Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 122 of 210
Found at i:41004613 original size:17 final size:17
Alignment explanation
Indices: 41004581--41004614 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41004571 GTTTTCTCCC
*
41004581 TTTTTGTTCACTTTTGG
1 TTTTTGTTCACCTTTGG
*
41004598 TTTTTGTTCCCCTTTGG
1 TTTTTGTTCACCTTTGG
41004615 CCGAATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.62
Consensus pattern (17 bp):
TTTTTGTTCACCTTTGG
Found at i:41011809 original size:18 final size:19
Alignment explanation
Indices: 41011786--41011824 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
41011776 AACAAACTTT
*
41011786 ACATAAT-TCACATTCTTC
1 ACATAATATCACATTATTC
41011804 ACATAATAATCACATTATTC
1 ACATAAT-ATCACATTATTC
41011824 A
1 A
41011825 TTTGCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (19 bp):
ACATAATATCACATTATTC
Found at i:41014652 original size:15 final size:14
Alignment explanation
Indices: 41014624--41014670 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
41014614 TTAAACTAAA
41014624 AAATT-TAAAAATT
1 AAATTATAAAAATT
*
41014637 AAATTATATTAAATT
1 AAATTATA-AAAATT
*
41014652 AAAATATAAAAATT
1 AAATTATAAAAATT
41014666 AAATT
1 AAATT
41014671 TTATAGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 12 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTATAAAAATT
Found at i:41016992 original size:43 final size:43
Alignment explanation
Indices: 41016841--41016993 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
41016831 TTATCGTGTG
* * * *
41016841 AGACCACGTCTGGGACGTTGGCGTCGAT-TTGAGATTTACGTGTA
1 AGACCACGTCTAGGACGTTGGCATCGATATT-TGA-TTACATGTA
* * * ** *
41016885 AGACCATGTCTAGGACGTCGGCATTG-TACATGATTTCATGTA
1 AGACCACGTCTAGGACGTTGGCATCGATATTTGATTACATGTA
*
41016927 AGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACATGTA
1 AGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGATTACATGTA
*
41016970 AGGCCACGTCTAGGACGTTGGCAT
1 AGACCACGTCTAGGACGTTGGCAT
41016994 TGTAAGAGCT
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
42 27 0.32
43 35 0.42
44 22 0.26
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
AGACCACGTCTAGGACGTTGGCATCGATATTTGATTACATGTA
Found at i:41022501 original size:26 final size:26
Alignment explanation
Indices: 41022465--41022526 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
41022455 CCTGTAAGTG
*
41022465 TTCTAAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* * *
41022491 TTCTGGAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
41022517 TTCTGAAACT
1 TTCTGAAACT
41022527 ACTATAGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:41033866 original size:26 final size:28
Alignment explanation
Indices: 41033837--41033897 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
41033827 TATGAATTTG
*
41033837 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
41033863 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
41033891 TAAAATT
1 TATAATT
41033898 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:41033894 original size:101 final size:94
Alignment explanation
Indices: 41033737--41034021 Score: 292
Period size: 93 Copynumber: 3.0 Consensus size: 94
41033727 ACTATAAAAG
* * * *
41033737 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* * *
41033801 ATAATTATAACTAATAAATTATATTTTATGAATTTGT
62 AT--TGATAA-TAA-AAATTATATTATATGAATTTAT
* * *
41033838 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA-TTCTTG
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTATTG
* *
41033902 ATAATAAAAATTTTCTTATATGAATTTAT
66 ATAATAAAAATTATATTATATGAATTTAT
* * * * *
41033931 ACAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAA-TTCTTA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTATTG
*
41033995 ATAAT-AAAATGT-TCTTATATGAATTTA
66 ATAATAAAAAT-TATATTATATGAATTTA
41034022 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
92 20 0.12
93 82 0.50
94 3 0.02
95 5 0.03
97 1 0.01
100 5 0.03
101 48 0.29
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (94 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTATTG
ATAATAAAAATTATATTATATGAATTTAT
Found at i:41033937 original size:93 final size:92
Alignment explanation
Indices: 41033827--41034021 Score: 309
Period size: 93 Copynumber: 2.1 Consensus size: 92
41033817 AATTATATTT
* * * *
41033827 TATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCAT
* *
41033892 AAAATTCTTGATAATAAAAATTTTCTTA
66 AAAATTCTTAATAAT-AAAATGTTCTTA
* *
41033920 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCAT
41033985 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
41034012 TATGAATTTA
1 TATGAATTTA
41034022 CTAAAATCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 21 0.22
93 73 0.78
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:41041709 original size:15 final size:14
Alignment explanation
Indices: 41041681--41041727 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
41041671 TTAAACTAAA
41041681 AAATT-TAAAAATT
1 AAATTATAAAAATT
*
41041694 AAATTATATTAAATT
1 AAATTATA-AAAATT
*
41041709 AAAATATAAAAATT
1 AAATTATAAAAATT
41041723 AAATT
1 AAATT
41041728 TTATAGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 12 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTATAAAAATT
Found at i:41049523 original size:26 final size:26
Alignment explanation
Indices: 41049489--41049551 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
41049479 CTTGTAAGTG
*
41049489 TTCTAAAACTAATACATGCTATGACA
1 TTCTGAAACTAATACATGCTATGACA
* * * *
41049515 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTAATACATGCTATGACA
41049541 TTCTGAAACTA
1 TTCTGAAACTA
41049552 CTATAGGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (26 bp):
TTCTGAAACTAATACATGCTATGACA
Found at i:41058835 original size:15 final size:15
Alignment explanation
Indices: 41058815--41058846 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41058805 CATTTCACTA
*
41058815 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
41058830 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
41058845 TT
1 TT
41058847 TACAGGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:41061115 original size:13 final size:13
Alignment explanation
Indices: 41061097--41061123 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41061087 ATTTCTCTTC
41061097 TTTTTGAATGATT
1 TTTTTGAATGATT
41061110 TTTTTGAATGATT
1 TTTTTGAATGATT
41061123 T
1 T
41061124 GATTACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (13 bp):
TTTTTGAATGATT
Found at i:41061269 original size:24 final size:24
Alignment explanation
Indices: 41061229--41061282 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
41061219 ACCTATCTCA
* *
41061229 TTAT-ATATCTATTTTAT-TATTG
1 TTATAATATCTATATTATGTAATG
*
41061251 TTTATAATATTTATATTATGTAATG
1 -TTATAATATCTATATTATGTAATG
41061276 TTATAAT
1 TTATAAT
41061283 TGTGATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 18 0.69
25 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATAATATCTATATTATGTAATG
Found at i:41078020 original size:5 final size:5
Alignment explanation
Indices: 41078010--41078036 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
41078000 AGATATAGTT
41078010 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
41078037 ATTCTATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:41081090 original size:59 final size:59
Alignment explanation
Indices: 41081025--41081142 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
41081015 GTTTTGCAGA
** * *
41081025 TTAATGCTTAGTATGTTGTAATGGAATTTACAACACTTAGCTTGCTCATAGGTAAGCAT
1 TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
* *
41081084 TTAATGCTTTGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTGAGCAT
1 TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
41081143 GTTACTACCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (59 bp):
TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
Found at i:41092179 original size:16 final size:17
Alignment explanation
Indices: 41092158--41092189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41092148 CTATGTATTT
41092158 TGAAAT-TAAAAATATA
1 TGAAATGTAAAAATATA
41092174 TGAAATGTAAAAATAT
1 TGAAATGTAAAAATAT
41092190 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (17 bp):
TGAAATGTAAAAATATA
Found at i:41092762 original size:20 final size:21
Alignment explanation
Indices: 41092737--41092787 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
41092727 AATTGGAAGG
*
41092737 AGTAAAAGT-TTTGGGGGAAA
1 AGTAAAAATGTTTGGGGGAAA
*
41092757 AGTAAAAATGTTTGGGGTAAA
1 AGTAAAAATGTTTGGGGGAAA
*
41092778 AATATAAAAT
1 AGTA-AAAAT
41092788 ATTATAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 13 0.50
22 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.27
Consensus pattern (21 bp):
AGTAAAAATGTTTGGGGGAAA
Found at i:41092779 original size:22 final size:20
Alignment explanation
Indices: 41092737--41092779 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
41092727 AATTGGAAGG
* *
41092737 AGTAAAAGTTTTGGGGGAAA
1 AGTAAAAATTTTGGGGAAAA
41092757 AGTAAAAATGTTTGGGGTAAAA
1 AGTAAAAAT-TTTGGGG-AAAA
41092779 A
1 A
41092780 TATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (20 bp):
AGTAAAAATTTTGGGGAAAA
Found at i:41093080 original size:20 final size:21
Alignment explanation
Indices: 41093055--41093093 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
41093045 TAAACCTATT
*
41093055 CAAAATATATCAA-AACATGC
1 CAAAATATACCAATAACATGC
41093075 CAAAATATACCAATAACAT
1 CAAAATATACCAATAACAT
41093094 TCAACCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (21 bp):
CAAAATATACCAATAACATGC
Found at i:41093967 original size:18 final size:19
Alignment explanation
Indices: 41093936--41093973 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
41093926 CCTCTATTTG
41093936 TAACTAAGTAAATA-GATA
1 TAACTAAGTAAATATGATA
* *
41093954 TAACTAATTTAATATGATA
1 TAACTAAGTAAATATGATA
41093973 T
1 T
41093974 CTTGTCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (19 bp):
TAACTAAGTAAATATGATA
Found at i:41094478 original size:21 final size:21
Alignment explanation
Indices: 41094449--41094501 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
41094439 TAACAAAGGA
41094449 ACCGAAGTGCAAAATAGAGAT
1 ACCGAAGTGCAAAATAGAGAT
* ** *
41094470 ACTGAAGTGC-TTATAGAGGT
1 ACCGAAGTGCAAAATAGAGAT
41094490 ACCGAAGTGCAA
1 ACCGAAGTGCAA
41094502 TCCCGTACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (21 bp):
ACCGAAGTGCAAAATAGAGAT
Found at i:41095533 original size:23 final size:22
Alignment explanation
Indices: 41095488--41095533 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
41095478 AGGTGATGAC
*
41095488 TTTATTTGTTTTATCTTATATT
1 TTTATTTGTTTTATATTATATT
41095510 TTTATCTTGTTTTATTATTA-ATT
1 TTTAT-TTGTTTTA-TATTATATT
41095533 T
1 T
41095534 AATATTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTATTTGTTTTATATTATATT
Found at i:41096711 original size:17 final size:17
Alignment explanation
Indices: 41096685--41096726 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
41096675 TGTTTTGTTA
*
41096685 GTTTTTTTATTTATTTT
1 GTTTTATTATTTATTTT
*
41096702 GTTTTATTATTTGTTTT
1 GTTTTATTATTTATTTT
*
41096719 CTTTTATT
1 GTTTTATT
41096727 CACGATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (17 bp):
GTTTTATTATTTATTTT
Found at i:41096713 original size:13 final size:12
Alignment explanation
Indices: 41096672--41096718 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
41096662 CACCCGTTCC
*
41096672 ATTTGTTTTGTT
