Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 13 of 211
Found at i:4394450 original size:21 final size:21
Alignment explanation
Indices: 4394419--4394468 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
4394409 GGTGTCTCTC
* *
4394419 TTAACAAAAATTTAA-AAATT
1 TTAAAAAAAATTAAATAAATT
4394439 TTCAAAAAAAATTAAATTAAATT
1 TT-AAAAAAAATTAAA-TAAATT
4394462 TTAAAAA
1 TTAAAAA
4394469 TCCAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 5 0.20
23 7 0.28
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAAAAAATTAAATAAATT
Found at i:4400103 original size:14 final size:14
Alignment explanation
Indices: 4400084--4400113 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4400074 TGCATGTGAT
4400084 TATGGATTATTTGG
1 TATGGATTATTTGG
4400098 TATGGATTATTTGG
1 TATGGATTATTTGG
4400112 TA
1 TA
4400114 ACAAGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
TATGGATTATTTGG
Found at i:4402833 original size:14 final size:16
Alignment explanation
Indices: 4402798--4402836 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
4402788 ATAGTATAAA
4402798 TATAATTTCATTATTT
1 TATAATTTCATTATTT
4402814 TAATAATTT-A-TATTT
1 T-ATAATTTCATTATTT
4402829 TATAATTT
1 TATAATTT
4402837 TTAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 2 0.09
17 7 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTCATTATTT
Found at i:4406997 original size:41 final size:41
Alignment explanation
Indices: 4406935--4407162 Score: 395
Period size: 41 Copynumber: 5.6 Consensus size: 41
4406925 TTTAAACAGA
*
4406935 TTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
* *
4406976 TTCACCGACACTTAGCTTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
4407017 TTCACCGGCACTTAGCCTGCTAGGCTAATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
4407058 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
4407099 TTCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
4407140 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
4407163 ACGTAAAGTC
Statistics
Matches: 177, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 1 0.01
41 176 0.99
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:4407185 original size:123 final size:123
Alignment explanation
Indices: 4406928--4407190 Score: 388
Period size: 123 Copynumber: 2.1 Consensus size: 123
4406918 CACTTAATTT
* *
4406928 AAACAGATTCACTGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCT
1 AAACAG-TTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
* * *
4406993 TGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTAATAGCCTG
65 TACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACTAATAGCCTA
** *
4407052 ATTCAGTTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
1 AAACAGTTCACCGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
4407116 TACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACGTAA-AGTCC-A
65 TACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGAC-TAATAG-CCTA
*
4407175 AAACATTTCACCGGCA
1 AAACAGTTCACCGGCA
4407191 ATTAATCTGA
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
122 1 0.01
123 115 0.92
124 9 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (123 bp):
AAACAGTTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCCT
ACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACTAATAGCCTA
Found at i:4408898 original size:28 final size:31
Alignment explanation
Indices: 4408866--4408924 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
4408856 TGTTTTGTTT
4408866 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
4408894 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
4408925 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:4411010 original size:6 final size:6
Alignment explanation
Indices: 4410999--4411029 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4410989 ATGTTAAATA
*
4410999 ATATTT ATATTT AAATTT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT ATATTT A
4411030 ATCACTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATATTT
Found at i:4411020 original size:18 final size:17
Alignment explanation
Indices: 4410986--4411030 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
4410976 ACATTAATTA
4410986 TATATGTTAAATAATATT
1 TATAT-TTAAATAATATT
*
4411004 TATATTTAAATTTATATT
1 TATATTTAAA-TAATATT
4411022 TATATTTAA
1 TATATTTAA
4411031 TCACTAATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATATTTAAATAATATT
Found at i:4411209 original size:39 final size:39
Alignment explanation
Indices: 4411129--4411219 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 39
4411119 AAAAATTATA
* * *
4411129 TTTAATACAATAAAATATTTATTATATTTATTTATA-TTT
1 TTTAATATAA-AAAACATTTATTATATTTATTGATATTTT
4411168 TTTAATATAAAAAACATTTATTATATTTA-TGATAGTGTTTT
1 TTTAATATAAAAAACATTTATTATATTTATTGATA---TTTT
4411209 TTTAATATAAA
1 TTTAATATAAA
4411220 TATTTTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 4 0.09
38 18 0.40
39 9 0.20
41 14 0.31
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (39 bp):
TTTAATATAAAAAACATTTATTATATTTATTGATATTTT
Found at i:4413088 original size:2 final size:2
Alignment explanation
Indices: 4413081--4413120 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4413071 ATTTAAAGCT
4413081 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4413121 TCCTTCACGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4425639 original size:21 final size:21
Alignment explanation
Indices: 4425585--4425645 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
4425575 ATTATAAATT
*
4425585 TTTATTTAATAATAAA-AATC
1 TTTAGTTAATAATAAAGAATC
4425605 TTTAGTTTAATAATAAAGAA-C
1 TTTAG-TTAATAATAAAGAATC
*
4425626 TTTAGTTAATTAATCAAGAA
1 TTTAGTTAA-TAATAAAGAA
4425646 ATAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 8 0.22
21 26 0.72
22 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
TTTAGTTAATAATAAAGAATC
Found at i:4425639 original size:24 final size:21
Alignment explanation
Indices: 4425580--4425632 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4425570 AATATATTAT
*
4425580 AAATTTTTA-TTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
4425600 AAATCTTTAGTTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
4425621 AGAA-CTTTAGTT
1 A-AATCTTTAGTT
4425633 AATTAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
AAATCTTTAGTTTAATAATAA
Found at i:4426603 original size:344 final size:344
Alignment explanation
Indices: 4425976--4426665 Score: 1344
Period size: 344 Copynumber: 2.0 Consensus size: 344
4425966 TAACATATTA
*
4425976 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTTTGGCACCAGT
1 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
4426041 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
66 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
*
4426106 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTGTATTGGTTAACATGTCAATCGATTCAACCTCTA
131 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTATATTGGTTAACATGTCAATCGATTCAACCTCTA
4426171 TCTCAGGACTAGTACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
196 TCTCAGGACTAGTACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
4426236 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
261 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
4426301 GCAAGCAAAACTAATCATC
326 GCAAGCAAAACTAATCATC
4426320 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
1 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
4426385 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
66 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
*
4426450 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTATTTTGGTTAACATGTCAATCGATTCAACCTCTA
131 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTATATTGGTTAACATGTCAATCGATTCAACCTCTA
*
4426515 TCTCAGGACTAGTACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAGTTCGATTCTAAAAACA
196 TCTCAGGACTAGTACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
4426580 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
261 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
4426645 GCAAGCAAAACTAATCATC
326 GCAAGCAAAACTAATCATC
4426664 AA
1 AA
4426666 CGTCTTGACA
Statistics
Matches: 342, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 342 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (344 bp):
AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
CAACCGTTTTTTAGCTCAGTTAAACTAGTTTATATTGGTTAACATGTCAATCGATTCAACCTCTA
TCTCAGGACTAGTACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
GCAAGCAAAACTAATCATC
Found at i:4434800 original size:14 final size:14
Alignment explanation
Indices: 4434781--4434831 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
4434771 ATTTTATAAT
4434781 TATATTTAAAACTA
1 TATATTTAAAACTA
* *
4434795 TATATTTGAAGCTA
1 TATATTTAAAACTA
4434809 TA-ACTTTAAAA-TA
1 TATA-TTTAAAACTA
*
4434822 AATATTTAAA
1 TATATTTAAA
4434832 TTGAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (14 bp):
TATATTTAAAACTA
Found at i:4434831 original size:13 final size:14
Alignment explanation
Indices: 4434813--4434845 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4434803 AAGCTATAAC
4434813 TTTAAAAT-AAATA
1 TTTAAAATGAAATA
*
4434826 TTTAAATTGAAATA
1 TTTAAAATGAAATA
4434840 TTTAAA
1 TTTAAA
4434846 GTCTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAAATGAAATA
Found at i:4435828 original size:11 final size:12
Alignment explanation
Indices: 4435803--4435843 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
4435793 CTTATTCTTT
*
4435803 AAAAAAACAGCA
1 AAAAAAAAAGCA
*
4435815 AAAAAAAAAGAA
1 AAAAAAAAAGCA
4435827 AAAAAAGAAAGCA
1 AAAAAA-AAAGCA
4435840 AAAA
1 AAAA
4435844 GCGCAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGCA
Found at i:4435923 original size:3 final size:3
Alignment explanation
Indices: 4435915--4435942 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4435905 TTTCTTTTCC
4435915 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4435943 TTTCCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4441995 original size:20 final size:19
Alignment explanation
