TAATAATAAACATCTAATAAATATCTTTT-ACTAAT
1 TAATAATAAA-ATAT-A-AAATATCTTTTCACTAAT
20334621 TAATAAT-AAATATAAAATATCTTTTCACTAAT
1 TAATAATAAAATATAAAATATCTTTTCACTAAT
20334653 T-ATACATAAA
1 TAATA-ATAAA
20334663 TAATACAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 14 0.37
32 10 0.26
33 5 0.13
34 2 0.05
35 7 0.18
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (33 bp):
TAATAATAAAATATAAAATATCTTTTCACTAAT
Found at i:20334639 original size:31 final size:32
Alignment explanation
Indices: 20334604--20334664 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
20334594 AACATCTAAT
20334604 AAATATCTTTT-ACTAATTAATA-ATAAATATA
1 AAATATCTTTTCACTAATT-ATACATAAATATA
20334635 AAATATCTTTTCACTAATTATACATAAATA
1 AAATATCTTTTCACTAATTATACATAAATA
20334665 ATACAAACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATATCTTTTCACTAATTATACATAAATATA
Found at i:20334806 original size:30 final size:32
Alignment explanation
Indices: 20334742--20334806 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
20334732 ACTTATTTCA
*
20334742 TAATATAATAATAATTAATATAGTTTATAGCT
1 TAATATAATAATAATTAATATACTTTATAGCT
*
20334774 TAATAATAATAATAA-TAATAT-CTTTTTA-CT
1 TAAT-ATAATAATAATTAATATACTTTATAGCT
20334804 TAA
1 TAA
20334807 AATTTAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.17
31 5 0.17
32 10 0.33
33 10 0.33
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (32 bp):
TAATATAATAATAATTAATATACTTTATAGCT
Found at i:20336144 original size:32 final size:33
Alignment explanation
Indices: 20336103--20336183 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 33
20336093 GGGAGTGGAG
**
20336103 TACTGCGGTGGATACGGGCCGGG-GGTGTGCTA
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
* * *
20336135 TACTGCGGTGGATATGGGCTGGGAGAAGTGCTG
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
*
20336168 TACTGCAGTGGATACG
1 TACTGCGGTGGATACG
20336184 ACCCAAAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 21 0.51
33 20 0.49
ACGTcount: A:0.17, C:0.16, G:0.43, T:0.23
Consensus pattern (33 bp):
TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
Found at i:20338402 original size:13 final size:12
Alignment explanation
Indices: 20338384--20338427 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
20338374 ATTTTTTAAA
20338384 ATATATTATTTT
1 ATATATTATTTT
20338396 CATATATTATTTT
1 -ATATATTATTTT
*
20338409 TTATATTATTTT
1 ATATATTATTTT
20338421 AGTATAT
1 A-TATAT
20338428 AATGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
ATATATTATTTT
Found at i:20338516 original size:131 final size:129
Alignment explanation
Indices: 20338373--20338643 Score: 416
Period size: 131 Copynumber: 2.1 Consensus size: 129
20338363 TTTTGAATCT
* * *
20338373 TATTTTTTAAAATATATTATTTTCATATATTATTTTTTATATTATTTTAGTATATAATGTTTCAA
1 TATTTTTAAAAATATACTATTTTCATATATTATTTTTTATATTATTTTAGTACATAATGTTTCAA
* * *
20338438 ATGTATTATTTTAGTGTTTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGTCCTTTTGTTT
66 ATGTATTATTTTAGTG--TTTTTTATATTAATCTAGTAAATAACCCTAATTTTGGCCATTTGTTT
20338503 G
129 G
* * *
20338504 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
1 TATTTTTAAAAATATACTATTTTCATATATTATTTTTTATATTATTTTAGTACATAATGTTTCAA
* * *
20338569 ATGTATTATTTTAGTGTTTTTTATATTAATCTAGTAAATCATCCTGATTTTGGCCATTTGTTTG
66 ATGTATTATTTTAGTGTTTTTTATATTAATCTAGTAAATAACCCTAATTTTGGCCATTTGTTTG
20338633 TATTTTTAAAA
1 TATTTTTAAAA
20338644 TTTTTAGATT
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
129 53 0.41
131 75 0.59
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (129 bp):
TATTTTTAAAAATATACTATTTTCATATATTATTTTTTATATTATTTTAGTACATAATGTTTCAA
ATGTATTATTTTAGTGTTTTTTATATTAATCTAGTAAATAACCCTAATTTTGGCCATTTGTTTG
Found at i:20339212 original size:150 final size:151
Alignment explanation
Indices: 20338504--20339757 Score: 1862
Period size: 150 Copynumber: 8.3 Consensus size: 151
20338494 CTTTTGTTTG
20338504 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
* * *
20338569 ATGTATTATTTTAGTGTTTTTTATATTAATCTAGTAAATCATCCTGATTTTGGCCATTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGT
*
20338634 ATTTTTAAAATTTTTAGATTT
131 ATTTTTAAAATTTTCAGATTT
* *
20338655 TATTTTTAAAAATATACTATTTTCTTATTTTATTTTTTTTACATTATTTTAGTACATAATGTTTT
1 TATTTTTAAAAATATACTATTTTCGTATTTTA--TTTTTTATATTATTTTAGTACATAATGTTTT
* * * * **
20338720 AAATATATTATTTCAGTGTTTTTTTATATTAATTTAGTAAATAACCCTAAATTTT-TCTTTTTGT
64 AAATGTATTATTTTAGTG-TTTTTTATATTAATTTAGTAAATAACCCT-GATTTTGGCCATTTGT
**
20338784 TTGTATTTTTAAAATTCCCAGATTT
127 TTGTATTTTTAAAATTTTCAGATTT
*
20338809 TATTTTTAAAAATATATTATTTTCGTATTTTA-TTTTTATATTATTTTAGTACATAATGTTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
* ** * * * *
20338873 ATGTATTATTTTAGT-ATTTTTATATTAATTTAGTAAATAACTTTAAATTTGTCCTTTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGT
* *
20338937 ATTTTTAAAATTCTCAAATTT
131 ATTTTTAAAATTTTCAGATTT
* *
20338958 TATTTTTAAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCA
1 TATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTTA
* *
20339023 AATGTATTATTTTAGTG-TTTTTATATTAATTTAGAAAATAACCCTGATTTTGGCCCTTTGTTTG
65 AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTG
*
20339087 TATTTTTAAAATTTTCGGATTT
130 TATTTTTAAAATTTTCAGATTT
* *
20339109 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
*
20339174 ATGTATTATTTTAGTG-TTTTTATATTAATTTAGTAAATACCCCTGATTTTGGCCATTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGT
**
20339238 ATTTTTAAAATTTTTGGATTT
131 ATTTTTAAAATTTTCAGATTT
*
20339259 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
*
20339324 AT-TATTATTTTAGTG-TTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGT
*
20339387 ATTTTTAATATTTTCAGATTT
131 ATTTTTAAAATTTTCAGATTT
* * * *
20339408 TATTTTTTAAAATATATTATTTTCGTATATTATTTTTTATATT-TTTTCGTACATAATGTTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
*
20339472 ATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCCATTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGT
* *
20339537 ATTTTTAATATTTTCGGATTT
131 ATTTTTAAAATTTTCAGATTT
* * *
20339558 TATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCA
1 TATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTTA
* * * *
20339623 AATGTATTATGTTAGTGTTTTTTATATTAATTTAGTAAATAACCCT-AATTTGTCCCTTTGTTTG
65 AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTG
**
20339687 TATTATTT-AAATTTTTGGATTT
130 TATT-TTTAAAATTTTCAGATTT
* * **
20339709 TATTTTTTAAAATAAACTATTTTTATATTTTATTTTTTATATTATTTTA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTA
20339758 AAAAAACCCG
Statistics
Matches: 1019, Mismatches: 71, Indels: 27
0.91 0.06 0.02
Matches are distributed among these distances:
148 26 0.03
149 219 0.21
150 291 0.29
151 283 0.28
152 65 0.06
153 46 0.05
154 84 0.08
155 5 0.00
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (151 bp):
TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGT
ATTTTTAAAATTTTCAGATTT
Found at i:20339438 original size:13 final size:13
Alignment explanation
Indices: 20339420--20339458 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
20339410 TTTTTTAAAA
20339420 TATATTATTTTCG
1 TATATTATTTTCG
*
20339433 TATATTATTTT-T
1 TATATTATTTTCG
20339445 TATATT-TTTTCG
1 TATATTATTTTCG
20339457 TA
1 TA
20339459 CATAATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 8 0.35
13 11 0.48
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (13 bp):
TATATTATTTTCG
Found at i:20339469 original size:25 final size:25
Alignment explanation
Indices: 20339420--20339470 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
20339410 TTTTTTAAAA
* *
20339420 TATATTATTTTCGTATATTATTTTT
1 TATATTATTTTCGTACATAATTTTT
*
20339445 TATATT-TTTTCGTACATAATGTTT
1 TATATTATTTTCGTACATAATTTTT
20339469 TA
1 TA
20339471 AATGTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (25 bp):
TATATTATTTTCGTACATAATTTTT
Found at i:20339824 original size:17 final size:16
Alignment explanation
Indices: 20339792--20339866 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 16
20339782 CCAAAAAAAA
20339792 TTATTTTTTTCATATT
1 TTATTTTTTTCATATT
*
20339808 TTATTTCTTTTCGTATT
1 TTATTT-TTTTCATATT
**
20339825 TTATTTTTTT-ATTAAG
1 TTATTTTTTTCA-TATT
* *
20339841 ATATATTTTTTAATATT
1 TTAT-TTTTTTCATATT
20339858 TTATTTTTT
1 TTATTTTTT
20339867 ATACTATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
16 20 0.43
17 26 0.55
18 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTTTTTCATATT
Found at i:20340329 original size:20 final size:21
Alignment explanation
Indices: 20340304--20340344 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
20340294 CTGTTTCTCC
20340304 TTCTTCTTCT-CTTCTTTCTT
1 TTCTTCTTCTCCTTCTTTCTT
20340324 TTCTTCTTCTCCTTCTTTCTT
1 TTCTTCTTCTCCTTCTTTCTT
20340345 CCCAAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCTTCTTCTCCTTCTTTCTT
Found at i:20340339 original size:17 final size:17
Alignment explanation
Indices: 20340298--20340345 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 17
20340288 TGCCGCCTGT
20340298 TTCTCCTTCTTCTTC-TC
1 TTCTCCTTCTT-TTCTTC
20340315 TTCT--TTCTTTTCTTC
1 TTCTCCTTCTTTTCTTC
20340330 TTCTCCTTC-TTTCTTC
1 TTCTCCTTCTTTTCTTC