1 ATTTGTTTTATT
41096684 AGTTT-TTTTATTT
1 A-TTTGTTTTA-TT
41096697 ATTTTGTTTTATT
1 A-TTTGTTTTATT
41096710 ATTTGTTTT
1 ATTTGTTTT
41096719 CTTTTATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 13 0.43
13 12 0.40
14 5 0.17
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.77
Consensus pattern (12 bp):
ATTTGTTTTATT
Found at i:41100747 original size:25 final size:26
Alignment explanation
Indices: 41100696--41100763 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
41100686 TTATATGACA
41100696 CTTTGTGAGCTTCCCGATTAAAGGCT
1 CTTTGTGAGCTTCCCGATTAAAGGCT
*
41100722 CTTTGTGAGCTTCCCG-TTAATGGCT
1 CTTTGTGAGCTTCCCGATTAAAGGCT
* *
41100747 CTCT-AGAGCTTCCCGAT
1 CTTTGTGAGCTTCCCGAT
41100764 ATGACTCGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.26
25 12 0.32
26 16 0.42
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.35
Consensus pattern (26 bp):
CTTTGTGAGCTTCCCGATTAAAGGCT
Found at i:41100760 original size:24 final size:26
Alignment explanation
Indices: 41100702--41100763 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
41100692 GACACTTTGT
* *
41100702 GAGCTTCCCGATTAAAGGCTCTTTGT
1 GAGCTTCCCGATTAAAGGCTCTCTGA
*
41100728 GAGCTTCCCG-TTAATGGCTCTCT-A
1 GAGCTTCCCGATTAAAGGCTCTCTGA
41100752 GAGCTTCCCGAT
1 GAGCTTCCCGAT
41100764 ATGACTCGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.31
25 12 0.38
26 10 0.31
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGGCTCTCTGA
Found at i:41111526 original size:20 final size:20
Alignment explanation
Indices: 41111501--41111565 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
41111491 GTTGTATTGG
41111501 TACTTCTCTAGAGGTACCTA
1 TACTTCTCTAGAGGTACCTA
* * * *
41111521 TACTTCACCCACAAGGTACCTG
1 TACTTC-TCTA-GAGGTACCTA
41111543 TACTTCT-TCAGAGGTACCTA
1 TACTTCTCT-AGAGGTACCTA
41111563 TAC
1 TAC
41111566 CTCTATTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 17 0.50
21 3 0.09
22 14 0.41
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (20 bp):
TACTTCTCTAGAGGTACCTA
Found at i:41119048 original size:89 final size:88
Alignment explanation
Indices: 41118925--41120124 Score: 875
Period size: 89 Copynumber: 13.3 Consensus size: 88
41118915 CATCATGGTG
* * *** * * * * *
41118925 AATCTTATCTCTCTAAAGTTGCAAAAGAGTAGATTAAAGTTTCAAATCTTATCTCCATAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
*
41118990 CAGTGGAGCAGATCGAAGATAGCA
66 CAGTGGAGCAGATTGAAGATA-CA
* * * * * *
41119014 AATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTAAAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * *
41119079 TAGTAGAGCAGATTGAAGCTACA
66 CAGTGGAGCAGATTGAAGATACA
* * * * *
41119102 AATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* *
41119167 CAGTGGAGTAGATTGAAGCTACA
66 CAGTGGAGCAGATTGAAGATACA
* * * * * * *
41119190 AATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTGAAGTT
* * *
41119255 GTAGTGGAACAGATTAAAGCTACTAATTACA
65 GCAGTGGAGCAGATTGAAG------A-TACA
* * * * * * *
41119286 AATCTTATTTGCCTGAAGTTGCAGTGAAGTAGATTGAA-TATACTAATCTTATTTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TACAAATCTTATCTCCCTGAAGTT
* *
41119350 GCAGTGGAACAGATTAAAGATACAAGTTACA
65 GCAGTGGAGCAGATT---G----AAGATACA
* * * * * * * *
41119381 AATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGGAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * *
41119446 CAGTGTAACAGATTAAAGCTACAATTTACA
66 CAGTGGAGCAGATTGAAG-----A--TACA
* * * *
41119476 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTACAAATCTTATCTCCCTGAAGTT
* *
41119541 GCAGTAGAGCAGATTGAAGCTACA
65 GCAGTGGAGCAGATTGAAGATACA
* * * * * * * *** * *
41119565 AAACTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGATAGAAAATCTTCTCAATCTAAAGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTGAAGTT
*
41119630 GCAGTAGAGCAGATTG-A-ATACA
65 GCAGTGGAGCAGATTGAAGATACA
* ** * * * * ** *
41119652 GTGAATCTTATCTCCCTTATTTTTCAATGGAACAGATTGAAGATAGTGAATCTTATTTCCCTGAA
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTGAA
* * * *
41119717 GTTACAGTGGAACAGATTAAAGTTACA
62 GTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
41119744 AGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTGAAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTGAAGTT
* * * *
41119809 GTAGTGGAACAGATTAAAGTTACA
65 GCAGTGGAGCAGATTGAAGATACA
* * * * * * *
41119833 AGT-TACATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTACAAATCTTATCTCCCTAAATTT
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTT
** *
41119897 GCAGTAAAGCGGATTGAAGATAGCA
65 GCAGTGGAGCAGATTGAAGATA-CA
* * *
41119922 AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTGAAGTTACAAATCTTATCTCCATGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
*
41119987 CAGTGGAGCAGATTCAA-ATTACA
66 CAGTGGAGCAGATTGAAGA-TACA
* * * * * * * * * *
41120010 AATCTCATCCCCCTAAAGTTGCAGTGAAGTAGATTAAAGCTGCAAATCTAATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* *
41120075 CAGTGGAGTAGATTAAAGCA-ACA
66 CAGTGGAGCAGATTGAAG-ATACA
* *
41120098 AATTTTATAC-CTCTGAAGTTGCAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
41120125 GTTAGAATGA
Statistics
Matches: 890, Mismatches: 183, Indels: 77
0.77 0.16 0.07
Matches are distributed among these distances:
87 4 0.00
88 248 0.28
89 358 0.40
90 60 0.07
91 1 0.00
92 4 0.00
95 142 0.16
96 70 0.08
102 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAGATACA
Found at i:41119075 original size:44 final size:44
Alignment explanation
Indices: 41118925--41120124 Score: 909
Period size: 44 Copynumber: 26.6 Consensus size: 44
41118915 CATCATGGTG
* * *** * * * *
41118925 AATCTTATCTCTCTAAAGTTGCAAAAGAGTAGATTAAAGTTTCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
41118969 AATCTTATCTCCATAAAGTTGCAGTGGAGCAGATCGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
41119014 AATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
41119058 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
41119102 AATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
41119146 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
41119190 AATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
41119235 AATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACTAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACA
* * * * * *
41119286 AATCTTATTTGCCTGAAGTTGCAGTGAAGTAGATTGAATATACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
41119330 AATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTAAAGATACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGATACA
* * * * *
41119381 AATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
41119425 AATCTTATTTCCCTGGAGTTGCAGTGTAACAGATTAAAGCTACAATTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-----A--TACA
* *
41119476 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
* * *
41119521 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
41119565 AAACTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* *** * * *
41119610 AATCTTCTCAATCTAAAGCTGCAGTAGAGCAGATTG-A-ATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* ** * * * **
41119652 GTGAATCTTATCTCCCTTATTTTTCAATGGAACAGATTGAAGATAGTG
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
41119700 AATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
41119744 AGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * *
41119789 AATCTTATTTCCCTGAAGTGGTAGTGGAACAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
41119833 AGT-TACATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTACA
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * ** *
41119877 AATCTTATCTCCCTAAATTTGCAGTAAAGCGGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * *
41119922 AATCTTATCTCCCTGAAGTTGCAATGGAACAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
41119966 AATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTCAA-ATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * * * * * * *
41120010 AATCTCATCCCCCTAAAGTTGCAGTGAAGTAGATTAAAGCTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
41120054 AATCTAATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCA-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATACA
* *
41120098 AATTTTATAC-CTCTGAAGTTGCAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
41120125 GTTAGAATGA
Statistics
Matches: 925, Mismatches: 192, Indels: 78
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.00
43 4 0.00
44 536 0.58
45 273 0.30
46 2 0.00
47 4 0.00
48 1 0.00
49 1 0.00
51 101 0.11
52 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:41119132 original size:133 final size:132
Alignment explanation
Indices: 41118925--41120124 Score: 927
Period size: 133 Copynumber: 8.9 Consensus size: 132
41118915 CATCATGGTG
* ** * * * * * *
41118925 AATCTTATCTCTCTAAAGTTGCAAAAGAGTAGATTAAAGTTTCAAATCTTATCTCCATAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* * * *
41118990 CAGTGGAGCAGATCGAAGATAGCAAATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCT
66 CAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
*
41119055 AAA
130 ACA
* * * * * *
41119058 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTA
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* * * *
41119123 CAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
41119188 CA
131 CA
* * * * * *
41119190 AATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTAAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * * * * *
41119255 GTAGTGGAACAGATTAAAGCTACTAATTACAAATCTTATTTGCCTGAAGTTGCAGTGAAGTAGAT
65 GCAGTGGAGCAGATTGAAG------A-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
** *
41119320 TGAATATACT
123 TGAAGCTACA
* * * * * *
41119330 AATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTAAAGATACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATT---G----AAGATACAAATCTTATCTCCCT
* * * * * * * * *
41119395 AAAGTGGCAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGGAGTTGCAGTGTAACAGATT
59 GAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
41119460 AAAGCTACAATTTACA
124 GAAG---C----TACA
* * *
41119476 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGTT
* * * * * * *
41119541 GCAGTAGAGCAGATTGAAGCTACAAAACTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGAT
65 GCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
*
41119606 AGAA
130 A-CA
* *** * * **
41119610 AATCTTCTCAATCTAAAGCTGCAGTAGAGCAGATTG-A-ATACAGTGAATCTTATCTCCCTTATT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATACA---AATCTTATCTCCCTGAAG
* * * ** * * * *
41119673 TTTCAATGGAACAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAA
63 TTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
*
41119738 GTTACA
127 GCTACA
* * * * * * *
41119744 AGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTGAAGTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * * * * * * * *
41119809 GTAGTGGAACAGATTAAAGTTACAAGT-TACATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGT
65 GCAGTGGAGCAGATTGAAGATACAAATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
41119873 TACA
129 TACA
* * *
41119877 AATCTTATCTCCCTAAATTTGCAGTAAAGCGGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * * * **
41119942 GCAATGGAACAGATTGAAGTTACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTCAAATT
65 GCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
41120007 ACA
130 ACA
* * * * * * * *
41120010 AATCTCATCCCCCTAAAGTTGCAGT-GAAGTAGATTAAAGCTGCAAATCTAATCTCTCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTAG-AGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTT
* * * *
41120074 GCAGTGGAGTAGATTAAAGCA-ACAAATTTTATAC-CTCTGAAGTTGCAGTGG
65 GCAGTGGAGCAGATTGAAG-ATACAAATCTTAT-CTCCCTGAAGTTGCAGTGG
41120125 GTTAGAATGA
Statistics
Matches: 839, Mismatches: 192, Indels: 73
0.76 0.17 0.07
Matches are distributed among these distances:
131 3 0.00
132 138 0.16
133 282 0.34
134 125 0.15
135 34 0.04
136 3 0.00
137 1 0.00
139 37 0.04
140 141 0.17
143 2 0.00
146 68 0.08
147 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (132 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
CA
Found at i:41119524 original size:235 final size:221
Alignment explanation
Indices: 41118925--41120088 Score: 828
Period size: 221 Copynumber: 5.2 Consensus size: 221
41118915 CATCATGGTG
* *** * * * * *
41118925 AATCTTATCTCTCTAAAGTTG-CAAAAGAGTAGATTAAAGTTTCAAATCTTATCTCCATAAAGTT
1 AATCTTATCTCCCTAAAG-TGACAGTGGAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTT
* ** * * * *
41118989 GCAGTGGAGCAGATCGAAGATAGCAAATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGC
65 GCAGTGGAACAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGA
*
41119054 TAA-AAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCTCTGA
130 TAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCTCTGA
* *
41119118 AGTTACAGTAGAGCAGATTGAAGCTACA
195 AGTTGCAGT-GAACAGATTGAAGCTACA
* * * *
41119146 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTACAAATCTCATCTCCTTAAAGTTG
1 AATCTTATCTCCCTAAAGTGACAGTGGAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTG
* * * * * * * *
41119211 CAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCT
66 CAGTGGAACAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT---G-T
* * * * ** * *
41119276 ACTAATTACAAATCTTATTTGC-CTGAAGTTGCAGT-GAAGTAGATTGAATATACTAATCTTATT
127 A--GATAACAAATCTTATCT-CTCTGAAGTTGCAGTAG-AGCAGATTGAAGCTACAAATCTTATC
*
41119339 TCTCTGAAGTTGCAGTGGAACAGATTAAAGATACAAGTTACA
188 TCTCTGAAGTTGCAGT-GAACAGATT---G----AAGCTACA
* * * * * **
41119381 AATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGGAGTTG
1 AATCTTATCTCCCTAAAGTGACAGTGGAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTG
*
41119446 CAGTGTAACAGATTAAAGCTACAATTTA-CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
66 CAGTGGAACAGATTAAAG-----A--TAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
*
41119510 TGTAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAAACTTATCT
124 TGTAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCT
* * *
41119575 CTCTGAAGTTGCAGTGAAGCAGATTGTAGATAGAA
189 CTCTGAAGTTGCAGTGAA-CAGATTGAAGCTA-CA
* *** * * * * *
41119610 AATCTTCTCAATCTAAAGCTG-CAGTAGAGCAGATTG-A-ATACAGTGAATCTTATCTCCCTTAT
1 AATCTTATCTCCCTAAAG-TGACAGTGGAGTAGATTGAAGATACA---AATCTCATCTCCCTAAA
* * * * ** * * * * **
41119672 TTTTCAATGGAACAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAA
62 GTTGCAGTGGAACAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGT
* * * * * * * * *
41119737 AG-TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCC
127 AGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTA-CAAATCTTATCTCT
* * * *
41119801 CTGAAGTGGTAGTGGAACAGATTAAAGTTACA
191 CTGAAGTTGCAGT-GAACAGATTGAAGCTACA
* * * * * * * *
41119833 AGT-TACATCTCCCTAAAGTTG-CTGTGGAGCATATTGAAGTTACAAATCTTATCTCCCTAAATT
1 AATCT-TATCTCCCTAAAG-TGACAGTGGAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGT
* * * * * * *
41119896 TGCAGT-AAAGCGGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAATGGAACAGATTGAA
64 TGCAGTGGAA-CAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTA
* * * ** * * *
41119960 G-TTACAAATCTTATCTC-CATGAAGTTGCAGTGGAGCAGATTCAAATTACAAATCTCATCCCCC
128 GATAACAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCTC
* * * *
41120023 TAAAGTTGCAGTGAAGTAGATTAAAGCTGCA
192 TGAAGTTGCAGTGAA-CAGATTGAAGCTACA
* * *
41120054 AATCTAATCTCTCTGAAGTTG-CAGTGGAGTAGATT
1 AATCTTATCTCCCTAAAG-TGACAGTGGAGTAGATT
41120089 AAAGCAACAA
Statistics
Matches: 748, Mismatches: 153, Indels: 84
0.76 0.16 0.09
Matches are distributed among these distances:
220 4 0.01
221 163 0.22
222 111 0.15
223 68 0.09
224 66 0.09
225 9 0.01
227 6 0.01
228 71 0.09
229 29 0.04
230 32 0.04
231 1 0.00
232 1 0.00
234 4 0.01
235 145 0.19
236 1 0.00
237 2 0.00
238 1 0.00
240 1 0.00
241 31 0.04
242 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (221 bp):
AATCTTATCTCCCTAAAGTGACAGTGGAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGTTG
CAGTGGAACAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGAT
AACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAA
GTTGCAGTGAACAGATTGAAGCTACA
Found at i:41121826 original size:21 final size:22
Alignment explanation
Indices: 41121801--41121850 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
41121791 ATGTTGTTCA
*
41121801 TATTTATACA-TTTTCGCTCAT
1 TATTTATACATTTTTCACTCAT
*
41121822 TATTTGTACATTTTTCACTCAT
1 TATTTATACATTTTTCACTCAT
41121844 TATTTAT
1 TATTTAT
41121851 TTATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTATACATTTTTCACTCAT
Found at i:41126743 original size:64 final size:63
Alignment explanation
Indices: 41126639--41126809 Score: 211
Period size: 64 Copynumber: 2.7 Consensus size: 63
41126629 CCTATGTATC
* * **
41126639 TTACACGGCCTA-ACACA-ACCATTTCCTCCGCTCGTGTGATCCTTATTTTGTAATCAGTGAG
1 TTACACGGCCTAGACACAGCCCATGTCCTTAGCTCGTGTGATCCTTATTTTGTAATCAGTGAG
*
41126700 TTACACGGCCTAGACACATGCCCATGTCCTTGGCTCGTGTGATCCTTATTTTGTAATCAGTGAG
1 TTACACGGCCTAGACACA-GCCCATGTCCTTAGCTCGTGTGATCCTTATTTTGTAATCAGTGAG
* * * * * *
41126764 TTACATGGCCAAGACACACGCTCGTGTCCTTAGCCCGTGTAATCCT
1 TTACACGGCCTAGACACA-GCCCATGTCCTTAGCTCGTGTGATCCT
41126810 GCGTTAACAT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 12 0.13
62 5 0.05
64 78 0.82
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (63 bp):
TTACACGGCCTAGACACAGCCCATGTCCTTAGCTCGTGTGATCCTTATTTTGTAATCAGTGAG
Found at i:41127380 original size:6 final size:6
Alignment explanation
Indices: 41127369--41127421 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
41127359 AACAATTGGT
* * * *
41127369 AAAAGA AAAAGA AAATGA AATATGA AAATGA AGAAGA AAAAGGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAA-GA AAAAGA
41127419 AAA
1 AAA
41127422 GGAACTAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 29 0.71
7 12 0.29
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.08
Consensus pattern (6 bp):
AAAAGA
Found at i:41127431 original size:12 final size:12
Alignment explanation
Indices: 41127369--41127425 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
41127359 AACAATTGGT
41127369 AAAA-GAAAAAG
1 AAAAGGAAAAAG
* *
41127380 AAAATGAAATATG
1 AAAAGGAAA-AAG
* *
41127393 AAAATGAAGAAG
1 AAAAGGAAAAAG
41127405 AAAAAGGAAAAAG
1 -AAAAGGAAAAAG
41127418 AAAAGGAA
1 AAAAGGAA
41127426 CTAGAAGAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 4 0.11
12 14 0.37
13 20 0.53
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (12 bp):
AAAAGGAAAAAG
Found at i:41127920 original size:13 final size:13
Alignment explanation
Indices: 41127904--41127960 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 13
41127894 ATTTTCAATT
41127904 AAAATTATAAATA
1 AAAATTATAAATA
* *
41127917 AAAATAATAAGTTTA
1 AAAATTATAA--ATA
41127932 AAAATTATCAAATA
1 AAAATTAT-AAATA
41127946 AAATATTATTAAATA
1 AAA-ATTA-TAAATA
41127961 TTTAATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.26
14 5 0.14
15 18 0.51
16 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAATTATAAATA
Found at i:41132646 original size:19 final size:19
Alignment explanation
Indices: 41132618--41132654 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41132608 TGAAACATGA
*
41132618 AATGGGATGATAATGAAAC
1 AATGGAATGATAATGAAAC
41132637 AATGGAATGATAATGAAA
1 AATGGAATGATAATGAAA
41132655 TAGAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGGAATGATAATGAAAC
Found at i:41135407 original size:137 final size:141
Alignment explanation
Indices: 41135226--41135498 Score: 410
Period size: 137 Copynumber: 2.0 Consensus size: 141
41135216 AATATTTTCA
* *
41135226 ATGATTTAATTTTTTTATGCATGTTTGGTAATCCAAGATAAAAACAATTTAATAGAATGTTT-TA
1 ATGATTTAATTTTTTTATGCATGTTTGATAATCCAAAATAAAAACAATTTAATAGAATGTTTCTA
* * *
41135290 T-AAAAAGTGTACAAAATAATAAGCAGATAAGAGTTACTTATCAC-TGATGGAAAATATTTTTAA
66 TAAAAAAGTGTACAAAATAATAAGCAGATAAGAGCTACTTATCACTTAACGGAAAATATTTTTAA
41135353 TTAATTATATT
131 TTAATTATATT
* * * *
41135364 ATGATTTAA-TTTTTTATGCATGTTTGATAATTCAAAATTAAAACAATTTTATAGAATTTTTCTA
1 ATGATTTAATTTTTTTATGCATGTTTGATAATCCAAAATAAAAACAATTTAATAGAATGTTTCTA
* * *
41135428 TAAAAAAGTGTAGAAAATAATAAGTAGATAAGAGCTATTTATCACTTAACGGAAAATATTTTTAA
66 TAAAAAAGTGTACAAAATAATAAGCAGATAAGAGCTACTTATCACTTAACGGAAAATATTTTTAA
41135493 TTAATT
131 TTAATT
41135499 CGATTTTAGC
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
137 46 0.38
138 12 0.10
139 39 0.32
140 23 0.19
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.40
Consensus pattern (141 bp):
ATGATTTAATTTTTTTATGCATGTTTGATAATCCAAAATAAAAACAATTTAATAGAATGTTTCTA
TAAAAAAGTGTACAAAATAATAAGCAGATAAGAGCTACTTATCACTTAACGGAAAATATTTTTAA
TTAATTATATT
Found at i:41137133 original size:19 final size:20
Alignment explanation
Indices: 41137094--41137142 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
41137084 AAGGATACGT
41137094 AATCTTAGATATGATATATGC
1 AATCTTAGATATGA-ATATGC
41137115 AATCTTAGATATG-ATATGC
1 AATCTTAGATATGAATATGC
41137134 AATCTTAGA
1 AATCTTAGA
41137143 AGATATGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.54
21 13 0.46
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (20 bp):
AATCTTAGATATGAATATGC
Found at i:41137164 original size:23 final size:22
Alignment explanation
Indices: 41137100--41137165 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
41137090 ACGTAATCTT
41137100 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
41137121 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
41137143 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
41137166 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:41144512 original size:88 final size:88
Alignment explanation
Indices: 41143889--41144476 Score: 852
Period size: 88 Copynumber: 6.7 Consensus size: 88
41143879 AGCAGATCAG
41143889 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
* *
41143954 CCCTGAGTTGCAGCGGGGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
41143977 TAAAAATAGCAAATCTTGCATTCCTACACCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
* *
41144042 CCTTGTGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
*
41144065 TAAAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCC
1 T-AAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCC
*
41144130 TCCCTGGGTTGCAGCGGAACAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
* * * *
41144154 TAAAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAAATCGAAGACACAAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
* * *
41144219 CCCTGGGTTACAGCAGAGTAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
41144242 TAAAAATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
* *
41144307 CCTTGGGTTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * * *
41144330 TAAAAATAGCAGATCTTGCCTTCCTACAGCGACAGTGAAGCAAATCGAAGACACCAGCCTTACCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
* *
41144395 CCCTGGGTTGCAACGAAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * ** * *
41144418 TAAAAATAGCAGATCTTGCCTTTCTGCATCGACAGCGAAACAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCC
41144477 CTATCTCCCT
Statistics