Indices: 4441956--4442021 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
4441946 ACATTAGAAA
**
4441956 ATATAAAAATGGAAATAAAT
1 ATATAAAAATCTAAA-AAAT
4441976 ATATAAAAAT-TCAGAAAAAT
1 ATATAAAAATCT-A-AAAAAT
*
4441996 ATAT-ATAATCTAAAAAAT
1 ATATAAAAATCTAAAAAAT
4442014 ATATAAAA
1 ATATAAAA
4442022 TATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.26
19 7 0.18
20 20 0.51
21 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (19 bp):
ATATAAAAATCTAAAAAAT
Found at i:4442011 original size:18 final size:18
Alignment explanation
Indices: 4441953--4442029 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 18
4441943 TCCACATTAG
**
4441953 AAAATATA-AAAATGGAA
1 AAAATATATAAAATATAA
4441970 ATAAATATATAAAA-ATTCAGA
1 A-AAATATATAAAATA-T-A-A
* *
4441991 AAAATATATATAATCTAA
1 AAAATATATAAAATATAA
4442009 AAAATATATAAAATATAA
1 AAAATATATAAAATATAA
4442027 AAA
1 AAA
4442030 TAAAATTGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.02
18 27 0.56
19 5 0.10
20 13 0.27
21 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAATATATAAAATATAA
Found at i:4442258 original size:23 final size:23
Alignment explanation
Indices: 4442232--4442289 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
4442222 TTATTTTAAC
* *
4442232 TTTTTAAAATTTA-AAATTACATA
1 TTTTTAAAATTTATAAA-AAAATA
*
4442255 -TTTTAGAATTTTATAAAAAAATA
1 TTTTTA-AAATTTATAAAAAAATA
4442278 TTTTTAAAATTT
1 TTTTTAAAATTT
4442290 TTTATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
22 5 0.18
23 15 0.54
24 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTTTAAAATTTATAAAAAAATA
Found at i:4443192 original size:17 final size:17
Alignment explanation
Indices: 4443171--4443237 Score: 75
Period size: 17 Copynumber: 4.0 Consensus size: 17
4443161 GAGAACACAG
4443171 AAATTTTTGAAATAC-A
1 AAATTTTTGAAATACGA
*
4443187 AGAATTTTAGAAATACGA
1 A-AATTTTTGAAATACGA
* * *
4443205 AAATTTCTAAAACACGA
1 AAATTTTTGAAATACGA
4443222 AAATTTTTGAAA-ACGA
1 AAATTTTTGAAATACGA
4443238 GAAAAGTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
16 5 0.12
17 35 0.83
18 2 0.05
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (17 bp):
AAATTTTTGAAATACGA
Found at i:4443305 original size:18 final size:18
Alignment explanation
Indices: 4443119--4443441 Score: 82
Period size: 18 Copynumber: 18.8 Consensus size: 18
4443109 AGAATTTTTG
* *
4443119 TTTTGAAAACGCGAGAA-
1 TTTTGAAAACACGAAAAT
4443136 TTTTG-AAACACGATAGTAATT
1 TTTTGAAAACACGA-A--AA-T
*
4443157 TTTTGAGAACAC-AGAAAT
1 TTTTGAAAACACGA-AAAT
*
4443175 TTTTGAAATACA--AGAAT
1 TTTTGAAA-ACACGAAAAT
* *
4443192 TTTAG-AAATACGAAAAT
1 TTTTGAAAACACGAAAAT
*
4443209 TTCT-AAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
4443226 TTTTGAAAACGA-GAAAA-
1 TTTTGAAAAC-ACGAAAAT
* *
4443243 --GTCAAAA-A--AAAA-
1 TTTTGAAAACACGAAAAT
4443255 -TTT-AAAACACGAGAAAT
1 TTTTGAAAACACGA-AAAT
*
4443272 TTTTGAAAACATGAAAAT
1 TTTTGAAAACACGAAAAT
4443290 TTTTGAAAA-AGCGAAAA-
1 TTTTGAAAACA-CGAAAAT
*
4443307 --GT-AAAA-A--AAAA-
1 TTTTGAAAACACGAAAAT
**
4443318 AATTG-AAACACGAGAAAT
1 TTTTGAAAACACGA-AAAT
*
4443336 TTTTGAAAACTCGAAAA-
1 TTTTGAAAACACGAAAAT
*
4443353 -TTTG-AAATACGAAAATTAT
1 TTTTGAAAACACG-AAA--AT
*
4443372 TTTTAAAAAACACGAATATATT
1 TTTT-GAAAACACGAA-A-A-T
*
4443394 TTTTG-AAACACGGGAAA-
1 TTTTGAAAACAC-GAAAAT
* *
4443411 TTTTGAAAACATGAAAAC
1 TTTTGAAAACACGAAAAT
4443429 TTTTG-AAACACGA
1 TTTTGAAAACACGA
4443442 GTTTTTTTTA
Statistics
Matches: 232, Mismatches: 32, Indels: 84
0.67 0.09 0.24
Matches are distributed among these distances:
11 4 0.02
12 8 0.03
13 7 0.03
14 6 0.03
15 14 0.06
16 20 0.09
17 52 0.22
18 57 0.25
19 24 0.10
20 10 0.04
21 13 0.06
22 17 0.07
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.27
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:4443381 original size:64 final size:64
Alignment explanation
Indices: 4443238--4443367 Score: 180
Period size: 64 Copynumber: 2.1 Consensus size: 64
4443228 TTGAAAACGA
*
4443238 GAAAAGT-CAAAAAAAAATTTAAAACACGAGAAATTTTTGAAAACATGAAAATTTTTGAAAAAGC
1 GAAAAGTAAAAAAAAAAATTTAAAACACGAGAAATTTTTGAAAACATGAAAA-TTTTGAAAAAGC
* *
4443302 GAAAAGTAAAAAAAAAAA-TTGAAACACGAGAAATTTTTGAAAAC-TCGAAAA-TTTGAAATA-C
1 GAAAAGTAAAAAAAAAAATTTAAAACACGAGAAATTTTTGAAAACAT-GAAAATTTTGAAAAAGC
4443363 GAAAA
1 GAAAA
4443368 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
61 6 0.10
62 8 0.13
63 1 0.02
64 37 0.61
65 9 0.15
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.22
Consensus pattern (64 bp):
GAAAAGTAAAAAAAAAAATTTAAAACACGAGAAATTTTTGAAAACATGAAAATTTTGAAAAAGC
Found at i:4443416 original size:17 final size:18
Alignment explanation
Indices: 4443394--4443440 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4443384 CGAATATATT
*
4443394 TTTTGAAACACGGGAAA-
1 TTTTGAAACACGGAAAAC
*
4443411 TTTTGAAA-ACATGAAAAC
1 TTTTGAAACAC-GGAAAAC
4443429 TTTTGAAACACG
1 TTTTGAAACACG
4443441 AGTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.08
17 12 0.50
18 8 0.33
19 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (18 bp):
TTTTGAAACACGGAAAAC
Found at i:4444830 original size:29 final size:30
Alignment explanation
Indices: 4444782--4444853 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
4444772 TTTCTAGGGT
4444782 AAAAGTGTAATTTTAGGAAAATAT-GAGGCC
1 AAAA-TGTAATTTTAGGAAAATATAGAGGCC
* * *
4444812 AAAATGTAATTTCTA-GAAATTTTAGGGGCC
1 AAAATGTAATTT-TAGGAAAATATAGAGGCC
*
4444842 CAAATGTAATTT
1 AAAATGTAATTT
4444854 ACAAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.39
30 22 0.61
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTAGGAAAATATAGAGGCC
Found at i:4444913 original size:30 final size:30
Alignment explanation
Indices: 4444811--4444943 Score: 101
Period size: 30 Copynumber: 4.4 Consensus size: 30
4444801 AATATGAGGC
* * * *
4444811 CAAAATGTAATTTCTAGAAATTTTAGGGGC
1 CAAAATGTAATTTATAAAAATATTAGGGGT
* * * *
4444841 CCAAATGTAATTTA-CAAATTATTAGAGGT
1 CAAAATGTAATTTATAAAAATATTAGGGGT
* * *
4444870 TAAGATGTAAATTTATAAAAAAATTAGGGGT
1 CAAAATGT-AATTTATAAAAATATTAGGGGT
* *
4444901 CAAAATGTAATTTTTGAAAAGT-TTAGGGG-
1 CAAAATGTAATTTAT-AAAAATATTAGGGGT
4444930 CTAAAATGTAATTT
1 C-AAAATGTAATTT
4444944 GTATTTTTTT
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
29 15 0.19
30 43 0.54
31 21 0.27
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (30 bp):
CAAAATGTAATTTATAAAAATATTAGGGGT
Found at i:4445635 original size:78 final size:78
Alignment explanation
Indices: 4445284--4446543 Score: 1686
Period size: 78 Copynumber: 16.3 Consensus size: 78
4445274 TGGGTTGAGC
* * * * * *
4445284 TTTGAAAAATAGAAATTGAAAAATACCTCGGCATATGACCCCAGGCTCAACTCACCTCTTGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
4445349 ATAAGTTGA--TT
66 ATGAGTTGATTTT
* * * * * * *
4445360 TTGGAAAAACAAAAATT-AAAAATACCTTAGTGTAT-AGCCCAAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA-CCCGAGGCTCAACTCACCTCTCGCAA
4445423 TATGAGTTGA---T
65 TATGAGTTGATTTT
*
4445434 TTT-AAAAAAAGAAATT-AAAAATACCTC-G-GTGTGCAGCCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTG-A-CCCGAGGCTCAACTCACCTCTCGCA
*
4445495 ATATGAGTT--TGTT
64 ATATGAGTTGATTTT
* * **
4445508 TTTGAAAAACAGAAATTTAAAAAATACATCAGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAA-TTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
4445573 TATGAGTTGATTTT
65 TATGAGTTGATTTT
* *
4445587 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4445652 ATGAGTTGATTTT
66 ATGAGTTGATTTT
*
4445665 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCCCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4445730 ATGAGTTGATTTT
66 ATGAGTTGATTTT
* *
4445743 TTTGAAAAACAGAAATTGAAAAATACCTGAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4445808 ATGAGTTGATTTT
66 ATGAGTTGATTTT
*
4445821 TTTG-AAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4445885 ATGAGTTGATTTT
66 ATGAGTTGATTTT
* * * * * * * *
4445898 TTTGAAAACCAAAAATTTAAAAGAAATACCACGGCATGTG-TCTGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGC
4445962 AATATGAGTTGATTTT
63 AATATGAGTTGATTTT
* * * * *
4445978 TTTGAAAAACAAAAATTGAAAAATACCTCAGTGTGTGATCCGAGGCTCAACTCACCTATCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4446043 ATGAGTTGATTTTT
66 ATGAGTTGA-TTTT
*
4446057 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGGGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4446122 ATGAGTTGATTTTT
66 ATGAGTTGA-TTTT
* * *
4446136 TTTGAAAAACAGAAATTGAAAAATATCTCAGCGTGTGATCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4446201 ATGAGTTGATTTTTT
66 ATGAGTTGA--TTTT
* *
4446216 TTTGAAAAAAAGAAATTGAAAAATACCTGAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4446281 ATGAGTTGATTTT
66 ATGAGTTGATTTT
*
4446294 TTTGAAAAACAAAAATTGAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
4446357 ATGAGTTGATATT
66 ATGAGTTGATTTT
* * * *
4446370 TTTGGAAAGCAGAAATTG-AAAATACCTCAGCGTG-G-CCCGAGGCTCAACTCACTTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4446432 ATGAGTTGA--TT
66 ATGAGTTGATTTT
* ** * * * *
4446443 TTTGAAAAACAGAAATTGAGAAATACCTTGGCATGTG-CCCAAGGCTCAACTCACCTCTTGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
4446507 ATGAGTTGA-TTA
66 ATGAGTTGATTTT
****
4446519 AAAAAAAAACAGAAATTGAAAAATA
1 TTTGAAAAACAGAAATTGAAAAATA
4446544 TTTCTTGAAA
Statistics
Matches: 1065, Mismatches: 94, Indels: 50
0.88 0.08 0.04
Matches are distributed among these distances:
71 3 0.00
72 1 0.00
73 73 0.07
74 20 0.02
75 137 0.13
76 96 0.09
77 132 0.12
78 289 0.27
79 173 0.16
80 127 0.12
81 14 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (78 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTT
Found at i:4446023 original size:235 final size:232
Alignment explanation
Indices: 4445284--4446543 Score: 1631
Period size: 235 Copynumber: 5.4 Consensus size: 232
4445274 TGGGTTGAGC
* * * * * *
4445284 TTTGAAAAATAGAAATTGAAAAATACCTCGGCATATGACCCCAGGCTCAACTCACCTCTTGCAAT
1 TTTGAAAAACAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* * * * * * *
4445349 ATAAGTTGA--TTTTGGAAAAACAAAAATT-AAAAATACCTTAGTGTAT-AGCCCAAGGCTCAAC
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA-CCCGAGGCTCAAC
