Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 15 of 202
Found at i:4700108 original size:143 final size:143
Alignment explanation
Indices: 4699796--4700361 Score: 794
Period size: 143 Copynumber: 4.0 Consensus size: 143
4699786 GATTGAAATC
* * * * *
4699796 ATTATGGCGAATCTTATCTTCCTGAAGTTTCAATGGAGCAGATTGAAGCCACTAGCCTTATCTCT
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * *
4699861 TTGAAGTTGTAGCGGAGTAGACTGAAGACAGC-AATCTTATTTC-CTTGACGTTGCAGTGGAACA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCTC-TGGCGTTGCAGTAGAACA
*
4699924 GATTAAAGTTACAA
130 GATTAAAGCTACAA
*
4699938 ATTATGGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
4700003 CTGAAGTTGCAGCGGAGCAAACTGAAGACAGCGTATCTTATTTCTCTGGCGTTGCAGTAGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTAGAACAG
*
4700068 ATTAAAGCTGCAA
131 ATTAAAGCTACAA
* * * * * *
4700081 ATTATGGCAGATCTTATCTTCCTGAAGTTGTAGTGGAGCATATTGAAGCGACCAGCCCTATCTTC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* *
4700146 CTGAAGTTGCAGTGGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTAGAATAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTAGAACAG
4700211 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * **
4700224 ATTATGGTGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATTCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
4700289 CTGAAGTTGCAGCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGGAGCAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTAGAACAG
*
4700354 ATTGAAGC
131 ATTAAAGC
4700362 CACTAGCCTT
Statistics
Matches: 376, Mismatches: 46, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
142 87 0.23
143 288 0.77
144 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTAGAACAG
ATTAAAGCTACAA
Found at i:4700343 original size:45 final size:45
Alignment explanation
Indices: 4700294--4700430 Score: 125
Period size: 45 Copynumber: 3.1 Consensus size: 45
4700284 TCTCCCTGAA
*
4700294 GTTGCAGCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTAGC
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
* * * * ** * *
4700339 GTTGCAGTGGAGCAGATTGAAG-CCACTAGCCTTATCTCCCT-GAA
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAG-C
** * * *
4700383 GTTGCAGCAAAACAGACTAAAGACAGCGAATCTTATTTCCCTAGC
1 GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
4700428 GTT
1 GTT
4700431 CTAATATAAC
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
43 1 0.01
44 30 0.45
45 35 0.52
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (45 bp):
GTTGCAGCGGAGCAGACTGAAGACAACGAATCTTATTTCCCTAGC
Found at i:4700350 original size:232 final size:232
Alignment explanation
Indices: 4700107--4700531 Score: 591
Period size: 232 Copynumber: 1.8 Consensus size: 232
4700097 TCTTCCTGAA
* * * * *** * *
4700107 GTTGTAGTGGAGCATATTGAAGCGACCAGCCCTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
* * * * * *
4700172 GACAACGAATCTTATTTCTCTGGCGTTGC-AGTAGAATAGATTAAAGCTACAAATTATGGTGGAT
66 GACAACGAATCTTATTTCCCTAGCGTT-CTAATAGAACAGAATAAAGCTACAAATTATGGCGGAT
* * * *
4700236 ATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATTCACCAGCCTTATCTCCCTGAAGTTGCAG
130 ATTATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGTCACCAGCCTTATCTCACTGAAGTTGCAG
4700301 CGGAGTAGACTGAAGACAACGAATCTTATTTCCCTAGC
195 CGGAGTAGACTGAAGACAACGAATCTTATTTCCCTAGC
* *
4700339 GTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
* * * *
4700404 GACAGCGAATCTTATTTCCCTAGCGTTCTAATATAACAGAATAAAGTTACAAATTATGGCGGATC
66 GACAACGAATCTTATTTCCCTAGCGTTCTAATAGAACAGAATAAAGCTACAAATTATGGCGGATA
**
4700469 TTATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGTCACCATTCTTATCTCACTGAAGTTGCA
131 TTATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGTCACCAGCCTTATCTCACTGAAGTTGCA
4700532 ATGGGTTAGG
Statistics
Matches: 165, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
231 1 0.01
232 164 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (232 bp):
GTTGCAGTGGAGCAGATTGAAGCCACCAGCCCTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
GACAACGAATCTTATTTCCCTAGCGTTCTAATAGAACAGAATAAAGCTACAAATTATGGCGGATA
TTATCTTCCTAAAGTTGCAGTGGAGCAAATTGAAGTCACCAGCCTTATCTCACTGAAGTTGCAGC
GGAGTAGACTGAAGACAACGAATCTTATTTCCCTAGC
Found at i:4700406 original size:89 final size:89
Alignment explanation
Indices: 4700250--4700430 Score: 281
Period size: 89 Copynumber: 2.0 Consensus size: 89
4700240 TCTTCCTGAA
** ** ** *
4700250 GTTGCAGTGGAGCAGATTGAATTCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
4700315 GACAACGAATCTTATTTCCCTAGC
66 GACAACGAATCTTATTTCCCTAGC
*
4700339 GTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
1 GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
*
4700404 GACAGCGAATCTTATTTCCCTAGC
66 GACAACGAATCTTATTTCCCTAGC
4700428 GTT
1 GTT
4700431 CTAATATAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (89 bp):
GTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAAAACAGACTAAA
GACAACGAATCTTATTTCCCTAGC
Found at i:4701912 original size:12 final size:14
Alignment explanation
Indices: 4701895--4701933 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
4701885 ACTTTTATGT
4701895 TTTTATTATTA-C-
1 TTTTATTATTATCA
4701907 TTTTATTATTATCA
1 TTTTATTATTATCA
4701921 TTTTATTTATTAT
1 TTTTA-TTATTAT
4701934 TTATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 5 0.21
15 7 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTATTATCA
Found at i:4701917 original size:15 final size:15
Alignment explanation
Indices: 4701896--4701958 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
4701886 CTTTTATGTT
4701896 TTTATTATTACTTTTA
1 TTTATTATTA-TTTTA
*
4701912 -TTATTATCATTTTA
1 TTTATTATTATTTTA
4701926 TTTATTATTTATTTATA
1 TTTATTA-TTATTT-TA
*
4701943 TCTTTTTATATATTTT
1 T-TTATTAT-TATTTT
4701959 CAAACTCTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 5 0.13
17 5 0.13
18 10 0.26
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:4701944 original size:25 final size:27
Alignment explanation
Indices: 4701895--4701956 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
4701885 ACTTTTATGT
4701895 TTTTA-TTATTACTTTTATTATTATCA
1 TTTTATTTATTACTTTTATTATTATCA
*
4701921 TTTTATTTATTA--TTTATT-TATATCT
1 TTTTATTTATTACTTTTATTAT-TATCA
*
4701946 TTTTATATATT
1 TTTTATTTATT
4701957 TTCAAACTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 1 0.03
25 20 0.62
26 5 0.16
27 6 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTATTTATTACTTTTATTATTATCA
Found at i:4703787 original size:23 final size:21
Alignment explanation
Indices: 4703745--4703787 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4703735 ACTTTGTTGC
*
4703745 TTTTTGTTGTTGTTGTCACTA
1 TTTTTGTTGTTATTGTCACTA
4703766 TTTTTGTTGATGTATTGTCACT
1 TTTTTGTTG-T-TATTGTCACT
4703788 GCTTTGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.60
Consensus pattern (21 bp):
TTTTTGTTGTTATTGTCACTA
Found at i:4704740 original size:16 final size:16
Alignment explanation
Indices: 4704687--4704740 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4704677 GGAAATTTAT
*
4704687 ATTTTCCATCCTTATA
1 ATTTTCCATCCTTCTA
* *
4704703 GTTTTCCACCCCTTC-A
1 ATTTTCCA-TCCTTCTA
4704719 ATTTTCCATCCTTCTA
1 ATTTTCCATCCTTCTA
*
4704735 AATTTC
1 ATTTTC
4704741 TTTCCCTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTTTCCATCCTTCTA
Found at i:4709080 original size:16 final size:15
Alignment explanation
Indices: 4709044--4709093 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
4709034 CCAACTAGCA
*
4709044 AAACCCGAATAGCCC
1 AAACCCGAACAGCCC
4709059 AAACCCGAACAGCCC
1 AAACCCGAACAGCCC
**
4709074 AATACCC-TTCAGCCC
1 AA-ACCCGAACAGCCC
4709089 AAACC
1 AAACC
4709094 AATGCCCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 3 0.10
15 24 0.77
16 4 0.13
ACGTcount: A:0.38, C:0.44, G:0.10, T:0.08
Consensus pattern (15 bp):
AAACCCGAACAGCCC
Found at i:4712931 original size:6 final size:6
Alignment explanation
Indices: 4712920--4712951 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4712910 TAATAATTAA
*
4712920 GGGGAG GGGGAG GGGGAG GGGGGG GGGGAG GG
1 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GG
4712952 CTTTGTGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.88, T:0.00
Consensus pattern (6 bp):
GGGGAG
Found at i:4733542 original size:21 final size:21
Alignment explanation
Indices: 4733500--4733547 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4733490 ATGTGGCACA
**
4733500 CACGTGATAGACCCTTACAAG
1 CACGTGATAGACCCCAACAAG
* *
4733521 CACGTGATAGGCCCCAAGAAG
1 CACGTGATAGACCCCAACAAG
4733542 CACGTG
1 CACGTG
4733548 CACCCCAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (21 bp):
CACGTGATAGACCCCAACAAG
Found at i:4736513 original size:19 final size:19
Alignment explanation
Indices: 4736477--4736516 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4736467 CAAATAATAC
*
4736477 TAACATATTTTAATTAATT
1 TAACATATTTTAAATAATT
4736496 TAAC-TATTTTAACATAATT
1 TAACATATTTTAA-ATAATT
4736515 TA
1 TA
4736517 TTCTTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
TAACATATTTTAAATAATT
Found at i:4746173 original size:104 final size:100
Alignment explanation
Indices: 4745997--4746200 Score: 372
Period size: 104 Copynumber: 2.0 Consensus size: 100
4745987 AGAGAAAAGG
4745997 TTGCACTCCAAACAACCATCAAATTTGCACGACACTTATTCATAACTTCTCTCGGTTGTAATACC
1 TTGCACTCCAAACAACCATCAAATTTGCACGACACTTATTCATAACTTCTCTCGGTTGTAATACC
4746062 ATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
66 ATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
4746097 TTGCACTCCAAACAACCATCAAATTTGCACACGTGACACTTATTCATAACTTCTCTCGGTTGTAA
1 TTGCACTCCAAACAACCATCAAATTTG--CAC--GACACTTATTCATAACTTCTCTCGGTTGTAA
4746162 TACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
62 TACCATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
4746201 GGTATTGAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
100 27 0.27
102 3 0.03
104 70 0.70
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (100 bp):
TTGCACTCCAAACAACCATCAAATTTGCACGACACTTATTCATAACTTCTCTCGGTTGTAATACC
ATAGAAATAGAAGAAGAACCTTCGGCAACAACCAA
Found at i:4750832 original size:50 final size:50
Alignment explanation
Indices: 4750756--4750852 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
4750746 TATGATAAAA
* * *
4750756 GATGATAAAAATTGTTATGAATAGCCATCTCGCTTAAGGAGCCTCCTTGT
1 GATGATAAAAATTGTTATGAAAAGCCACCTCGCTTAAGGAACCTCCTTGT
* *
4750806 GATGATAATAATTGTTATGAAAAGCCACCTCGCTTGAGGAACCTCCT
1 GATGATAAAAATTGTTATGAAAAGCCACCTCGCTTAAGGAACCTCCT
4750853 CGTCAGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (50 bp):
GATGATAAAAATTGTTATGAAAAGCCACCTCGCTTAAGGAACCTCCTTGT
Found at i:4772970 original size:44 final size:44
Alignment explanation
Indices: 4772922--4773105 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 44
4772912 AGATTGTAGT
* *
4772922 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACAAA
* * ** * *
4772966 TCTTATCTTTCC-AAG-A-TAGTAGGAAGCAGATTTAAG-CCACTAAG
1 TCTTATC-TCCCTAAGCAGCAGT-GG-AGCAGATCAAAGACGAC-AAA