Matches: 448, Mismatches: 51, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
88 368 0.82
89 80 0.18
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:41144591 original size:44 final size:45
Alignment explanation
Indices: 41144476--41144617 Score: 196
Period size: 45 Copynumber: 3.2 Consensus size: 45
41144466 TGACCCCAGC
41144476 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
* ****
41144521 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
* * * *
41144565 CCTATCTCCCTGGTTAGTAGTAGAATAGGCTGAAAATCACAAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
41144610 CCTATCTC
1 CCTATCTC
41144618 TTTGGCATTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 35 0.43
45 47 0.57
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (45 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATCACAAAGT
Found at i:41144812 original size:100 final size:100
Alignment explanation
Indices: 41144651--41144845 Score: 259
Period size: 100 Copynumber: 1.9 Consensus size: 100
41144641 TGAAACCACG
* * * **
41144651 ACGGTGAATCTTTCTCCTCTGGCAGTGTAATGGAACAAATTGAAGCTACGATAGTGAATCTTGTT
1 ACGGCGAATCTTACTCCTCTGGCAGTGTAATGGAACAAATTGAAGCCACGATAGCAAATCTTGTT
*
41144716 TCACCAACATTGC-AATTAAAAAGATTGAAGCCGCA
66 TCACCAACATTGCAAATT-AAAAGACTGAAGCCGCA
* * * *
41144751 ACGGCGAATCTTACTTCC-CTGGCGGTGTAGTGGAACAGATTGAAGCCACGATGGCAAATCTTGT
1 ACGGCGAATCTTAC-TCCTCTGGCAGTGTAATGGAACAAATTGAAGCCACGATAGCAAATCTTGT
*
41144815 TTCCCCAACATTGCAAATTAAAAGACTGAAG
65 TTCACCAACATTGCAAATTAAAAGACTGAAG
41144846 ATGGCGAATC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 75 0.91
101 7 0.09
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
ACGGCGAATCTTACTCCTCTGGCAGTGTAATGGAACAAATTGAAGCCACGATAGCAAATCTTGTT
TCACCAACATTGCAAATTAAAAGACTGAAGCCGCA
Found at i:41144906 original size:44 final size:43
Alignment explanation
Indices: 41144852--41145280 Score: 245
Period size: 44 Copynumber: 9.9 Consensus size: 43
41144842 GAAGATGGCG
41144852 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * *
41144896 AATTTTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * ** *
41144940 GATCTTATCTCTCTGAAGTTGCAG-AGAGCA-A--ATCGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * *
41144980 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * *
41145022 CAAGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGAATGAAG-ATGGT
1 -AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCA--AT
* *
41145068 GAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* **
41145113 AATCCTATCTCCCTGAAGTTGCAGTGGAGGGGATTTAAACCGC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAA--GCAAT
* * * * * * * *
41145157 AATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATC--G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * * * * *
41145198 GGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * *
41145242 AAGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
41145281 TAAACAAATC
Statistics
Matches: 294, Mismatches: 65, Indels: 51
0.72 0.16 0.12
Matches are distributed among these distances:
39 3 0.01
40 21 0.07
41 35 0.12
42 3 0.01
43 14 0.05
44 137 0.47
45 72 0.24
46 7 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:41145314 original size:217 final size:217
Alignment explanation
Indices: 41144856--41145314 Score: 593
Period size: 217 Copynumber: 2.1 Consensus size: 217
41144846 ATGGCGAATC
**
41144856 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
* * * * *
41144921 AGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCTAGTCTT
66 AGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTACAGAGAGCAAATCACATCGAGTCTT
* * * * *
41144986 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGTAGTGA
131 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCCTGAAATTGCAGTGA
****
41145051 GGCAGAATGAAGATGGTGAATA
196 GGCAGAATGAAGATAACAAATA
*
41145073 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
* * * * * * *
41145138 GGAGGGGATTTAAACCGCAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCGGGTCT
66 AGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTACAG-AGAGCAAATCACATCGAGTCT
*
41145203 TATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTGCAGT
130 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAGCAAGTCTTATCCCCCTGAAATTGCAGT
* *
41145268 GGGGCAGACT-AA-ATAAACAAATCA
194 GAGGCAGAATGAAGAT-AACAAAT-A
* *
41145292 -TGTCTCCCT-AAGTTGTAGTGGAG
1 TTATCTCCCTGAAGTTGCAGTGGAG
41145315 TGGATTAGAG
Statistics
Matches: 208, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
217 113 0.54
218 57 0.27
219 38 0.18
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
AGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTACAGAGAGCAAATCACATCGAGTCTT
ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCCTGAAATTGCAGTGA
GGCAGAATGAAGATAACAAATA
Found at i:41145771 original size:21 final size:19
Alignment explanation
Indices: 41145738--41145795 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
41145728 ATAATCTTCA
*
41145738 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
41145757 TTGATATATGCAATCTTAAAT
1 ATG--ATATGCAATCTTAGAT
41145778 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
41145796 AGATATGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.50
21 16 0.50
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:41145802 original size:17 final size:19
Alignment explanation
Indices: 41145738--41145793 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
41145728 ATAATCTTCA
* *
41145738 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAAAT
*
41145757 TTGATATATGCAATCTTAAAT
1 ATG--ATATGCAATCTTAAAT
41145778 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
41145794 GAAGATATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGATATGCAATCTTAAAT
Found at i:41151523 original size:37 final size:37
Alignment explanation
Indices: 41151473--41151545 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
41151463 AAAAACAAAT
41151473 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
1 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
*
41151510 GTTGAAGGGTAAAATACTCTCAAAATAATATAATTT
1 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTT
41151546 ACTTTATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (37 bp):
GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
Found at i:41165683 original size:22 final size:22
Alignment explanation
Indices: 41165606--41165683 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
41165596 CAAGTAAATG
* * *
41165606 GAGAGCACCAATGTGCTATACA
1 GAGAACACAAATGTGCTAAACA
**
41165628 GAGAACACAAACATGCTAAACA
1 GAGAACACAAATGTGCTAAACA
41165650 GAGAACACAAATGTGCTAAACA
1 GAGAACACAAATGTGCTAAACA
*
41165672 GAGAGCACAAAT
1 GAGAACACAAAT
41165684 ATTCTAGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (22 bp):
GAGAACACAAATGTGCTAAACA
Found at i:41165989 original size:8 final size:8
Alignment explanation
Indices: 41165976--41166000 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41165966 TTTACAAATC
41165976 TCATAATT
1 TCATAATT
41165984 TCATAATT
1 TCATAATT
41165992 TCATAATT
1 TCATAATT
41166000 T
1 T
41166001 GTTTAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (8 bp):
TCATAATT
Found at i:41168970 original size:42 final size:42
Alignment explanation
Indices: 41168899--41168995 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
41168889 ATAAGATTTG
* * *
41168899 CATGTTAAGTATGTCAACTGTATTAATTATAAATCCGATTCA
1 CATGTTAAGCATGTCAACTATACTAATTATAAATCCGATTCA
* * ** *
41168941 CATGTTAAGCATGTCAACTATGCTGATTATAAATTTGATTCG
1 CATGTTAAGCATGTCAACTATACTAATTATAAATCCGATTCA
*
41168983 CATGTTCAGCATG
1 CATGTTAAGCATG
41168996 CCATTGAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (42 bp):
CATGTTAAGCATGTCAACTATACTAATTATAAATCCGATTCA
Found at i:41169119 original size:24 final size:24
Alignment explanation
Indices: 41169083--41169176 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
41169073 TTTTATTGCA
* *
41169083 TTATTGAATGGCTTGGCCACAACT
1 TTATTGAGTGGCTTGACCACAACT
*
41169107 TTATTGAGCGGCTTGACCACAA-T
1 TTATTGAGTGGCTTGACCACAACT
* * * *
41169130 GCTATTGAGTGGCTTGTCTACAACA
1 -TTATTGAGTGGCTTGACCACAACT
41169155 TTATTGAGTGGCTTGACCACAA
1 TTATTGAGTGGCTTGACCACAA
41169177 TGATGCAGCT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.02
24 56 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (24 bp):
TTATTGAGTGGCTTGACCACAACT
Found at i:41169159 original size:48 final size:48
Alignment explanation
Indices: 41169084--41169178 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
41169074 TTTATTGCAT
*
41169084 TATTGAATGGCTTGGCCACAACTTTATTGAGCGGCTTGACCACAATGC
1 TATTGAATGGCTTGGCCACAACATTATTGAGCGGCTTGACCACAATGC
* * * *
41169132 TATTGAGTGGCTTGTCTACAACATTATTGAGTGGCTTGACCACAATG
1 TATTGAATGGCTTGGCCACAACATTATTGAGCGGCTTGACCACAATG
41169179 ATGCAGCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (48 bp):
TATTGAATGGCTTGGCCACAACATTATTGAGCGGCTTGACCACAATGC
Found at i:41169223 original size:64 final size:64
Alignment explanation
Indices: 41169132--41169283 Score: 207
Period size: 64 Copynumber: 2.4 Consensus size: 64
41169122 ACCACAATGC
* * * *
41169132 TATTGAGTGGCTTGTCTACAACATTATTGAGTGGCTTGACCACAATGATGCAGCTTGACT-TCGA
1 TATTGAGTGGCTTGGCCACAACATTATTGAGTGACTTGACCACAACGATGCAGCTTGACTGT-GA
* *
41169196 TATTGAGTGGCTTGGCCACAACGTTATTGAGTGACTTGACCACAACGATGTAGCTTGACTGTGA
1 TATTGAGTGGCTTGGCCACAACATTATTGAGTGACTTGACCACAACGATGCAGCTTGACTGTGA
* * *
41169260 TATTAAGTGGCTTGACCATAACAT
1 TATTGAGTGGCTTGGCCACAACAT
41169284 GGTGTGTTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 76 0.99
65 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
TATTGAGTGGCTTGGCCACAACATTATTGAGTGACTTGACCACAACGATGCAGCTTGACTGTGA
Found at i:41169224 original size:24 final size:24
Alignment explanation
Indices: 41169196--41169242 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
41169186 TTGACTTCGA
* *
41169196 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGACTTGACCACAACGT
41169220 TATTGAGTGACTTGACCACAACG
1 TATTGAGTGACTTGACCACAACG
41169243 ATGTAGCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (24 bp):
TATTGAGTGACTTGACCACAACGT
Found at i:41169940 original size:16 final size:18
Alignment explanation
Indices: 41169909--41169945 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
41169899 GAATTTACAT
41169909 AAAATATTGATTTTTAAC
1 AAAATATTGATTTTTAAC
*
41169927 AAAATA-TG-TTTTTAGC
1 AAAATATTGATTTTTAAC
41169943 AAA
1 AAA
41169946 TTTTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AAAATATTGATTTTTAAC
Found at i:41171566 original size:10 final size:10
Alignment explanation
Indices: 41171538--41171580 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
41171528 TAATATACAC
*
41171538 ATATATTATC
1 ATATATTATT
41171548 ATA-ATTATT
1 ATATATTATT
41171557 ATATATTATT
1 ATATATTATT
41171567 -TATTATTATT
1 ATA-TATTATT
41171577 ATAT
1 ATAT
41171581 TAGGGCCAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 10 0.34
10 17 0.59
11 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
ATATATTATT
Found at i:41175545 original size:16 final size:16
Alignment explanation
Indices: 41175524--41175554 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
41175514 ACAAAACGGT
41175524 AAAGCAAAAGAGGCAC
1 AAAGCAAAAGAGGCAC
41175540 AAAGCAAAAGAGGCA
1 AAAGCAAAAGAGGCA
41175555 AAGCAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.16, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGCAAAAGAGGCAC
Found at i:41175558 original size:14 final size:15
Alignment explanation
Indices: 41175524--41175561 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
41175514 ACAAAACGGT
41175524 AAAGCAAAAGAGGCAC
1 AAAGCAAAAGAGG-AC
41175540 AAAGCAAAAGAGG-C
1 AAAGCAAAAGAGGAC
41175554 AAAGCAAA
1 AAAGCAAA
41175562 GCAGCAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.61, C:0.16, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGCAAAAGAGGAC
Found at i:41187521 original size:21 final size:22
Alignment explanation
Indices: 41187492--41187535 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
41187482 TTTTCACACA
*
41187492 CGGTTAGTG-CTCTCTTAGTTT
1 CGGTAAGTGTCTCTCTTAGTTT
* *
41187513 CGGTAAGTGTTTCTCTTTGTTT
1 CGGTAAGTGTCTCTCTTAGTTT
41187535 C
1 C
41187536 TGTCATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.09, C:0.18, G:0.23, T:0.50
Consensus pattern (22 bp):
CGGTAAGTGTCTCTCTTAGTTT
Found at i:41193889 original size:38 final size:38
Alignment explanation
Indices: 41193847--41193934 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
41193837 TGTTTTACCA
* *
41193847 AATACATGTTAAGC-TTGCCTACTGTTACTGTTGAACTG
1 AATACATGTTAAGCATT-CCTAATGCTACTGTTGAACTG
* * *
41193885 AATACATGATAATCATTTCTAATGCTACTGTTGAACTG
1 AATACATGTTAAGCATTCCTAATGCTACTGTTGAACTG
*
41193923 AAAACATGTTAA
1 AATACATGTTAA
41193935 ACATGTCTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 40 0.95
39 2 0.05
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (38 bp):
AATACATGTTAAGCATTCCTAATGCTACTGTTGAACTG
Found at i:41194192 original size:86 final size:86
Alignment explanation
Indices: 41194041--41194208 Score: 230
Period size: 86 Copynumber: 2.0 Consensus size: 86
41194031 AATCTACAAC
* * * *
41194041 ACTGGTGGTTCATCCACAAGTTACTGACACCTTTTATCTATAAATATGTTGTACACCTACAACAA
1 ACTGGTGGTTCATCCAAAAATTACTGACACCTTTTATCTACAAATACGTTGTACACCTACAACAA
*
41194106 GTGGCAGTTTATCTACATATT
66 GTGGCAGCTTATCTACATATT
* * * *
41194127 ACTGGTGGTTCATCCAAAAATTACTGACAGCTTTTATTTACAAATACGTTGTGCATCC-ACGACA
1 ACTGGTGGTTCATCCAAAAATTACTGACACCTTTTATCTACAAATACGTTGTACA-CCTACAACA
*
41194191 AGTGGCAGCTTGTCTACA
65 AGTGGCAGCTTATCTACA
41194209 AACTATTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 69 0.97
87 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (86 bp):
ACTGGTGGTTCATCCAAAAATTACTGACACCTTTTATCTACAAATACGTTGTACACCTACAACAA
GTGGCAGCTTATCTACATATT
Found at i:41205951 original size:32 final size:32
Alignment explanation
Indices: 41205910--41206016 Score: 110
Period size: 32 Copynumber: 3.3 Consensus size: 32
41205900 CATGCCCATG
* *
41205910 TGGCCCACACGCCCAGATTGGCCTCACTC-GTA
1 TGGCCCACACGTCCAGATTGGCCTCAC-CAATA
* *
41205942 TGGCCCACACATCCAGATTGGCCT-AGCCAATG
1 TGGCCCACACGTCCAGATTGGCCTCA-CCAATA
* * *
41205974 TGGCCCACACGTCTAGATTGGCCTCACCCATG
1 TGGCCCACACGTCCAGATTGGCCTCACCAATA
*
41206006 TGGCCTACACG
1 TGGCCCACACG
41206017 GCCTGGCCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
31 2 0.03
32 61 0.95
33 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.20
Consensus pattern (32 bp):
TGGCCCACACGTCCAGATTGGCCTCACCAATA
Found at i:41209209 original size:31 final size:31
Alignment explanation
Indices: 41209171--41209251 Score: 110
Period size: 30 Copynumber: 2.6 Consensus size: 31
41209161 CATGTTTACA
* *
41209171 CTTTCATTTTGGTCACCCAACTTCTAGATCT
1 CTTTCATTTTGGTCACCCAACTTCAAGATCG
*
41209202 CTTTCA-TTTGGTCACCCAACTTCAAGGTCG
1 CTTTCATTTTGGTCACCCAACTTCAAGATCG
* *
41209232 CTTTCATTTTAGCCACCCAA
1 CTTTCATTTTGGTCACCCAA
41209252 AAAACTATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 27 0.61
31 17 0.39
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (31 bp):
CTTTCATTTTGGTCACCCAACTTCAAGATCG
Found at i:41209265 original size:12 final size:12
Alignment explanation
Indices: 41209248--41209272 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41209238 TTTTAGCCAC
41209248 CCAAAAAACTAT
1 CCAAAAAACTAT
41209260 CCAAAAAACTAT
1 CCAAAAAACTAT
41209272 C
1 C
41209273 ATTTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (12 bp):
CCAAAAAACTAT
Found at i:41213123 original size:45 final size:45
Alignment explanation
Indices: 41213074--41213650 Score: 513
Period size: 45 Copynumber: 12.8 Consensus size: 45
41213064 ATTTTCTTCC
* * * * *
41213074 ATCTACTCCACCACCAGTATGGGGAGACAAAATCTGTTGTCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
* * * *** * * *
41213119 ATCTACTTC-ACGCCAATACATGAAGACAAGATATGCTTTTTCCTTCG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--TTAT-CTTTG
* * *
41213166 ATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGTTATCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
* * ***
41213211 ATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTT-TCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTG
** * *
41213255 ATCTGTTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
* * *
41213300 ATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCTT-TCTTCG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTG
* ** * *
41213345 ATTTGTTTCGCCACCAGTATGGGAAGATAAGATTTGTTATCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
* * *** * **
41213390 ATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCA
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
*
41213434 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
* * *
41213479 ATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCTT-TCTTCG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTG
* **
41213524 ATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
* * *** *
41213569 ATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCG
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTG
** *
41213613 ATCTGTTTCGCCACCAATATGGGAAGACAAGATCTGTT
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTT
41213651 GCTACTCCAC
Statistics
Matches: 418, Mismatches: 100, Indels: 29
0.76 0.18 0.05
Matches are distributed among these distances:
44 123 0.29
45 257 0.61
46 8 0.02
47 12 0.03
48 18 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG
Found at i:41213178 original size:89 final size:87
Alignment explanation
Indices: 41213027--41213650 Score: 707
Period size: 89 Copynumber: 7.0 Consensus size: 87
41213017 TCTGCTGTGC
* * * ** * * **
41213027 TTGATCTACTTCACGCCAATACATGAAGACAAGGTTTATTTTCTTCCATCTACTCCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT-GT-TTCCACCAGT
* * *
41213092 ATGGGGAGACAAAATCTGTTGTCT
64 ATGGGAAGACAAGATCTGTTATCT
* * *
41213116 TTGATCTACTTCACGCCAATACATGAAGACAAGATATGCTTTTTCCTTCGATCTGCTTCACCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTG-TT-TCCACC
*
41213181 AGTATGGGAAGGCAAGATCTGTTATCT
61 AGTATGGGAAGACAAGATCTGTTATCT
*
41213208 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGTTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTG-TTT-CCACCAGT
*
41213273 ATGGGAAGACAAGATCTGCTATCT
64 ATGGGAAGACAAGATCTGTTATCT
* * * *
41213297 TTGATCTAATTCGCCACCAGT--ATGGCAAGACAAGATCTGCTTTCTTCGATTTGTTTCGCCACC
1 TTGATCTACTTC-ACGCCAGTACAT-G-AAGACAAGATCTGCTTTCTTCGATCTGTTT--CCACC
* *
41213360 AGTATGGGAAGATAAGATTTGTTATCT
61 AGTATGGGAAGACAAGATCTGTTATCT
* * * *
41213387 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT-GTT-TCCACCAGT
*
41213452 ATGGGAAGACAAGATCTGCTATCT
64 ATGGGAAGACAAGATCTGTTATCT
* * * *
41213476 TTGATCTAATTCGCCACCAGT--ATGGCAAGACAAGATCTGCTTTCTTCGATTTGTTTCGCCACC
1 TTGATCTACTTC-ACGCCAGTACAT-G-AAGACAAGATCTGCTTTCTTCGATCTGTTT--CCACC
41213539 AGTATGGGAAGACAAGATCTGTTATCT
61 AGTATGGGAAGACAAGATCTGTTATCT
*
41213566 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAAT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTT--CCACCAGT
41213631 ATGGGAAGACAAGATCTGTT
64 ATGGGAAGACAAGATCTGTT
41213651 GCTACTCCAC
Statistics
Matches: 463, Mismatches: 51, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
88 4 0.01
89 227 0.49
90 150 0.32
91 7 0.02
92 75 0.16
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (87 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCCACCAGTAT
GGGAAGACAAGATCTGTTATCT
Found at i:41213406 original size:134 final size:133
Alignment explanation
Indices: 41213084--41213650 Score: 507
Period size: 134 Copynumber: 4.2 Consensus size: 133
41213074 ATCTACTCCA
* * * * * ***
41213084 CCACCAGTATGGGGAGACAAAATCTGTTGTCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
1 CCACCAGTATGGGAAGACAAGATCTGTT-TCTTCGATCTACTTCGACACCAGTATGGGAAGACAA
* * * * * * *
41213148 GATATGCTTTTTCCTTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTG-TTATCTTTGA
65 GATCTG--TTAT-CTTTGATCTACTTCGCCACCAGTAT-GGAAGACAAGATCTGCTT-TCTTCGA
**
41213212 TCTACTTC-
125 TCTGTTTCG
* * *** * ** * *
41213220 ACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGTTTTGCCACCAGTATGGGAAGACAA
1 CCACCAGTATGGGAAGACAAGATCTG-TTTCTTCGATCTACTTCGACACCAGTATGGGAAGACAA
* * *
41213285 GATCTGCTATCTTTGATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCTTTCTTCGATTTG
65 GATCTGTTATCTTTGATCTACTTCGCCACCAGTATGG-AAGACAAGATCTGCTTTCTTCGATCTG
41213350 TTTCG
129 TTTCG
* * * * ***
41213355 CCACCAGTATGGGAAGATAAGATTTGTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAA
1 CCACCAGTATGGGAAGACAAGATCTGTT-TCTTCGATCTACTTCGACACCAGTATGGGAAGACAA
* ** * * *
41213419 GATCTGTTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
65 GATCTGTTATCTTTGATCTACTTCGCCACCAGTAT-GGAAGACAAGATCTGCTTTCTTCGATCTG
*
41213484 ATTCG
129 TTTCG
* * ** *
41213489 CCACCAGTATGGCAAGACAAGATCTGCTTTCTTCGATTTGTTTCGCCACCAGTATGGGAAGACAA
1 CCACCAGTATGGGAAGACAAGATCTG-TTTCTTCGATCTACTTCGACACCAGTATGGGAAGACAA
* *
41213554 GATCTGTTATCTTTGATCTACTTC-ACGCCAGTACAT-GAAGACAAGATCTGCTTTCTTCGATCT
65 GATCTGTTATCTTTGATCTACTTCGCCACCAGT--ATGGAAGACAAGATCTGCTTTCTTCGATCT
41213617 GTTTCG
128 GTTTCG
*
41213623 CCACCAATATGGGAAGACAAGATCTGTT
1 CCACCAGTATGGGAAGACAAGATCTGTT
41213651 GCTACTCCAC
Statistics
Matches: 344, Mismatches: 76, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
133 4 0.01
134 211 0.61
135 75 0.22
136 33 0.10
137 21 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (133 bp):
CCACCAGTATGGGAAGACAAGATCTGTTTCTTCGATCTACTTCGACACCAGTATGGGAAGACAAG
ATCTGTTATCTTTGATCTACTTCGCCACCAGTATGGAAGACAAGATCTGCTTTCTTCGATCTGTT
TCG
Found at i:41213406 original size:179 final size:179
Alignment explanation
Indices: 41213027--41213648 Score: 890
Period size: 179 Copynumber: 3.5 Consensus size: 179
41213017 TCTGCTGTGC
* * * ** * * *
41213027 TTGATCTACTTCACGCCAATACATGAAGACAAGGTTTATTTTCTTCCATCTACTCCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * * * * ** * *
41213092 ATGGGGAGACAAAATCTGTTGTCTTTGATCTACTTCACGCCAATA-CAT-G-AAGACAAGATATG
66 ATGGGAAGACAAGATCTGCTATCTTTGATCTAATT--CGCCACCAGTATGGCAAGACAAGATCTG
* * * *
41213154 CTTTTTCCTTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGTTATCT
129 C--TTT-CTTCGATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* ** *
41213208 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGTTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
41213273 ATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCT
66 ATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCT
* *
41213338 TTCTTCGATTTGTTTCGCCACCAGTATGGGAAGATAAGATTTGTTATCT
131 TTCTTCGATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
41213387 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
41213452 ATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCT
66 ATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCT
41213517 TTCTTCGATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
131 TTCTTCGATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