20340346 CCAAAATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.11
15 11 0.39
16 7 0.25
17 7 0.25
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTCCTTCTTTTCTTC
Found at i:20354839 original size:15 final size:15
Alignment explanation
Indices: 20354819--20354848 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20354809 GAGCCCTAAG
*
20354819 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
20354834 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
20354849 TTTTTAGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:20355626 original size:18 final size:18
Alignment explanation
Indices: 20355603--20355655 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
20355593 GATAAATCCT
20355603 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
20355621 AATCAAGGATTGACTCCC
1 AATCAAGGATTTACTCCC
*
20355639 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
20355656 TATATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:20357320 original size:16 final size:17
Alignment explanation
Indices: 20357289--20357322 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20357279 GTATTTTCTC
20357289 TGTAAACAACATTTCCT
1 TGTAAACAACATTTCCT
*
20357306 TGTAAA-AATATTTCCT
1 TGTAAACAACATTTCCT
20357322 T
1 T
20357323 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACATTTCCT
Found at i:20363522 original size:16 final size:16
Alignment explanation
Indices: 20363501--20363571 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
20363491 GTTTGGTTCA
20363501 CTGTAATGGAATATG-G
1 CTGTAATGGAATA-GAG
*
20363517 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
20363533 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* * *
20363549 TTGTAATTGAATAGAA
1 CTGTAATGGAATAGAG
20363565 CTGTAAT
1 CTGTAAT
20363572 AAGTAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
15 1 0.02
16 47 0.98
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:20363542 original size:32 final size:32
Alignment explanation
Indices: 20363500--20363571 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
20363490 TGTTTGGTTC
20363500 ACTGTAATGGAATATG-GCTGTAATTGAATAGA
1 ACTGTAATGGAATA-GAGCTGTAATTGAATAGA
* *
20363532 GCTGTAATGGAATAGAGTTGTAATTGAATAGA
1 ACTGTAATGGAATAGAGCTGTAATTGAATAGA
20363564 ACTGTAAT
1 ACTGTAAT
20363572 AAGTAATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (32 bp):
ACTGTAATGGAATAGAGCTGTAATTGAATAGA
Found at i:20363643 original size:44 final size:46
Alignment explanation
Indices: 20363557--20363646 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
20363547 AGTTGTAATT
20363557 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
***
20363603 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
20363647 ATGTTGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 23 0.56
45 3 0.07
46 15 0.37
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:20363840 original size:17 final size:17
Alignment explanation
Indices: 20363818--20363850 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20363808 AATTATTATT
20363818 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20363835 AAATATAATTTAATAA
1 AAATATAATTTAATAA
20363851 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:20364377 original size:17 final size:18
Alignment explanation
Indices: 20364355--20364388 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
20364345 ACGTGGTAGT
20364355 CCAACTAGAT-TTAAGTG
1 CCAACTAGATCTTAAGTG
20364372 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
20364389 ATATCTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:20364447 original size:40 final size:40
Alignment explanation
Indices: 20364396--20364640 Score: 382
Period size: 40 Copynumber: 6.1 Consensus size: 40
20364386 AGTATATCTG
* * *
20364396 TTAATACATACTTCATCCGGGTAAATTATACAATTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
20364436 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * *
20364476 TTAATACATACTTCATCCGGATAAATTATACAGTTTTCTG
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
20364516 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
*
20364556 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
* * *
20364596 TTAATATATACTTCATCCGGATAAATTATACAGTTTTCTA
1 TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
20364636 TTAAT
1 TTAAT
20364641 GTGCTTGTGA
Statistics
Matches: 189, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 189 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (40 bp):
TTAATACATACTTCACCCGGGTAAATTATACAGTTTTCTA
Found at i:20364607 original size:120 final size:120
Alignment explanation
Indices: 20364392--20364640 Score: 444
Period size: 120 Copynumber: 2.1 Consensus size: 120
20364382 CTTAAGTATA
* *
20364392 TCTGTTAATACATACTTCATCCGGGTAAATTATACAATTTTCTGTTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
20364457 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
20364512 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTATTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
*
20364577 TAAATTATACAGTTTTCTATTAATATATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
*
20364632 TCTATTAAT
1 TCTGTTAAT
20364641 GTGCTTGTGA
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 123 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (120 bp):
TCTGTTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:20379424 original size:131 final size:130
Alignment explanation
Indices: 20379289--20379644 Score: 361
Period size: 131 Copynumber: 2.7 Consensus size: 130
20379279 ATGTTCGATC
* ** * * * * ** *
20379289 ATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTTGAATTGTTAAATGCC
1 ATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGTGAATTACTAAATACC
* * * * *
20379354 GAATATTGCCTTTGTTTTAAATAATTTTTAGAAGATATGAATGAAATCTTAAAGGGATACTCAAT
66 GAATATCGCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCAAT
20379419 T
130 T
* * *
20379420 ATTTTGAGCAAACGCGAAATTGCAACCCAACGCGTTAGGGCACGATTCCGTGAATTACTCAATAT
1 ATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGTGAATTACTAAATAC
* * * * * * * *
20379485 CGAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGACATGAATGAAATTTTGAAGTGATATTCGAT
65 CGAATATCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCAAT
20379550 T
130 T
* * * * * *
20379551 ATTTTGAGCAAGCGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAAAAT
1 ATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGTGAATTACTAAATAC
* * * *
20379616 CGAATCTCGTCTTCATTTTGAAGAATTTT
65 CGAATATCGCCTTCGTTTTAAAGAATTTT
20379645 TGAATGAATG
Statistics
Matches: 190, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
131 160 0.84
132 30 0.16
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (130 bp):
ATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGTGAATTACTAAATACC
GAATATCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCAATT
Found at i:20386007 original size:21 final size:21
Alignment explanation
Indices: 20385982--20386025 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20385972 ATTAGTGTAG
*
20385982 TTTACCCTTATAATT-ATTATA
1 TTTACCCTAATAATTCATT-TA
*
20386003 TTTACTCTAATAATTCATTTA
1 TTTACCCTAATAATTCATTTA
20386024 TT
1 TT
20386026 AGTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACCCTAATAATTCATTTA
Found at i:20389762 original size:3 final size:3
Alignment explanation
Indices: 20389754--20389778 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20389744 CTGTAAATAC
20389754 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
20389779 TCCTTGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20392631 original size:19 final size:19
Alignment explanation
Indices: 20392595--20392633 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
20392585 TAGAAGAAAC
20392595 TTGTTATTTGTTTATTTGT
1 TTGTTATTTGTTTATTTGT
* * *
20392614 TTGTTTTTTTTTTTTTTGT
1 TTGTTATTTGTTTATTTGT
20392633 T
1 T
20392634 CTTTAGCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (19 bp):
TTGTTATTTGTTTATTTGT
Found at i:20398104 original size:19 final size:19
Alignment explanation
Indices: 20398077--20398116 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20398067 GACTAGCATT
* *
20398077 TAATGTATAAATGATATAA
1 TAATATATAAAAGATATAA
*
20398096 TAATATATAAAAGATTTAA
1 TAATATATAAAAGATATAA
20398115 TA
1 TA
20398117 CAATAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
TAATATATAAAAGATATAA
Found at i:20398227 original size:9 final size:10
Alignment explanation
Indices: 20398195--20398260 Score: 64
Period size: 10 Copynumber: 6.4 Consensus size: 10
20398185 ATTTGCGAAA
20398195 AATAATATAT
1 AATAATATAT
*
20398205 ACTAA-ATAAT
1 AATAATAT-AT
20398215 AATAATATA-
1 AATAATATAT
20398224 AATAATATAT
1 AATAATATAT
*
20398234 AATAAAATACTT
1 AATAATATA--T
20398246 ATATAATATAT
1 A-ATAATATAT
20398257 AATA
1 AATA
20398261 TGAAAATAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 11 0.24
10 22 0.48
11 4 0.09
12 2 0.04
13 7 0.15
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:20398237 original size:7 final size:7
Alignment explanation
Indices: 20398196--20398261 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 7
20398186 TTTGCGAAAA
20398196 ATAATAT