* * * * * * ** * * *
4773010 CCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAGATTG-TAGA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGA-CGACAAA
4773054 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACAAA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACAAA
4773098 TCTTATCT
1 TCTTATCT
4773106 TTGCAAGATA
Statistics
Matches: 99, Mismatches: 31, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
42 4 0.04
43 9 0.09
44 79 0.80
45 5 0.05
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACAAA
Found at i:4773105 original size:132 final size:132
Alignment explanation
Indices: 4772868--4773532 Score: 918
Period size: 132 Copynumber: 5.1 Consensus size: 132
4772858 CAAACCGGTG
* * * * * *
4772868 AGCCACCAAACCTTGTCTCCCTGAGTGGCAGCGAAGTAGGTTGAAGATTGTAGTTCTTATCTCCC
1 AGCCACCAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
*
4772933 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTAGGAAGCAGATT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
4772998 TA
131 TA
* *
4773000 AGCCACTAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCC
1 AGCCACCAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
* * *
4773065 TAAGCAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTGCAAGATAGTGGGAAGCAGATT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
*
4773130 AA
131 TA
* * * *
4773132 AGCCACTAAGCCTTGTCTCCCTGAA-CGACAGTGGAGTAGGTTGAAAATTGTAGAT-TTGATGTC
1 AGCCACCAAGCCTTGTCTCCCT-AAGCGGCAGCGGAGTAGGTTGAAAATTGTAGATCTT-ATCTC
*
4773195 CCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
64 CCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
4773260 TTTA
129 TTTA
* * * *
4773264 AGCCACCCATCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
1 AGCCACCAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
* * * ** *
4773329 TAAGCAATAGTGGAGCAGATCGAAGAAGAAAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
4773394 TA
131 TA
* * * * *
4773396 AGCCACCAAGCCTAG--------AGCAGCAGTGGAGTAGGTTGAAAATTGTAAATCTTATCTCCT
1 AGCCACCAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
* * *
4773453 TAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGACAGTGGGAAGCAGATT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
4773518 TA
131 TA
4773520 AGCCACCAAGCCT
1 AGCCACCAAGCCT
4773533 AGAGCAGCAG
Statistics
Matches: 482, Mismatches: 47, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
124 112 0.23
131 3 0.01
132 363 0.75
133 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AGCCACCAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
TA
Found at i:4773348 original size:264 final size:262
Alignment explanation
Indices: 4772868--4773766 Score: 1140
Period size: 264 Copynumber: 3.5 Consensus size: 262
4772858 CAAACCGGTG
* ** * * * *
4772868 AGCCACCAAACCTTGTCTCCCTGAGTGGCAGCGAAGTAGGTTGAAGATTGTAGTTCTTATCTCCC
1 AGCCACCAAGCCTTGTCTCCCTGAACGACAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
*
4772933 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTAGGAAGCAGATT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
** * *
4772998 TAAGCCACTAAGCCTTGTCTCCCTAAGCGGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
131 TAAGCCACCCA-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAA-ATTGTAGATCTTATCTC
* * *
4773063 CCTAAGCAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTGCAAGATAGTGGGAAGCAGA
194 CCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGA
*
4773128 TTAA
259 TTTA
* * *
4773132 AGCCACTAAGCCTTGTCTCCCTGAACGACAGTGGAGTAGGTTGAAAATTGTAGAT-TTGATGTCC
1 AGCCACCAAGCCTTGTCTCCCTGAACGACAGCGGAGTAGGTTGAAAATTGTAGATCTT-ATCTCC
*
4773196 CTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGAT
65 CTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGAT
4773261 TTAAGCCACCCATCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCT
130 TTAAGCCACCCA-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG-AAATTGTAGATCTTATCT
* * * *
4773326 CCCTAAGCAATAGTGGAGCAGATCGAAGAAGAAAAATCTTATCTTTCCAAGATAGTGGGAAGTAG
193 CCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAG
4773391 ATTTA
258 ATTTA
* * * * * *
4773396 AGCCACCAAGCCTAG------AGCA-G-CAGTGGAGTAGGTTGAAAATTGTAAATCTTATCTCCT
1 AGCCACCAAGCCTTGTCTCCCTGAACGACAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
* * *
4773453 TAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGACAGTGGGAAGCAGATT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
*
4773518 TAAGCCA-CCA---AG----CCTAGAGCAGCAGCGGAGTA----G--A---T--A--TTATCTCC
131 TAAGCCACCCACCTTGTCTCCCT-GAGCAGCAGCGGAGTAGGTTGAAATTGTAGATCTTATCTCC
* *
4773562 CTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGATAGTGAGAAGTAGAT
195 CTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGAT
4773627 TTA
260 TTA
* *
4773630 AGCCACCAAGCCTTGTCTCCCTGAGC-AGCAGCGGAGTAGGTTAAAAATTGTAGATCTTATCTCC
1 AGCCACCAAGCCTTGTCTCCCTGAACGA-CAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCC
* * *
4773694 CTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGAAGAT
65 CTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGAT
*
4773759 TAAAGCCA
130 TTAAGCCA
4773767 ATAATCCTAT
Statistics
Matches: 568, Mismatches: 54, Indels: 48
0.85 0.08 0.07
Matches are distributed among these distances:
234 84 0.15
236 1 0.00
238 1 0.00
240 1 0.00
241 1 0.00
242 102 0.18
244 1 0.00
247 3 0.01
248 16 0.03
251 1 0.00
255 3 0.01
256 99 0.17
257 3 0.01
258 2 0.00
263 2 0.00
264 246 0.43
265 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (262 bp):
AGCCACCAAGCCTTGTCTCCCTGAACGACAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCC
TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
TAAGCCACCCACCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAATTGTAGATCTTATCTCCC
TAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATT
TA
Found at i:4773637 original size:110 final size:110
Alignment explanation
Indices: 4773444--4773642 Score: 326
Period size: 110 Copynumber: 1.8 Consensus size: 110
4773434 ATTGTAAATC
* * * * * *
4773444 TTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGACAGTGGG
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGACAGTGAG
4773509 AAGCAGATTTAAGCCACCAAGCCTAGAGCAGCAGCGGAGTAGATA
66 AAGCAGATTTAAGCCACCAAGCCTAGAGCAGCAGCGGAGTAGATA
*
4773554 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGATAGTGAG
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGACAGTGAG
*
4773619 AAGTAGATTTAAGCCACCAAGCCT
66 AAGCAGATTTAAGCCACCAAGCCT
4773643 TGTCTCCCTG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 81 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (110 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGACAGTGAG
AAGCAGATTTAAGCCACCAAGCCTAGAGCAGCAGCGGAGTAGATA
Found at i:4773737 original size:242 final size:234
Alignment explanation
Indices: 4773313--4773766 Score: 701
Period size: 242 Copynumber: 1.9 Consensus size: 234
4773303 GTTGAAAATT
* * *
4773313 GTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGAAGAAAAATCTTATCTTTCCAAGA
1 GTAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGAAGAAAAATCTTATATTTCCAAGA
* * *
4773378 TAGTGGGAAGTAGATTTAAGCCACCAAGCCTAGAGCAGCAGTGGAGTAGGTTGAAAATTGTAAAT
66 TAGTGAGAAGTAGATTTAAGCCACCAAGCCTAGAGCAGCAGCGGAGTAGGTTAAAAATTGTAAAT
*
4773443 CTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGACAGTGG
131 CTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGACAGTGG
* *
4773508 GAAGCAGATTTAAGCCACCAAGCCTAGAGCAGCAGCGGA
196 GAAGAAGATTAAAGCCACCAAGCCTAGAGCAGCAGCGGA
* * *
4773547 GTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGA
1 GTAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGAAGAAAAATCTTATATTTCCAAGA
*
4773612 TAGTGAGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAA
66 TAGTGAGAAGTAGATTTAAGCCACCAAG-C----CT---AGAGCAGCAGCGGAGTAGGTTAAAAA
*
4773677 TTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAA
123 TTGTAAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAA
*
4773742 GATAGTGGGAAGAAGATTAAAGCCA
188 GACAGTGGGAAGAAGATTAAAGCCA
4773767 ATAATCCTAT
Statistics
Matches: 197, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
234 86 0.44
235 1 0.01
239 2 0.01
242 108 0.55
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (234 bp):
GTAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGAAGAAAAATCTTATATTTCCAAGA
TAGTGAGAAGTAGATTTAAGCCACCAAGCCTAGAGCAGCAGCGGAGTAGGTTAAAAATTGTAAAT
CTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGACAGTGG
GAAGAAGATTAAAGCCACCAAGCCTAGAGCAGCAGCGGA
Found at i:4773807 original size:132 final size:132
Alignment explanation
Indices: 4773547--4773784 Score: 361
Period size: 132 Copynumber: 1.8 Consensus size: 132
4773537 CAGCAGCGGA
*
4773547 GTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGA
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGA
* * * *
4773612 TAGTGAGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAA
66 TAGTGAGAAGAAGATTAAAGCCAACAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAA
4773677 TT
131 TT
* * * *
4773679 GTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGA
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGA
* * *
4773744 TAGTGGGAAGAAGATTAAAGCCAATAATCC-TATCTCCCTGA
66 TAGTGAGAAGAAGATTAAAGCCAACAAGCCTTATCTCCCTGA
4773785 AGTTGCAGTG
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
131 10 0.11
132 84 0.89
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (132 bp):
GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATATTTCCAAGA
TAGTGAGAAGAAGATTAAAGCCAACAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAA
TT
Found at i:4773905 original size:44 final size:43
Alignment explanation
Indices: 4773853--4774109 Score: 179
Period size: 44 Copynumber: 5.9 Consensus size: 43
4773843 AATCGCATCT
*
4773853 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * * *
4773897 AGTCTTATC-CTCTTGAAGTTGTAGT-GAGGCACACTGAAGATGTCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CA
* *
4773942 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * *
4773985 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AAGCA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * * *
4774028 CAGATTTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CGCATCC
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
4774070 AGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACATAAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TAAGA
4774110 CACTAATCTT
Statistics
Matches: 164, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
40 19 0.12
41 8 0.05
42 6 0.04
43 13 0.08
44 81 0.49
45 34 0.21
46 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:4774139 original size:128 final size:128
Alignment explanation
Indices: 4773944--4774196 Score: 339
Period size: 128 Copynumber: 2.0 Consensus size: 128
4773934 AGATGTCAAA
* * * *
4773944 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGACGATAATCCTATCTCCCCGAAGTTACA
* * * *
4774009 GTGGAGCGGATTAAAAGCACAGATTTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTATCTAAAGTTGCAGAGAACAGATCGCATCCAG