* * * * *
4445410 TCACCTCTCGCATTATGAGTTGA---TTTT-AAAAAAAGAAATTAAAAATACCTCGGTGTGCAGC
130 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTG-TGC
*
4445471 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT--TGTT
194 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
4445508 TTTGAAAAACAGAAATTTAAAAAATACATCAGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACA-AAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
4445573 TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAAC
65 TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
*
4445638 TCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA
130 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCAGCGTGTG-
*
4445703 CCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
193 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * **
4445743 TTTGAAAAACAGAAATTGAAAAATACCTGAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
4445808 ATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
* * * * * *
4445872 CACCTCTCGTAATATGAGTTGATTTTTTTGAAAACCAAAAATTTAAAAGAAATACCACGGCATGT
131 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT--AA-AAATACCTCAGCGTGT
* *
4445937 GTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
192 GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
** * * *
4445978 TTTGAAAAACAAAAATTGAAAAATACCTCAGTGTGTGATCCGAGGCTCAACTCACCTATCGCATT
1 TTTGAAAAACAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
4446043 ATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGGGGCTCAAC
66 ATGAGTTGA-TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
*
4446108 TCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAAATATCTCAGCGTGTG
130 TCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATT-AAAAATACCTCAGCGTGTG
* *
4446173 ATCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTT
193 -CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* *
4446216 TTTGAAAAA-AAGAAATTGAAAAATACCTGAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAA-AAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
4446280 TATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGC--GTGACCCGAGGCTCAAC
65 TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
* * * *
4446343 TCACCTCTCGCAATATGAGTTGATATTTTTGGAAAGCAGAAATTGAAAATACCTCAGCGTG-GCC
130 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTGCC
* *
4446407 CGAGGCTCAACTCACTTCTCGCATTATGAGTTGA--TT
195 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * ** * * *
4446443 TTTGAAAAACAGAAATTGAGAAATACCTTGGCATGTG-CCCAAGGCTCAACTCACCTCTTGCATT
1 TTTGAAAAACAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*****
4446507 ATGAGTTGA-TTAAAAAAAAAACAGAAATTGAAAAATA
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATA
4446544 TTTCTTGAAA
Statistics
Matches: 926, Mismatches: 86, Indels: 47
0.87 0.08 0.04
Matches are distributed among these distances:
224 10 0.01
225 75 0.08
226 33 0.04
227 49 0.05
228 50 0.05
229 1 0.00
231 38 0.04
232 14 0.02
233 146 0.16
234 85 0.09
235 174 0.19
236 58 0.06
237 106 0.11
238 87 0.09
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (232 bp):
TTTGAAAAACAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTGCCC
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:4448075 original size:42 final size:42
Alignment explanation
Indices: 4447937--4448083 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 42
4447927 TTTAAACAGA
* * * *
4447937 TTCACTGGCACTTAGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGATAT-TGT
* * *
4447978 TACACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGATATTGT
*
4448019 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCACTT-AGCCTGCTAGACATAAAGTCTGATATTGT
4448061 TTCACCGGCA-TTAAGCCTGCTAG
1 TTCACCGGCACTT-AGCCTGCTAG
4448084 GCGCTAAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
40 3 0.03
41 61 0.67
42 27 0.30
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGATATTGT
Found at i:4449054 original size:4 final size:4
Alignment explanation
Indices: 4449045--4449088 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
4449035 TACAATAGAT
4449045 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4449089 TGATTTGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:4450097 original size:11 final size:11
Alignment explanation
Indices: 4450081--4450113 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
4450071 GAAAATATCA
4450081 AAAATATTTTT
1 AAAATATTTTT
4450092 AAAATATTTTT
1 AAAATATTTTT
4450103 AAAATATTTTT
1 AAAATATTTTT
4450114 TTGACTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:4454893 original size:9 final size:9
Alignment explanation
Indices: 4454879--4454903 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4454869 TCTTTTTGGG
4454879 TCCTTTCCA
1 TCCTTTCCA
4454888 TCCTTTCCA
1 TCCTTTCCA
4454897 TCCTTTC
1 TCCTTTC
4454904 ATTGAGTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (9 bp):
TCCTTTCCA
Found at i:4458691 original size:19 final size:18
Alignment explanation
Indices: 4458664--4458860 Score: 89
Period size: 18 Copynumber: 11.2 Consensus size: 18
4458654 CGAGAAAAGT
* *
4458664 CGAAAATTTTTTATAACA
1 CGAAAATTTTTGAAAACA
4458682 CGAGAAATTTTTGAAAACA
1 CGA-AAATTTTTGAAAACA
**
4458701 CGAAAATTTTTGAAAAGG
1 CGAAAATTTTTGAAAACA
* *
4458719 CGAAAA--GTCG-AAA-A
1 CGAAAATTTTTGAAAACA
*
4458733 --AAAA-TTTTG-ATACA
1 CGAAAATTTTTGAAAACA
*
4458747 CGAGAACTTTTTGAAAACA
1 CGA-AAATTTTTGAAAACA
4458766 CGAAAA--TTTGAAATAC-
1 CGAAAATTTTTGAAA-ACA
* *
4458782 GGAAATTATTTTTAAAAAACA
1 CGAAA--ATTTTT-GAAAACA
4458803 CGAATATATTTTTTG-AAACA
1 CGAA-A-A-TTTTTGAAAACA
*
4458823 CAGGAAA-TTTTGAAAACA
1 C-GAAAATTTTTGAAAACA
* *
4458841 TGAAAACTTTTG-AAACA
1 CGAAAATTTTTGAAAACA
4458858 CGA
1 CGA
4458861 TTTTTTTAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 41
0.69 0.10 0.20
Matches are distributed among these distances:
12 4 0.03
13 4 0.03
14 1 0.01
15 3 0.02
16 14 0.10
17 20 0.14
18 40 0.29
19 24 0.17
20 12 0.09
21 10 0.07
22 6 0.04
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (18 bp):
CGAAAATTTTTGAAAACA
Found at i:4458705 original size:63 final size:64
Alignment explanation
Indices: 4458608--4458774 Score: 218
Period size: 63 Copynumber: 2.6 Consensus size: 64
4458598 GAATTACGAG
*
4458608 AATTTTAGA-AACACGA-AAATTTCT-AAAACACGAAAATTTTTGAAAACGAGAAAAGTCG-AAA
1 AATTTT-GATAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGAGAAAAGTCGAAAA
* * * *
4458669 ATTTTTTATAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAAGGCGAAAAGTCGAAAAA
1 AATTTTGATAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGAGAAAAGTCG--AAA
4458734 A
64 A
*
4458735 AATTTTGAT-ACACGAGAACTTTTTGAAAACACGAAAATTT
1 AATTTTGATAACACGAGAAATTTTTGAAAACACGAAAATTT
4458775 GAAATACGGA
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
60 1 0.01
61 12 0.13
62 7 0.08
63 32 0.35
65 30 0.33
66 10 0.11
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.27
Consensus pattern (64 bp):
AATTTTGATAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGAGAAAAGTCGAAAA
Found at i:4458707 original size:18 final size:18
Alignment explanation
Indices: 4458538--4458860 Score: 117
Period size: 17 Copynumber: 17.8 Consensus size: 18
4458528 GGAATTTTTG
* *
4458538 TTTTGAAAACTCGAGAA-
1 TTTTGAAAACACGAAAAT
4458555 TTTTG-AAACACGATAGTAATT
1 TTTTGAAAACACGA-A--AA-T
* *
4458576 TTTTGAGAACACGGAAAT
1 TTTTGAAAACACGAAAAT
** *
4458594 TTTTG-AATTACGAGAAT
1 TTTTGAAAACACGAAAAT
*
4458611 TTTAG-AAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
4458628 TTCT-AAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
4458645 TTTTGAAAACGAGAAAAGTCGAAAAT
1 TTTTGAAAAC------A--CGAAAAT
* *
4458671 TTTTTATAACACGAGAAAT
1 TTTTGAAAACACGA-AAAT
4458690 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
**
4458708 TTTTGAAAAGGCGAAAA-
1 TTTTGAAAACACGAAAAT
* *
4458725 -GTCG-AAA-A--AAAA-
1 TTTTGAAAACACGAAAAT
* *
4458737 TTTTG-ATACACGAGAACT
1 TTTTGAAAACACGA-AAAT
4458755 TTTTGAAAACACGAAAA-
1 TTTTGAAAACACGAAAAT
*
4458772 -TTTGAAATAC-GGAAATTAT
1 TTTTGAAA-ACACGAAA--AT
*
4458791 TTTTAAAAAACACGAATATATT
1 TTTT-GAAAACACGAA-A-A-T
*
4458813 TTTTG-AAACACAGGAAA-
1 TTTTGAAAACAC-GAAAAT
* *
4458830 TTTTGAAAACATGAAAAC
1 TTTTGAAAACACGAAAAT
4458848 TTTTG-AAACACGA
1 TTTTGAAAACACGA
4458861 TTTTTTTAAA
Statistics
Matches: 231, Mismatches: 39, Indels: 72
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.02
13 4 0.02
14 1 0.00
15 3 0.01
16 21 0.09
17 62 0.27
18 51 0.22
19 28 0.12
20 13 0.06
21 16 0.07
22 12 0.05
24 1 0.00
26 15 0.06
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.29
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:4459375 original size:26 final size:27
Alignment explanation
Indices: 4459318--4459375 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
4459308 TGAAAGATGG
* *
4459318 CTGCTGCCGGATTCGGGCCTGGAGGGC
1 CTGCTGCCGAATTCGGGCCTGGAGGAC
* *
4459345 TTGCTGCCGAATTTGGGCCT-GAGGAC
1 CTGCTGCCGAATTCGGGCCTGGAGGAC
4459371 CTGCT
1 CTGCT
4459376 TGGTCTACTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.24
Consensus pattern (27 bp):
CTGCTGCCGAATTCGGGCCTGGAGGAC
Found at i:4459718 original size:18 final size:18
Alignment explanation
Indices: 4459682--4459717 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
4459672 TTAAAAAAGT
4459682 ATTTTAAAATAATTTAAA
1 ATTTTAAAATAATTTAAA
4459700 ATTTTAAAA-AATTTAAA
1 ATTTTAAAATAATTTAAA
4459717 A
1 A
4459718 AAAGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTTAAAATAATTTAAA
Found at i:4459719 original size:41 final size:39
Alignment explanation
Indices: 4459667--4459758 Score: 127
Period size: 41 Copynumber: 2.4 Consensus size: 39
4459657 AAATTAAAAC
4459667 AAAAATT-AAAAAAGTATTTTAAAA-TAATTTAAAATTTTA
1 AAAAATTAAAAAAAGTATTTTAAAAGTAATTTAAAA--TTA
*
4459706 AAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTA
1 AAAAA-TTAAAAAAAGTATTTTAAAAGTAATTTAAAATTA
4459746 AAAAA-TAAAAAAA
1 AAAAATTAAAAAAA
4459759 TAAAAATATT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
38 8 0.16
39 5 0.10
40 10 0.20
41 17 0.35