1 ATAATAT
* *
20398203 ATACTAA
1 ATAATAT
20398210 ATAATA-
1 ATAATAT
20398216 ATAATAT
1 ATAATAT
20398223 AAATAATAT
1 --ATAATAT
*
20398232 ATAATAAA
1 ATAAT-AT
*
20398240 ATACTTAT
1 ATA-ATAT
20398248 ATAATAT
1 ATAATAT
20398255 ATAATAT
1 ATAATAT
20398262 GAAAATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 6 0.13
7 25 0.53
8 8 0.17
9 8 0.17
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:20398248 original size:16 final size:16
Alignment explanation
Indices: 20398194--20398260 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
20398184 AATTTGCGAA
*
20398194 AAATAATATAT-A-CT
1 AAATAATATATAATAT
20398208 AAATAATA-ATAATAT
1 AAATAATATATAATAT
20398223 AAATAATATATAATA-
1 AAATAATATATAATAT
*
20398238 AAATACTTATATAATAT
1 AAATA-ATATATAATAT
20398255 ATAATA
1 A-AATA
20398261 TGAAAATAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
13 2 0.04
14 9 0.20
15 14 0.31
16 15 0.33
17 1 0.02
18 4 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATATATAATAT
Found at i:20400088 original size:206 final size:206
Alignment explanation
Indices: 20399710--20400265 Score: 853
Period size: 206 Copynumber: 2.7 Consensus size: 206
20399700 AAATCTGCTT
*
20399710 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * ** * * *
20399775 GCGAAAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTAAGCACAAGGATACCGAACCATCTT
66 GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** **
20399840 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATTTGCTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGACCTGCTATGTGTCTGCCCTCCGTCGAATATG
*
20399905 GAGACGCCAAA
196 GAGACGACAAA
* *
20399916 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
20399981 ATGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTATAAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
20400046 GGATCTGCTTCAGTATAAACA-CATGAAGGCCAGACCTGCTATGTGTCTGCTCTCCGTCTAATAT
131 GGATCTGCTTCAGTATAAACATC-TGAAGGCCAGACCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
20400110 GGAGATGACAAA
195 GGAGACGACAAA
20400122 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
20400187 GTGAAAGCCAAATCAGTTATGTTTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
20400252 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
20400266 CAAGATCTGC
Statistics
Matches: 316, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
205 1 0.00
206 307 0.97
207 8 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGACCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGACGACAAA
Found at i:20401161 original size:11 final size:11
Alignment explanation
Indices: 20401145--20401169 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20401135 GGCCTCTCCA
20401145 TTTTTCTCTTT
1 TTTTTCTCTTT
20401156 TTTTTCTCTTT
1 TTTTTCTCTTT
20401167 TTT
1 TTT
20401170 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:20401178 original size:9 final size:9
Alignment explanation
Indices: 20401145--20401178 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
20401135 GGCCTCTCCA
*
20401145 TTTTTCTCT
1 TTTTTTTCT
20401154 TTTTTTTCT
1 TTTTTTTCT
*
20401163 CTTTTTTCT
1 TTTTTTTCT
20401172 TTTTTTT
1 TTTTTTT
20401179 TGAAACCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:20407177 original size:50 final size:50
Alignment explanation
Indices: 20407053--20407301 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
20407043 GATAATAACA
* * ** * *
20407053 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
20407104 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
20407154 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
20407204 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
20407259 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
20407302 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:20407231 original size:100 final size:104
Alignment explanation
Indices: 20407052--20407301 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
20407042 TGATAATAAC
**
20407052 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
20407117 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
20407154 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
20407217 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
20407259 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
20407302 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:20407417 original size:13 final size:13
Alignment explanation
Indices: 20407396--20407427 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20407386 GCTTGGATCA
*
20407396 TCATCAAATAAAT
1 TCATAAAATAAAT
20407409 TCATAAAATAAAT
1 TCATAAAATAAAT
20407422 TCATAA
1 TCATAA
20407428 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:20407674 original size:30 final size:30
Alignment explanation
Indices: 20407639--20407696 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20407629 CCTCGACTCT
*
20407639 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
20407669 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
20407697 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:20414766 original size:50 final size:50
Alignment explanation
Indices: 20414642--20414890 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
20414632 GATAATAACA
* * ** * *
20414642 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
20414693 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
20414743 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
20414793 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
20414848 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
20414891 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:20414820 original size:100 final size:104
Alignment explanation
Indices: 20414641--20414890 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
20414631 TGATAATAAC
**
20414641 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
20414706 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
20414743 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
20414806 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
20414848 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
20414891 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:20415006 original size:13 final size:13
Alignment explanation
Indices: 20414985--20415016 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20414975 GCTTGGATCA
*
20414985 TCATCAAATAAAT
1 TCATAAAATAAAT
20414998 TCATAAAATAAAT
1 TCATAAAATAAAT
20415011 TCATAA
1 TCATAA
20415017 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:20415263 original size:30 final size:30
Alignment explanation
Indices: 20415228--20415285 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20415218 CCTCGACTCT
*
20415228 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
20415258 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
20415286 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:20422451 original size:19 final size:19
Alignment explanation
Indices: 20422424--20422463 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20422414 GACTAGCATT
* *
20422424 TAATGTATAAATGATATAA
1 TAATATATAAAAGATATAA
*
20422443 TAATATATAAAAGATTTAA
1 TAATATATAAAAGATATAA
20422462 TA
1 TA
20422464 CAATAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
TAATATATAAAAGATATAA
Found at i:20422572 original size:26 final size:24
Alignment explanation
Indices: 20422540--20422663 Score: 76
Period size: 26 Copynumber: 4.9 Consensus size: 24
20422530 AATTTGCGAA
20422540 AAATAATATATAATAAATAATAATAT
1 AAATAATATATAATAAA-AATAAT-T
* *
20422566 AAATAATACATAAT-AAAATACTT
1 AAATAATATATAATAAAAATAATT
*
20422589 ATATAATATATAATATGAAAATAAGGTT
1 AAATAATATATAATA--AAAATAA--TT
* * *
20422617 AAA-AA-ATAAAACAAATAACAA-T
1 AAATAATATATAATAAA-AATAATT
20422639 ATAATATATATTATAATAAAAATAA
1 A-AATA-ATA-TATAATAAAAATAA
20422664 ATATATAGGG
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
22 2 0.03
23 15 0.20
24 8 0.11
25 7 0.09
26 30 0.40
27 9 0.12
28 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAATATATAATAAAAATAATT
Found at i:20424109 original size:17 final size:18
Alignment explanation
Indices: 20424078--20424111 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20424068 ATTCATCGTA
*
20424078 AATATGAAATGTATAAAT
1 AATATGAAATATATAAAT
20424096 AATAT-AAATATATAAA
1 AATATGAAATATATAAA
20424112 ACAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
AATATGAAATATATAAAT
Found at i:20429387 original size:51 final size:50
Alignment explanation
Indices: 20429316--20429475 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
20429306 CTGATCACAT
20429316 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
20429367 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * * *
20429417 TTGTCACTTATCACTGATCAGATAAGTGTAGTTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
20429468 TTGTCACT
1 TTATCACT
20429476 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 45 0.45
51 55 0.55
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:20442555 original size:19 final size:19
Alignment explanation
Indices: 20442531--20442577 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