* * *
4774072 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGA-CATAAGAC-ACTAATCTTATTTCCCCGAGGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCA-AAGACGA-TAATCCTATCTCCCCGAAGTTA
* * * *
4774135 CAGTGGAGTGGATTGAAACCGCAGATCTTATCTATCTGAAGTTGCAGAGAACAGATCGCATC
64 CAGTGGAGCGGATTAAAACCACAGATCTTATCTATCTAAAGTTGCAGAGAACAGATCGCATC
4774197 AAATTTGTCT
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
127 3 0.03
128 105 0.97
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGACGATAATCCTATCTCCCCGAAGTTACA
GTGGAGCGGATTAAAACCACAGATCTTATCTATCTAAAGTTGCAGAGAACAGATCGCATCCAG
Found at i:4774687 original size:3 final size:3
Alignment explanation
Indices: 4774679--4774707 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4774669 AAACAGACTT
4774679 TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4774708 GGGTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4775717 original size:45 final size:44
Alignment explanation
Indices: 4775622--4775721 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 44
4775612 TGCTGTTCAA
* *
4775622 TTTAGTTTTTTTATTATTTTCCTAATTAATTTTAATAATGTAATT
1 TTTA-TTTTTTTATTATTTTCCTAATTAATTTTAAAAATATAATT
*
4775667 GTTATTTTTTTATT-TTTT-CTAATT-ATGTTTCAAAACATATATATT
1 TTTATTTTTTTATTATTTTCCTAATTAAT-TTT-AAAA-ATATA-ATT
4775712 TTTATTTTTT
1 TTTATTTTTT
4775722 ATGCGCATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
41 2 0.04
42 9 0.19
43 7 0.15
44 14 0.30
45 15 0.32
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (44 bp):
TTTATTTTTTTATTATTTTCCTAATTAATTTTAAAAATATAATT
Found at i:4786816 original size:30 final size:29
Alignment explanation
Indices: 4786780--4786838 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
4786770 TACGGCCAAG
* * *
4786780 CACACGGATGTGTGTCCGGGCTGTGTGAGC
1 CACACGGACGTGTG-CCAGGCGGTGTGAGC
*
4786810 CACACGGCCGTGTGCCAGGCGGTGTGAGC
1 CACACGGACGTGTGCCAGGCGGTGTGAGC
4786839 AACTGTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.14, C:0.27, G:0.41, T:0.19
Consensus pattern (29 bp):
CACACGGACGTGTGCCAGGCGGTGTGAGC
Found at i:4790409 original size:60 final size:61
Alignment explanation
Indices: 4790337--4790462 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 61
4790327 TGTGCAAGAA
4790337 TCAAGTTAAGTAAGGACTGAATTAATAAGC-ATGCTTATATATTGAACGACTTGTTTTAGG
1 TCAAGTTAAGTAAGGACTGAATTAATAAGCTATGCTTATATATTGAACGACTTGTTTTAGG
*
4790397 TCAAGTTAAGTAAGGACTGAATTAATAAGCATTTTATGCTTATATATTGAATGACTTGTTTTAGG
1 TCAAGTTAAGTAAGGACTGAATTAATAAGC----TATGCTTATATATTGAACGACTTGTTTTAGG
4790462 T
1 T
4790463 TAAGAAAGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
60 30 0.50
65 30 0.50
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (61 bp):
TCAAGTTAAGTAAGGACTGAATTAATAAGCTATGCTTATATATTGAACGACTTGTTTTAGG
Found at i:4790466 original size:60 final size:57
Alignment explanation
Indices: 4790340--4790461 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 57
4790330 GCAAGAATCA
4790340 AGTTAAGTAAGGACTGAATTAATAAGCATGCTTATATATTGAACGACTTGTTTTAGG
1 AGTTAAGTAAGGACTGAATTAATAAGCATGCTTATATATTGAACGACTTGTTTTAGG
*
4790397 TCAAGTTAAGTAAGGACTGAATTAATAAGCATTTTATGCTTATATATTGAATGACTTGTTTTAGG
1 ---AGTTAAGTAAGGACTGAATTAATAAGC-----ATGCTTATATATTGAACGACTTGTTTTAGG
4790462 TTAAGAAAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
60 27 0.48
65 29 0.52
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (57 bp):
AGTTAAGTAAGGACTGAATTAATAAGCATGCTTATATATTGAACGACTTGTTTTAGG
Found at i:4794688 original size:125 final size:125
Alignment explanation
Indices: 4794463--4794780 Score: 555
Period size: 125 Copynumber: 2.5 Consensus size: 125
4794453 AGATAAAATC
4794463 AAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
1 AAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
*
4794528 TAGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCGAATAGTATAAAAAACACTT
66 TAGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACACTT
* * * *
4794588 CAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATTGCGCCCACGTGGATGCGCTTTTGCTATAG
1 AAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
*
4794653 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACACTT
66 TAGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACACTT
* * *
4794713 AAAGCAGGATGCTTTATCATAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACTG
1 AAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
4794778 TAG
66 TAG
4794781 CATGTTTGGG
Statistics
Matches: 180, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 180 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (125 bp):
AAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
TAGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACACTT
Found at i:4797870 original size:35 final size:35
Alignment explanation
Indices: 4797824--4797917 Score: 152
Period size: 35 Copynumber: 2.7 Consensus size: 35
4797814 TCTAAACATT
4797824 TTGTTAGTAAAATTATTAATTATTAATTGAATTAA
1 TTGTTAGTAAAATTATTAATTATTAATTGAATTAA
* *
4797859 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATTAATTATTAATTGAATTAA
*
4797894 TTGTTAGTAAAATTTTTAAATTAT
1 TTGTTAGTAAAATTATT-AATTAT
4797918 ATCATATCAG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
35 49 0.91
36 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (35 bp):
TTGTTAGTAAAATTATTAATTATTAATTGAATTAA
Found at i:4797876 original size:19 final size:19
Alignment explanation
Indices: 4797824--4797912 Score: 66
Period size: 16 Copynumber: 5.0 Consensus size: 19
4797814 TCTAAACATT
4797824 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
* * **
4797843 TTATTAAT-TGA--ATTAA
1 TTGTTAGTAAAATTATTAA
4797859 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
4797878 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
*
4797894 TTGTTAGTAAAATTTTTAA
1 TTGTTAGTAAAATTATTAA
4797913 ATTATATCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
15 3 0.06
16 21 0.41
17 2 0.04
18 2 0.04
19 20 0.39
20 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:4797984 original size:22 final size:21
Alignment explanation
Indices: 4797954--4798054 Score: 98
Period size: 22 Copynumber: 4.7 Consensus size: 21
4797944 AGGATTTTTG
4797954 TTAATGTTAGGGTTTTAGGGTTT
1 TTAA-GTTAGGG-TTTAGGGTTT
** *
4797977 TTAAGTTAAGGACTTAGGGTAT
1 TTAAGTT-AGGGTTTAGGGTTT
*
4797999 TTAAGTTAAGGGCTTAGGGTTT
1 TTAAGTT-AGGGTTTAGGGTTT
*
4798021 TTAAGTTAAAGGTTTAGGGTTT
1 TTAAGTT-AGGGTTTAGGGTTT
4798043 TT--GTTAGGGTTT
1 TTAAGTTAGGGTTT
4798055 TTATTAGGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.09
20 3 0.04
22 53 0.77
23 7 0.10
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (21 bp):
TTAAGTTAGGGTTTAGGGTTT
Found at i:4798051 original size:12 final size:12
Alignment explanation
Indices: 4798034--4798066 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4798024 AGTTAAAGGT
*
4798034 TTAGGGTTTTTG
1 TTAGGGTTTTTA
4798046 TTAGGGTTTTTA
1 TTAGGGTTTTTA
4798058 TTAGGGTTT
1 TTAGGGTTT
4798067 GTCAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.58
Consensus pattern (12 bp):
TTAGGGTTTTTA
Found at i:4798109 original size:8 final size:7
Alignment explanation
Indices: 4798073--4798110 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
4798063 GTTTGTCAAT
4798073 TAAATTA
1 TAAATTA
4798080 TAAATT-
1 TAAATTA
4798086 T-AATTA
1 TAAATTA
4798092 TAAATTA
1 TAAATTA
4798099 TAAATTTA
1 TAAA-TTA
4798107 TAAA
1 TAAA
4798111 ATTTTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.14
6 2 0.07
7 15 0.54
8 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATTA
Found at i:4798158 original size:22 final size:21
Alignment explanation
Indices: 4798124--4798189 Score: 116
Period size: 21 Copynumber: 3.1 Consensus size: 21
4798114 TTAATAAATT
4798124 AGGG-TAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
4798144 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
4798165 AGGGTTTAGGGTTTTTAAGTTA
1 AGGG-TTAGGGTTTTTAAGTTA
4798187 AGG
1 AGG
4798190 TTTGTCAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.09
21 20 0.45
22 20 0.45
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:4798200 original size:126 final size:126
Alignment explanation
Indices: 4798046--4798577 Score: 565
Period size: 126 Copynumber: 4.2 Consensus size: 126
4798036 AGGGTTTTTG
*
4798046 TTAGGGTTTTT-A-TTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATA
1 TTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATA
* * *
4798109 AAATTTTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
66 AAATTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGC
4798170 TTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATA
1 TTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATA
* * *
4798235 AATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTA-GG-ATTT---TTAA-GGC
66 AAATTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGC
* * * * * * *
4798290 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTTAAGTTAAGTTTTGTCAATTAAATTAGAAATTT
1 TTAGGGTTTTTAAGTTAA-GG--T----TTGTCAA-TTAA--ATTATAAATTTAATTATAAA-TT
* * *
4798355 AATTATAATTTAT-AAA-TTT-ATAAATT---TATA-AATTTTTAA-TAAATTAGGTTAGGGTTT
55 -A-TA-AATTTATAAAATTTTAATAAATTAGGT-TAGAGTTTTTAAGTTAA--GGGTTAGGGTTT
*
4798412 TTAAGTTAAGGGT
114 TTAAGTTAAGGGC
4798425 TTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAA
1 TTA-GG-----G-TTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAA
*
4798490 ATTTATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
59 ATTTATAAAATTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
4798555 GGC
124 GGC
4798558 TTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAAGTTAAGG
4798578 GTTTAGGGTT
Statistics
Matches: 337, Mismatches: 31, Indels: 78
0.76 0.07 0.17
Matches are distributed among these distances:
120 20 0.06
121 6 0.02
123 1 0.00
124 14 0.04
125 3 0.01
126 104 0.31
127 9 0.03
128 19 0.06
129 11 0.03
130 21 0.06
131 21 0.06
132 21 0.06
133 32 0.09
134 24 0.07
135 13 0.04
136 2 0.01
139 1 0.00
141 3 0.01
142 12 0.04
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (126 bp):
TTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATA
AAATTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGC
Found at i:4798211 original size:7 final size:7
Alignment explanation
Indices: 4798199--4798238 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4798189 GTTTGTCAAT
4798199 TAAATTA
1 TAAATTA
4798206 TAAATT-
1 TAAATTA
4798212 T-AATTA
1 TAAATTA
4798218 TAAATTA
1 TAAATTA
4798225 TAAATTTA
1 TAAA-TTA
4798233 TAAATT
1 TAAATT
4798239 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:4798284 original size:22 final size:21
Alignment explanation
Indices: 4798251--4798330 Score: 98
Period size: 22 Copynumber: 4.0 Consensus size: 21
4798241 TAATAAATTA
4798251 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
4798272 GGTTA-GG-ATTT---TTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
4798288 GCTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