42 9 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
AAAAATTAAAAAAAGTATTTTAAAAGTAATTTAAAATTA
Found at i:4459998 original size:15 final size:15
Alignment explanation
Indices: 4459980--4460018 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4459970 TTTACTTTGG
4459980 TTTTTTTTGGGCTGC
1 TTTTTTTTGGGCTGC
**
4459995 TTTTTTTTTTGCTGC
1 TTTTTTTTGGGCTGC
4460010 TTTGTTTTT
1 TTT-TTTTT
4460019 TTATTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.00, C:0.10, G:0.18, T:0.72
Consensus pattern (15 bp):
TTTTTTTTGGGCTGC
Found at i:4460173 original size:6 final size:6
Alignment explanation
Indices: 4460151--4460236 Score: 54
Period size: 6 Copynumber: 13.8 Consensus size: 6
4460141 CACTCCTCTC
* *
4460151 TTCTTT TTC-TT CT-TTT TTC-TT TTCTTTT TTCTTTCT TTCATAT TT-TTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTC-TTT TTC-TT-T TTC-TTT TTCTTT
*
4460199 TTCTTT TTCTTTCT TCTCTTT TTCTTT TTCTTT CTCTT
1 TTCTTT TTC-TT-T T-TCTTT TTCTTT TTCTTT TTCTT
4460237 CTATTTCGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
5 15 0.23
6 24 0.37
7 15 0.23
8 9 0.14
9 2 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:4460175 original size:21 final size:21
Alignment explanation
Indices: 4460151--4460243 Score: 102
Period size: 21 Copynumber: 4.4 Consensus size: 21
4460141 CACTCCTCTC
4460151 TTCTTTTTCTTCTTT-TTTCTT
1 TTCTTTTTCTT-TTTCTTTCTT
*
4460172 TTCTTTTT-TCTTTCTTTCATAT
1 TTCTTTTTCTTTTTCTTTC-T-T
4460194 TT-TTTTTCTTTTTCTTTCTT
1 TTCTTTTTCTTTTTCTTTCTT
* *
4460214 CTCTTTTTCTTTTTCTTTCTC
1 TTCTTTTTCTTTTTCTTTCTT
*
4460235 TTCTATTTC
1 TTCTTTTTC
4460244 GGTAATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.05
20 7 0.11
21 39 0.64
22 12 0.20
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCTTTTTCTTTTTCTTTCTT
Found at i:4460222 original size:48 final size:47
Alignment explanation
Indices: 4460151--4460242 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 47
4460141 CACTCCTCTC
* *
4460151 TTCTTTTTCTTCTTTTTTCTTTTCTTTTTTCTTTCT-TTCATATTTTTT
1 TTCTTTTTCTTCTTCTCTCTTTTC-TTTTTCTTTCTCTTC-TATTTTTT
4460199 TTCTTTTTCTTTCTTCTCT-TTTTCTTTTTCTTTCTCTTCTATTT
1 TTCTTTTTC-TTCTTCTCTCTTTTCTTTTTCTTTCTCTTCTATTT
4460243 CGGTAATCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
47 16 0.40
48 17 0.43
49 7 0.17
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (47 bp):
TTCTTTTTCTTCTTCTCTCTTTTCTTTTTCTTTCTCTTCTATTTTTT
Found at i:4460238 original size:26 final size:27
Alignment explanation
Indices: 4460156--4460236 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
4460146 CTCTCTTCTT
4460156 TTTCTTCT-TTTTTC-TTTTCTTTTTTC
1 TTTCTTCTCTTTTTCTTTTTC-TTTTTC
*
4460182 TTTCTT-TCATATTT-TTTTTCTTTTTC
1 TTTCTTCTC-TTTTTCTTTTTCTTTTTC
*
4460208 TTTCTTCTCTTTTTCTTTTTCTTTCTC
1 TTTCTTCTCTTTTTCTTTTTCTTTTTC
4460235 TT
1 TT
4460237 CTATTTCGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
25 1 0.02
26 22 0.47
27 24 0.51
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTCTTCTCTTTTTCTTTTTCTTTTTC
Found at i:4460477 original size:19 final size:19
Alignment explanation
Indices: 4460443--4460487 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4460433 TTTGATGGTT
*
4460443 ACGGTGGTGGTAGTTGTGCG
1 ACGGT-GTGGTAGTTGCGCG
*
4460463 ACGGTGTGGTGGTTGCGCG
1 ACGGTGTGGTAGTTGCGCG
*
4460482 GCGGTG
1 ACGGTG
4460488 GTGATGGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.13, G:0.53, T:0.27
Consensus pattern (19 bp):
ACGGTGTGGTAGTTGCGCG
Found at i:4460905 original size:32 final size:32
Alignment explanation
Indices: 4460845--4460905 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
4460835 TTTACAAATT
* * *
4460845 ATTAGGGGTTAAGATGTAAATTTAGAAAAAAA
1 ATTAGGGGTCAAAATATAAATTTAGAAAAAAA
* *
4460877 ATTAGGGGTCAAAATATAATTTTTGAAAA
1 ATTAGGGGTCAAAATATAAATTTAGAAAA
4460906 GTTTAGGAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.31
Consensus pattern (32 bp):
ATTAGGGGTCAAAATATAAATTTAGAAAAAAA
Found at i:4462107 original size:75 final size:75
Alignment explanation
Indices: 4461975--4462119 Score: 177
Period size: 75 Copynumber: 1.9 Consensus size: 75
4461965 GAAGTGAATC
* * * * * *
4461975 AAGAAAAGTTAAAGGAAGACATGGAGGAATCAGCTCTTGTAGAAACCACATATTCAAAGATAGAC
1 AAGAAAAGTTAAAGGAAAACATGAAGGAACCAGCTCTTGCAGAAACCACATAGTCAAAGATAGAA
4462040 TACAAGGAAA
66 TACAAGGAAA
** *
4462050 AAGAAAAGTTGGAGGAAAACATGAAGGAACCAGCTCTTGCAGCAA-CA-ATTGAGTCAAAGATAG
1 AAGAAAAGTTAAAGGAAAACATGAAGGAACCAGCTCTTGCAGAAACCACA-T-AGTCAAAGATAG
4462113 AATACAA
64 AATACAA
4462120 TGAGGATTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 1 0.02
74 3 0.05
75 55 0.93
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.17
Consensus pattern (75 bp):
AAGAAAAGTTAAAGGAAAACATGAAGGAACCAGCTCTTGCAGAAACCACATAGTCAAAGATAGAA
TACAAGGAAA
Found at i:4464586 original size:46 final size:45
Alignment explanation
Indices: 4464503--4464602 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 45
4464493 AAAGGTAGCG
* * *
4464503 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAATA
1 GTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGGTAACA
* **
4464548 GTAACGGTAACAGTATTTTGACACACAAAGTGCCGAATCGGTAACA
1 GTAACAGTAACAGTA-TTCAACACACAAAGTGCCGAATCGGTAACA
4464594 GTAACAGTA
1 GTAACAGTA
4464603 GTCGGCACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 14 0.30
46 33 0.70
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGGTAACA
Found at i:4466025 original size:9 final size:9
Alignment explanation
Indices: 4465999--4466048 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
4465989 CATTTGAATA
*
4465999 AATAATTAG
1 AATAATTAT
4466008 AATAATTAT
1 AATAATTAT
4466017 AATAATTAT
1 AATAATTAT
4466026 -ATACA-TAT
1 AATA-ATTAT
*
4466034 AATATTTAT
1 AATAATTAT
4466043 ATATAA
1 A-ATAA
4466049 CTTAAACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 6 0.18
9 25 0.74
10 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
AATAATTAT
Found at i:4475186 original size:23 final size:23
Alignment explanation
Indices: 4475151--4475211 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
4475141 GATATTTCCC
4475151 CCATCCGCTACACACTATCTCTAT
1 CCATCC-CTACACACTATCTCTAT
*
4475175 CCATCCCTACACACTATCTCTGT
1 CCATCCCTACACACTATCTCTAT
*
4475198 CCATCTCTACACAC
1 CCATCCCTACACAC
4475212 CAAATAGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 29 0.83
24 6 0.17
ACGTcount: A:0.25, C:0.44, G:0.03, T:0.28
Consensus pattern (23 bp):
CCATCCCTACACACTATCTCTAT
Found at i:4478390 original size:50 final size:50
Alignment explanation
Indices: 4478229--4478476 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
4478219 GATAATAACA
* ** *
4478229 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * *
4478280 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
4478329 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
4478379 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
4478434 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4478477 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.21
50 60 0.35
51 29 0.17
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:4478406 original size:99 final size:104
Alignment explanation
Indices: 4478228--4478476 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
4478218 TGATAATAAC
**
4478228 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4478293 TCCCAGACATGGTCTTATA-GGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4478329 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4478392 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4478434 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4478477 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 39 0.30
100 46 0.35
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4478592 original size:13 final size:13
Alignment explanation
Indices: 4478571--4478602 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4478561 GCTTGGATCA
*
4478571 TCATCAAATAAAT
1 TCATAAAATAAAT
4478584 TCATAAAATAAAT
1 TCATAAAATAAAT
4478597 TCATAA
1 TCATAA
4478603 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4478849 original size:30 final size:30
Alignment explanation
Indices: 4478814--4478870 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4478804 CCTCGACTCT
*
4478814 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4478844 AACTTTTACATAATTACATTTTTGCCC
1 AACTTTTACAAAATTACAATTTTGCCC
4478871 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4503718 original size:28 final size:28
Alignment explanation
Indices: 4503687--4503753 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 28
4503677 CAGTTTCTAT
4503687 TAAAAAGAGAGAATTTTCGTTTTCACAC
1 TAAAAAGAGAGAATTTTCGTTTTCACAC
* *
4503715 T-AAAA-AGAGAATTTTTGTTTTCACCC
1 TAAAAAGAGAGAATTTTCGTTTTCACAC
4503741 TAAAAAGAGAGAA
1 TAAAAAGAGAGAA
4503754 GATTTTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 20 0.57
27 8 0.23
28 7 0.20
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (28 bp):
TAAAAAGAGAGAATTTTCGTTTTCACAC
Found at i:4520588 original size:44 final size:44
Alignment explanation
Indices: 4520453--4520729 Score: 235
Period size: 44 Copynumber: 6.4 Consensus size: 44
4520443 ATATTCTCTT
* ** * * * * *
4520453 CTGCAACTTCAGGGTGACGAGATTTGTGGTTTTAGTCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGCTCCA
* ** * * * * *
4520497 CTGCAACGTCAGTAAGATAAGA-CCG-GA-TATGATCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGCTCCA
*
4520538 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGCTCCA
** ** *
4520582 CTGCAACTTCAGGGAGATAAGAT-TGGTTTTTTTCGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATCCGCTCCA
*** * *
4520626 CTGCAACTTCAGGGAGATAAGA-CTG-GA-TGCGATCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGCTCCA
* *
4520667 CTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGCTCCA
4520711 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
4520730 GGATTGATTT
Statistics
Matches: 183, Mismatches: 42, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
41 59 0.32
42 6 0.03
43 7 0.04
44 111 0.61
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGCTCCA
Found at i:4520600 original size:85 final size:85
Alignment explanation
Indices: 4520448--4520603 Score: 195
Period size: 85 Copynumber: 1.8 Consensus size: 85
4520438 CTTCAATATT
* * * * * * * * * *
4520448 CTCTTCTGCAACTTCAGGGTGACGAGATTTGTGGTTTTAGTCTGCTCTACTGCAACGTCAGTAAG
1 CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAACGTCAGGAAG
4520513 ATAAGACCGGATATGATCTG
66 ATAAGACCGGATATGATCTG
* * *
4520533 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAACGTCAGGAAG
4520598 ATAAGA
66 ATAAGA
4520604 TTGGTTTTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 58 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (85 bp):
CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAACGTCAGGAAG
ATAAGACCGGATATGATCTG
Found at i:4520660 original size:129 final size:129
Alignment explanation
Indices: 4520453--4520735 Score: 422
Period size: 129 Copynumber: 2.2 Consensus size: 129
4520443 ATATTCTCTT
* ** * * *
4520453 CTGCAACTTCAGGGTGACGAGATTTGTGGTTTTAGTCTGCTCTACTGCAACGTCAGTAAGATAAG
1 CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGAAGATAAG
* *
4520518 ACCGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
66 ACCGGATACGATCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
** * * *
4520582 CTGCAACTTCAGGGAGATAAGATTGGTTTTTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGAAGATAAG
* *
4520647 ACTGGATGCGATCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
66 ACCGGATACGATCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
*
4520711 CTGCAACTTCAGGGAGATAGGATTG
1 CTGCAACTTCAGGGAGATAAGATTG
4520736 ATTTCTGTCG
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 138 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (129 bp):
CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAACGTCAGGAAGATAAG
ACCGGATACGATCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
Found at i:4520711 original size:85 final size:88
Alignment explanation
Indices: 4520488--4520729 Score: 257
Period size: 85 Copynumber: 2.8 Consensus size: 88
4520478 GTGGTTTTAG
* * * *
4520488 TCTGCTCTACTGCAACGTCAGTA-AGATAAGA-CCG-GA-TATGATCTGCTCTACTGCAACTTCA
1 TCTGCTCTACTGCAACGTCAG-AGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCA
* **
4520549 GAGAGATAAGATCTGTGATTTTAA
65 GGGAGATAAGATCTGTGATTGCAA
* * * * ** **
4520573 TCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTTTTTTTCGTCTGCTCCACTGCAACTTCA
1 TCTGCTCTACTGCAACGTCAGAGAGATAAGATCT-GTGATTTTAATCTGCTCCACTGCAACTTCA
*
4520637 GGGAGATAAGA-CTG-GA-TGCGA
65 GGGAGATAAGATCTGTGATTGCAA
*
4520658 TCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAG
4520723 GGAGATA
66 GGAGATA
4520730 GGATTGATTT
Statistics
Matches: 127, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
85 89 0.70
86 4 0.03
87 3 0.02
88 31 0.24
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (88 bp):
TCTGCTCTACTGCAACGTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAG
GGAGATAAGATCTGTGATTGCAA
Found at i:4527004 original size:126 final size:124
Alignment explanation
Indices: 4526838--4527068 Score: 293
Period size: 126 Copynumber: 1.8 Consensus size: 124
4526828 TTTTAAAAAA
* * *
4526838 AAATTTAAAAGGATTCTTTGCTATTTAGGTTTAGCGAGAAAATCAAAACCCCGTAAGTTAGGGTA
1 AAATTTAAAAGGATACTTTGCTATCTAGGTTTAACGAGAAAATCAAAACCCCGTAAGTTAGGGTA
* *
4526903 CGATCTCTC-AAATCACTAAAATGCAAAAATATTGCCTTATTGAGATTCTTTTCATTTTTG
66 CAATCTCTCGAAATCAC-AAAACGC-AAAATATTGCCTTATTGAGATTCTTTTCATTTTTG
* * * ** *
4526963 AAATCTTAAAATGATACTTTGTTATCTCGGTTTAACGAGAAAATTGAAACCCCTTAAGTTAGGGT
1 AAAT-TTAAAAGGATACTTTGCTATCTAGGTTTAACGAGAAAATCAAAACCCCGTAAGTTAGGGT
* * * *
4527028 ACAATTTCTCGAATTTACGAAACGCAAAATATTGCCTTATT
65 ACAATCTCTCGAAATCACAAAACGCAAAATATTGCCTTATT
4527069 TTAAATTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
125 20 0.22
126 64 0.72
127 5 0.06
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (124 bp):
AAATTTAAAAGGATACTTTGCTATCTAGGTTTAACGAGAAAATCAAAACCCCGTAAGTTAGGGTA
CAATCTCTCGAAATCACAAAACGCAAAATATTGCCTTATTGAGATTCTTTTCATTTTTG
Found at i:4527567 original size:25 final size:25
Alignment explanation
Indices: 4527538--4527588 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4527528 TTTAAAAGAG
4527538 ATAGTACATATAATCTAATATGGAT
1 ATAGTACATATAATCTAATATGGAT
4527563 ATAGTACATATAATCTAATATGGAT
1 ATAGTACATATAATCTAATATGGAT
4527588 A
1 A
4527589 ATCTATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (25 bp):
ATAGTACATATAATCTAATATGGAT
Found at i:4537788 original size:5 final size:5
Alignment explanation
Indices: 4537787--4537827 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
4537777 ACCTAATATA
*
4537787 ATAAT ATAAT ATAAT ATAAT ATATTT ATAAT -TAA- ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT AT
4537828 TTTAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 6 0.19
5 21 0.68
6 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:4537836 original size:21 final size:21
Alignment explanation
Indices: 4537780--4537842 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
4537770 TTATTTTACC
*
4537780 TAATATAATAATATAATATAATA
1 TAATATATTAATATAAT-TAA-A
4537803 TAATATATT--TATAATTAAA
1 TAATATATTAATATAATTAAA
* *
4537822 TAATATTTTAATATATTTAAA
1 TAATATATTAATATAATTAAA
4537843 ACATAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 9 0.26
20 3 0.09
21 15 0.43
23 8 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATATTAATATAATTAAA
Found at i:4538696 original size:33 final size:33
Alignment explanation
Indices: 4538641--4538721 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 33
4538631 TAGTCCAACT
* * *
4538641 ATGGTCTTACACATGCATTGCCATGACCCTGCC
1 ATGGTCTTACACATGCAGTGCCATAACCCAGCC
** * **
4538674 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACACATGCAGTGCCATAACCCAGCC
*
4538707 ATGGTCTTACGCATG
1 ATGGTCTTACACATG
4538722 TATCTATACT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACATGCAGTGCCATAACCCAGCC
Found at i:4538828 original size:33 final size:33
Alignment explanation
Indices: 4538746--4538855 Score: 87
Period size: 33 Copynumber: 3.3 Consensus size: 33
4538736 TGGTCCAACC
* ** * *
4538746 ATGGTCTTACATTCAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
* *
4538779 ATGTTCTTTTCA-TTAAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAGCCCAGCT
* * * *
4538812 ATGGTCTTACATTTAAACATTGCCATGGTCCAACC
1 ATGGTCTTACATTTAAA-A-TGCCATAGCCCAGCT
4538847 ATGGTCTTA
1 ATGGTCTTA
4538856 TCCATCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
32 4 0.07
33 31 0.52
34 5 0.08
35 20 0.33
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
Found at i:4544771 original size:23 final size:21
Alignment explanation
Indices: 4544745--4544796 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
4544735 CAACCAAACC
*
4544745 CAAAAAATTCAAGCCCAATAATA
1 CAAAAAA-ACAAGCCCAA-AATA
4544768 CAAAAACAACAAGCCCAAAATA
1 CAAAAA-AACAAGCCCAAAATA
*
4544790 TAAAAAA
1 CAAAAAA
4544797 GAAAAGAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 9 0.35
23 15 0.58
24 1 0.04
ACGTcount: A:0.63, C:0.21, G:0.04, T:0.12
Consensus pattern (21 bp):
CAAAAAAACAAGCCCAAAATA
Found at i:4545991 original size:15 final size:15
Alignment explanation
Indices: 4545939--4545993 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
4545929 CTGTTATCAC
4545939 TATTATT-TTTTTAT
1 TATTATTATTTTTAT
*
4545953 T-TTATATATTTTTAC
1 TATTAT-TATTTTTAT
*
4545968 TACTATTATTTTTAT
1 TATTATTATTTTTAT
*
4545983 TATTCTTATTT
1 TATTATTATTT
4545994 ATCTATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 2 0.06
15 24 0.73
16 3 0.09
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTATTTTTAT
Found at i:4546570 original size:12 final size:13
Alignment explanation
Indices: 4546555--4546593 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
4546545 TTTTTATATT
4546555 TTCATATT-TTTA
1 TTCATATTATTTA
*
4546567 TTCATATTCTTTA
1 TTCATATTATTTA
4546580 TTCAT-TTATTTA
1 TTCATATTATTTA
4546592 TT
1 TT
4546594 TACATTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCATATTATTTA
Found at i:4552265 original size:22 final size:24
Alignment explanation
Indices: 4552217--4552265 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
4552207 TATAAATATT
4552217 TAATAATAAATATTTTATAGTATA
1 TAATAATAAATATTTTATAGTATA
* *
4552241 TAAT-ATAAATGTTTTA-ATTATA
1 TAATAATAAATATTTTATAGTATA
4552263 TAA
1 TAA
4552266 ATATGAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 11 0.48
24 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TAATAATAAATATTTTATAGTATA
Found at i:4552543 original size:20 final size:21
Alignment explanation
Indices: 4552495--4552544 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
4552485 ACAGAAAACC
4552495 TTGATTCAACTGGTTCAATTG
1 TTGATTCAACTGGTTCAATTG
* *
4552516 TCGGTTCAA-TGGTTCAATTG
1 TTGATTCAACTGGTTCAATTG
4552536 TTGATTCAA
1 TTGATTCAA
4552545 ACGGTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (21 bp):
TTGATTCAACTGGTTCAATTG
Found at i:4555650 original size:41 final size:41
Alignment explanation
Indices: 4555554--4555653 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
4555544 AATTAGCTTG
* * * *
4555554 CTAGACGTAAAGTCCGAAATATTTCACCGGCGTCAAGCCTG
1 CTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGCCTA
4555595 CTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGCCTA
1 CTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGCCTA
4555636 CTAGACGTAAAGTCTGAA
1 CTAGACGTAAAGTCTGAA
4555654 TTATCTCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (41 bp):
CTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGCCTA
Found at i:4563497 original size:41 final size:41
Alignment explanation
Indices: 4563398--4563500 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
4563388 TGGCAATTAG
* * **
4563398 CTGCTAGACGTAAAGTCCGAAATATTTCACCGGTGTCAAGC
1 CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGC
4563439 CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGC
1 CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGC
*
4563480 CTGCTAGACATAAAGTCTGAA
1 CTGCTAGACGTAAAGTCTGAA
4563501 TTATCTCATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGC
Found at i:4568208 original size:30 final size:30
Alignment explanation
Indices: 4568152--4568208 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
4568142 TGCGAAATCG
* *
4568152 ACACGGGCATGTGTCCAGCCCATGTGGCTC
1 ACACAGGCATGTGTCCAGACCATGTGGCTC
*
4568182 ACACAGGCGTGTGTCCA-ACCAGTGTGG
1 ACACAGGCATGTGTCCAGACCA-TGTGG
4568209 AAATGCTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.13
30 20 0.87
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (30 bp):
ACACAGGCATGTGTCCAGACCATGTGGCTC
Found at i:4570690 original size:9 final size:9
Alignment explanation
Indices: 4570664--4570695 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
4570654 ATTTGATATT
4570664 AATATTTTA
1 AATATTTTA
4570673 AAT-TTTTA
1 AATATTTTA
4570681 AATATTTTA
1 AATATTTTA
4570690 AA-ATTT
1 AATATTT
4570696 ATGATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.55
9 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATATTTTA
Found at i:4575253 original size:6 final size:6
Alignment explanation
Indices: 4575236--4575313 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
4575226 CCGTGGGTTC
* *
4575236 TTTCTT TCTCTT TTTCTT TTTCTT TTTCTT TTTCTTT CTTTCTA TTTCGTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT -TTTCTT TTTC-TT
* *
4575287 TTGCTT TTGTCTT TCTT-TA TTTCTT TT
1 TTTCTT TT-TCTT T-TTCTT TTTCTT TT
4575314 ATTACTATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
5 2 0.03
6 39 0.67
7 12 0.21
8 5 0.09
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:4575300 original size:34 final size:34
Alignment explanation
Indices: 4575233--4575300 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
4575223 AACCCGTGGG
* *
4575233 TTCTTTCTTTCTCTTTTTCTTTTTCTTTTTCTTT
1 TTCTTTCTTTCTCTATTTCTTTTGCTTTTTCTTT
4575267 TTCTTTC-TT-TCTATTTCGTTTTGCTTTTGTCTTT
1 TTCTTTCTTTCTCTATTTC-TTTTGCTTTT-TCTTT
4575301 CTTTATTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.23
33 11 0.37
34 12 0.40
ACGTcount: A:0.01, C:0.19, G:0.04, T:0.75
Consensus pattern (34 bp):
TTCTTTCTTTCTCTATTTCTTTTGCTTTTTCTTT
Found at i:4579418 original size:16 final size:16
Alignment explanation
Indices: 4579397--4579430 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4579387 CCAATATCCA
* *
4579397 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
4579413 ATTATCACATTTACAC
1 ATTATCACATTTACAC
4579429 AT
1 AT
4579431 ATATATTCAT
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:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:4590422 original size:17 final size:18
Alignment explanation
Indices: 4590396--4590430 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4590386 TAAAAACGCA
*
4590396 TAAGTTAGCCTAA-CTCG
1 TAAGTCAGCCTAATCTCG
4590413 TAAGTCAGCCTAATCTCG
1 TAAGTCAGCCTAATCTCG
4590431 CAACGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TAAGTCAGCCTAATCTCG
Found at i:4604723 original size:7 final size:7
Alignment explanation
Indices: 4604711--4604735 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4604701 GTCAATACTG
4604711 AAAATTC
1 AAAATTC
4604718 AAAATTC
1 AAAATTC
4604725 AAAATTC
1 AAAATTC
4604732 AAAA
1 AAAA
4604736 AGTGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:4611966 original size:37 final size:37
Alignment explanation
Indices: 4611925--4611996 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
4611915 AAATATATAT
*
4611925 ATATTATTTTTA-TTTTTAATTTTAAAATACTTTTAAA
1 ATATT-TTTTTATTTTTTAATTTTAAAATAATTTTAAA
*
4611962 ATATTTTTTTATTTTTTTATTTTTAAAATAATTTT
1 ATATTTTTTTA-TTTTTTAATTTTAAAATAATTTT
4611997 TTAATGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 6 0.19
37 5 0.16
38 20 0.65
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (37 bp):
ATATTTTTTTATTTTTTAATTTTAAAATAATTTTAAA
Found at i:4616316 original size:21 final size:20
Alignment explanation
Indices: 4616290--4616338 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4616280 TCATTCTCAA
4616290 TCTCTTTTTGCTCTTTTTC-AT
1 TCTCTTTTT--TCTTTTTCGAT
4616311 TCTCTTTTTTCTTTTTCGAT
1 TCTCTTTTTTCTTTTTCGAT
4616331 T-TCTTTTT
1 TCTCTTTTT
4616339 CTATCTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 15 0.56
20 3 0.11
21 9 0.33
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.71
Consensus pattern (20 bp):
TCTCTTTTTTCTTTTTCGAT
Found at i:4616325 original size:19 final size:19
Alignment explanation
Indices: 4616276--4616338 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
4616266 TTTCACATTC
* * *
4616276 TTTTTCATTCTCAATCTCT
1 TTTTTCTTTTTCATTCTCT
4616295 TTTTGCTCTTTTTCATTCTCT
1 TTTT--TCTTTTTCATTCTCT
4616316 TTTTTCTTTTTCGATT-TCT
1 TTTTTCTTTTTC-ATTCTCT
4616335 TTTT
1 TTTT
4616339 CTATCTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 19 0.50
20 3 0.08
21 16 0.42
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTCTTTTTCATTCTCT
Found at i:4626293 original size:16 final size:16
Alignment explanation
Indices: 4626272--4626316 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
4626262 GTCGTTAAAA
4626272 ACATTGCAAAAATCAG
1 ACATTGCAAAAATCAG
4626288 ACATTGCAAAAATCAG
1 ACATTGCAAAAATCAG
*
4626304 ACATTGCACAAAT
1 ACATTGCAAAAAT
4626317 GGTGTCGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (16 bp):
ACATTGCAAAAATCAG
Found at i:4635756 original size:148 final size:148
Alignment explanation
Indices: 4635557--4635856 Score: 519
Period size: 148 Copynumber: 2.0 Consensus size: 148
4635547 AAATAAATTG
* *
4635557 GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCTCTGAACTCGTCCAATCCTATGGCATGT
1 GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCCCTGAACTCGTCCAATCCTATGGCATGC
*
4635622 TATCTATATCCGACTCAACCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
66 CATCTATATCCGACTCAACCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
4635687 TATTCAATTATCATATTT
131 TATTCAATTATCATATTT
* * *
4635705 GCACCTAGTGCCTCATTGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAATCCTATGGCATGC
1 GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCCCTGAACTCGTCCAATCCTATGGCATGC
* * *
4635770 CATCTATATCCGACTCAGCCTAATACAGTTAATAGGGTTTAATTTCACTTTCCAAATACAACCAA
66 CATCTATATCCGACTCAACCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
4635835 TATTCAATTATCATATTT
131 TATTCAATTATCATATTT
4635853 GCAC
1 GCAC
4635857 ATATATATAT
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 143 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (148 bp):
GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCCCTGAACTCGTCCAATCCTATGGCATGC
CATCTATATCCGACTCAACCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
TATTCAATTATCATATTT
Found at i:4636193 original size:19 final size:20
Alignment explanation
Indices: 4636156--4636196 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4636146 TACAACACAA
*
4636156 TTCAATTTCATATTTAATAT
1 TTCAATTTCATATTCAATAT
*
4636176 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
4636195 TT
1 TT
4636197 TTCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:4636621 original size:9 final size:10
Alignment explanation
Indices: 4636603--4636645 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
4636593 GCCTTGTGTC
4636603 TTTCTTTCTT
1 TTTCTTTCTT
4636613 TTT-TTTCTT
1 TTTCTTTCTT
4636622 TTTCTTTC-T
1 TTTCTTTCTT
*
4636631 TTCCTTTCTGT
1 TTTCTTTCT-T
4636642 TTTC
1 TTTC
4636646 GTTTGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 17 0.61
10 7 0.25
11 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:4636638 original size:19 final size:20
Alignment explanation
Indices: 4636603--4636645 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4636593 GCCTTGTGTC
**
4636603 TTTCTTTCTTTTTTTTCT-T
1 TTTCTTTCTTTCCTTTCTGT
4636622 TTTCTTTCTTTCCTTTCTGT
1 TTTCTTTCTTTCCTTTCTGT
4636642 TTTC
1 TTTC
4636646 GTTTGGCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTTTCTTTCCTTTCTGT
Found at i:4636655 original size:27 final size:23
Alignment explanation
Indices: 4636602--4636675 Score: 58
Period size: 27 Copynumber: 2.9 Consensus size: 23
4636592 AGCCTTGTGT
**
4636602 CTTTCTTTCTTTTTTTTCTTTTT
1 CTTTCTTTCTTTTTTTTCTTTGG
4636625 CTTTCTTTCCTTTCTGTTTTCGTTTGG
1 CTTTCTTT-CTTT-T-TTTTC-TTTGG
*
4636652 CTTTGGCTTTCTATTCTTTTCTTT
1 CTTT--CTTTCT-TTTTTTTCTTT
4636676 TTTTTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
23 8 0.20
24 4 0.10
25 1 0.02
26 8 0.20
27 12 0.29
28 2 0.05
29 6 0.15
ACGTcount: A:0.01, C:0.20, G:0.08, T:0.70
Consensus pattern (23 bp):
CTTTCTTTCTTTTTTTTCTTTGG
Found at i:4647741 original size:9 final size:9
Alignment explanation
Indices: 4647727--4647757 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4647717 GTTAAACGAA
4647727 TCGAGTTAT
1 TCGAGTTAT
*
4647736 TCGAGTTAA
1 TCGAGTTAT
4647745 TCGAGTTAT
1 TCGAGTTAT
4647754 TCGA
1 TCGA
4647758 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4647915 original size:21 final size:21
Alignment explanation
Indices: 4647874--4647916 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4647864 ACCCCAAACT
* *
4647874 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
4647895 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
4647916 C
1 C
4647917 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:4647921 original size:30 final size:30
Alignment explanation
Indices: 4647887--4647971 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
4647877 AAACCTTTTT
* *
4647887 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
4647917 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
4647947 ACTTTCCCCCCAAAACTTTTACTCC
1 ACTTTCCCCCCAAAACTTTTACTCC
4647972 CCTCCCCTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.35
Consensus pattern (30 bp):
ACTTTCCCCCCAAAACTTTTACTCCTTCCC
Found at i:4648418 original size:17 final size:17
Alignment explanation
Indices: 4648364--4648444 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 17
4648354 TTATATCTAC
*
4648364 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
4648381 TAAATTTCATATT-TT-ATAT
1 T--ATTT-ATATTATTGA-AT
4648400 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
4648417 TATTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTGAAT
4648434 TATTTATATTA
1 TATTTATATTA
4648445 AAATTGAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
15 1 0.02
16 8 0.15
17 21 0.38
18 10 0.18
19 10 0.18
20 5 0.09
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:4650865 original size:31 final size:33
Alignment explanation
Indices: 4650811--4650871 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
4650801 ATGTGAACTT
*
4650811 TTATTTAATATTAAATTTTTTATTTTGATTCAA
1 TTATTTAATATGAAATTTTTTATTTTGATTCAA
4650844 TTATTT-ATATGAAA-TTTTTATTTTGATT
1 TTATTTAATATGAAATTTTTTATTTTGATT
4650872 TTGAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 14 0.52
32 7 0.26
33 6 0.22
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (33 bp):
TTATTTAATATGAAATTTTTTATTTTGATTCAA
Found at i:4653740 original size:34 final size:35
Alignment explanation
Indices: 4653696--4653794 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 35
4653686 GCAAAAGAGT
4653696 TTGCGCCCAGCGCTAGTCGGATAAACCGACA-AA-
1 TTGCGCCCAGCGCTAGTCGGATAAACCGACAGAAG
* * * *
4653729 TGTGTGCCCAGCACTAGTCAGATAAACTGACAGAAG
1 T-TGCGCCCAGCGCTAGTCGGATAAACCGACAGAAG
* *
4653765 TTGCGCCCAGCGCTAATCGGATATACCGAC
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAC
4653795 GAACAATTAG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 1 0.02
34 26 0.49
35 25 0.47
36 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.18
Consensus pattern (35 bp):
TTGCGCCCAGCGCTAGTCGGATAAACCGACAGAAG
Found at i:4653902 original size:75 final size:75
Alignment explanation
Indices: 4653765--4654023 Score: 324
Period size: 75 Copynumber: 3.5 Consensus size: 75
4653755 CTGACAGAAG
* * * * * * *
4653765 TTGCGCCCAGCGCTAATCGGATATACCGACGA-ACAATTAGTGAGCCTAGCTCTAATTGGATAAA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
4653829 CCAATGATAT
66 CCAATGATAT
* * * *
4653839 TTGTGCCTAGCGCTAGTCGTATAAACCGACGATATAAATATTGAGCCTAGCTCTAGTTGGATAAA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
*
4653904 CCAATAATAT
66 CCAATGATAT
* * * * *
4653914 TTGCGCCCAGCGCTAGTCGGATAAACCAACAATATAAATAGTGAGCCCAACTCTAGTTGGATGAA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
*
4653979 CCAACGATGA-
66 CCAATGAT-AT
*
4653989 TTGCGCCTAGCGCTAGTCGGATGAACCGACAATAT
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATAT
4654024 CAATTACTCA
Statistics
Matches: 159, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
74 27 0.17
75 131 0.82
76 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (75 bp):
TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
CCAATGATAT
Found at i:4653948 original size:35 final size:35
Alignment explanation
Indices: 4653695--4654023 Score: 169
Period size: 35 Copynumber: 9.0 Consensus size: 35
4653685 AGCAAAAGAG
4653695 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAA-A
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
* * * * *
4653729 TGTGTGCCCAGCACTAGTCAGATAAACTGACAGA-A
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACA-ATA
* * * *
4653764 GTTGCGCCCAGCGCTAATCGGATATACCGACGAACAA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGAC-AA-TA
* * * * * * **
4653801 TTAGTGAGCCTAGCTCTAATTGGATAAACCAATGATA
1 TT--TGCGCCCAGCGCTAGTCGGATAAACCGACAATA
* * *
4653838 TTTGTGCCTAGCGCTAGTCGTATAAACCGACGATATAAA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGAC-A-AT--A
* * * * * *
4653877 TATTGAGCCTAGCTCTAGTTGGATAAACCAATAATA
1 T-TTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
*
4653913 TTTGCGCCCAGCGCTAGTCGGATAAACCAACAATA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
* * * * * * *
4653948 TAAATAGTGAGCCCAACTCTAGTTGGATGAACCAACGATGA
1 T---T--TGCGCCCAGCGCTAGTCGGATAAACCGACAAT-A
* *
4653989 -TTGCGCCTAGCGCTAGTCGGATGAACCGACAATA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
4654023 T
1 T
4654024 CAATTACTCA
Statistics
Matches: 222, Mismatches: 55, Indels: 35
0.71 0.18 0.11
Matches are distributed among these distances:
34 28 0.13
35 103 0.46
36 3 0.01
37 8 0.04
38 4 0.02
39 25 0.11
40 50 0.23
41 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (35 bp):
TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
Found at i:4653982 original size:40 final size:39
Alignment explanation
Indices: 4653859--4653983 Score: 123
Period size: 40 Copynumber: 3.3 Consensus size: 39
4653849 CGCTAGTCGT
* * *
4653859 ATAAACCGACGATATAAATATTGAGCCTAGCTCTAGTTGG
1 ATAAACCAACAATATAAATA-TGAGCCCAGCTCTAGTTGG
* * * *
4653899 ATAAACCAATAATAT---T-TGCGCCCAGCGCTAGTCGG
1 ATAAACCAACAATATAAATATGAGCCCAGCTCTAGTTGG
*
4653934 ATAAACCAACAATATAAATAGTGAGCCCAACTCTAGTTGG
1 ATAAACCAACAATATAAATA-TGAGCCCAGCTCTAGTTGG
*
4653974 ATGAACCAAC
1 ATAAACCAAC
4653984 GATGATTGCG
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
35 29 0.43
37 1 0.01
38 1 0.01
40 36 0.54
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (39 bp):
ATAAACCAACAATATAAATATGAGCCCAGCTCTAGTTGG
Found at i:4655476 original size:37 final size:38
Alignment explanation
Indices: 4655422--4655497 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
4655412 TTGAATATAA
*
4655422 TAAATATATATTTTTATTTTTTAATTTTAAAATACTTT
1 TAAATATATATTTTTATTTTTTAATTTTAAAATAATTT
* *
4655460 TAAA-ATATTTTTTTATTTTTTATTTTTAAAATAATTT
1 TAAATATATATTTTTATTTTTTAATTTTAAAATAATTT
4655497 T
1 T
4655498 TTAATGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (38 bp):
TAAATATATATTTTTATTTTTTAATTTTAAAATAATTT
Found at i:4655497 original size:26 final size:26
Alignment explanation
Indices: 4655457--4655514 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
4655447 TTTAAAATAC
* * *
4655457 TTTTAAAATATTTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
4655483 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
4655509 TTTTAA
1 TTTTAA
4655515 TATGGGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTAATGTTTAT
Found at i:4661206 original size:91 final size:90
Alignment explanation
Indices: 4661074--4661280 Score: 265
Period size: 90 Copynumber: 2.3 Consensus size: 90
4661064 TACTTAACCC
* * * *
4661074 ATTTCATTGTTGGGGCACTTAGGCTTTAGTATCTTATTGCAATAATTTTTTTTAATTTTTTGGGA
1 ATTTCATTGTTGGGGCACTTAGGCTTCAGTATATTACTGCAAT-ATTTTTTTAAATTTTTTGGGA
4661139 TAAATATAATAATCACTATTCATTTT
65 TAAATATAATAATCACTATTCATTTT
* *
4661165 ATTTCATT-TTCGGGGCACTTGGGCTTCAGTTTATTACTGCAATATTTTTTTAAATTTTTTGGGA
1 ATTTCATTGTT-GGGGCACTTAGGCTTCAGTATATTACTGCAATATTTTTTTAAATTTTTTGGGA
* * *
4661229 TAATTATAATAATCACTATTTATTTC
65 TAAATATAATAATCACTATTCATTTT
** *
4661255 ATGCCACTT-TTGGGCCACTTAGGCTT
1 ATTTCA-TTGTTGGGGCACTTAGGCTT
4661281 GATTTTGGGG
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
90 62 0.61
91 39 0.39
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.47
Consensus pattern (90 bp):
ATTTCATTGTTGGGGCACTTAGGCTTCAGTATATTACTGCAATATTTTTTTAAATTTTTTGGGAT
AAATATAATAATCACTATTCATTTT
Found at i:4661274 original size:90 final size:90
Alignment explanation
Indices: 4661038--4661280 Score: 290
Period size: 91 Copynumber: 2.7 Consensus size: 90
4661028 GGAAAAGTTC
* * * *** *
4661038 TTTTTGGGGAAAATTATAATAATCACTACTTAACCCATTTCATTGTTGGGGCACTTAGGCTTTAG
1 TTTTTTGGGATAATTATAATAATCACTATTTATTTCATTTCATT-TTGGGGCACTTAGGCTTCAG
* * *
4661103 TATCTTATTGCAATAATTTTTTTTAA
65 TATATTACTGCAATAATTTTTTTAAA
* * * *
4661129 TTTTTTGGGATAAATATAATAATCACTATTCATTTTATTTCATTTTCGGGGCACTTGGGCTTCAG
1 TTTTTTGGGATAATTATAATAATCACTATTTATTTCATTTCATTTT-GGGGCACTTAGGCTTCAG
*
4661194 TTTATTACTGCAAT-ATTTTTTTAAA
65 TATATTACTGCAATAATTTTTTTAAA
** *
4661219 TTTTTTGGGATAATTATAATAATCACTATTTATTTCATGCCACTTTTGGGCCACTTAGGCTT
1 TTTTTTGGGATAATTATAATAATCACTATTTATTTCATTTCA-TTTTGGGGCACTTAGGCTT
4661281 GATTTTGGGG
Statistics
Matches: 128, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
90 62 0.48
91 66 0.52
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (90 bp):
TTTTTTGGGATAATTATAATAATCACTATTTATTTCATTTCATTTTGGGGCACTTAGGCTTCAGT
ATATTACTGCAATAATTTTTTTAAA
Found at i:4661571 original size:20 final size:18
Alignment explanation
Indices: 4661547--4661601 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
4661537 TCAAGTCCAA
4661547 TTCTCTTCATTCTCTCTAT
1 TTCTCTTCATTCTCTC-AT
*
4661566 TCTCTCTTTATTCTCTCAT
1 T-TCTCTTCATTCTCTCAT
4661585 TTCTC-TCAATTCTCTCA
1 TTCTCTTC-ATTCTCTCA
4661602 AGATTAGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 1 0.03
18 13 0.41
19 4 0.12
20 14 0.44
ACGTcount: A:0.13, C:0.33, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCTCTTCATTCTCTCAT
Found at i:4661588 original size:9 final size:9
Alignment explanation
Indices: 4661544--4661602 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
4661534 CACTCAAGTC
4661544 CAATTCTCTT
1 CAATTCTC-T
4661554 C-ATTCTCT
1 CAATTCTCT
*
4661562 CTATTCTCT
1 CAATTCTCT
*
4661571 CTTTATTCTCT
1 C--AATTCTCT
*
4661582 CATTTCTCT
1 CAATTCTCT
4661591 CAATTCTCT
1 CAATTCTCT
4661600 CAA
1 CAA
4661603 GATTAGTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 2 0.05
9 31 0.72
10 1 0.02
11 9 0.21
ACGTcount: A:0.17, C:0.32, G:0.00, T:0.51
Consensus pattern (9 bp):
CAATTCTCT
Found at i:4664389 original size:90 final size:88
Alignment explanation
Indices: 4664237--4664585 Score: 307
Period size: 90 Copynumber: 3.9 Consensus size: 88
4664227 GGTACTTGGG
* * * ** *
4664237 CTTGGGCTTGAGTTTGGTGTTGC-A-ATTTTTTT-AGTTTTACGAGATAATTATAATAATCACTA
1 CTTGGGCTTGAGTATGGTGCTGCAATATTTTTTTAATTTTTTTGAGAT--TTATAATAATAACTA
4664299 TTTATTTCATTTCATTTTCGAGGAA
64 TTTATTTCATTTCATTTTCGAGGAA
* *
4664324 CTTGGGCTTGAGTATGGTACTGCAATATTTTTTTAATTTTTTTGAGATGGTTATGATAATAACTA
1 CTTGGGCTTGAGTATGGTGCTGCAATATTTTTTTAATTTTTTTGAGAT--TTATAATAATAACTA
*
4664389 TTTATTTCATTTCATTTTCTG-GGCA
64 TTTATTTCATTTCATTTTC-GAGGAA
* * * * * ** * *
4664414 CTTGGACTTGAGTATGATGCTGTAAAATTTTTTTTATTTTTTTGAGA-CAATTATAATACATTAT
1 CTTGGGCTTGAGTATGGTGCTGCAATATTTTTTTAATTTTTTTGAGATTTATAATAATA-ACTAT
* *
4664478 TTATTTCATTTCATTTTTGAGAAA
65 TTATTTCATTTCATTTTCGAGGAA
* * * * * *
4664502 CTTGGGCTTGAGTTTGGGGCTGCAATGAATATTTTTAA-TTTTATGGGATAATTATAATAATCAC
1 CTTGGGCTTGAGTATGGTGCTGCAAT--ATTTTTTTAATTTTTTTGAGAT--TTATAATAATAAC
*
4664566 TATTT-TTTAAGTTTCATTTT
62 TATTTATTTCA-TTTCATTTT