** *
41213566 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAAT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
41213631 ATGGGAAGACAAGATCTG
66 ATGGGAAGACAAGATCTG
41213649 TTGCTACTCC
Statistics
Matches: 398, Mismatches: 40, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
179 296 0.74
180 5 0.01
181 84 0.21
182 13 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (179 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCGCCACCAGTATGGCAAGACAAGATCTGCT
TTCTTCGATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
Found at i:41214810 original size:42 final size:42
Alignment explanation
Indices: 41214751--41214862 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
41214741 AAGACCACTG
* * *
41214751 CATGCCTCATGCTGATCAGTATTTGAGCTACTCCAATAATCT
1 CATGCCACATTCTGATCAATATTTGAGCTACTCCAATAATCT
*
41214793 CATGCCACATTCTGATCAATATTTGAGCTACTCCGATAATCT
1 CATGCCACATTCTGATCAATATTTGAGCTACTCCAATAATCT
* * *
41214835 CATACCCCATTCTAATCAATATTTGAGC
1 CATGCCACATTCTGATCAATATTTGAGC
41214863 CGCCCTTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (42 bp):
CATGCCACATTCTGATCAATATTTGAGCTACTCCAATAATCT
Found at i:41214962 original size:14 final size:15
Alignment explanation
Indices: 41214945--41214977 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
41214935 TCCATTTTAC
41214945 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
41214959 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
41214973 TTTTT
1 TTTTT
41214978 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:41214980 original size:8 final size:7
Alignment explanation
Indices: 41214945--41214977 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
41214935 TCCATTTTAC
41214945 TTTTTCA
1 TTTTTCA
41214952 TTTTTCA
1 TTTTTCA
41214959 -TTTTCA
1 TTTTTCA
41214965 TCTTTTCA
1 T-TTTTCA
41214973 TTTTT
1 TTTTT
41214978 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:41217833 original size:19 final size:19
Alignment explanation
Indices: 41217793--41217834 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
41217783 ATAATCTTTG
* *
41217793 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
41217812 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
41217831 ATGC
1 ATGC
41217835 GAAAAGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:41221841 original size:14 final size:14
Alignment explanation
Indices: 41221822--41221874 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
41221812 TTAAAACTTA
*
41221822 GACCTTGAACCTTG
1 GACCTTGAACCATG
*
41221836 GACCTTGAACCCTG
1 GACCTTGAACCATG
*
41221850 AACCTT-AGACCATG
1 GACCTTGA-ACCATG
*
41221864 GACCATGAACC
1 GACCTTGAACC
41221875 CAAGGTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (14 bp):
GACCTTGAACCATG
Found at i:41221851 original size:21 final size:21
Alignment explanation
Indices: 41221827--41221874 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
41221817 ACTTAGACCT
* * *
41221827 TGAACCTTGGACCTTGAACCC
1 TGAACCTTAGACCATGAACCA
*
41221848 TGAACCTTAGACCATGGACCA
1 TGAACCTTAGACCATGAACCA
41221869 TGAACC
1 TGAACC
41221875 CAAGGTTTAG
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:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (21 bp):
TGAACCTTAGACCATGAACCA
Found at i:41236160 original size:14 final size:14
Alignment explanation
Indices: 41236141--41236193 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
41236131 TTAAAACTTA
*
41236141 GACCTTGAACCTTG
1 GACCTTGAACCATG
*
41236155 GACCTTGAACCCTG
1 GACCTTGAACCATG
*
41236169 AACCTT-AGACCATG
1 GACCTTGA-ACCATG
*
41236183 GACCATGAACC
1 GACCTTGAACC
41236194 CAAGGTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (14 bp):
GACCTTGAACCATG
Found at i:41236170 original size:21 final size:21
Alignment explanation
Indices: 41236146--41236193 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
41236136 ACTTAGACCT
* * *
41236146 TGAACCTTGGACCTTGAACCC
1 TGAACCTTAGACCATGAACCA
*
41236167 TGAACCTTAGACCATGGACCA
1 TGAACCTTAGACCATGAACCA
41236188 TGAACC
1 TGAACC
41236194 CAAGGTTTAG
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:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (21 bp):
TGAACCTTAGACCATGAACCA
Found at i:41240049 original size:15 final size:15
Alignment explanation
Indices: 41240031--41240067 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
41240021 AATTTAATAC
41240031 TTTATAAAAATTTTA
1 TTTATAAAAATTTTA
*
41240046 TTTATTAAAATTTTA
1 TTTATAAAAATTTTA
*
41240061 TATATAA
1 TTTATAA
41240068 CCATCTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTATAAAAATTTTA
Found at i:41247538 original size:16 final size:16
Alignment explanation
Indices: 41247503--41247540 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
41247493 ACAAAACTTT
* *
41247503 TAAAAATAGCAAATAT
1 TAAAAATAGCAAACAC
41247519 TAAAAATAGCAAACAC
1 TAAAAATAGCAAACAC
41247535 TAAAAA
1 TAAAAA
41247541 CTATCAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (16 bp):
TAAAAATAGCAAACAC
Found at i:41247682 original size:17 final size:18
Alignment explanation
Indices: 41247657--41247706 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
41247647 ACTCAAACCT
*
41247657 AAAAGTGATTTGAACTC-
1 AAAATTGATTTGAACTCA
*
41247674 AAAATTGATATGAA-TCA
1 AAAATTGATTTGAACTCA
*
41247691 AAAATTGATTCGAACT
1 AAAATTGATTTGAACT
41247707 AAGAATGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.89
18 1 0.04
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (18 bp):
AAAATTGATTTGAACTCA
Found at i:41251265 original size:16 final size:18
Alignment explanation
Indices: 41251239--41251272 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
41251229 TTAAATTAAC
41251239 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
41251256 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
41251273 CCAATTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:41259312 original size:25 final size:25
Alignment explanation
Indices: 41259261--41259313 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
41259251 GTTGGTTTCA
**
41259261 CTTTAAAAACAACATTTATTGCTAG
1 CTTTAAAAACAACATTTATTGAAAG
41259286 CTTTAAAAACAACATTTATTGAAAG
1 CTTTAAAAACAACATTTATTGAAAG
41259311 CTT
1 CTT
41259314 CTACTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.36
Consensus pattern (25 bp):
CTTTAAAAACAACATTTATTGAAAG
Found at i:41264085 original size:23 final size:23
Alignment explanation
Indices: 41264054--41264099 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
41264044 TGGTTTACAG
41264054 TTTTATGTCATGCTTCTTAACAT
1 TTTTATGTCATGCTTCTTAACAT
* *
41264077 TTTTGTGTCATGCTTCTTTACAT
1 TTTTATGTCATGCTTCTTAACAT
41264100 GGGGAATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (23 bp):
TTTTATGTCATGCTTCTTAACAT
Found at i:41265967 original size:58 final size:61
Alignment explanation
Indices: 41265839--41265971 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 61
41265829 AGGTTATATA
* * *
41265839 TTATGATTTTTATT-AATTCATATTTTAAAAATAATTATATTAAGAATGTTAATAAATTAT
1 TTATTATTTTTATTAAATTCATATTTTAAAAATAATTATATTAAGAATATGAATAAATTAT
* * * *
41265899 ATATTA-TTTTATTAAATT-ATA-TTTAATAATAATTATGTTAA-AATATGATTAAATTAT
1 TTATTATTTTTATTAAATTCATATTTTAAAAATAATTATATTAAGAATATGAATAAATTAT
41265956 TTATTATTTTTATTAA
1 TTATTATTTTTATTAA
41265972 TAATCTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 18 0.29
58 27 0.43
59 10 0.16
60 8 0.13
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (61 bp):
TTATTATTTTTATTAAATTCATATTTTAAAAATAATTATATTAAGAATATGAATAAATTAT
Found at i:41266038 original size:44 final size:46
Alignment explanation
Indices: 41265990--41266085 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
41265980 TTAAAATGTA
*
41265990 TCCATTCCATTTAACCAAACACA-AGAA-TACT-ATTACAGCTCTAT
1 TCCATTCCATTGAACCAAACA-ATAGAATTACTGATTACAGCTCTAT
* * *
41266034 TCCATTCCATTGAATCAAATAATTGAATTACTGATTACAGCTCTAT
1 TCCATTCCATTGAACCAAACAATAGAATTACTGATTACAGCTCTAT
41266080 TCCATT
1 TCCATT
41266086 ACAGCTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 4 0.09
46 19 0.42
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (46 bp):
TCCATTCCATTGAACCAAACAATAGAATTACTGATTACAGCTCTAT
Found at i:41266088 original size:16 final size:16
Alignment explanation
Indices: 41266067--41266133 Score: 107
Period size: 16 Copynumber: 4.2 Consensus size: 16
41266057 TGAATTACTG
41266067 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
41266083 ATTACAGCTATATTCC
1 ATTACAGCTCTATTCC
*
41266099 ATTACATCTCTATTCC
1 ATTACAGCTCTATTCC
*
41266115 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
41266131 ATT
1 ATT
41266134 CACCCCAACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.27, C:0.30, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:41268157 original size:40 final size:40
Alignment explanation
Indices: 41268084--41268166 Score: 91
Period size: 40 Copynumber: 2.0 Consensus size: 40
41268074 ATAAATTTAA
* *
41268084 TATATATATTATAATAAAATAAGTTTACTTAAT-ATATAAG
1 TATATATATTATAATAAAATAAGTGTAC-TAATAAAATAAG
41268124 TATATATATTATAATAATAAACTAA-TGTA-TAATAAAATAAG
1 TATATATATTATAAT-A-AAA-TAAGTGTACTAATAAAATAAG
41268165 TA
1 TA
41268167 AATGAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
40 19 0.51
41 9 0.24
42 6 0.16
43 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (40 bp):
TATATATATTATAATAAAATAAGTGTACTAATAAAATAAG
Found at i:41268239 original size:21 final size:22
Alignment explanation
Indices: 41268210--41268250 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
41268200 AAGCCAAACG
41268210 AAAACAGAAAG-GAAAGAAAAA
1 AAAACAGAAAGAGAAAGAAAAA
*
41268231 AAAAGAGAAAGAGAAAGAAA
1 AAAACAGAAAGAGAAAGAAA
41268251 GACGCAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAACAGAAAGAGAAAGAAAAA
Found at i:41277496 original size:19 final size:20
Alignment explanation
Indices: 41277456--41277499 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
41277446 GTCTCTTTAG
* *
41277456 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
41277475 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
41277494 GCATTA
1 GCATTA
41277500 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:41279624 original size:15 final size:14
Alignment explanation
Indices: 41279604--41279653 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 14
41279594 AGAGAAGAAG
41279604 AAATGAGAAAAATAA
1 AAATGA-AAAAATAA
*
41279619 AAATGAAAAATGAAAA
1 AAATGAAAAA--ATAA
*
41279635 AAATGAAAAAGTAA
1 AAATGAAAAAATAA
41279649 AAATG
1 AAATG
41279654 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.37
15 6 0.20
16 13 0.43
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAATGAAAAAATAA
Found at i:41279636 original size:22 final size:23
Alignment explanation
Indices: 41279604--41279653 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
41279594 AGAGAAGAAG
*
41279604 AAATGAGAAAAAT-AAAAA-TGAA
1 AAATGAAAAAAATGAAAAAGT-AA
41279626 AAATGAAAAAAATGAAAAAGTAA
1 AAATGAAAAAAATGAAAAAGTAA
41279649 AAATG
1 AAATG
41279654 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 12 0.48
24 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (23 bp):
AAATGAAAAAAATGAAAAAGTAA
Found at i:41281471 original size:339 final size:341
Alignment explanation
Indices: 41280828--41281669 Score: 1411
Period size: 339 Copynumber: 2.5 Consensus size: 341
41280818 CAGATCAGTG
* * *
41280828 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAAAAAAGCATTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCCTTCAT
*