4798309 GGTCTAGGGTTTTTAAGTTAAG
1 GGT-TAGGGTTTTTAAGTTAAG
4798331 TTTTGTCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
16 9 0.18
17 2 0.04
18 3 0.06
19 3 0.06
20 2 0.04
21 12 0.24
22 18 0.37
ACGTcount: A:0.24, C:0.03, G:0.31, T:0.42
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:4798288 original size:16 final size:16
Alignment explanation
Indices: 4798267--4798303 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4798257 GGTTTTTAAG
*
4798267 TTAAGGGTTAGGATTT
1 TTAAGGCTTAGGATTT
*
4798283 TTAAGGCTTAGGGTTT
1 TTAAGGCTTAGGATTT
4798299 TTAAG
1 TTAAG
4798304 TTAAGGGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.30, T:0.43
Consensus pattern (16 bp):
TTAAGGCTTAGGATTT
Found at i:4798303 original size:37 final size:38
Alignment explanation
Indices: 4798253--4798325 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
4798243 ATAAATTAGG
4798253 TTAGGGTTTTTAAGTTAAGGGT-TAGGATTTTTAAGGC
1 TTAGGGTTTTTAAGTTAAGGGTCTAGGATTTTTAAGGC
*
4798290 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTTAAG
1 TTAGGGTTTTTAAGTTAAGGGTCTAGGATTTTTAAG
4798326 TTAAGTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 22 0.65
38 12 0.35
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.44
Consensus pattern (38 bp):
TTAGGGTTTTTAAGTTAAGGGTCTAGGATTTTTAAGGC
Found at i:4798374 original size:8 final size:8
Alignment explanation
Indices: 4798357--4798389 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
4798347 AGAAATTTAA
4798357 TTAT-AAT
1 TTATAAAT
4798364 TTATAAAT
1 TTATAAAT
4798372 TTATAAAT
1 TTATAAAT
4798380 TTATAAAT
1 TTATAAAT
4798388 TT
1 TT
4798390 TTAATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTATAAAT
Found at i:4798382 original size:16 final size:15
Alignment explanation
Indices: 4798357--4798394 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
4798347 AGAAATTTAA
4798357 TTATAATTTATAAAT
1 TTATAATTTATAAAT
4798372 TTATAAATTTATAAAT
1 TTAT-AATTTATAAAT
*
4798388 TTTTAAT
1 TTATAAT
4798395 AAATTAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAATTTATAAAT
Found at i:4798416 original size:113 final size:104
Alignment explanation
Indices: 4798290--4798555 Score: 352
Period size: 112 Copynumber: 2.4 Consensus size: 104
4798280 TTTTTAAGGC
* *
4798290 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTTAAGTTAAGTTTTGTCAATTAAATTAGAAATTT
1 TTAGGGTTTTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATT----A-TA
4798355 AATTATAATTTATAAATTTATAAATTTATAAATTTTTAATAAATTAGG
60 AATT-TAA-TTATAAA-TTATAAATTTATAAATTTTTAATAAATTAGG
4798403 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
1 TTAGGGTTTTTAAGTTAAGGG-TTA-GG-----G-TTTTTAAGTTAAGGTTTGTCAATTAAATTA
4798468 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
58 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
*
4798515 TTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
4798556 GCTTAGGGTT
Statistics
Matches: 142, Mismatches: 3, Indels: 25
0.84 0.02 0.15
Matches are distributed among these distances:
104 14 0.10
105 1 0.01
110 2 0.01
111 3 0.02
112 51 0.36
113 30 0.21
114 6 0.04
115 5 0.04
116 1 0.01
119 1 0.01
120 28 0.20
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (104 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTA
ATTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
Found at i:4798473 original size:7 final size:7
Alignment explanation
Indices: 4798461--4798500 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4798451 GTTTGTCAAT
4798461 TAAATTA
1 TAAATTA
4798468 TAAATT-
1 TAAATTA
4798474 T-AATTA
1 TAAATTA
4798480 TAAATTA
1 TAAATTA
4798487 TAAATTTA
1 TAAA-TTA
4798495 TAAATT
1 TAAATT
4798501 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:4798528 original size:112 final size:116
Alignment explanation
Indices: 4798318--4798544 Score: 356
Period size: 112 Copynumber: 2.0 Consensus size: 116
4798308 GGGTCTAGGG
* *
4798318 TTTTTAAGTTAAGTTTTGTCAATTAAATTAGAAATTTAATTATAATTTATAAATTTATAAATTTA
1 TTTTTAAGTTAAGGTTTGTCAATTAAATT---AATTAAATTATAATTTATAAATTTATAAATTTA
*
4798383 TAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGA
63 TAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGG-TTAGGGTTTAAGA
4798438 TTTTTAAGTTAAGGTTTGTCAATTAAATT-A-TAAATT-TAA-TTATAAA-TTATAAATTTATAA
1 TTTTTAAGTTAAGGTTTGTCAATTAAATTAATTAAATTATAATTTATAAATTTATAAATTTATAA
4798498 ATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTT
66 ATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTT
4798545 TTAAGTTAAG
Statistics
Matches: 104, Mismatches: 3, Indels: 9
0.90 0.03 0.08
Matches are distributed among these distances:
111 9 0.09
112 51 0.49
113 7 0.07
114 3 0.03
115 5 0.05
116 1 0.01
120 28 0.27
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (116 bp):
TTTTTAAGTTAAGGTTTGTCAATTAAATTAATTAAATTATAATTTATAAATTTATAAATTTATAA
ATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTAAGA
Found at i:4798537 original size:21 final size:21
Alignment explanation
Indices: 4798513--4798588 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 21
4798503 TAATAAATTA
*
4798513 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
4798534 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
4798555 GGCTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
4798577 GGTTTAGGGTTT
1 GG-TTAGGGTTT
4798589 AAGATTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
21 22 0.42
22 30 0.58
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.43
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:4798548 original size:43 final size:44
Alignment explanation
Indices: 4798499--4798588 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
4798489 AATTTATAAA
4798499 TTTTTAA-TAAATTAGG-TTAGAGTTTTTAAGTTAAGGG-TTAGGG
1 TTTTTAAGTAAA--AGGCTTAGAGTTTTTAAGTTAAGGGTTTAGGG
* * *
4798542 TTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTAAAAGGCTTAGAGTTTTTAAGTTAAGGGTTTAGGG
4798586 TTT
1 TTT
4798589 AAGATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.05
43 27 0.66
44 12 0.29
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (44 bp):
TTTTTAAGTAAAAGGCTTAGAGTTTTTAAGTTAAGGGTTTAGGG
Found at i:4798554 original size:133 final size:134
Alignment explanation
Indices: 4797990--4799115 Score: 1063
Period size: 133 Copynumber: 8.1 Consensus size: 134
4797980 AGTTAAGGAC
* * * *
4797990 TTAGGGTATTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTGTTAGGGTTT
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGG----T-TTAAGATTT
* *
4798055 TT-A-TTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAAATTTTAA
61 TTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
4798118 TAAATTAGG
126 TAAATTAGG
*
4798127 GTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTA-GG-----G-TTTTTAAG
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAG
4798184 TTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAAT
66 TTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAAT
4798249 TAGG
131 TAGG
* * *
4798253 TTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGGCTT-AGGGTTTTTAAGTTAAGGGTCTAG
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAA-G-TTAAGGG----T---TT-AGGGTTTAA
* * *
4798316 GGTTTTTAAGTTAAGTTTTGTCAATTAAATTAGAAATTTAATTATAATTTATAAATTTATAAATT
56 GATTTTTAAGTTAAGGTTTGTCAATTAAATT----A-TAAATT-TAA-TTATAAA-TTATAAATT
4798381 TATAAATTTTTAATAAATTAGG
113 TATAAATTTTTAATAAATTAGG
* ***
4798403 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAA-GGTTT-GTCAATTAA-A
1 TTAGGGTTTTTAAGTTAAGGGCTTA-GG-----G-TTTTTAAGTTAAGGGTTTAG-GGTTTAAGA
* * * * * ** * *
4798465 TTATAAATTTAA---TTATAAATTATAAATTTATAAATTT--TTAATAAA-T-T-AGGTTA-GAG
58 TTTTTAAGTTAAGGTTTGTCAA-T-TAAA-TTATAAATTTAATT-ATAAATTATAAATTTATAAA
* *
4798521 TTTTTAAGTTAA--GGG
119 TTTTTAA-TAAATTAGG
4798536 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAG
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAG
4798601 TTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAAT
66 TTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAAT
4798666 TAGG
131 TAGG
* * *
4798670 TTAGAGTTTTTAAGTTAA-GGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAG-TTAAGG
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGG--TTTAAGATT----
*
4798733 GTTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
60 -TTTA-AG--------TTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
*
4798798 TAAATTTTTAATAACTTAGG
115 TAAATTTTTAATAAATTAGG
* *
4798818 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTATGTTAAGGGTCTAGGGTTT-AGAGTTTTTAA
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGA-TTTTTAA
*
4798881 GTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAA
65 GTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAA
4798946 TTAGG
130 TTAGG
*
4798951 TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAAGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGG
1 TTAGGGTTTTTAAGTT--A----A--G-------GGCTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
4799016 TTT-AGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTAGAAATTTA
51 TTTAAGA-TTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
4799080 TAAATTTTTAATAAATTAGG
115 TAAATTTTTAATAAATTAGG
4799100 TTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAAGTT
4799116 TAAGTTAAAG
Statistics
Matches: 841, Mismatches: 57, Indels: 170
0.79 0.05 0.16
Matches are distributed among these distances:
124 5 0.01
125 2 0.00
126 111 0.13
127 15 0.02
128 23 0.03
129 9 0.01
130 4 0.00
131 7 0.01
132 9 0.01
133 146 0.17
134 31 0.04
135 17 0.02
136 27 0.03
137 20 0.02
138 2 0.00
139 10 0.01
140 1 0.00
141 4 0.00
142 37 0.04
143 1 0.00
144 5 0.01
145 3 0.00
146 8 0.01
147 19 0.02
148 117 0.14
149 137 0.16
150 52 0.06
151 3 0.00
152 3 0.00
156 4 0.00
157 2 0.00
158 7 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (134 bp):
TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAG
TTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAAT
TAGG
Found at i:4798575 original size:155 final size:155
Alignment explanation
Indices: 4798403--4799115 Score: 973
Period size: 155 Copynumber: 4.8 Consensus size: 155
4798393 ATAAATTAGG
4798403 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
*
4798468 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAA
66 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
4798533 GGGTTAGGGTTTTTAAGTTAAGGGC
131 GGGTTAGGGTTTTTAAGTTAAGGGC
4798558 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
*
4798623 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAA
66 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
*
4798688 GGATTAGGGTTTTTAAGTTAAGGGC
131 GGGTTAGGGTTTTTAAGTTAAGGGC
4798713 TTAGGGTTTTTAAGTTAAGGGTTTA-GG-----G-TTTTTAAGTTAAGGTTTGTCAATTAAATTA
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
*
4798771 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAACTTAGGTTAGGGTTTTTAAGTTAA
66 TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
*
4798836 GGGTTAGGGTTTTTATGTTAAGGG-