20442521 AATGCCTCTT
*
20442531 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
20442550 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
20442569 TATGCATTA
1 TTTGCATTA
20442578 AATTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:20450898 original size:130 final size:130
Alignment explanation
Indices: 20450715--20451011 Score: 373
Period size: 130 Copynumber: 2.3 Consensus size: 130
20450705 TATTATCGCG
* * * * * *
20450715 AATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAATCTTATCTCCCTGAAGATG
1 AATCTTATCTCTTTGAAATTGCAGTAGAGCAGATTAAAGCCACTAACCTTATCTCCCTAAAGATG
* * * *
20450780 TAGTGGAG-GTTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGATAGC
66 CAGTGGAGAGTTGAAGTTACAAGTCTTATCTCCCTGAAG-AGCAGTGGAACAAATTGAAGATAGC
20450844 A
130 A
* * *
20450845 AATCTTATCTCTTTGAAATTGCAGTAGAGCATATTAAAGCTA-TAAACCTTATCTCCCTAAAGTT
1 AATCTTATCTCTTTGAAATTGCAGTAGAGCAGATTAAAGCCACT-AACCTTATCTCCCTAAAGAT
*
20450909 GCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGAGCAGTGGAACAAATTTAAGATA
65 GCAGTGGAG--AGTTGAAGTTACAAGTCTTATCTCCCTGAAGAGCAGTGGAACAAATTGAAGATA
20450974 GCA
128 GCA
* * * * *
20450977 AATCTTATCTCTCTGAAGTTACAGCAAAGCAGATT
1 AATCTTATCTCTTTGAAATTGCAGTAGAGCAGATT
20451012 GAAGTCATTG
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
129 1 0.01
130 61 0.43
132 52 0.36
133 29 0.20
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (130 bp):
AATCTTATCTCTTTGAAATTGCAGTAGAGCAGATTAAAGCCACTAACCTTATCTCCCTAAAGATG
CAGTGGAGAGTTGAAGTTACAAGTCTTATCTCCCTGAAGAGCAGTGGAACAAATTGAAGATAGCA
Found at i:20450909 original size:89 final size:89
Alignment explanation
Indices: 20450715--20451570 Score: 510
Period size: 89 Copynumber: 9.4 Consensus size: 89
20450705 TATTATCGCG
* * * ** * * *
20450715 AATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAGCCA-CTAATCTTATCTCCCTGAAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCTTGAAGTT
* * *
20450779 GTAGTGGAG--G-TTGAAGTTACA
66 GCAGTGGAGCAGATTAAAGCTACA
* * * * * *
20450800 AGTCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCTTTGAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCTTGAAGTT
* * *
20450865 GCAGTAGAGCATATTAAAGCTATA
66 GCAGTGGAGCAGATTAAAGCTACA
* * * *
20450889 AACCTTATCTCCCTAAAGTTGCAGTGGAGCA-AGTTGAAGTTA-C-AAGTCTTATCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATAGCGAA-TCTTATCTCCTTGAAG
* * * * *
20450951 -AGCAGTGGAACAAATTTAAGATAGCA
64 TTGCAGTGGAGCAGATTAAAGCTA-CA
* * *** * *
20450977 AATCTTATCTCTCTGAAGTTACAGCAAAGCAGATTGAAGTCATTGTGGTGAATCTTATCTCCTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A---TAGCGAATCTTATCTCCTTG
* *
20451042 AAGTTGCAGTAGAGCAGATTAAAGCCACA
61 AAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
20451071 AATCTTATCTTCTTGAAGTTGTAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCTTGAAGTT
** * *
20451136 ATAGTGGAGCAGATTGAAGTTACA
66 GCAGTGGAGCAGATTAAAGCTACA
* * * * *
20451160 AATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAAAATAGCGAATCTTATTTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCTTGAAGTT
* *
20451225 ACAGTGGAACAGATTAAAGCTACAAGTTACA
66 GCAGTGGAGCAGATTAAAG---C----TACA
* * * * * * * *
20451256 AATCTCATCTCCGTGAAGTTGCAGTAGAGCATATTGGAGATAACGAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCTTGAAGTT
* * *
20451321 GTAGTGGAACAGATTAAAACTACAAATTGCA
66 GCAGTGGAGCAGATTAAAGCT----A---CA
* * * * * * *
20451352 AATCTTATCCCCCTGAAGTTGCAGTGGAGCTGATTGAAGAATAGCAAATCTCATTTCCCTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATAGCGAATCTTATCTCCTTGAAGT
* *
20451417 TGC-GATAGAACAGATTAAAGCTACAAGTTACA
65 TGCAG-TGGAGCAGATTAAAG---C----TACA
* * * ** * * * * * * *
20451449 AATTTTAGCTCCCTGAAGTTACAGTAAAGCA-ATTTAAAGCTA-CAAATATTATCTCCCTAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATAGCGAATCTTATCTCCTTGAAGT
* * *
20451512 TACAGTGGGGCAGATTTAAGCTACA
65 TGCAGTGGAGCAGATTAAAGCTACA
* * *
20451537 AATCTTATTTCCCTGAAGTTACAGTGGAACAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
20451571 GAAAGCTATA
Statistics
Matches: 594, Mismatches: 135, Indels: 81
0.73 0.17 0.10
Matches are distributed among these distances:
85 36 0.06
86 24 0.04
87 19 0.03
88 76 0.13
89 154 0.26
92 2 0.00
93 3 0.01
94 47 0.08
95 48 0.08
96 115 0.19
97 67 0.11
100 2 0.00
104 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCTTGAAGTT
GCAGTGGAGCAGATTAAAGCTACA
Found at i:20450940 original size:44 final size:44
Alignment explanation
Indices: 20450715--20451570 Score: 457
Period size: 44 Copynumber: 18.8 Consensus size: 44
20450705 TATTATCGCG
* * * ** *
20450715 AATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* *
20450759 AATCTTATCTCCCTGAAGATGTAGTGGAG--G-TTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
20450800 AGTCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
** * * * * * *
20450845 AATCTTATCTCTTTGAAATTGCAGTAGAGCATATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* *
20450889 AACCTTATCTCCCTAAAGTTGCAGTGGAGCA-AGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGTTACA
* * * * * *
20450933 AGTCTTATCTCCCTGAAG-AGCAGTGGAACAAATTTAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * *** ***
20450977 AATCTTATCTCTCTGAAGTTACAGCAAAGCAGATTGAAGTCATTGTGGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----T-T-ACA
* * * **
20451027 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * *
20451071 AATCTTATCTTCTTGAAGTTGTAGTGGAGCAAATTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTACA
**
20451116 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * ** *
20451160 AATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAAAATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * *
20451205 AATCTTATTTCCTTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTACA
* * * * * * *
20451256 AATCTCATCTCCGTGAAGTTGCAGTAGAGCATATTGGAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTACA
* * * * * *
20451301 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAACTACAAATTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----T-GAAGTTACA
* * *
20451352 AATCTTATCCCCCTGAAGTTGCAGTGGAGCTGATTGAAGAATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTA-CA
* * * * *
20451398 AATCTCATTTCCCTAAAGTTGC-GATAGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATT---G----AAGTTACA
* * * ** * *
20451449 AATTTTAGCTCCCTGAAGTTACAGTAAAGCA-ATTTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGTTACA
* * * * * * *
20451493 AATATTATCTCCCTAAATTTACAGTGGGGCAGATTTAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * *
20451537 AATCTTATTTCCCTGAAGTTACAGTGGAACAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
20451571 GAAAGCTATA
Statistics
Matches: 611, Mismatches: 157, Indels: 88
0.71 0.18 0.10
Matches are distributed among these distances:
41 32 0.05
42 1 0.00
43 19 0.03
44 246 0.40
45 149 0.24
46 29 0.05
48 2 0.00
49 1 0.00
50 36 0.06
51 85 0.14
52 8 0.01
53 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
Found at i:20451147 original size:139 final size:138
Alignment explanation
Indices: 20450892--20451155 Score: 323
Period size: 139 Copynumber: 1.9 Consensus size: 138
20450882 AGCTATAAAC
* * ** *
20450892 CTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGAGCAGT
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAAGTTAAAGCCACAAATCTTATCTCCCTGAAGAGCAGT
* * *
20450957 GGAACAAATTTAAGATAGCAAATCTTATCTCTCTGAAGTTACAGCAAAGCAGATTGAAGTCATTG
66 GGAACAAATTGAAGATAACAAATCTTATCTCCCTGAAGTTACAGCAAAGCAGATTGAAGTCATTG
20451022 TGGTGAAT
131 TGGTGAAT
* * * * * *
20451030 CTTATCTCCTTGAAGTTGCAGTAGAGC-AGATTAAAGCCACAAATCTTATCTTCTTGAAGTTGTA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAAG-TTAAAGCCACAAATCTTATCTCCCTGAAG-AGCA
* * * ***
20451094 GTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGT
64 GTGGAACAAATTGAAGATAACAAATCTTATCTCCCTGAAGTTACAGCAAAGCAGATTGAAGT
20451156 TACAAATCTT
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
137 2 0.02
138 47 0.45
139 55 0.53
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (138 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAAGTTAAAGCCACAAATCTTATCTCCCTGAAGAGCAGT
GGAACAAATTGAAGATAACAAATCTTATCTCCCTGAAGTTACAGCAAAGCAGATTGAAGTCATTG
TGGTGAAT
Found at i:20451316 original size:185 final size:185
Alignment explanation
Indices: 20450715--20451556 Score: 518
Period size: 185 Copynumber: 4.6 Consensus size: 185
20450705 TATTATCGCG
* * ** * *
20450715 AATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAG-CCACTAATCTTATCTCCCTGAAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCA-ATTGAAGATAACGAATCTTATCTCCCTGAAGTT
* * * * * * * *
20450779 GTAGTGGAG--G-TTGAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAG-A
65 ATAGTGGAGCAGATTCAAGTTACAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAAGAA
* * ** * * *
20450840 TAGCAAATCTTATCTCTTTGAAA-TTGC-AGTAGAGCATATTAAAGCT---A--T--A
130 TAGCAAATCTCATTTCCCT-AAAGTTACGA-TAGAACAGATTAAAGCTACAAGTTACA
* * * *
20450889 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAG-TTAC-AAGTCTTATCTCCCTGAAG-
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAA-TTGAAGATAACGAA-TCTTATCTCCCTGAAGT
* * * * * * * * ** *