41280893 TGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
65 TGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG
*
41280958 AAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTG
130 AAAAC-AATCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTG
* * *
41281023 CGTTAACAGCGAAGCAGATCGAAAACTAAGCCTTTCCTTCATTGGTTACAGTGGAGCTGGTTAAA
194 CGTTAACAGCGAAGCAAATCGAAAACCAAGCCTTACCTTCATTGGTTACAGTGGAGCTGGTTAAA
* *
41281088 GAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGG
259 GAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAAATCGAAAACAAGCCTTACCTTCATTGG
41281153 TTACAGTAGAGCTGGTTA
324 TTACAGTAGAGCTGGTTA
41281171 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTTCATT
* *
41281236 GGTTACGGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGA
66 GGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGA
*
41281301 AAACAATCCTTGCCTTC-TTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCG
131 AAACAATCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCG
* *
41281365 TTAGCAGCGAAGCAAATCG-AAACCAAGCCTTACCTTCATTGGTTATAGTGGAGCTGGTTAAAGA
196 TTAACAGCGAAGCAAATCGAAAACCAAGCCTTACCTTCATTGGTTACAGTGGAGCTGGTTAAAGA
* * *
41281429 AGCAGCTCTTGCCTTCCTGCGTTAGCAGCGAAGCAAATCGAAACCAAGCCTTACCTTCATTGGTT
261 AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAAATCGAAAACAAGCCTTACCTTCATTGGTT
* *
41281494 ATAGTGGAGCTGGTTA
326 ACAGTAGAGCTGGTTA
* * *
41281510 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAAATCGAAAACAAGCCTTACCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTTCATT
**
41281575 GGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGAATTAACAGCGAAGCAGATCGA
66 GGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGA
41281640 AAACAAGT-CTTGCCTTCATTGGTTGCAGTG
131 AAACAA-TCCTTGCCTTCATTGGTTGCAGTG
41281670 AAGCGGATTA
Statistics
Matches: 469, Mismatches: 28, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
339 254 0.54
340 75 0.16
341 12 0.03
342 78 0.17
343 50 0.11
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (341 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTTCATT
GGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGA
AAACAATCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCG
TTAACAGCGAAGCAAATCGAAAACCAAGCCTTACCTTCATTGGTTACAGTGGAGCTGGTTAAAGA
AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAAATCGAAAACAAGCCTTACCTTCATTGGTT
ACAGTAGAGCTGGTTA
Found at i:41281681 original size:85 final size:85
Alignment explanation
Indices: 41280828--41281669 Score: 1398
Period size: 85 Copynumber: 9.9 Consensus size: 85
41280818 CAGATCAGTG
* * *
41280828 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAAAAAAGCATTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAACAAGCCTTGCCTTCAT
*
41280893 TGGTTGCAGTGGAGCTGGTTA
65 TGGTTACAGTGGAGCTGGTTA
41280914 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCCTTGCCTTCAT
*
41280979 TGGTTGCAGTGGAGCTGGTTA
65 TGGTTACAGTGGAGCTGGTTA
*
41281000 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACTAAGCCTTTCCTTCAT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCCTTGCCTTCAT
41281065 TGGTTACAGTGGAGCTGGTTA
65 TGGTTACAGTGGAGCTGGTTA
41281086 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
*
41281151 GGTTACAGTAGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
*
41281171 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
*
41281236 GGTTACGGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
* *
41281256 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAATCCTTGCCTTC-TT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
41281320 GGTTACAGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
* * * *
41281340 AAGAAGCAGATCTTGCCTTCCTGCGTTAGCAGCGAAGCAAATCGAAACCAAGCCTTACCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
*
41281405 GGTTATAGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
* * * * *
41281425 AAGAAGCAGCTCTTGCCTTCCTGCGTTAGCAGCGAAGCAAATCGAAACCAAGCCTTACCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
*
41281490 GGTTATAGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
* *
41281510 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAAATCGAAAACAAGCCTTACCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
41281575 GGTTACAGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
** *
41281595 AAGAAGCAGATCTTGCCTTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGTCTTGCCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
*
41281660 GGTTGCAGTG
66 GGTTACAGTG
41281670 AAGCGGATTA
Statistics
Matches: 722, Mismatches: 32, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
84 77 0.11
85 435 0.60
86 210 0.29
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (85 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
GGTTACAGTGGAGCTGGTTA
Found at i:41281846 original size:129 final size:129
Alignment explanation
Indices: 41281678--41282005 Score: 566
Period size: 129 Copynumber: 2.5 Consensus size: 129
41281668 TGAAGCGGAT
* * *
41281678 TAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTAAGAT
1 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGAT
41281743 TACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
66 TACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
** *
41281807 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGCCAGATCTTATCTCCCTGAGAT
1 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGAT
* *
41281872 TACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
66 TACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
* *
41281936 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATGGCATCAGGTCTTATCTCCCTGAGAT
1 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGAT
41282001 TACAG
66 TACAG
41282006 TGGAACAGAC
Statistics
Matches: 186, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 186 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (129 bp):
TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGAT
TACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
Found at i:41281950 original size:44 final size:43
Alignment explanation
Indices: 41281726--41282014 Score: 178
Period size: 44 Copynumber: 6.7 Consensus size: 43
41281716 TCGTATCAGG
* ** ** *
41281726 TCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCT-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GA
* *
41281770 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGA
* * * ******
41281814 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTGCCA-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAGGA
* * * * *
41281855 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG-GA
* *
41281899 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGA
* * * *** *
41281943 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TGGCATCAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAGGA
*
41281984 TCTTATCTCCCTGAGATTACAGTGGAACAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
41282015 CCGAGAAATT
Statistics
Matches: 186, Mismatches: 49, Indels: 23
0.72 0.19 0.09
Matches are distributed among these distances:
41 52 0.28
42 9 0.05
43 9 0.05
44 112 0.60
45 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGGA
Found at i:41288510 original size:21 final size:19
Alignment explanation
Indices: 41288484--41288535 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
41288474 AATTTTAAAA
*
41288484 TTTTTAGCTTTTCTTATATGT
1 TTTTTAGATTTT-TTATAT-T
*
41288505 TTTTTAGATTTTTTTTATT
1 TTTTTAGATTTTTTATATT
*
41288524 TTTTTATATTTT
1 TTTTTAGATTTT
41288536 CTGAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTTTAGATTTTTTATATT
Found at i:41288524 original size:9 final size:10
Alignment explanation
Indices: 41288492--41288535 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
41288482 AATTTTTAGC
*
41288492 TTTTCTTATA
1 TTTTTTTATA
*
41288502 TGTTTTTTAGA
1 T-TTTTTTATA
41288513 TTTTTTT-TA
1 TTTTTTTATA
41288522 TTTTTTTATA
1 TTTTTTTATA
41288532 TTTT
1 TTTT
41288536 CTGAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 8 0.28
10 13 0.45
11 8 0.28
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:41289339 original size:48 final size:48
Alignment explanation
Indices: 41289284--41289407 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 48
41289274 TGGCATCCCC
* * *
41289284 CACCTCCACCAGACCCCTTTGCACCCCCACCACCTGGACCTCCGGCAA
1 CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
* * * *
41289332 CACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCAC
1 CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
* *
41289380 CACCTCCGCCAGACCCCTTCGCACCACC
1 CACCTCCACCAGACCCCTTTGCACCACC
41289408 TATGTTTGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.19, C:0.55, G:0.14, T:0.12
Consensus pattern (48 bp):
CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
Found at i:41289359 original size:24 final size:24
Alignment explanation
Indices: 41289283--41289408 Score: 71
Period size: 24 Copynumber: 5.2 Consensus size: 24
41289273 CTGGCATCCC
41289283 CCACCTCCACCAGACCCCTTTGCA
1 CCACCTCCACCAGACCCCTTTGCA
* * * *
41289307 CCCCCACCACCTGGACCTCC--GGCA
1 CCACCTCCACC-AGACC-CCTTTGCA
* *
41289331 ACACCTCCACCAGACCCCTTTGCT
1 CCACCTCCACCAGACCCCTTTGCA
* * * * *
41289355 CCACCACCGCCAGGGCATCC--GGCA
1 CCACCTCCACCA-GAC-CCCTTTGCA
* *
41289379 CCACCTCCGCCAGACCCCTTCGCA
1 CCACCTCCACCAGACCCCTTTGCA
41289403 CCACCT
1 CCACCT
41289409 ATGTTTGGGC
Statistics
Matches: 73, Mismatches: 21, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
22 4 0.05
23 6 0.08
24 53 0.73
25 6 0.08
26 4 0.05
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (24 bp):
CCACCTCCACCAGACCCCTTTGCA
Found at i:41291353 original size:55 final size:56
Alignment explanation
Indices: 41291280--41291391 Score: 217
Period size: 55 Copynumber: 2.0 Consensus size: 56
41291270 TAAAAATAAA
41291280 GGCAATGTTCGATAGTTAGGAATTTTGTGAAATCGAACCCTAACTTACTGGGTTTT
1 GGCAATGTTCGATAGTTAGGAATTTTGTGAAATCGAACCCTAACTTACTGGGTTTT
41291336 GGCAATGTT-GATAGTTAGGAATTTTGTGAAATCGAACCCTAACTTACTGGGTTTT
1 GGCAATGTTCGATAGTTAGGAATTTTGTGAAATCGAACCCTAACTTACTGGGTTTT
41291391 G
1 G
41291392 ATTTTCTCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 47 0.84
56 9 0.16
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (56 bp):
GGCAATGTTCGATAGTTAGGAATTTTGTGAAATCGAACCCTAACTTACTGGGTTTT
Found at i:41292489 original size:85 final size:86
Alignment explanation
Indices: 41292356--41292532 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 86
41292346 AAATTTTAAA
*
41292356 TTTTAAAAAATTAATTAAATGCTAATGTGTCATCCACATAGTAATTCACTTGTATGCCATGTCAG
1 TTTTCAAAAATTAATTAAATGCTAATGTGTCATCCACATAGTAATTCACTTGTATGCCATGTCAG
41292421 AAAAGTTAAAAAAATGTCAAC
66 AAAAGTTAAAAAAATGTCAAC
41292442 TTTTCAAAAATTAA-TAAATGCTAATGTGTCATCCACATAGTAATTCACTTGTATGCCATGTCAG
1 TTTTCAAAAATTAATTAAATGCTAATGTGTCATCCACATAGTAATTCACTTGTATGCCATGTCAG
41292506 AAAAGTTAAAAAAATGTCAAC
66 AAAAGTTAAAAAAATGTCAAC
41292527 TTTTCA
1 TTTTCA
41292533 TCAATTTTGG
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 77 0.86
86 13 0.14
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (86 bp):
TTTTCAAAAATTAATTAAATGCTAATGTGTCATCCACATAGTAATTCACTTGTATGCCATGTCAG
AAAAGTTAAAAAAATGTCAAC
Found at i:41299868 original size:20 final size:20
Alignment explanation
Indices: 41299843--41299882 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41299833 CGTAAAATGA
*
41299843 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
41299863 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