131 GGGTTAGGGTTTTTAAGTTAAGGGC
* * * * * * *
4798860 TCTAGGG--TTTAGAGTT-----TTTA-AG-TTAAGGTTTGTCAA-TTAA-ATTAG-AAATTTAA
1 T-TAGGGTTTTTA-AGTTAAGGGTTTAGGGTTTAAGATTT-TTAAGTTAAGGTTTGTCAATTAAA
4798913 TTATAAA-T-----------TATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGT
63 TTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGT
*
4798966 TAAAGGTTAGGG--TTT---TTAA-GGC
128 TAAGGGTTAGGGTTTTTAAGTTAAGGGC
*
4798988 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTT-AGAGTTTTTAAGTTAAGGTTTGTCAATTAAATT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGA-TTTTTAAGTTAAGGTTTGTCAATTAAATT
* *
4799052 AGAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT
65 ATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT
4799116 TAAGTTAAAG
Statistics
Matches: 501, Mismatches: 23, Indels: 74
0.84 0.04 0.12
Matches are distributed among these distances:
127 7 0.01
128 9 0.02
129 4 0.01
131 3 0.01
133 58 0.12
134 6 0.01
135 9 0.02
136 3 0.01
137 12 0.02
138 1 0.00
142 5 0.01
144 1 0.00
145 13 0.03
146 8 0.02
147 12 0.02
148 123 0.25
149 46 0.09
154 2 0.00
155 179 0.36
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (155 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTAAGTTAAGGTTTGTCAATTAAATTA
TAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
GGGTTAGGGTTTTTAAGTTAAGGGC
Found at i:4798628 original size:7 final size:7
Alignment explanation
Indices: 4798616--4798655 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4798606 GTTTGTCAAT
4798616 TAAATTA
1 TAAATTA
4798623 TAAATT-
1 TAAATTA
4798629 T-AATTA
1 TAAATTA
4798635 TAAATTA
1 TAAATTA
4798642 TAAATTTA
1 TAAA-TTA
4798650 TAAATT
1 TAAATT
4798656 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:4798703 original size:43 final size:44
Alignment explanation
Indices: 4798654--4798749 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
4798644 AATTTATAAA
4798654 TTTTTAA-TAAATTAGG-TTAGAGTTTTTAAGTTAA-GGATTAGGG
1 TTTTTAAGTAAA--AGGCTTAGAGTTTTTAAGTTAAGGGATTAGGG
* * * *
4798697 TTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTAAAAGGCTTAGAGTTTTTAAGTTAAGGGATTAGGG
4798741 TTTTTAAGT
1 TTTTTAAGT
4798750 TAAGGTTTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.04
43 24 0.52
44 20 0.43
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (44 bp):
TTTTTAAGTAAAAGGCTTAGAGTTTTTAAGTTAAGGGATTAGGG
Found at i:4798757 original size:21 final size:22
Alignment explanation
Indices: 4798670--4798754 Score: 136
Period size: 22 Copynumber: 3.9 Consensus size: 22
4798660 ATAAATTAGG
* *
4798670 TTAGAGTTTTTAAGTTAA-GGA
1 TTAGGGTTTTTAAGTTAAGGGT
*
4798691 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAGTTAAGGGT
4798713 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
4798735 TTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAAGTTAAGG
4798755 TTTGTCAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
21 17 0.28
22 43 0.72
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:4798776 original size:7 final size:7
Alignment explanation
Indices: 4798764--4798803 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4798754 GTTTGTCAAT
4798764 TAAATTA
1 TAAATTA
4798771 TAAATT-
1 TAAATTA
4798777 T-AATTA
1 TAAATTA
4798783 TAAATTA
1 TAAATTA
4798790 TAAATTTA
1 TAAA-TTA
4798798 TAAATT
1 TAAATT
4798804 TTTAATAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:4798827 original size:21 final size:21
Alignment explanation
Indices: 4798809--4798869 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
4798799 AAATTTTTAA
4798809 TAACTT-A-GGTTAGGGTTTT
1 TAACTTAAGGGTTAGGGTTTT
*
4798828 TAAGTTAAGGGTTAGGGTTTT
1 TAACTTAAGGGTTAGGGTTTT
**
4798849 TATGTTAAGGGTCTAGGGTTT
1 TAACTTAAGGGT-TAGGGTTT
4798870 AGAGTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 5 0.14
20 1 0.03
21 23 0.62
22 8 0.22
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.44
Consensus pattern (21 bp):
TAACTTAAGGGTTAGGGTTTT
Found at i:4798849 original size:22 final size:21
Alignment explanation
Indices: 4798816--4798869 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
4798806 TAATAACTTA
4798816 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
4798837 GGTTAGGGTTTTTATGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
4798858 GGTCTAGGGTTT
1 GGT-TAGGGTTT
4798870 AGAGTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:4798880 original size:281 final size:278
Alignment explanation
Indices: 4798534--4799115 Score: 940
Period size: 282 Copynumber: 2.1 Consensus size: 278
4798524 TTAAGTTAAG
*
4798534 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAAGATTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAAGATTTTTA
*
4798599 AGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAA
66 AGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAA
4798664 ATTAGGTTAGAGTTTTTAAGTT-AAGGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGT
131 ATTAGGTTAGAGTTTTTAAGTTAAAGG-TTAGGG--TTT---TTAA-GGCTTAGGGTTTTTAAGT
* * *
4798728 T-A-AGGGTTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTAT
189 TAAGAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTAG
*
4798791 AAATTTATAAATTTTTAATAACTTA
254 AAATTTATAAATTTTTAATAAATTA
*
4798816 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTATGTTAAGGGTCTAGGGTTT-AGAGTTTTT
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAAGA-TTTTT
4798879 AAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTATAAATTTATAAATTTTTAATA
65 AAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTATAAATTTATAAATTTTTAATA
*
4798944 AATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAAGGCTTAGGGTTTTTAAGTTAAGGG
130 AATTAGGTTAGAGTTTTTAAGTTAAAGGTTAGGGTTTTTAAGGCTTAGGGTTTTTAAGTTAA--G
4799009 TCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTAGA
193 ---AGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTAGA
4799074 AATTTATAAATTTTTAATAAATTA
255 AATTTATAAATTTTTAATAAATTA
4799098 GGTTAGGGTTTTTAAGTT
1 GGTTAGGGTTTTTAAGTT
4799116 TAAGTTAAAG
Statistics
Matches: 283, Mismatches: 8, Indels: 18
0.92 0.03 0.06
Matches are distributed among these distances:
275 19 0.07
276 5 0.02
279 3 0.01
280 3 0.01
281 126 0.45
282 127 0.45
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.45
Consensus pattern (278 bp):
GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAAGATTTTTA
AGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAA
ATTAGGTTAGAGTTTTTAAGTTAAAGGTTAGGGTTTTTAAGGCTTAGGGTTTTTAAGTTAAGAGG
GTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTAGAAATTTAATTATAAATTAGAAATTTA
TAAATTTTTAATAAATTA
Found at i:4798963 original size:22 final size:21
Alignment explanation
Indices: 4798935--4798985 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4798925 AATTTATAAA
4798935 TTTTTAA-TAAATTAGGTTAGGG
1 TTTTTAAGTAAA--AGGTTAGGG
*
4798957 TTTTTAAGTTAAAGGTTAGGG
1 TTTTTAAGTAAAAGGTTAGGG
4798978 TTTTTAAG
1 TTTTTAAG
4798986 GCTTAGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 17 0.63
22 7 0.26
23 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (21 bp):
TTTTTAAGTAAAAGGTTAGGG
Found at i:4798972 original size:21 final size:21
Alignment explanation
Indices: 4798948--4799018 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
4798938 TTAATAAATT
4798948 AGGTTAGGGTTTTTAAGTTAA
1 AGGTTAGGGTTTTTAAGTTAA
4798969 AGGTTAGGGTTTTTAAG----
1 AGGTTAGGGTTTTTAAGTTAA
*
4798986 -GCTTAGGGTTTTTAAGTTAA
1 AGGTTAGGGTTTTTAAGTTAA
*
4799006 GGGTCTAGGGTTT
1 AGGT-TAGGGTTT
4799019 AGAGTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 15 0.36
21 19 0.45
22 8 0.19
ACGTcount: A:0.23, C:0.03, G:0.32, T:0.42
Consensus pattern (21 bp):
AGGTTAGGGTTTTTAAGTTAA
Found at i:4799009 original size:15 final size:16
Alignment explanation
Indices: 4798968--4799001 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4798958 TTTTAAGTTA
4798968 AAGG-TTAGGGTTTTT
1 AAGGCTTAGGGTTTTT
4798983 AAGGCTTAGGGTTTTT
1 AAGGCTTAGGGTTTTT
4798999 AAG
1 AAG
4799002 TTAAGGGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.41
Consensus pattern (16 bp):
AAGGCTTAGGGTTTTT
Found at i:4799010 original size:149 final size:149
Alignment explanation
Indices: 4798832--4799115 Score: 541
Period size: 149 Copynumber: 1.9 Consensus size: 149
4798822 GGTTTTTAAG
* *
4798832 TTAAGGGTTAGGGTTTTTATGTTAAGGGTCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAAT
1 TTAAGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAAT
*
4798897 TAAATTAGAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTT
66 TAAATTAGAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTT
4798962 AAGTTAAAGGTTAGGGTTT
131 AAGTTAAAGGTTAGGGTTT
4798981 TTAAGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAAT
1 TTAAGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAAT
4799046 TAAATTAGAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTT
66 TAAATTAGAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTT
4799111 AAGTT
131 AAGTT
4799116 TAAGTTAAAG
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 132 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (149 bp):
TTAAGGCTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAAT
TAAATTAGAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTT
AAGTTAAAGGTTAGGGTTT
Found at i:4799138 original size:111 final size:108
Alignment explanation
Indices: 4798988--4799252 Score: 392
Period size: 111 Copynumber: 2.4 Consensus size: 108
4798978 TTTTTAAGGC
*
4798988 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTA
1 TTAGGGTTTTTAAGTTAA--GT-TA-GGTTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTA
4799053 GAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGG
62 GAAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGG
* *
4799100 TTAGGGTTTTTAAGTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAATGTTTGTCAATTAAATTAT
1 TTAGGGTTTTTAAG-TTAAGTT--AGGTTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTAG
*
4799165 AAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
63 AAATTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGG
* *
4799211 TTAGAGTTTTTAAGTTAAG---GGCTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAAGTTAAGTTAGGTTTAGGGTTTTTAAGTTAAGG
4799253 GTTTAGGGTT
Statistics
Matches: 143, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
105 21 0.15
110 6 0.04
111 97 0.68
112 15 0.10
113 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (108 bp):
TTAGGGTTTTTAAGTTAAGTTAGGTTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTAGAAA
TTTAATTATAAATTAGAAATTTATAAATTTTTAATAAATTAGG
Found at i:4799169 original size:7 final size:7
Alignment explanation
Indices: 4799157--4799196 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4799147 GTTTGTCAAT
4799157 TAAATTA
1 TAAATTA
4799164 TAAATT-
1 TAAATTA
4799170 T-AATTA
1 TAAATTA
4799176 TAAATTA
1 TAAATTA
4799183 TAAATTTA
1 TAAA-TTA
4799191 TAAATT
1 TAAATT
4799197 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:4799236 original size:22 final size:22
Alignment explanation