20450951 -AGCAGTGGAACAAATTTAAGATAGCAAATCTTATCTCTCTGAAGTTACAGCAAAGCAGATTGAA
64 TA-TAGTGGAGCAGATTCAAGTTA-CAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAA
* * ** * * * * * *
20451015 GTCATTGTGGTGAATCTTATCTCCTTGAAGTTGC-AGTAGAGCAGATTAAAGC--C-----ACA
127 G--A--ATAGCAAATCTCATTTCCCTAAAGTTACGA-TAGAACAGATTAAAGCTACAAGTTACA
* * * *
20451071 AATCTTATCTTCTTGAAGTTGTAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGC-AATTGAAGATAACGAATCTTATCTCCCTGAAGTT
*
20451136 ATAGTGGAGCAGATTGAAGTTACAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAA-AA
65 ATAGTGGAGCAGATTCAAGTTACAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAAGAA
* * * * *
20451200 TAGCGAATCTTATTTCCTTGAAGTTAC-AGTGGAACAGATTAAAGCTACAAGTTACA
130 TAGCAAATCTCATTTCCCTAAAGTTACGA-TAGAACAGATTAAAGCTACAAGTTACA
* * * *
20451256 AATCTCATCTCCGTGAAGTTGCAGTAGAGCATATTGGAGATAACGAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCA-ATTGAAGATAACGAATCTTATCTCCCTGAAGTT
* * * * ** * * *
20451321 GTAGTGGAACAGATTAAAACTACAAATTGCAAATCTTATCCCCCTGAAGTTGCAGTGGAGCTGAT
65 ATAGTGGAGCAGA-T-----T-CAAGTTACAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGAT
*
20451386 TGAAGAATAGCAAATCTCATTTCCCTAAAGTTGCGATAGAACAGATTAAAGCTACAAGTTACA
123 TGAAGAATAGCAAATCTCATTTCCCTAAAGTTACGATAGAACAGATTAAAGCTACAAGTTACA
* * * * * * * * * *
20451449 AATTTTAGCTCCCTGAAGTTACAGTAAAGCAATTTAAAGCT-ACAAATATTATCTCCCTAAATTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAA-TTGAAGATAACGAATCTTATCTCCCTGAAGTT
* * * *
20451513 ACAGTGGGGCAGATTTAAGCTACAAATCTTATTTCCCTGAAGTT
65 ATAGTGGAGCAGATTCAAGTTACAAATCTTATTTCCCTGAAGTT
20451557 ACAGTGGAAC
Statistics
Matches: 530, Mismatches: 99, Indels: 67
0.76 0.14 0.10
Matches are distributed among these distances:
173 9 0.02
174 50 0.09
176 7 0.01
177 33 0.06
178 39 0.07
180 2 0.00
181 2 0.00
182 68 0.13
183 55 0.10
184 19 0.04
185 94 0.18
186 2 0.00
191 2 0.00
192 67 0.13
193 80 0.15
194 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (185 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAATTGAAGATAACGAATCTTATCTCCCTGAAGTTA
TAGTGGAGCAGATTCAAGTTACAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAAGAAT
AGCAAATCTCATTTCCCTAAAGTTACGATAGAACAGATTAAAGCTACAAGTTACA
Found at i:20451318 original size:96 final size:96
Alignment explanation
Indices: 20451068--20451537 Score: 431
Period size: 96 Copynumber: 5.0 Consensus size: 96
20451058 GATTAAAGCC
* * * * * *
20451068 ACAAATCTTATCTTCTTGAAGTTGTAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAACGAATCTTATTTCCCTGAA
* *
20451133 GTTATAGTGGAGCAGATT---G----AAGTT
66 GTTACAGTGGAACAGATTAAAGCTACAAGTT
* * * * * *
20451157 ACAAATCTTATTTCCCTGAAGTTGCAATAGAGCAGATTGAAAATAGCGAATCTTATTTCCTTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAACGAATCTTATTTCCCTGAA
20451222 GTTACAGTGGAACAGATTAAAGCTACAAGTT
66 GTTACAGTGGAACAGATTAAAGCTACAAGTT
* * *
20451253 ACAAATCTCATCTCCGTGAAGTTGCAGTAGAGCATATTGGAGATAACGAATCTTATTTCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAACGAATCTTATTTCCCTGAA
** * *
20451318 GTTGTAGTGGAACAGATTAAAACTACAAATT
66 GTTACAGTGGAACAGATTAAAGCTACAAGTT
* * * * * * *
20451349 GCAAATCTTATCCCCCTGAAGTTGCAGTGGAGC-TGATTGAAGAATAGCAAATCTCATTTCCCTA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAT-ATTGAAG-ATAACGAATCTTATTTCCCTG
* *
20451413 AAGTTGC-GATAGAACAGATTAAAGCTACAAGTT
64 AAGTTACAG-TGGAACAGATTAAAGCTACAAGTT
* * * * * * * * * *
20451446 ACAAATTTTAGCTCCCTGAAGTTACAGTAAAGCA-ATTTAAAGCT-ACAAATATTATCTCCCTAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCATA-TTGAAGATAACGAATCTTATTTCCCTGA
* ** *
20451509 ATTTACAGTGGGGCAGATTTAAGCTACAA
65 AGTTACAGTGGAACAGATTAAAGCTACAA
20451538 ATCTTATTTC
Statistics
Matches: 309, Mismatches: 59, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
89 70 0.23
92 1 0.00
95 37 0.12
96 126 0.41
97 75 0.24
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (96 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAACGAATCTTATTTCCCTGAA
GTTACAGTGGAACAGATTAAAGCTACAAGTT
Found at i:20458085 original size:14 final size:15
Alignment explanation
Indices: 20458066--20458100 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
20458056 GTTATAAGTT
20458066 TTTTAAAAAT-TATA
1 TTTTAAAAATATATA
*
20458080 TTTTAAAAATATATG
1 TTTTAAAAATATATA
20458095 TTTTAA
1 TTTTAA
20458101 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTTAAAAATATATA
Found at i:20458123 original size:38 final size:38
Alignment explanation
Indices: 20458025--20458133 Score: 116
Period size: 38 Copynumber: 2.9 Consensus size: 38
20458015 ACAATTAATT
* * *
20458025 ATTTTTTAAAATT-TAAAAATTCAAAATATATGTTATA
1 ATTTTTTAAAATTATTAAATTTAAAAATATATGTTATA
* *
20458062 AGTTTTTTAAAA--ATTATATTTTAAAAATATATGTTTTA
1 A-TTTTTTAAAATTATTA-AATTTAAAAATATATGTTATA
* *
20458100 ATTTTTTAAAATTATTAAATTTAATAATCTATGT
1 ATTTTTTAAAATTATTAAATTTAAAAATATATGT
20458134 GGCATTCCAC
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
37 13 0.22
38 42 0.71
39 4 0.07
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (38 bp):
ATTTTTTAAAATTATTAAATTTAAAAATATATGTTATA
Found at i:20459062 original size:22 final size:22
Alignment explanation
Indices: 20459037--20459079 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20459027 TATCCAAACA
20459037 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
20459059 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
20459080 AACAAGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:20459880 original size:32 final size:34
Alignment explanation
Indices: 20459834--20459898 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
20459824 ATAAAAAATG
*
20459834 TATAAAATTATT-AAAGA-TT-AAAATAATATAA
1 TATAAAATTATTAAAAAATTTAAAAATAATATAA
*
20459865 TATAAATATTTTTAAAAAATTTAAAAATAATATA
1 TATAAA-ATTATTAAAAAATTTAAAAATAATATA
20459899 GACAGGCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.21
32 5 0.18
33 4 0.14
34 2 0.07
35 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (34 bp):
TATAAAATTATTAAAAAATTTAAAAATAATATAA
Found at i:20462504 original size:4 final size:4
Alignment explanation
Indices: 20462497--20462554 Score: 55
Period size: 4 Copynumber: 13.2 Consensus size: 4
20462487 AACTAAATAA
20462497 AAAT AAAT AAAT AAAT AAA- ATAAT AGAACCT AATAGT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT A-AA--T AA-A-T AAAT AAAT AAAT
20462546 AAAT AAAT A
1 AAAT AAAT A
20462555 CTATGTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
3 1 0.02
4 35 0.74
5 4 0.09
6 4 0.09
7 3 0.06
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:20462582 original size:3 final size:3
Alignment explanation
Indices: 20462574--20462622 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
20462564 ATGGTTTAAA
* *
20462574 AAT AAT AAT AAT AAT AAT GAT AAT AAT ATT AAT -AT AAAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT
20462620 AAT
1 AAT
20462623 CTAAAGTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:20464347 original size:44 final size:44
Alignment explanation
Indices: 20464280--20464779 Score: 249
Period size: 44 Copynumber: 11.0 Consensus size: 44
20464270 CAACTTGTCG
*
20464280 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTAT
* *
20464324 CTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGGTTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-GATTGCTAT
* ** * * *
20464369 CTTCAATCTGCTCCACTACAACTTCATAGAGATAAGGTTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-GATTGCTAT
* * * * *
20464413 CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTCGCTATAAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT-GC--T-AT
* ** * *
20464461 AACTTCAATCCG-TCACACTGCAACTTCAGGGGTATGAGATTTG-TAA
1 --CTTCAATCTGCTC-CACTGCAACTTCAGGGAAATAAGA-TTGCTAT
* * * * * * *
20464507 CTTCAATCTACTCTACTGTAATTTCAAGGAGATAAGATTTGTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTAT
* * * * *
20464552 TTTTAACCTGCTCCACTGCGACTTCAGGGAAATAAAGTTTGTAATTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAAT-AA----G--A-TTGCTAT
* * * * * **
20464603 CTTTAATCTGATCTACTACAACTTCAGAGAAATAAGATTTTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTAT
* ** * * * * * *
20464647 CTTTAATCTATTCTACTACAACTTTAGAGAGATAAGATTTTCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTAT
* * * *
20464692 CTTCGATCTACTCCAATGCGAA-TTCAGGGAGATAAGA-T-CTAT
1 CTTCAATCTGCTCCACTGC-AACTTCAGGGAAATAAGATTGCTAT
* **
20464734 AACTTCAATCTACTCCACTGCAACTTCAGGGAGGTAAGACTTGCTA
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTA
20464780 CACTAACTTT
Statistics
Matches: 357, Mismatches: 71, Indels: 53
0.74 0.15 0.11
Matches are distributed among these distances:
42 4 0.01
43 8 0.02
44 162 0.45
45 103 0.29
46 7 0.02
47 5 0.01
48 1 0.00
49 2 0.01
50 30 0.08
51 30 0.08
52 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTAT
Found at i:20464448 original size:89 final size:89
Alignment explanation
Indices: 20464280--20464762 Score: 208
Period size: 89 Copynumber: 5.3 Consensus size: 89
20464270 CAACTTGTCG
* * * * *
20464280 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGCTATCTTCAATCTGCTCCACTGTAA
1 CTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGATTGCTAGCTTCAATCTGCTCCACTGCAA
* * *