4664586 TGGTGTTTGA
Statistics
Matches: 210, Mismatches: 40, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
87 29 0.14
88 44 0.21
89 16 0.08
90 98 0.47
91 16 0.08
92 7 0.03
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.48
Consensus pattern (88 bp):
CTTGGGCTTGAGTATGGTGCTGCAATATTTTTTTAATTTTTTTGAGATTTATAATAATAACTATT
TATTTCATTTCATTTTCGAGGAA
Found at i:4678649 original size:44 final size:44
Alignment explanation
Indices: 4678586--4678673 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
4678576 CAAATTATAC
4678586 AATGTATAAACATTGAGGTTAATTTTTTTAGAATCGGTACTAAA
1 AATGTATAAACATTGAGGTTAATTTTTTTAGAATCGGTACTAAA
4678630 AATGTATAAACATTGAGGTTAATTTTTTTAGAATCGGTACTAAA
1 AATGTATAAACATTGAGGTTAATTTTTTTAGAATCGGTACTAAA
4678674 TTGACATCGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (44 bp):
AATGTATAAACATTGAGGTTAATTTTTTTAGAATCGGTACTAAA
Found at i:4678911 original size:10 final size:10
Alignment explanation
Indices: 4678879--4678929 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
4678869 TGTATAATGA
4678879 TTTATTTTCC
1 TTTATTTTCC
* *
4678889 TTAACTTTCC
1 TTTATTTTCC
*
4678899 TTTATTTTAC
1 TTTATTTTCC
*
4678909 TTTCTTTTCC
1 TTTATTTTCC
4678919 TTTATTCTTCC
1 TTTATT-TTCC
4678930 CCTTTACTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 28 0.88
11 4 0.12
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATTTTCC
Found at i:4686883 original size:22 final size:21
Alignment explanation
Indices: 4686827--4686885 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
4686817 TTCAGTCCCC
4686827 ATACATTTT-ATTTAGTCTTTT
1 ATAC-TTTTGATTTAGTCTTTT
* * *
4686848 TTAATTTCGAATTTAGTCTTTCT
1 ATACTTTTG-ATTTAGTCTTT-T
4686871 ATACTTTTGATTTAG
1 ATACTTTTGATTTAG
4686886 CAATTGAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.10
21 2 0.07
22 17 0.59
23 7 0.24
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (21 bp):
ATACTTTTGATTTAGTCTTTT
Found at i:4690244 original size:31 final size:30
Alignment explanation
Indices: 4690192--4690249 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
4690182 ATAAAAAAGG
**
4690192 TATAAAATTATTAAATGTTAAAATAATATAA
1 TATAAAATTATTAAAAATTAAAA-AATATAA
4690223 TATAAATATT-TTAAAAATTAAAAAATA
1 TATAAA-ATTATTAAAAATTAAAAAATA
4690250 ATGTGGGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.17
31 17 0.71
32 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TATAAAATTATTAAAAATTAAAAAATATAA
Found at i:4691961 original size:17 final size:17
Alignment explanation
Indices: 4691926--4691976 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
4691916 TGACTAATTT
*
4691926 AAAATAAA-ATT-TTAA
1 AAAATAAATATTATAAA
4691941 AAAATAAATATTATAAA
1 AAAATAAATATTATAAA
*
4691958 AAAATAGATATTATAAA
1 AAAATAAATATTATAAA
4691975 AA
1 AA
4691977 TATTGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.25
16 3 0.09
17 21 0.66
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATAAATATTATAAA
Found at i:4694373 original size:31 final size:31
Alignment explanation
Indices: 4694335--4694491 Score: 135
Period size: 31 Copynumber: 5.0 Consensus size: 31
4694325 TTAATAGAAT
* *
4694335 ATTTGGTACCTCAACTTGACACATTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTA
* * *
4694366 ATTTGGTACCTAAAGTT-----TTTTTGTCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCT-TA
* * *
4694393 ATTTGGGACCTCAACTTGACACGTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTA
* *
4694424 ATTTGGTACCTAAAGCTTAATAGACATTTTTTCCTA
1 ATTTGGTACCTAAA-C-T--T-GACACTTTTTCTTA
4694460 ATTTGGTACCTAAACTTGACACTTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCTTA
4694491 A
1 A
4694492 GTTGATACTT
Statistics
Matches: 97, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
26 5 0.05
27 15 0.15
31 41 0.42
32 7 0.07
33 1 0.01
34 1 0.01
35 2 0.02
36 25 0.26
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTA
Found at i:4695035 original size:61 final size:60
Alignment explanation
Indices: 4694934--4695078 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
4694924 TAAAAAATTT
* * *
4694934 AAGTACCAAATT-GTACCTAAAAAATGCTTAGGTACCAAATTAGGAAAAAAATACCAAGTTC
1 AAGTACCAAATTGGGACC-AAAAAATGCTTAGGTAACAAATTAAG-AAAAAATACCAAGTTC
* * * **
4694995 AAGTACCAAATTGGGACCAAAAAA-GTTTAGGTAAATAAATTAAGAAAAAGTGTCAAGTTC
1 AAGTACCAAATTGGGACCAAAAAATGCTTAGGT-AACAAATTAAGAAAAAATACCAAGTTC
* * *
4695055 AAGTATCAATTTGGGACAAAAAAA
1 AAGTACCAAATTGGGACCAAAAAA
4695079 ATATCAAGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
60 41 0.58
61 26 0.37
62 4 0.06
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (60 bp):
AAGTACCAAATTGGGACCAAAAAATGCTTAGGTAACAAATTAAGAAAAAATACCAAGTTC
Found at i:4695966 original size:20 final size:20
Alignment explanation
Indices: 4695941--4695980 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4695931 TGTAAAATGA
*
4695941 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
4695961 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
4695981 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:4695969 original size:34 final size:35
Alignment explanation
Indices: 4695926--4695992 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4695916 CAGTAAAATA
*
4695926 TTTTCTGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGAAAAATATTTTAC
*
4695960 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
4695993 TTAGTATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:4696098 original size:18 final size:18
Alignment explanation
Indices: 4696072--4696121 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
4696062 AAAAGTTGTT
*
4696072 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
4696090 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
* *
4696108 TTTTTATATTTTAA
1 TTTATATATATTAA
4696122 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:4699855 original size:22 final size:20
Alignment explanation
Indices: 4699830--4699891 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 20
4699820 TGTTTGTTTG
4699830 AAATTTTGGTTTTTTTAATAAA
1 AAATTTTGGTTTTTTT--TAAA
* *
4699852 AAATTTATGATTTATTTTTGAA
1 AAATTT-TGGTTT-TTTTTAAA
4699874 AAATTTTAGGGTTTTTTT
1 AAATTTT--GGTTTTTTT
4699892 GGCATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 1 0.03
22 19 0.58
23 9 0.27
24 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.56
Consensus pattern (20 bp):
AAATTTTGGTTTTTTTTAAA
Found at i:4708167 original size:164 final size:164
Alignment explanation
Indices: 4707891--4708210 Score: 488
Period size: 164 Copynumber: 2.0 Consensus size: 164
4707881 AAATCAAGAA
* * *
4707891 CAAAACTAGGTGTGGAAATGTACTTGAATTCATCGATTTCTTGAAATTTATAGATTTTGAGGTTT
1 CAAAACTAGATGTGGAAACGTACTTGAATTCATCGATTTCTTGAAATTTATAGATTTGGAGGTTT
*
4707956 TGATCTTCCAAATTAGCACACAAGTAATCTAGAGAAGATGACTCTCTCTTTTCTAAAGATGAGAT
66 TGATCTTCCAAATTAACACACAAGTAATCTAGAGAAGATGACTCTCTCTTTTCTAAAGATGAGAT
4708021 ATTAGAAAAGTTATC-TTGTGTGTAATTTGGGGAC
131 ATTAGAAAAGTTA-CATTGTGTGTAATTTGGGGAC
* *
4708055 CAAAACTAGATGTGGAAGCGTA-TCTGAATTCATCGATTTCTTGAAATTTATGGATCTTGGA-GT
1 CAAAACTAGATGTGGAAACGTACT-TGAATTCATCGATTTCTTGAAATTTATAGAT-TTGGAGGT
* *
4708118 TTTGATCTTCCAAATTAACACTA-AAGTAATCTAGAGAAGGT-AGCTCTCTCTTTTTTAAAGATG
64 TTTGATCTTCCAAATTAACAC-ACAAGTAATCTAGAGAAGATGA-CTCTCTCTTTTCTAAAGATG
4708181 AGATATTAGAAAAGTTACATTGTGTGTAAT
127 AGATATTAGAAAAGTTACATTGTGTGTAAT
4708211 CTAGGGAACA
Statistics
Matches: 143, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
163 3 0.02
164 135 0.94
165 5 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (164 bp):
CAAAACTAGATGTGGAAACGTACTTGAATTCATCGATTTCTTGAAATTTATAGATTTGGAGGTTT
TGATCTTCCAAATTAACACACAAGTAATCTAGAGAAGATGACTCTCTCTTTTCTAAAGATGAGAT
ATTAGAAAAGTTACATTGTGTGTAATTTGGGGAC
Found at i:4714144 original size:14 final size:14
Alignment explanation
Indices: 4714125--4714157 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4714115 TTTATGTCAA
4714125 ATTAAAATATAAAT
1 ATTAAAATATAAAT
*
4714139 ATTAAATTATAAAT
1 ATTAAAATATAAAT
4714153 -TTAAA
1 ATTAAA
4714158 CATAATAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAAAATATAAAT
Found at i:4721201 original size:41 final size:41
Alignment explanation
Indices: 4721139--4721267 Score: 118
Period size: 41 Copynumber: 3.1 Consensus size: 41
4721129 TCGGAAGCTT
* *
4721139 ATACAATGCCACTGTCTCAGACAGGGTCTTACACGAAACAA
1 ATACAATGCCAATGTCCCAGACAGGGTCTTACACGAAACAA
* *
4721180 ATACAATGCTAATGTCCCAGACATGGTCTTACACGTAACACAA
1 ATACAATGCCAATGTCCCAGACAGGGTCTTACACG-AA-ACAA
* ** ** *
4721223 GT-TGATGCCAACATCCCAGAC-GTGGTCTTACACGATAACAT
1 ATACAATGCCAATGTCCCAGACAG-GGTCTTACACGA-AACAA
4721264 ATAC
1 ATAC
4721268 CGAAAATCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
41 36 0.52
42 28 0.41
43 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (41 bp):
ATACAATGCCAATGTCCCAGACAGGGTCTTACACGAAACAA
Found at i:4743755 original size:15 final size:14
Alignment explanation
Indices: 4743706--4743756 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
4743696 AAAATTTTCA
*
4743706 ATAAATAAAAATAT
1 ATAAATTAAAATAT
4743720 ATAAAATTATTAAATAT
1 AT-AAATTA--AAATAT
4743737 -TAAATTAAAATAAT
1 ATAAATTAAAAT-AT
4743751 ATAAAT
1 ATAAAT
4743757 ATATTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 16 0.52
16 1 0.03
17 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAATTAAAATAT
Found at i:4745072 original size:22 final size:21
Alignment explanation
Indices: 4745046--4745088 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4745036 AATTTTTTTA
* *
4745046 TTAAATTTATTAATATGATATT
1 TTAAAATTATAAATAT-ATATT
4745068 TTAAAATTATAAATATATATT
1 TTAAAATTATAAATATATATT
4745089 AATTAGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAAATTATAAATATATATT
Found at i:4745255 original size:24 final size:24
Alignment explanation
Indices: 4745227--4745273 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4745217 AATAATATCG
4745227 TAAAAATAAAAGAATA-AAATTAAA
1 TAAAAATAAAA-AATATAAATTAAA
4745251 TAAAAATAAAAAATATAAATTAA
1 TAAAAATAAAAAATATAAATTAA
4745274 TCTGAGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAAAATAAAAAATATAAATTAAA
Done.