Indices: 4799211--4799263 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
4799201 ATAAATTAGG
*
4799211 TTAGAGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAGTTAAGGGC
*
4799233 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGC
4799255 TTAGGGTTT
1 TTAGGGTTT
4799264 AAGGTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGC
Found at i:4801212 original size:4 final size:4
Alignment explanation
Indices: 4801203--4801234 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
4801193 AATAAACTAA
4801203 TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
4801235 AATCTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:4801714 original size:21 final size:22
Alignment explanation
Indices: 4801690--4801734 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
4801680 GGGTATTACA
4801690 TTTTAAGTTAA-GGATTAGGGT
1 TTTTAAGTTAAGGGATTAGGGT
*
4801711 TTTTAAGTTAAGGGCTTAGGGT
1 TTTTAAGTTAAGGGATTAGGGT
4801733 TT
1 TT
4801735 AAGGTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (22 bp):
TTTTAAGTTAAGGGATTAGGGT
Found at i:4801791 original size:26 final size:26
Alignment explanation
Indices: 4801760--4801811 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4801750 GTTTGTCAAT
*
4801760 TAAATTAT-AAATTTATTTATAAATTA
1 TAAATTATCAAATTT-TTAATAAATTA
*
4801786 TAAATTTTCAAATTTTTAATAAATTA
1 TAAATTATCAAATTTTTAATAAATTA
4801812 GGTTAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTATCAAATTTTTAATAAATTA
Found at i:4801845 original size:22 final size:22
Alignment explanation
Indices: 4801814--4801865 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
4801804 ATAAATTAGG
*
4801814 TTAGGGTTTTTAAGTTAA-GGT
1 TTAGGGTTTTTAAGTTAAGGGC
4801835 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAGTTAAGGGC
4801857 TTAGGGTTT
1 TTAGGGTTT
4801866 AAGGTTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGC
Found at i:4801884 original size:131 final size:131
Alignment explanation
Indices: 4801690--4801996 Score: 544
Period size: 131 Copynumber: 2.3 Consensus size: 131
4801680 GGGTATTACA
4801690 TTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAAGGTTTG
1 TTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAAGGTTTG
* *
4801755 TCAATTAAATTATAAATTTATTTATAAATTATAAA-TTTTCAAATTTTTAATAAATTAGGTTAGG
66 TCAATTAAATTATAAATTTATTTATAAATTATAAACTTAT-AAATTTTTAATAAATTAGATTAGG
4801819 GT
130 GT
* *
4801821 TTTTAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTG
1 TTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAAGGTTTG
4801886 TCAATTAAATTATAAATTTATTTATAAATTATAAACTTATAAATTTTTAATAAATTAGATTAGGG
66 TCAATTAAATTATAAATTTATTTATAAATTATAAACTTATAAATTTTTAATAAATTAGATTAGGG
4801951 T
131 T
* *
4801952 TTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAATGGCTTAGGGTTT
1 TTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
4801997 TAGGGTAATA
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
131 166 0.98
132 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (131 bp):
TTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAAGGTTTG
TCAATTAAATTATAAATTTATTTATAAATTATAAACTTATAAATTTTTAATAAATTAGATTAGGG
T
Found at i:4801938 original size:26 final size:26
Alignment explanation
Indices: 4801891--4801942 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
4801881 GTTTGTCAAT
*
4801891 TAAATTATAAATTTATTTATAAATTA
1 TAAATTATAAATTTATTAATAAATTA
4801917 TAAACTTATAAATTT-TTAATAAATTA
1 TAAA-TTATAAATTTATTAATAAATTA
4801943 GATTAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAATTATAAATTTATTAATAAATTA
Found at i:4801976 original size:22 final size:22
Alignment explanation
Indices: 4801945--4801997 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
4801935 ATAAATTAGA
*
4801945 TTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAATGGC
4801966 TTAGGGTTTTTAAGTTAATGGC
1 TTAGGGTTTTTAAGTTAATGGC
4801988 TTAGGGTTTT
1 TTAGGGTTTT
4801998 AGGGTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAATGGC
Found at i:4802494 original size:18 final size:18
Alignment explanation
Indices: 4802468--4802509 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4802458 GACTCGAAAA
* * *
4802468 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGAT
4802486 AGGATACATAAAAGGGAT
1 AGGATACATAAAAGGGAT
4802504 AGGATA
1 AGGATA
4802510 AGCACCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGAT
Found at i:4804354 original size:11 final size:10
Alignment explanation
Indices: 4804342--4804406 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 10
4804332 AAATATGGAT
4804342 TTGAGAGAAA
1 TTGAGAGAAA
4804352 TTTG-GAAGGAAA
1 -TTGAG-A-GAAA
*
4804364 TTGAAAGCAAA
1 TTGAGAG-AAA
4804375 TTGAGAGCAAA
1 TTGAGAG-AAA
4804386 TTGAGAGGAAA
1 TTGAGA-GAAA
4804397 TTGAGA-AAA
1 TTGAGAGAAA
4804406 T
1 T
4804407 AATTGAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
9 4 0.09
10 2 0.04
11 36 0.77
12 5 0.11
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.22
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:4804367 original size:22 final size:22
Alignment explanation
Indices: 4804342--4804416 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
4804332 AAATATGGAT
*
4804342 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGCAAA
*
4804364 TTGAAAGCAAA-TTGAGAGCAAA
1 TTGAGAG-AAATTTGAGAGCAAA
**
4804386 TTGAGAGGAAA-TTGAGAAAATAA
1 TTGAGA-GAAATTTGAGAGCA-AA
4804409 TTGAGAGA
1 TTGAGAGA
4804417 GGATTAGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 31 0.70
23 13 0.30
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.21
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGCAAA
Found at i:4818707 original size:18 final size:18
Alignment explanation
Indices: 4818684--4818724 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4818674 ACACAAATCA
* *
4818684 CAAAGATGCGAGTTCACC
1 CAAAGATGAGAGCTCACC
*
4818702 CAAAGATGAGAGCTCATC
1 CAAAGATGAGAGCTCACC
4818720 CAAAG
1 CAAAG
4818725 CTACAAGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (18 bp):
CAAAGATGAGAGCTCACC
Found at i:4818741 original size:17 final size:18
Alignment explanation
Indices: 4818712--4818754 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
4818702 CAAAGATGAG
4818712 AGCTCATCCAAAGCTAC-A
1 AGCTCA-CCAAAGCTACGA
4818730 AGCTCACCAAAGCTACGA
1 AGCTCACCAAAGCTACGA
4818748 AG-TCACC
1 AGCTCACC
4818755 TAAGGTTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.37, C:0.35, G:0.14, T:0.14
Consensus pattern (18 bp):
AGCTCACCAAAGCTACGA
Found at i:4819655 original size:12 final size:13
Alignment explanation
Indices: 4819624--4819656 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4819614 AAATACATAA
4819624 AAAATGTTAAAAT
1 AAAATGTTAAAAT
4819637 AAAATGTTAAAAT
1 AAAATGTTAAAAT
4819650 -AAATGTT
1 AAAATGTT
4819657 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (13 bp):
AAAATGTTAAAAT
Found at i:4819817 original size:22 final size:22
Alignment explanation
Indices: 4819767--4819820 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
4819757 TCCAAATAAT
* * * *
4819767 AACAACAAAATAGTAGCAATAT
1 AACAGCAAAATAGTAACAAAAC
*
4819789 AATAGCAAAATAGTAACAAAAC
1 AACAGCAAAATAGTAACAAAAC
4819811 AACAGCAAAA
1 AACAGCAAAA
4819821 CAACTTAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.63, C:0.15, G:0.09, T:0.13
Consensus pattern (22 bp):
AACAGCAAAATAGTAACAAAAC
Found at i:4820670 original size:16 final size:17
Alignment explanation
Indices: 4820644--4820675 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4820634 CGAAAGAGGG
4820644 TTTTTTATTTTCTTTTC
1 TTTTTTATTTTCTTTTC
4820661 TTTTTT-TTTTCTTTT
1 TTTTTTATTTTCTTTT
4820676 TCCCCCCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTATTTTCTTTTC
Found at i:4821442 original size:20 final size:20
Alignment explanation
Indices: 4821405--4821442 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4821395 GTACTCACAT
* *
4821405 TATATATATAGGTGTTTTAA
1 TATATATATACGTATTTTAA
4821425 TATATATATACGTATTTT
1 TATATATATACGTATTTT
4821443 CATGATTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
TATATATATACGTATTTTAA
Found at i:4822573 original size:25 final size:23
Alignment explanation
Indices: 4822542--4822588 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
4822532 AAAGAATCGT
*
4822542 TACAAACGTACCTTGAAAAATGTCC
1 TACAAACATACCTT--AAAATGTCC
4822567 TACAAACATACCTTAAAATGTC
1 TACAAACATACCTTAAAATGTC
4822589 AAAAGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (23 bp):
TACAAACATACCTTAAAATGTCC
Found at i:4829648 original size:2 final size:2
Alignment explanation
Indices: 4829641--4829672 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4829631 TGAAAATAGA
4829641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4829673 GAACCTACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4830451 original size:63 final size:64
Alignment explanation
Indices: 4830318--4830453 Score: 152
Period size: 63 Copynumber: 2.2 Consensus size: 64
4830308 GCCGTGTGGT
* * * * * *
4830318 AGGCCATGTAACTCACTGTTTTCCATTAAGGACCACACAGGCCAGCAACATGGATGTATGTCCC
1 AGGCCGTGTGACTCACTATTTGCCATTAAGGACCACACAGGCCAGCAACACGGACGTATGTCCC
* * * *
4830382 A-ACCGTGTGACTCACTATTTGCCATTAAGGACCACAC-GAGCCAGCGACACGGGCGTGTGT-CC
1 AGGCCGTGTGACTCACTATTTGCCATTAAGGACCACACAG-GCCAGCAACACGGACGTATGTCCC
4830444 AGGCCGTGTG
1 AGGCCGTGTG
4830454 TAACGACCCA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
62 4 0.07
63 54 0.92
64 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (64 bp):
AGGCCGTGTGACTCACTATTTGCCATTAAGGACCACACAGGCCAGCAACACGGACGTATGTCCC
Found at i:4832757 original size:3 final size:3
Alignment explanation
Indices: 4832749--4832822 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
4832739 ATCTATCCTT
4832749 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4832797 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4832823 TAACTAATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4841177 original size:21 final size:23
Alignment explanation
Indices: 4841153--4841194 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4841143 TCTATTATCT
4841153 TAATATC-ATTTTTC-TTTCAAA
1 TAATATCAATTTTTCATTTCAAA
*
4841174 TAATTTCAATTTTTCATTTCA
1 TAATATCAATTTTTCATTTCA
4841195 TCATTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATATCAATTTTTCATTTCAAA
Found at i:4842494 original size:3 final size:3
Alignment explanation
Indices: 4842486--4842519 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4842476 ATTAAATACA
4842486 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4842520 GTAAGGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4848900 original size:306 final size:296
Alignment explanation
Indices: 4848355--4848939 Score: 699
Period size: 306 Copynumber: 1.9 Consensus size: 296
4848345 CCCCTATGTG
* * * * * *
4848355 GTGGGATTTGAACTCATATCAATTGGATTAGTAAAACTTTAATTTTATCACTCAACCAAAATTTA
1 GTGGGATTTAAACCCATATAAATTGGATTAATAAAACTTTAAATTTATCACTCAACCAAAATTCA
* * * *
4848420 TTTTAAAGTATTTTATACATTTTTATTTTAATATACCCAAGTTATTATTTCCGGCAGTTGTATCT