20464345 CTTCAGGGAAATAAGGTTTGCTAT
66 CTTCAGAGAAATAAGATTCGCTAT
* * * * *
20464369 CTTCAATCTGCTCCACTACAACTTCATAGAGATAAGGTTTG-TAGCTTTAATCTGCTCTACTGCA
1 CTTCAATCTGCTCCACTACAACTTCAGAGAAATAA-GATTGCTAGCTTCAATCTGCTCCACTGCA
* *
20464433 ACTTTAGAGAGATAAGATTCGCTATAAT
65 ACTTCAGAGAAATAAGATTCGC--T-AT
* * * ** * * * *
20464461 AACTTCAATCCG-TCACACTGCAACTTCAGGGGTATGAGATTTG-TAACTTCAATCTACTCTACT
1 --CTTCAATCTGCTC-CACTACAACTTCAGAGAAATAAGA-TTGCTAGCTTCAATCTGCTCCACT
* * * * *
20464524 GTAATTTCA-AGGAGATAAGATTTGTTAT
62 GCAACTTCAGA-GAAATAAGATTCGCTAT
* * * * * * * *
20464552 TTTTAACCTGCTCCACTGCGACTTCAGGGAAATAAAGTTTGTAATTTG-TAGCTTTAATCTGATC
1 CTTCAATCTGCTCCACTACAACTTCAGAGAAAT-AA----G--A-TTGCTAGCTTCAATCTGCTC
* * **
20464616 TACTACAACTTCAGAGAAATAAGATT-TTTAT
58 CACTGCAACTTCAGAGAAATAAGATTCGCTAT
* ** * * * * * * * *
20464647 CTTTAATCTATTCTACTACAACTTTAGAGAGATAAGATTTTCTATCTTCGATCTACTCCAATGCG
1 CTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGA-TTGCTAGCTTCAATCTGCTCCACTGC-
* * ** *
20464712 AA-TTCAGGGAGATAAGA-TCTATAA
64 AACTTCAGAGAAATAAGATTCGCTAT
* *
20464736 CTTCAATCTACTCCACTGCAACTTCAG
1 CTTCAATCTGCTCCACTACAACTTCAG
20464763 GGAGGTAAGA
Statistics
Matches: 297, Mismatches: 76, Indels: 42
0.72 0.18 0.10
Matches are distributed among these distances:
88 5 0.02
89 141 0.47
90 10 0.03
91 3 0.01
92 3 0.01
93 4 0.01
94 66 0.22
95 27 0.09
96 37 0.12
97 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGATTGCTAGCTTCAATCTGCTCCACTGCAA
CTTCAGAGAAATAAGATTCGCTAT
Found at i:20464491 original size:183 final size:186
Alignment explanation
Indices: 20464280--20464641 Score: 419
Period size: 183 Copynumber: 1.9 Consensus size: 186
20464270 CAACTTGTCG
* * *
20464280 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTGCTATCTTCAATCTGCTCCACTGTA
1 CTTCAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTTG-TAACTTCAATCTACTCCACTGTA
* * * * *
20464344 ACTTCAGGGAAATAAGGTTTGCTATCTTCAATCTGCTCCACTACAACTTCATAGAGAT-AAG-G-
65 ACTTCAAGGAAATAAGATTTGCTATCTTCAACCTGCTCCACTACAACTTCAGAGAAATAAAGTGA
* * * *
20464406 TTTGTAGCTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTCGCTATAATAA
130 TTTGTAGCTTTAATCTGATCTACTACAACTTCAGAGAAATAAGATTCGCTATAATAA
** * *
20464463 CTTCAATCCG-TCACACTGCAACTTCAGGGGTATGAGATTTGTAACTTCAATCTACTCTACTGTA
1 CTTCAATCCGTTC-CACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAATCTACTCCACTGTA
* * * * * * * *
20464527 ATTTCAAGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTGCGACTTCAGGGAAATAAAGTTT
65 ACTTCAAGGAAATAAGATTTGCTATCTTCAACCTGCTCCACTACAACTTCAGAGAAATAAAG--T
20464592 GTAATTTGTAGCTTTAATCTGATCTACTACAACTTCAGAGAAATAAGATT
128 G--ATTTGTAGCTTTAATCTGATCTACTACAACTTCAGAGAAATAAGATT
20464642 TTTATCTTTA
Statistics
Matches: 146, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
182 2 0.01
183 95 0.65
184 6 0.04
187 1 0.01
190 42 0.29
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (186 bp):
CTTCAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAATCTACTCCACTGTAA
CTTCAAGGAAATAAGATTTGCTATCTTCAACCTGCTCCACTACAACTTCAGAGAAATAAAGTGAT
TTGTAGCTTTAATCTGATCTACTACAACTTCAGAGAAATAAGATTCGCTATAATAA
Found at i:20464975 original size:15 final size:15
Alignment explanation
Indices: 20464955--20464993 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
20464945 TAACTAGATA
20464955 TGCATGAATGATATT
1 TGCATGAATGATATT
20464970 TGCATGAATGATATT
1 TGCATGAATGATATT
20464985 TGCATGAAT
1 TGCATGAAT
20464994 ACAGAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (15 bp):
TGCATGAATGATATT
Found at i:20465470 original size:14 final size:14
Alignment explanation
Indices: 20465451--20465483 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
20465441 GCAGCATGAG
*
20465451 CTTCTCTGCACAAA
1 CTTCTCTACACAAA
20465465 CTTCTCTACACAAA
1 CTTCTCTACACAAA
20465479 CTTCT
1 CTTCT
20465484 TGATGACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.36, G:0.03, T:0.33
Consensus pattern (14 bp):
CTTCTCTACACAAA
Found at i:20476636 original size:23 final size:22
Alignment explanation
Indices: 20476610--20476666 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
20476600 TATAAAAAGA
*
20476610 AAAATAATAGGTAAAAACCAAAT
1 AAAATAATAGATAAAAA-CAAAT
*
20476633 AAAATAAAATA-ATAAAAATAAAT
1 AAAAT--AATAGATAAAAACAAAT
20476656 AAAATAATAGA
1 AAAATAATAGA
20476667 ACGTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 4 0.14
22 1 0.03
23 14 0.48
24 6 0.21
25 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAATAATAGATAAAAACAAAT
Found at i:20476657 original size:18 final size:19
Alignment explanation
Indices: 20476629--20476664 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20476619 GGTAAAAACC
20476629 AAATAAAATAAAATAATAA
1 AAATAAAATAAAATAATAA
20476648 AAAT-AAATAAAATAATA
1 AAATAAAATAAAATAATA
20476665 GAACGTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAATAAAATAATAA
Found at i:20479769 original size:31 final size:31
Alignment explanation
Indices: 20479731--20479792 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20479721 ACTCCTTGTA
20479731 ATCATTCGAATTCGACATAGTGAATTTTCTT
1 ATCATTCGAATTCGACATAGTGAATTTTCTT
20479762 ATCATTCGAATTCGACATAGTGAATTTTCTT
1 ATCATTCGAATTCGACATAGTGAATTTTCTT
20479793 CTCCTCTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (31 bp):
ATCATTCGAATTCGACATAGTGAATTTTCTT
Found at i:20480396 original size:14 final size:13
Alignment explanation
Indices: 20480379--20480427 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
20480369 GTACTCTTTC
20480379 TTCTTCTTTTCCTT
1 TTCTTCTTTT-CTT
20480393 TTCTTCCTTTT-TAT
1 TTCTT-CTTTTCT-T
20480407 TTCTT-TTTTC-T
1 TTCTTCTTTTCTT
20480418 TTCTTCTTTT
1 TTCTTCTTTT
20480428 TACTCCTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.19
12 8 0.26
13 1 0.03
14 11 0.35
15 5 0.16
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTCTTTTCTT
Found at i:20480410 original size:25 final size:24
Alignment explanation
Indices: 20480382--20480429 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
20480372 CTCTTTCTTC
20480382 TTCTTTTC-CTTTTCTTCCTTTTTAT
1 TTCTTTTCTC-TTTCTT-CTTTTTAT
*
20480407 TTCTTTTTTCTTTCTTCTTTTTA
1 TTCTTTTCTCTTTCTTCTTTTTA
20480430 CTCCTTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 13 0.62
26 1 0.05
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTTCTCTTTCTTCTTTTTAT
Found at i:20481287 original size:105 final size:104
Alignment explanation
Indices: 20481078--20481302 Score: 297
Period size: 105 Copynumber: 2.2 Consensus size: 104
20481068 GACACAGATG
* * * *
20481078 TGTGTCTAGGCCGTGTAACTCACTGTTTGTGATTTAAAACCAGATGGACAAGGACATAGGCGTGT
1 TGTGTCTAGGCCGTGTAACTCACTGTTTATGATTTAAAACCACACGGACAAGGACATAGGCATGT
* * * *
20481143 GCCCAGGCCGTGTGAGTCACACGGGCAGGGACACAGGCA
66 GCCCAGGCCGTATGAGCCACACGGGCAAGAACACAGGCA
* * * * *
20481182 TGTGTTTAGGCCGTGTAACTCACTGTTTATGCTTTAAAGCTACACGGGCAGAGGACATAGGCATG
1 TGTGTCTAGGCCGTGTAACTCACTGTTTATGATTTAAAACCACACGGACA-AGGACATAGGCATG
* **
20481247 TGCCTAGGCCGTATGAGCCACACGGGCAAGAACATGGGCA
65 TGCCCAGGCCGTATGAGCCACACGGGCAAGAACACAGGCA
20481287 TGTGTCTAGGCCGTGT
1 TGTGTCTAGGCCGTGT
20481303 GACATATAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 42 0.41
105 61 0.59
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (104 bp):
TGTGTCTAGGCCGTGTAACTCACTGTTTATGATTTAAAACCACACGGACAAGGACATAGGCATGT
GCCCAGGCCGTATGAGCCACACGGGCAAGAACACAGGCA
Found at i:20482496 original size:27 final size:27
Alignment explanation
Indices: 20482447--20482498 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
20482437 AAGAAAAATT
* *
20482447 ACAATCCTTACTTTATAGGGGTTAACC
1 ACAATCCTAACTTTATAGAGGTTAACC
* *
20482474 ACAATCCTAATTTTCTAGAGGTTAA
1 ACAATCCTAACTTTATAGAGGTTAA
20482499 TTAATAAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
ACAATCCTAACTTTATAGAGGTTAACC
Found at i:20484588 original size:11 final size:11
Alignment explanation
Indices: 20484568--20484610 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
20484558 TTAGAATATA
*
20484568 CCCATTCCTTG
1 CCCATACCTTG
*
20484579 CCCATACCTTT
1 CCCATACCTTG
*
20484590 CCCATACC-TA
1 CCCATACCTTG
20484600 CCCATACCTTG
1 CCCATACCTTG
20484611 GAAAGGTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.19, C:0.47, G:0.05, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:20485169 original size:18 final size:18
Alignment explanation
Indices: 20485148--20485197 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
20485138 GTTTACGGTG
20485148 CTATTCACGTATACGACA
1 CTATTCACGTATACGACA
* * **
20485166 CTATTTATGTATACGGTA
1 CTATTCACGTATACGACA
*
20485184 CTGTTCACGTATAC
1 CTATTCACGTATAC
20485198 AGTAGTTGAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (18 bp):
CTATTCACGTATACGACA
Found at i:20489256 original size:11 final size:11
Alignment explanation
Indices: 20489236--20489289 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
20489226 TTAGAATATA
*
20489236 CCCATTCCTTG
1 CCCATACCTTG
20489247 CCCATACCTTG
1 CCCATACCTTG
* *
20489258 CCCATACATTT
1 CCCATACCTTG
*
20489269 CCCATACC-TA
1 CCCATACCTTG
20489279 CCCATACCTTG
1 CCCATACCTTG
20489290 GAAAGGTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
10 9 0.25
11 27 0.75