66 TTTTAAAGTATTTTATACATTTTTATTTTAATATACACAAGTTATTATCTCCAGCAGTTGTATAT
* * * * * *
4848485 ATCTATACTATTATTTAAGTGTTTTATTGAGTTGAAGTAACTCTTAATCAGGTCATCAACTCGGT
131 ATCTATACTATTATTTAAGTGCTTTACTGAGTTGAAGTAACCCTCAATCAGGTCACCAACACGGT
* * * * * * * * * * *
4848550 CAGTAAATTATGGAAATATCTTTTCGTAATTAAAATAAGTTATACTATTTGAGTGTATTTTAGTC
196 CAGAAAAATACGAAAATATCTTCTCATAATTAAAACAAGTTATACTATTTAAGGGTATTTTAATA
*
4848615 TTTTCATTTTAATAAAAAATAATTAAATTATGCATATA
261 TTTT--TTTTAACAAAAAATAATTAAATTATGCATATA
*
4848653 GTGGGATTTAAACCCATGTAAATTGGATTAATAAAA-TCTTAAATTTATCACTCAACCAAAGATT
1 GTGGGATTTAAACCCATATAAATTGGATTAATAAAACT-TTAAATTTATCACTCAACCAAA-ATT
* * *
4848717 CATTTTAAAGTATTTTATACATTTTTATTTTAATTTGCACAAGTTATTATCTCCATCAGTTGTAT
64 CATTTTAAAGTATTTTATACATTTTTATTTTAATATACACAAGTTATTATCTCCAGCAGTTGTAT
* * ** *
4848782 ATATTTATTATACTTACTATTTATTAAGTGCTTTACTGAGTTGGTGTCACCCTCAAT-AGGGTCA
129 ATA--T-CTATAC-TA-T-TAT-TTAAGTGCTTTACTGAGTTGAAGTAACCCTCAATCA-GGTCA
4848846 CCAACACGGTCAGAAAAATACGAAAATATCCTTCT-ATAATTAAAACAAGTTATACTATTTAAGG
186 CCAACACGGTCAGAAAAATACGAAAATAT-CTTCTCATAATTAAAACAAGTTATACTATTTAAGG
4848910 GTATTTTAATATTTTTTTTAACAAAAAATA
250 GTATTTTAATATTTTTTTTAACAAAAAATA
4848940 TATAGCCACA
Statistics
Matches: 239, Mismatches: 37, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
297 1 0.00
298 52 0.22
299 63 0.26
301 1 0.00
302 5 0.02
303 2 0.01
304 15 0.06
305 3 0.01
306 93 0.39
307 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (296 bp):
GTGGGATTTAAACCCATATAAATTGGATTAATAAAACTTTAAATTTATCACTCAACCAAAATTCA
TTTTAAAGTATTTTATACATTTTTATTTTAATATACACAAGTTATTATCTCCAGCAGTTGTATAT
ATCTATACTATTATTTAAGTGCTTTACTGAGTTGAAGTAACCCTCAATCAGGTCACCAACACGGT
CAGAAAAATACGAAAATATCTTCTCATAATTAAAACAAGTTATACTATTTAAGGGTATTTTAATA
TTTTTTTTAACAAAAAATAATTAAATTATGCATATA
Found at i:4853528 original size:7 final size:7
Alignment explanation
Indices: 4853516--4853559 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
4853506 TATATGCAGA
4853516 GCTTGGT
1 GCTTGGT
4853523 GCTTGGT
1 GCTTGGT
4853530 GCTTGGT
1 GCTTGGT
4853537 GCTTGGT
1 GCTTGGT
4853544 GCTTGGT
1 GCTTGGT
4853551 GCTTGGT
1 GCTTGGT
4853558 GC
1 GC
4853560 AAGCCCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.43, T:0.41
Consensus pattern (7 bp):
GCTTGGT
Found at i:4854396 original size:9 final size:9
Alignment explanation
Indices: 4854379--4854427 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
4854369 TTTGGTTAAA
*
4854379 AATTTACCG
1 AATTAACCG
4854388 AATTAACCG
1 AATTAACCG
*
4854397 AATTACCCG
1 AATTAACCG
4854406 AATTAACCG
1 AATTAACCG
4854415 AATTAACCG
1 AATTAACCG
4854424 AATT
1 AATT
4854428 GAATCACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:4854487 original size:12 final size:13
Alignment explanation
Indices: 4854459--4854502 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
4854449 ATTTTTAAAC
*
4854459 TTTTAGATTTTAG
1 TTTTAGATTTTAA
4854472 TTTTAG-TTTTAA
1 TTTTAGATTTTAA
*
4854484 TTTTAGAATTTTAT
1 TTTTAG-ATTTTAA
4854498 TTTTA
1 TTTTA
4854503 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTAA
Found at i:4854513 original size:20 final size:20
Alignment explanation
Indices: 4854459--4854502 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4854449 ATTTTTAAAC
4854459 TTTTAGATTTTAG--TTTTAG
1 TTTTA-ATTTTAGAATTTTAG
*
4854478 TTTTAATTTTAGAATTTTAT
1 TTTTAATTTTAGAATTTTAG
4854498 TTTTA
1 TTTTA
4854503 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTAATTTTAGAATTTTAG
Found at i:4855306 original size:16 final size:16
Alignment explanation
Indices: 4855273--4855306 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4855263 AATCGAATCT
*
4855273 AAACTTAAATAATTAA
1 AAACTTAAATAATCAA
*
4855289 AAACTTAAATTATCAA
1 AAACTTAAATAATCAA
4855305 AA
1 AA
4855307 TTCGAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAACTTAAATAATCAA
Found at i:4857641 original size:21 final size:21
Alignment explanation
Indices: 4857617--4857660 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4857607 ATTTCTATTG
4857617 TCACCATTTAAGTTTACCAAA
1 TCACCATTTAAGTTTACCAAA
4857638 TCACCATTTAAGTTTACCAAA
1 TCACCATTTAAGTTTACCAAA
4857659 TC
1 TC
4857661 TTCAACACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (21 bp):
TCACCATTTAAGTTTACCAAA
Found at i:4860673 original size:43 final size:44
Alignment explanation
Indices: 4860587--4860673 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
4860577 TGGTCGTGTG
* *
4860587 ACCAAACCGTGTACAGTTCGAAATTAGAGTCACACGACCATGTC
1 ACCAAACCATGTACAATTCGAAATTAGAGTCACACGACCATGTC
* *
4860631 ACCAAACCATGTGCAATTCGAAA-TAGGGTCACACGACCATGTC
1 ACCAAACCATGTACAATTCGAAATTAGAGTCACACGACCATGTC
4860674 GCAGACTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 19 0.49
44 20 0.51
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (44 bp):
ACCAAACCATGTACAATTCGAAATTAGAGTCACACGACCATGTC
Found at i:4867107 original size:16 final size:17
Alignment explanation
Indices: 4867086--4867119 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4867076 GCTAAGCAAA
4867086 AAAATC-AACTAAATCG
1 AAAATCGAACTAAATCG
*
4867102 AAAATCGACCTAAATCG
1 AAAATCGAACTAAATCG
4867119 A
1 A
4867120 GGTATTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAATCGAACTAAATCG
Found at i:4868216 original size:17 final size:17
Alignment explanation
Indices: 4868191--4868236 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
4868181 TTCTTTGGAA
4868191 TTTTAAAAATTAT-AAT
1 TTTTAAAAATTATAAAT
*
4868207 CTTTTTAAAA-TATAAAT
1 -TTTTAAAAATTATAAAT
4868224 TTTTAAAAATTAT
1 TTTTAAAAATTAT
4868237 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTAAAAATTATAAAT
Found at i:4868590 original size:27 final size:27
Alignment explanation
Indices: 4868555--4868624 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
4868545 AAAAAATAAA
4868555 ATTTACCAAAATAT-TACAACTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTT
4868582 ATTTACCAAAATATATAAACTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTT
4868609 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
4868625 CAAAAAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTTACCAAAATATATAAACTTTTTTT
Found at i:4868728 original size:27 final size:27
Alignment explanation
Indices: 4868689--4868791 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
4868679 TACTGGTCAC
** *
4868689 GCCAATGGTATTGGCGGCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
* *
4868716 GCCAATGCCATTGGTGGTACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
4868743 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
* *
4868770 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-CATTGGCGGCACCA
4868792 CTCATATTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.05
27 63 0.95
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.20
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAATGGT
Found at i:4869013 original size:3 final size:3
Alignment explanation
Indices: 4868995--4869032 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
4868985 CAAATAAAAG
*
4868995 TAT TAGT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4869033 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4869037 original size:3 final size:3
Alignment explanation
Indices: 4869031--4869110 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
4869021 ATTATTATTA
4869031 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
4869079 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
4869111 AGTATGAAGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:4875162 original size:18 final size:18
Alignment explanation
Indices: 4875139--4875259 Score: 79
Period size: 18 Copynumber: 6.4 Consensus size: 18
4875129 TCTTCCCTCT
*
4875139 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTCTTTTTC
*
4875157 TCTTCTCCTTTCCCTTTCTT-
1 TCTTCTTCTTT--CTTT-TTC
4875177 TCCTTCTTTCTTTCTTTTT-
1 T-CTTC-TTCTTTCTTTTTC
*
4875196 TCTTC-TCTTCTCCTTTTC
1 TCTTCTTCTT-TCTTTTTC
4875214 TTCTTCTTTCTTTCCTTTTTTC
1 -TCTTC-TTCTTT-C-TTTTTC
* *
4875236 TCTTCTCCTTTCCTTTTC
1 TCTTCTTCTTTCTTTTTC
4875254 T-TTCTT
1 TCTTCTT
4875260 TCCTCTCCTT
Statistics
Matches: 83, Mismatches: 8, Indels: 25
0.72 0.07 0.22
Matches are distributed among these distances:
16 4 0.05
17 10 0.12
18 20 0.24
19 9 0.11
20 14 0.17
21 16 0.19
22 10 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTCTTCTTTCTTTTTC
Found at i:4875174 original size:44 final size:44
Alignment explanation
Indices: 4875125--4875278 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
4875115 CCTTTTTTTT
*
4875125 CCTTTCTTCCC-TC-TTCTTCTTCTTTTTTTTTCTCTTCTCCTTTC
1 CCTTTCTTCCCTTCTTTC-T-TTCTTTTTTCTTCTCTTCTCCTTTC
*
4875169 CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-
1 CCTTTCTTCCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC
* * * *
4875212 TC-TTCTT-CTTTCTTTCCTT-TTTTCTCTTCTCCTT-TCCTTT-
1 CCTTTCTTCCCTTCTTTCTTTCTTTTTTCTTCT-CTTCTCCTTTC
* *
4875252 TCTTTCTTTCCTCTCCTTTCTTTCTTT
1 CCTTTC-TTCC-CTTCTTTCTTTCTTT
4875279 CTTTATTTCT
Statistics
Matches: 93, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
40 18 0.19
41 16 0.17
42 7 0.08
43 2 0.02
44 41 0.44
45 6 0.06
46 3 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (44 bp):
CCTTTCTTCCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC
Found at i:4875187 original size:4 final size:4
Alignment explanation
Indices: 4875170--4875291 Score: 83
Period size: 4 Copynumber: 29.2 Consensus size: 4
4875160 TCTCCTTTCC
*
4875170 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
*
4875216 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT
* *
4875261 CCTCTC CTTT CTTT CTTT CTTT ATTT CTTT C
1 -CT-TT CTTT CTTT CTTT CTTT CTTT CTTT C
4875292 CCTCCTTCTG
Statistics
Matches: 96, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
3 12 0.12
4 57 0.59
5 20 0.21
6 7 0.07
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:4875245 original size:79 final size:79
Alignment explanation
Indices: 4875136--4875281 Score: 217
Period size: 79 Copynumber: 1.8 Consensus size: 79
4875126 CTTTCTTCCC
*
4875136 TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTT-CT-TTCTTTCTTT-TTTC
1 TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCCTCTCCTTTCTTTCTTTC
4875198 TTCTCTTCTCCTTT
66 TTCTCTTCTCCTTT
* *
4875212 TCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCCTCTCCTTTCTTTCT
1 TCTTCTTC-TTCTTT--TTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCCTCTCCTTTCTTTCT
4875277 TTCTT
63 TTCTT
4875282 TATTTCTTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
76 8 0.13
77 6 0.10
79 30 0.49
80 2 0.03
81 9 0.15
82 6 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (79 bp):
TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCCTCTCCTTTCTTTCTTTC
TTCTCTTCTCCTTT
Found at i:4875260 original size:34 final size:36
Alignment explanation
Indices: 4875140--4875263 Score: 134
Period size: 35 Copynumber: 3.5 Consensus size: 36
4875130 CTTCCCTCTT
4875140 CTTCTTCTTT-TTT--TTTCTCTTCTCCTT-TCCCTTTC
1 CTTCTTCTTTCTTTCCTTT-TCTTCT-CTTCT-CCTTTC