ACGTcount: A:0.20, C:0.44, G:0.06, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:20490383 original size:24 final size:23
Alignment explanation
Indices: 20490324--20490406 Score: 112
Period size: 23 Copynumber: 3.6 Consensus size: 23
20490314 ACAACTTTGG
*
20490324 CCCATTTACATTAAACCCTAAAA
1 CCCATTTACATTAAACCCCAAAA
* *
20490347 TCCATTTACATTAAACCCCCAAA
1 CCCATTTACATTAAACCCCAAAA
20490370 CCCATTTTACATTAAACCCCAAAA
1 CCCA-TTTACATTAAACCCCAAAA
* *
20490394 CACAATTACATTA
1 CCCATTTACATTA
20490407 GCCCAACTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
23 31 0.60
24 21 0.40
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (23 bp):
CCCATTTACATTAAACCCCAAAA
Found at i:20491544 original size:15 final size:15
Alignment explanation
Indices: 20491520--20491551 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20491510 TAATTAATTT
*
20491520 TTATATTTTCTATTA
1 TTATACTTTCTATTA
20491535 TTATACTTTCTATTA
1 TTATACTTTCTATTA
20491550 TT
1 TT
20491552 TATTGTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATACTTTCTATTA
Found at i:20491941 original size:27 final size:27
Alignment explanation
Indices: 20491910--20491962 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
20491900 TAACATGTGC
* * *
20491910 TATATGTATTTTTTATTCTATATTATA
1 TATATGTATTTCTAATGCTATATTATA
20491937 TATATGTATTTCTAATGCTATATTAT
1 TATATGTATTTCTAATGCTATATTAT
20491963 GTTTTCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (27 bp):
TATATGTATTTCTAATGCTATATTATA
Found at i:20492242 original size:22 final size:22
Alignment explanation
Indices: 20492217--20492311 Score: 70
Period size: 22 Copynumber: 4.2 Consensus size: 22
20492207 TACTTATTAT
20492217 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATATTATTATGTA
*
20492239 TTTATTTTAA-AATA-TATGTA
1 TTTATTTTAATATTATTATGTA
* *
20492259 TATATTTGTGTAGTATTATTAATGTA
1 TTTA-TT-T-TAATATTATT-ATGTA
* * *
20492285 TATAATTTTTATGTTATTA-GTA
1 T-TTATTTTAATATTATTATGTA
20492307 TTTAT
1 TTTAT
20492312 AATGTATCTT
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
20 9 0.16
21 8 0.14
22 15 0.27
23 3 0.05
24 10 0.18
25 2 0.04
26 8 0.14
27 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (22 bp):
TTTATTTTAATATTATTATGTA
Found at i:20492258 original size:20 final size:22
Alignment explanation
Indices: 20492217--20492265 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
20492207 TACTTATTAT
*
20492217 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATAATATTATGTA
20492239 TTTATTTTAA-AATA-TATGTA
1 TTTATTTTAATAATATTATGTA
*
20492259 TATATTT
1 TTTATTT
20492266 GTGTAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 3 0.12
22 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATTTTAATAATATTATGTA
Found at i:20492264 original size:24 final size:22
Alignment explanation
Indices: 20492193--20492265 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
20492183 CATATATCCT
* *
20492193 TATATTTATTATTATACTTA-T-
1 TATATTTATT-TTAAAATTATTA
*
20492214 TAT-TTTATTTTAATATTATTA
1 TATATTTATTTTAAAATTATTA
*
20492235 TGTATTTATTTTAAAATATATGTA
1 TATATTTATTTTAAAAT-TAT-TA
20492259 TATATTT
1 TATATTT
20492266 GTGTAGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 5 0.12
22 12 0.29
23 3 0.07
24 8 0.20
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (22 bp):
TATATTTATTTTAAAATTATTA
Found at i:20494203 original size:59 final size:59
Alignment explanation
Indices: 20494101--20494236 Score: 227
Period size: 59 Copynumber: 2.3 Consensus size: 59
20494091 CATAGTCAGT
*
20494101 AATATATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATTAA
1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
* *
20494161 AATAATTTTTACAAAAATATTCAAAAGAACTTTTATTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
*
20494220 AACAATTTGTACAAAAA
1 AATAATTTGTACAAAAA
20494237 AAAATTCAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
59 67 0.94
60 4 0.06
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (59 bp):
AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:20498622 original size:14 final size:14
Alignment explanation
Indices: 20498601--20498640 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
20498591 ACTTTAGATT
*
20498601 TCTATATATTTATA
1 TCTATATATCTATA
*
20498615 TTTATATATCTATA
1 TCTATATATCTATA
20498629 TCTATA-ATCTAT
1 TCTATATATCTAT
20498641 TAATAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (14 bp):
TCTATATATCTATA
Found at i:20498758 original size:23 final size:24
Alignment explanation
Indices: 20498698--20498759 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
20498688 AGTTATTATA
*
20498698 ATTATAATTATAATTTAATAAAAGT
1 ATTATAATT-TAATTTAATAAAAAT
*
20498723 A--ATAA-TTACATTT-TTAAAAAT
1 ATTATAATTTA-ATTTAATAAAAAT
20498744 ATTATAATTTAATTTA
1 ATTATAATTTAATTTA
20498760 TAATTATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
21 9 0.30
22 5 0.17
23 12 0.40
24 3 0.10
25 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTATAATTTAATTTAATAAAAAT
Found at i:20499017 original size:31 final size:30
Alignment explanation
Indices: 20498952--20499046 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 30
20498942 GGAATTTGAT
* *
20498952 ACATG-AATTTTGATTTGATGCAATTATAC
1 ACATGAAATTTTAATTTGATTCAATTATAC
* *
20498981 ACATGAAATTTTAATTATGATTCAAATATAT
1 ACATGAAATTTTAATT-TGATTCAATTATAC
***
20499012 ACATGAAACTTTCCTTTTGATTCAATTATAC
1 ACATGAAA-TTTTAATTTGATTCAATTATAC
20499043 ACAT
1 ACAT
20499047 TTAAAGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 5 0.09
30 9 0.17
31 35 0.65
32 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (30 bp):
ACATGAAATTTTAATTTGATTCAATTATAC
Found at i:20506613 original size:21 final size:21
Alignment explanation
Indices: 20506566--20506614 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
20506556 TAAGAGTTGT
* * *
20506566 TTTTAATTTAATATATTATTT
1 TTTTATTTTAATATATAATTA
*
20506587 TTTTATTTTATTATATAATTA
1 TTTTATTTTAATATATAATTA
20506608 TTTTATT
1 TTTTATT
20506615 AAATTATCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTTAATATATAATTA
Found at i:20506620 original size:21 final size:21
Alignment explanation
Indices: 20506577--20506621 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20506567 TTTAATTTAA
* * **
20506577 TATATTATTTTTTTATTTTAT
1 TATATAATTATTTTATTAAAT
20506598 TATATAATTATTTTATTAAAT
1 TATATAATTATTTTATTAAAT
20506619 TAT
1 TAT
20506622 CTAAATAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATAATTATTTTATTAAAT
Found at i:20533463 original size:58 final size:61
Alignment explanation
Indices: 20533401--20533550 Score: 168
Period size: 61 Copynumber: 2.5 Consensus size: 61
20533391 GGATACGACA
* * * *
20533401 TAATAATTCTTGAAAGCAAGCAAGATTGAAA-TGTTCATCCC-TTCATAAAGTTAT-TAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTTCATAAAGTTATATAAG
* * *
20533459 TAATAACTCTTGAAAGTAAGCATA-A-TCAAAGCGCTCATCCCTTTTATAAGGTTATGATAAG
1 TAATAATTCTTGAAAGTAAGCA-AGATTCAAAGCGCTCATCCCTTTCATAAAGTTAT-ATAAG
*
20533520 TAATAATTCTAGAAAGTAAGCAAGA-TCAAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAG
20533551 TGTTAGAGGT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
57 4 0.05
58 29 0.38
59 12 0.16
60 1 0.01
61 31 0.40
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (61 bp):
TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTTCATAAAGTTATATAAG
Found at i:20534750 original size:14 final size:14
Alignment explanation
Indices: 20534731--20534761 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
20534721 ATACTTCCAA
20534731 TCAATATTGACATT
1 TCAATATTGACATT
20534745 TCAATATTGACATT
1 TCAATATTGACATT
20534759 TCA
1 TCA
20534762 GCCATGCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (14 bp):
TCAATATTGACATT
Found at i:20540482 original size:16 final size:16
Alignment explanation
Indices: 20540463--20540495 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20540453 TTTTATAATT
*
20540463 TTTTTGAGTATTTTTA
1 TTTTTGAATATTTTTA
20540479 TTTTTGAATATTTTTA
1 TTTTTGAATATTTTTA
20540495 T
1 T
20540496 ACTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (16 bp):
TTTTTGAATATTTTTA
Found at i:20545446 original size:29 final size:29
Alignment explanation
Indices: 20545414--20545475 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
20545404 AAGCACTATA
* * *
20545414 GTGCCATTTTGTTCTGATATTGCACTTCT
1 GTGCCACTATGTTCTGATATTGCACTTCG
* * *
20545443 GTGCTACTATGTTTTGTTATTGCACTTCG
1 GTGCCACTATGTTCTGATATTGCACTTCG
20545472 GTGC
1 GTGC
20545476 ATCTCTGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (29 bp):
GTGCCACTATGTTCTGATATTGCACTTCG
Found at i:20550669 original size:14 final size:15
Alignment explanation
Indices: 20550622--20550672 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
20550612 ATTGGAACGA
*
20550622 TAATAAGTTTTAAATT
1 TAATAAATTTTAAA-T
*
20550638 TAATAAATTTAATTAAT
1 TAATAAATTT--TAAAT
20550655 TAA-AAATTTTAAAT
1 TAATAAATTTTAAAT
20550669 TAAT
1 TAAT
20550673 TACATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 7 0.24
16 15 0.52
17 4 0.14
18 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TAATAAATTTTAAAT
Found at i:20551043 original size:18 final size:19
Alignment explanation