* * *
4875175 TTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTT
1 CTT-CTTCTTTCTTTC-CTTTTCTTCTCTTCTCCTTTC
4875213 CTTCTTCTTTCTTTCCTTTT-TTCTCTTCTCCTTTC
1 CTTCTTCTTTCTTTCCTTTTCTTCTCTTCTCCTTTC
4875248 CTT-TTCTTTCTTTCCT
1 CTTCTTCTTTCTTTCCT
4875264 CTCCTTTCTT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
34 13 0.17
35 19 0.24
36 11 0.14
37 15 0.19
38 10 0.13
39 7 0.09
40 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (36 bp):
CTTCTTCTTTCTTTCCTTTTCTTCTCTTCTCCTTTC
Found at i:4875280 original size:44 final size:41
Alignment explanation
Indices: 4875143--4875280 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 41
4875133 CCCTCTTCTT
* *
4875143 CTTCTTT-TTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC
1 CTTCTTTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTC
*
4875183 TTTCTTTC-TTTTT-TCTTCT-CTTCTCCTTTTC-TTC-TTC
1 CTTCTTTCTTTTTTCTCTTCTCCTT-TCCTTTTCTTTCTTTC
*
4875220 TTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTC
1 CTTCTTT-CTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTC
4875262 CTCTCCTTTCTTTCTTTCT
1 CT-T-CTTTCTTT-TTTCT
4875281 TTATTTCTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
37 10 0.12
38 7 0.08
39 18 0.21
40 25 0.30
41 6 0.07
42 4 0.05
43 5 0.06
44 9 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (41 bp):
CTTCTTTCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTC
Found at i:4875476 original size:27 final size:28
Alignment explanation
Indices: 4875446--4875519 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
4875436 TTTAGTTTTT
4875446 TTTATATATTTTGGTAAAT-AAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
4875473 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
4875501 TTGTA-ATATTTTGGTAAAT
1 TT-TATATATTTTGGTAAAT
4875520 TTTTATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
27 19 0.42
28 24 0.53
29 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:4883517 original size:76 final size:76
Alignment explanation
Indices: 4883391--4883541 Score: 230
Period size: 76 Copynumber: 2.0 Consensus size: 76
4883381 AAAAAATGTG
* * * * * *
4883391 ACCTTGATCGGAGGCTCTCCCCCTTGTACAGAACAAGGTGAACTAGACATCCTCACCATTCTCTT
1 ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
4883456 TGCCTTTTTCC
66 TGCCTTTTTCC
*
4883467 ACCTTGATCAGAGGCTCTCCACCTTTTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
1 ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
*
4883532 TGTCTTTTTC
66 TGCCTTTTTC
4883542 GGTTAACCCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.30
Consensus pattern (76 bp):
ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
TGCCTTTTTCC
Found at i:4887892 original size:45 final size:44
Alignment explanation
Indices: 4887826--4887916 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
4887816 GGATTAGAGG
*
4887826 TGTAATGGAATAAAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
4887871 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAGAAATCAACTGTTTGGTTGAA
4887915 TG
1 TG
4887917 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAAAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:4888365 original size:47 final size:45
Alignment explanation
Indices: 4888314--4888457 Score: 102
Period size: 45 Copynumber: 3.1 Consensus size: 45
4888304 TTGTATAATT
4888314 TAAAATAGTTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATA-TTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
4888361 T-AAA-ATTATTGA-TAATA-ATTTTTCTTATATGAATTTATACAATT--
1 TAAAATATTATT-ATTAATATA-ATTTAATA-AT-AATATATA-ATTTCA
* *
4888405 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAAT-ATTATTATT-AATATAATTTAATAATAATATATAATTTCA
4888452 TAAAAT
1 TAAAAT
4888458 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 1 0.01
43 8 0.11
44 10 0.14
45 15 0.21
46 13 0.18
47 15 0.21
48 9 0.12
49 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (45 bp):
TAAAATATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:4888369 original size:91 final size:89
Alignment explanation
Indices: 4888273--4888489 Score: 290
Period size: 91 Copynumber: 2.4 Consensus size: 89
4888263 AATTTAAAAT
* * * * *
4888273 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAGTTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
4888338 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
4888364 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
4888429 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
4888455 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
4888490 CTAAAATCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 88 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:4888370 original size:44 final size:42
Alignment explanation
Indices: 4888322--4888468 Score: 109
Period size: 44 Copynumber: 3.3 Consensus size: 42
4888312 TTTAAAATAG
4888322 TTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA
1 TTATTATTA-ATATAATTTAATAAT-ATATATAATTTCATAAAA
** * * *
4888366 TTATTGA-TAATAATTTTTCTTATATGAATTTATACAATTT-AAAATAA
1 TTATT-ATTAAT-A-TAAT-TTA-AT-AATATATATAATTTCATAA-AA
*
4888413 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA
1 TTATTATT-AATATAATTTAATAAT-ATATATAATTTCATAAAA
* *
4888457 TTCTTAATAATA
1 TTATTATTAATA
4888469 AAATGTTCTT
Statistics
Matches: 78, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
43 9 0.12
44 26 0.33
45 9 0.12
46 9 0.12
47 19 0.24
48 6 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (42 bp):
TTATTATTAATATAATTTAATAATATATATAATTTCATAAAA
Found at i:4888464 original size:47 final size:47
Alignment explanation
Indices: 4888332--4888470 Score: 128
Period size: 47 Copynumber: 3.0 Consensus size: 47
4888322 TTATTATTAC
* *
4888332 ATATAATTTAATAATAATATATAATTTCATAAAATTATTGATAAT-A
1 ATATAATTTAATAATGATATATAATTTCATAAAATTATTAATAATAA
** * * * *
4888378 AT-T--TTTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATTTAATA-ATG-ATATATA-ATTTCATAAAATTATTAATAATAA
*
4888423 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTATTAATAATAA
4888470 A
1 A
4888471 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
43 5 0.07
44 15 0.22
45 13 0.19
46 12 0.17
47 19 0.28
48 5 0.07
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTATTAATAATAA
Found at i:4891716 original size:36 final size:37
Alignment explanation
Indices: 4891673--4891758 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 37
4891663 AAGAAACGGG
* *
4891673 GGGAGCAAATCGGCAGAAAAGAAAAGAAAATAAAC-T
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
* *
4891709 GGGAGCAAATCGGTAGAAAAGAAAAGCAAAGAAACAA
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
4891746 GGAAGCAAATCGG
1 GGGAGCAAATCGG
4891759 ATGAAAGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 32 0.73
37 12 0.27
ACGTcount: A:0.53, C:0.12, G:0.28, T:0.07
Consensus pattern (37 bp):
GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
Found at i:4894519 original size:28 final size:28
Alignment explanation
Indices: 4894476--4894533 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
4894466 CATCAACACT
4894476 AAAAGTAGGACTAATTTTATTGACAGAA
1 AAAAGTAGGACTAATTTTATTGACAGAA
4894504 AAAAGTAGGA-TCAATTTTATTGACAGAA
1 AAAAGTAGGACT-AATTTTATTGACAGAA
4894532 AA
1 AA
4894534 TACTTTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (28 bp):
AAAAGTAGGACTAATTTTATTGACAGAA
Found at i:4896170 original size:2 final size:2
Alignment explanation
Indices: 4896163--4896189 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4896153 ACAATTTTCT
4896163 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4896190 CAGTCAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4899839 original size:18 final size:17
Alignment explanation
Indices: 4899807--4899840 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4899797 TATTTTCAAA
*
4899807 TTATAAAGTAAATTAAT
1 TTATAAAGCAAATTAAT
4899824 TTATAAAGACAAATTAA
1 TTATAAAG-CAAATTAA
4899841 GAGCGAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
TTATAAAGCAAATTAAT
Found at i:4900127 original size:14 final size:14
Alignment explanation
Indices: 4900087--4900127 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4900077 CATCCAAACC
*
4900087 ATTACCAATAAATC
1 ATTACCAATAAATA
*
4900101 A-TA-CAAAAAATA
1 ATTACCAATAAATA
4900113 ATTACCAATAAATA
1 ATTACCAATAAATA
4900127 A
1 A
4900128 AATTTATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
14 10 0.45
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (14 bp):
ATTACCAATAAATA
Found at i:4905171 original size:98 final size:95
Alignment explanation
Indices: 4905037--4905260 Score: 242
Period size: 94 Copynumber: 2.3 Consensus size: 95
4905027 ACCCAAACTA
* * **
4905037 CAAAAAAAAAAATCCGTGTACTGGTGC-CACCGATTGACAGACCAGTAGCTA-AAATTTTTTTTT
1 CAAAAAAAAAAATTCGTGTACTGGTGCTGACCGATTGACAGACCAACA-C-ACAAA---TTTTTT
**
4905100 TCATGTACTGGTGTTTG-CCATTAACAGACCAGCAC
61 TCATGTACTGGTG-CAGACCATTAACAGACCAGCAC
** *
4905135 TC-AAAAAAAAAATTCGTGTACTGGTGCTGGGC-ATTGACAGGCCAACACACAAATTTTTTTCAT
1 -CAAAAAAAAAAATTCGTGTACTGGTGCTGACCGATTGACAGACCAACACACAAATTTTTTTCAT
* * *
4905198 GTGCTGGTGCAGACCATTGACAGGCCAGCAC
65 GTACTGGTGCAGACCATTAACAGACCAGCAC
4905229 CAAAAAAAAAAATTCGTGTACTGGTGCTGACC
1 CAAAAAAAAAAATTCGTGTACTGGTGCTGACC
4905261 TTTGAATATG
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
93 2 0.02
94 62 0.58
96 1 0.01
97 4 0.04
98 36 0.34
99 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (95 bp):
CAAAAAAAAAAATTCGTGTACTGGTGCTGACCGATTGACAGACCAACACACAAATTTTTTTCATG
TACTGGTGCAGACCATTAACAGACCAGCAC
Found at i:4905712 original size:47 final size:48
Alignment explanation
Indices: 4905661--4905820 Score: 126
Period size: 50 Copynumber: 3.3 Consensus size: 48
4905651 ATAATGACAC
* *
4905661 GCCAGCACGCAAAA-TTTT-TTTCTTGTACTGGTGCCGACCATTTACAG
1 GCCAGCAC-CAAAATTTTTATTTCGTGTACTGGTGCCGACCATTAACAG
* * *
4905708 GCCAGCATTCAAAATTTTTTATTTCGTGTATTGGTGCCGACTATTAACAG
1 GCCAGCA-CCAAAA-TTTTTATTTCGTGTACTGGTGCCGACCATTAACAG
* ***** * * * *
4905758 GCCAACACCAAAAAAAAAATTTCCGTGTACTGGTGCTGGCCATTGACAA
1 GCCAGCACCAAAATTTTTATTT-CGTGTACTGGTGCCGACCATTAACAG
4905807 GCCAGCACCCAAAA
1 GCCAGCA-CCAAAA
4905821 AAAATTTCTT
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
47 12 0.14
48 4 0.05
49 35 0.40
50 37 0.42
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCAGCACCAAAATTTTTATTTCGTGTACTGGTGCCGACCATTAACAG
Found at i:4905792 original size:49 final size:48
Alignment explanation
Indices: 4905728--4905828 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 48
4905718 AAAATTTTTT
* * *
4905728 ATTT-CGTGTATTGGTGCCGACTATTAACAGGCCAACACCAAAAAAAAA
1 ATTTCCGTGTACTGGTGCCGACCATTAACAAGCCAACACC-AAAAAAAA
* * * * *
4905776 ATTTCCGTGTACTGGTGCTGGCCATTGACAAGCCAGCACCCAAAAAAA
1 ATTTCCGTGTACTGGTGCCGACCATTAACAAGCCAACACCAAAAAAAA
4905824 ATTTC
1 ATTTC
4905829 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 16 0.36
49 28 0.64
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (48 bp):
ATTTCCGTGTACTGGTGCCGACCATTAACAAGCCAACACCAAAAAAAA
Done.