Indices: 20551003--20551043 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
20550993 TTATATTAAC
*
20551003 TATTTAAATGTATTTACAA
1 TATTTAAATGTATGTACAA
20551022 -ATTTAAATGTATGTA-AA
1 TATTTAAATGTATGTACAA
20551039 TATTT
1 TATTT
20551044 CATCTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (19 bp):
TATTTAAATGTATGTACAA
Found at i:20551218 original size:32 final size:30
Alignment explanation
Indices: 20551182--20551287 Score: 94
Period size: 32 Copynumber: 3.5 Consensus size: 30
20551172 CTATGTATCA
*
20551182 TTAAAATTCGAAAACATCATTTATAATTATAT
1 TTAAAATTCTAAAA-ATCATTTAT-ATTATAT
*
20551214 TTAAAATTAT-AAAAT-ATTTCATA-TATCA-
1 TTAAAATTCTAAAAATCATTT-ATATTAT-AT
* *
20551242 TTAAAATTTTAAAGTATCATTTATTATTATAT
1 TTAAAATTCTAAA-AATCATTTA-TATTATAT
20551274 TTAAAATTCTAAAA
1 TTAAAATTCTAAAA
20551288 TATTTTATGT
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
28 12 0.20
29 8 0.13
30 7 0.12
31 10 0.17
32 23 0.38
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAAAATTCTAAAAATCATTTATATTATAT
Found at i:20551246 original size:28 final size:27
Alignment explanation
Indices: 20551214--20551314 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 27
20551204 ATAATTATAT
20551214 TTAAAATTATAAAATATTTCATATATCA
1 TTAAAATTATAAAATATTT-ATATATCA
*
20551242 TTAAAATTTTAAAGTATCATTTATTATTAT-A
1 TTAAAATTATAAA--AT-ATTTA-TA-TATCA
* *
20551273 TTTAAAATTCTAAAATATTTTATGTATCA
1 -TTAAAATTATAAAATA-TTTATATATCA
* *
20551302 TTAGATTTATAAA
1 TTAAAATTATAAA
20551315 TAATTTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
28 25 0.42
29 3 0.05
30 9 0.15
31 7 0.12
32 15 0.25
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (27 bp):
TTAAAATTATAAAATATTTATATATCA
Found at i:20551248 original size:60 final size:60
Alignment explanation
Indices: 20551177--20551304 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 60
20551167 TAACACTATG
20551177 TATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTCATA
1 TATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTCATA
** ** * * * *
20551237 TATCATTAAAATTTTAAAGTATCATTTATTATTATATTTAAAATTCTAAAATATTTTATG
1 TATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTCATA
20551297 TATCATTA
1 TATCATTA
20551305 GATTTATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (60 bp):
TATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTCATA
Found at i:20552206 original size:7 final size:7
Alignment explanation
Indices: 20552194--20552218 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20552184 ATAGCCTAAT
20552194 ATATATA
1 ATATATA
20552201 ATATATA
1 ATATATA
20552208 ATATATA
1 ATATATA
20552215 ATAT
1 ATAT
20552219 TATTTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATATA
Found at i:20552914 original size:30 final size:30
Alignment explanation
Indices: 20552880--20552939 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
20552870 ACTTAACAAG
20552880 TAAATGCCTCTAAAATAATAACAAAATTAA
1 TAAATGCCTCTAAAATAATAACAAAATTAA
* *
20552910 TAAATTCCTTTAAAATAATAACAAAATTAA
1 TAAATGCCTCTAAAATAATAACAAAATTAA
20552940 CAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (30 bp):
TAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:20570787 original size:6 final size:6
Alignment explanation
Indices: 20570776--20570814 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
20570766 CCAAAAGGAA
20570776 TTTGCT TTTGCT TTTGCT TTT-CT TTT-C- TTTGC- TTTGCT T
1 TTTGCT TTTGCT TTTGCT TTTGCT TTTGCT TTTGCT TTTGCT T
20570815 GCAAACAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 3 0.10
5 12 0.39
6 16 0.52
ACGTcount: A:0.00, C:0.18, G:0.13, T:0.69
Consensus pattern (6 bp):
TTTGCT
Found at i:20571268 original size:24 final size:24
Alignment explanation
Indices: 20571241--20571293 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
20571231 TTTCTTTATA
*
20571241 TTATTA-ATTTATATTTAAAAATCT
1 TTATTATATTTA-ATTTAAAAATAT
* *
20571265 TTATAATATTTAATTTAAAATTAT
1 TTATTATATTTAATTTAAAAATAT
20571289 TTATT
1 TTATT
20571294 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTATATTTAATTTAAAAATAT
Found at i:20571394 original size:21 final size:22
Alignment explanation
Indices: 20571360--20571411 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
20571350 TCATTTGTTG
20571360 AATATGTTAAAATTGTTTTATT-T
1 AATAT-TT-AAATTGTTTTATTAT
* *
20571383 ATTATTTAAATTTTTTTATTAT
1 AATATTTAAATTGTTTTATTAT
20571405 AATATTT
1 AATATTT
20571412 GAATGGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.48
22 9 0.36
23 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
AATATTTAAATTGTTTTATTAT
Found at i:20574928 original size:29 final size:29
Alignment explanation
Indices: 20574895--20574961 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
20574885 TGTGTGTACC
** *
20574895 ATGTGAAAAGGGATAACTTCGTTTATCTA
1 ATGTGAAAAGGGATAACTTCGGCTATCGA
* *
20574924 ATGTGAAAATGGATAACTTTGGCTATCGA
1 ATGTGAAAAGGGATAACTTCGGCTATCGA
20574953 ATGTGAAAA
1 ATGTGAAAA
20574962 AGAAAGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.31
Consensus pattern (29 bp):
ATGTGAAAAGGGATAACTTCGGCTATCGA
Found at i:20575197 original size:33 final size:33
Alignment explanation
Indices: 20574982--20575230 Score: 164
Period size: 33 Copynumber: 7.5 Consensus size: 33
20574972 ACCTTATGTA
* * *
20574982 TACCACATGAAAAGGCTATGTGCACTTTGTGTG
1 TACCACTTGAAAAGGGTATGTACACTTTGTGTG
* * * * *
20575015 TA-CACTTGGAAAGGTTAGGTATACTTTGTGTA
1 TACCACTTGAAAAGGGTATGTACACTTTGTGTG
** *
20575047 TACCA-TATGAAAAGGAAGGGTATACACAACTTTGTGTA
1 TACCACT-TG--AA--AAGGGTATGTAC-ACTTTGTGTG
* * * * *
20575085 TACCACTTGAAAA-GGAAAGATACACTATATGAG
1 TACCACTTGAAAAGGGTATG-TACACTTTGTGTG
* *
20575118 TA-CACTTGAAAAGGTTATGTGCACTTTGTGTG
1 TACCACTTGAAAAGGGTATGTACACTTTGTGTG
* * * *
20575150 TACAAATTGGAAAGGGTATGTACACTTCGTGTG
1 TACCACTTGAAAAGGGTATGTACACTTTGTGTG
* * *
20575183 TACCACTTGAAAAGGGAATGTACACCTTGAGTG
1 TACCACTTGAAAAGGGTATGTACACTTTGTGTG
* *
20575216 TACAACTAGAAAAGG
1 TACCACTTGAAAAGG
20575231 AAAGGTCCAT
Statistics
Matches: 162, Mismatches: 43, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
32 47 0.29
33 83 0.51
34 4 0.02
35 1 0.01
36 2 0.01
37 7 0.04
38 17 0.10
39 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (33 bp):
TACCACTTGAAAAGGGTATGTACACTTTGTGTG
Found at i:20578755 original size:22 final size:20
Alignment explanation
Indices: 20578722--20578767 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
20578712 ATTTAGGTTA
20578722 TATT-TAAATATTATATATAAC
1 TATTATAAATATTA-AT-TAAC
*
20578743 TATTATAATTATTAATTAAC
1 TATTATAAATATTAATTAAC
20578763 -ATTAT
1 TATTAT
20578768 GGTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 6 0.26
22 8 0.35
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTATAAATATTAATTAAC
Found at i:20579356 original size:12 final size:12
Alignment explanation
Indices: 20579339--20579369 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20579329 GAAGTAGGGG
20579339 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
20579351 AGAAAAAGGGAA
1 AGAAAAAGAGAA
20579363 AGAAAAA
1 AGAAAAA
20579370 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:20584379 original size:13 final size:13
Alignment explanation
Indices: 20584361--20584386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20584351 AATATTGCAT
20584361 GAAAAATTTTATC
1 GAAAAATTTTATC
20584374 GAAAAATTTTATC
1 GAAAAATTTTATC
20584387 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAAATTTTATC
Found at i:20584869 original size:20 final size:22
Alignment explanation
Indices: 20584839--20584886 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
20584829 GAATATGCTG
*
20584839 TAAATTGAAA-GTTTTTGATAGA
1 TAAA-TGAAAGGTTATTGATAGA
20584861 -AAATGAAAGGTTATTGATAGA
1 TAAATGAAAGGTTATTGATAGA
20584882 TAAAT
1 TAAAT
20584887 CACTTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGGTTATTGATAGA
Found at i:20585575 original size:29 final size:29
Alignment explanation
Indices: 20585542--20585610 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
20585532 TGTGTGTACC
*
20585542 ATGTGAAAAGGGATAGCTTCGGCTATCTA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
*
20585571 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
20585600 ATGTGAAAAGG
1 ATGTGAAAAGG
20585611 AAAGGTATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:20585640 original size:33 final size:33
Alignment explanation
Indices: 20585603--20585781 Score: 173
Period size: 33 Copynumber: 5.5 Consensus size: 33
20585593 CTATCGAATG
*
20585603 TGAAAAGGAAAGGTATACCTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* * ** * *
20585636 TGAAAA-GACTATGTGCACTTTGTGTGTA-CACT
1 TGAAAAGGA-AAGGTATACTTTGTGTATACCACA
* ** *
20585668 TGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* ** *
20585701 TGAAAAAGAAATATATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* * *
20585734 CGAAAAGGAATGGTATACTTTGTGTATACCACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
20585767 TGAAAAGGAAAGGTA
1 TGAAAAGGAAAGGTA
20585782 CACTATATGA
Statistics
Matches: 113, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
32 25 0.22
33 88 0.78
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACA
Done.