41299883 GAAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:41299872 original size:34 final size:35
Alignment explanation
Indices: 41299828--41299894 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
41299818 CAGTAAAATA
* *
41299828 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
41299862 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
41299895 CTGGTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:41302158 original size:27 final size:30
Alignment explanation
Indices: 41302128--41302190 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
41302118 AAGATCCTTT
*
41302128 TGCACCACCACCACC-CC-CCTTA-TATGG
1 TGCACCACCACCACCTCCGCCTTACTATGC
*
41302155 TGCACCCCCACCACCTCCGCCTTACTATGC
1 TGCACCACCACCACCTCCGCCTTACTATGC
41302185 TGCACC
1 TGCACC
41302191 TCCTCCTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 14 0.45
28 2 0.06
29 5 0.16
30 10 0.32
ACGTcount: A:0.19, C:0.51, G:0.11, T:0.19
Consensus pattern (30 bp):
TGCACCACCACCACCTCCGCCTTACTATGC
Found at i:41306491 original size:98 final size:98
Alignment explanation
Indices: 41306363--41306560 Score: 353
Period size: 98 Copynumber: 2.0 Consensus size: 98
41306353 GTCTTTACAC
*
41306363 AATTTTAGTGGTTAGGGAGTGGGCATTCTTTTGGCACTT-GATTGCTAATTTTATATTTCTCAAC
1 AATTTTAGTGGTTAGGGAGTGGGCACTCTTTTGGCA-TTCGATTGCTAATTTTATATTTCTCAAC
41306427 AAATTCCCTTTTGACAATTTGTTGAACAAAATAA
65 AAATTCCCTTTTGACAATTTGTTGAACAAAATAA
41306461 AATTTTAGTGGTTAGGGAGTGGGCACTCTTTTGGCATTCGATTGCTAATTTTATATTTCTCAACA
1 AATTTTAGTGGTTAGGGAGTGGGCACTCTTTTGGCATTCGATTGCTAATTTTATATTTCTCAACA
* *
41306526 ACTTCCCTTTTGATAATTTGTTGAACAAAATAA
66 AATTCCCTTTTGACAATTTGTTGAACAAAATAA
41306559 AA
1 AA
41306561 CTGAAAATGA
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
97 2 0.02
98 94 0.98
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (98 bp):
AATTTTAGTGGTTAGGGAGTGGGCACTCTTTTGGCATTCGATTGCTAATTTTATATTTCTCAACA
AATTCCCTTTTGACAATTTGTTGAACAAAATAA
Found at i:41308752 original size:21 final size:21
Alignment explanation
Indices: 41308715--41308821 Score: 112
Period size: 21 Copynumber: 5.2 Consensus size: 21
41308705 ATGAGCCAAT
*
41308715 AGAAGCTC-TAA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTAAAC
* *
41308734 AGAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCGTAAGAGCTAAAC
* * * *
41308755 AAAAACTCAT-AGAAGTTAAAC
1 AGAAGCTCGTAAG-AGCTAAAC
41308776 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
*
41308797 AGAAGCTCGAAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
41308818 AGAA
1 AGAA
41308822 AGTAAAACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.11
20 5 0.07
21 57 0.79
22 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTAAAC
Found at i:41316345 original size:41 final size:40
Alignment explanation
Indices: 41316298--41316390 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
41316288 AACTATTTCC
* * *
41316298 TTTTATTATTTTATTTACATATTTATTTATTATTCCTTTAA
1 TTTTATTATTTTACTTACATATTTATATATTATTCATTT-A
* *
41316339 TTTTATTCA-TTTACTTGCTTATTTATATATTATTCATTTA
1 TTTTATT-ATTTTACTTACATATTTATATATTATTCATTTA
41316379 TTTT-TTATTTTA
1 TTTTATTATTTTA
41316391 ATTCCATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 1 0.02
39 6 0.13
40 5 0.11
41 32 0.71
42 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.67
Consensus pattern (40 bp):
TTTTATTATTTTACTTACATATTTATATATTATTCATTTA
Found at i:41316628 original size:3 final size:3
Alignment explanation
Indices: 41316613--41316647 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
41316603 ATTGTTCTCG
* *
41316613 TTA TTA TTG TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
41316648 TACCTTTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:41317730 original size:72 final size:72
Alignment explanation
Indices: 41317613--41317750 Score: 267
Period size: 72 Copynumber: 1.9 Consensus size: 72
41317603 CAAACTCAGG
*
41317613 TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
1 TATTAAATTATCAAAATATTATTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
41317678 TGTTAGA
66 TGTTAGA
41317685 TATTAAATTATCAAAATATTATTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
1 TATTAAATTATCAAAATATTATTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
41317750 T
66 T
41317751 CTTCTTGATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (72 bp):
TATTAAATTATCAAAATATTATTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
TGTTAGA
Found at i:41318146 original size:178 final size:180
Alignment explanation
Indices: 41317844--41318202 Score: 551
Period size: 178 Copynumber: 2.0 Consensus size: 180
41317834 AATTATAGCG
* *
41317844 CATTTAGTATACTTAATATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTTAATCTA
1 CATTTAGTATACTTAATATGATGTATTTACGTGTTT-AATTTCTTTTTACTAACAATTAAATCTA
* * * ** **
41317909 ATTTTTTTCAATAAAATATTGTACATATTGTATGTGTTATTATTAATTAATTTCAAACATCATGT
65 AATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACAT
* *
41317974 TTTAATTATTTATCATAAGTTATATTCAAATGCAGACATGTATTCTAAATA
130 TGTAATTATTTATCATAAGTTATATTCAAATGCACACATGTATTCTAAATA
**
41318025 CATTTAGTATTTTTAATATGATGTATTTACGTGTTT-ATTT-TTTTTACTAACAATTAAATCTAA
1 CATTTAGTATACTTAATATGATGTATTTACGTGTTTAATTTCTTTTTACTAACAATTAAATCTAA
*
41318088 ATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATTACATT
66 ATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATT
* *
41318153 GTAATTATTTATCATATGTTATATTCAAATGTACACATGTATTCTAAATA
131 GTAATTATTTATCATAAGTTATATTCAAATGCACACATGTATTCTAAATA
41318203 TATGATTTTC
Statistics
Matches: 162, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
178 125 0.77
179 4 0.02
181 33 0.20
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (180 bp):
CATTTAGTATACTTAATATGATGTATTTACGTGTTTAATTTCTTTTTACTAACAATTAAATCTAA
ATTTTTTCAACAAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATT
GTAATTATTTATCATAAGTTATATTCAAATGCACACATGTATTCTAAATA
Found at i:41321239 original size:20 final size:20
Alignment explanation
Indices: 41321201--41321239 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41321191 AATAATAAAC
**
41321201 TATTTTAATTTTAGGATATG
1 TATTTTAATTTTAAAATATG
*
41321221 TATTTTATTTTTAAAATAT
1 TATTTTAATTTTAAAATAT
41321240 AATAATTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATTTTAATTTTAAAATATG
Found at i:41323763 original size:7 final size:7
Alignment explanation
Indices: 41323753--41323783 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
41323743 AATTTTATCT
41323753 TTTTATA
1 TTTTATA
41323760 TTTTATA
1 TTTTATA
41323767 TTTTATA
1 TTTTATA
*
41323774 TTTTAAA
1 TTTTATA
41323781 TTT
1 TTT
41323784 CATACTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTATA
Found at i:41325068 original size:48 final size:46
Alignment explanation
Indices: 41325011--41325101 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 46
41325001 ATATATTATT
* * *
41325011 ACTTTACATAT-TACCTATTTTCATTTTTTATATATTATTTATTCCAA
1 ACTTTACATATATACCTACTTT--TTTTATATATATAATTTATTCCAA
41325058 ACTTATACATATAGTACCTACTTTTTTTATATATATAATTTATT
1 ACTT-TACATATA-TACCTACTTTTTTTATATATATAATTTATT
41325102 TATTGATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
47 4 0.11
48 25 0.66
50 9 0.24
ACGTcount: A:0.32, C:0.13, G:0.01, T:0.54
Consensus pattern (46 bp):
ACTTTACATATATACCTACTTTTTTTATATATATAATTTATTCCAA
Found at i:41325980 original size:527 final size:531
Alignment explanation
Indices: 41324980--41326040 Score: 2022
Period size: 527 Copynumber: 2.0 Consensus size: 531
41324970 TATTACACAA
41324980 TATTTATTTTTAAACTCATTTATATATTATTACTTTACATATTACCTATTTTCATTTTTTATATA
1 TATTTATTTTTAAACTCATTTATATATTATTACTTTACATATTACCTATTTTCATTTTTTATATA
41325045 TTATTTATTCCAAACTTATACATATAGTACCTACTTTTTTTATATATATAATTTATTTATTGATT
66 TTATTTATTCCAAACTTATACATATAGTACCTA---TTTTTATATATATAATTTATTTATTGATT
*
41325110 TGTGTATTGTTGATTTCAAATTTCTTTTTCCCTTATTATTCATTTTCAAATTCATTATTTTTAAA
128 TGTATATTGTTGATTTCAAATTTCTTTTTCCCTTATTATTCATTTTCAAATTCATTATTTTTAAA
* *
41325175 TTTGTTTACATTTTATTTTGCCTTTATTTTTTTTTATATTCTTTGTTTTAAATTCATTGGTCTTT
193 TTTGTTTACATTTTATTTTGCCTTTATATTTTTTTATACTCTTTGTTTTAAATTCATTGGTCTTT
41325240 GATTATTGATGCTAGTATTTAAATAATTACCATTATGTGTTTTATAAATTGTGTATTTGTATTTT
258 GATTATTGATGCTAGTATTTAAATAATTACCATTATGTGTTTTATAAATTGTGTATTTGTATTTT
41325305 CATATTGCCATTTTTTTATCAAAGTTTTTACGCATCGTTTTAATATTGCCTCAATTTTCCCCAAT
323 CATATTGCCATTTTTTTATCAAAGTTTTTACGCATCGTTTTAATATTGCCTCAATTTTCCCCAAT
41325370 TTTAAAAAAGAAAACTTTTAAAAATAAGGCAATATTTGGTACTCTGGAGCTTTGAGAAAATCATG
388 TTTAAAAAAGAAAACTTTTAAAAATAAGGCAATATTTGGTACTCTGGAGCTTTGAGAAAATCATG
41325435 CCCTAACTTGCTGGGTTTCGATTTTTTTGATCCAAATAACCGAATATCCTTTTTAAACTTTAATG
453 CCCTAACTTGCTGGGTTTCGATTTTTTTGATCCAAATAACCGAATATCCTTTTTAAACTTTAATG
41325500 TATGAGACAAGCTT
518 TATGAGACAAGCTT
41325514 TATTTATTTTTAAACTCATTTATATATTATTACTTTACATATTACCTATTTTCATTTTTTATATA
1 TATTTATTTTTAAACTCATTTATATATTATTACTTTACATATTACCTATTTTCATTTTTTATATA
*
41325579 TTATTTATTCCAAACTTATACATATATTACCTA-TTTT-T-TATATAATTTATTTATTGATTTGT
66 TTATTTATTCCAAACTTATACATATAGTACCTATTTTTATATATATAATTTATTTATTGATTTGT
41325641 ATATTGTTGATTTCAAATTTCTTTTTCCCTTATTATTCATTTTCAAATTCATTATTTTTAAATTT
131 ATATTGTTGATTTCAAATTTCTTTTTCCCTTATTATTCATTTTCAAATTCATTATTTTTAAATTT
*
41325706 GTTTACATTTTATTTTTCC-TTATATTTTTTTATACTCTTTGTTTTAAATTCATTGGTCTTTGAT
196 GTTTACATTTTATTTTGCCTTTATATTTTTTTATACTCTTTGTTTTAAATTCATTGGTCTTTGAT
41325770 TATTGATGCTAGTATTTAAATAATTACCATTATGTGTTTTATAAATTGTGTATTTGTATTTTCAT
261 TATTGATGCTAGTATTTAAATAATTACCATTATGTGTTTTATAAATTGTGTATTTGTATTTTCAT
41325835 ATTGCCATTTTTTTATCAAAGTTTTTACGCATCGTTTTAATATTGCCTCAATTTTCCCCAATTTT
326 ATTGCCATTTTTTTATCAAAGTTTTTACGCATCGTTTTAATATTGCCTCAATTTTCCCCAATTTT
41325900 AAAAAAGAAAACTTTTAAAAATAAGGCAATATTTGGTACTCTGGAGCTTTGAGAAAATCATGCCC
391 AAAAAAGAAAACTTTTAAAAATAAGGCAATATTTGGTACTCTGGAGCTTTGAGAAAATCATGCCC
41325965 TAACTTGCTGGGTTTCGATTTTTTTGATCCAAATAACCGAATATCCTTTTTAAACTTTAATGTAT
456 TAACTTGCTGGGTTTCGATTTTTTTGATCCAAATAACCGAATATCCTTTTTAAACTTTAATGTAT
41326030 GAGACAAGCTT
521 GAGACAAGCTT
41326041 AGTTTCGAGG
Statistics
Matches: 522, Mismatches: 5, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
527 314 0.60
528 106 0.20
529 1 0.00
530 4 0.01
534 97 0.19
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (531 bp):
TATTTATTTTTAAACTCATTTATATATTATTACTTTACATATTACCTATTTTCATTTTTTATATA
TTATTTATTCCAAACTTATACATATAGTACCTATTTTTATATATATAATTTATTTATTGATTTGT
ATATTGTTGATTTCAAATTTCTTTTTCCCTTATTATTCATTTTCAAATTCATTATTTTTAAATTT
GTTTACATTTTATTTTGCCTTTATATTTTTTTATACTCTTTGTTTTAAATTCATTGGTCTTTGAT
TATTGATGCTAGTATTTAAATAATTACCATTATGTGTTTTATAAATTGTGTATTTGTATTTTCAT
ATTGCCATTTTTTTATCAAAGTTTTTACGCATCGTTTTAATATTGCCTCAATTTTCCCCAATTTT
AAAAAAGAAAACTTTTAAAAATAAGGCAATATTTGGTACTCTGGAGCTTTGAGAAAATCATGCCC
TAACTTGCTGGGTTTCGATTTTTTTGATCCAAATAACCGAATATCCTTTTTAAACTTTAATGTAT
GAGACAAGCTT
Found at i:41326664 original size:23 final size:24
Alignment explanation
Indices: 41326619--41326665 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
41326609 TTGGTCACTA
* *
41326619 TATTTTATTTTGATTAATATTTGT
1 TATTATATTTTGATAAATATTTGT
41326643 TATTATATTTTGA-AAATATTTGT
1 TATTATATTTTGATAAATATTTGT
41326666 AAAATTACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (24 bp):
TATTATATTTTGATAAATATTTGT
Found at i:41326959 original size:120 final size:120
Alignment explanation
Indices: 41326789--41327048 Score: 475
Period size: 120 Copynumber: 2.1 Consensus size: 120
41326779 TTGATGATTT
*
41326789 AAAAATAAAATATAATAAAATCTTTCAAATATTTAATTTTAATGGTTAACAAGGAGATAATTTAT
1 AAAATTAAAATAT-AT-AAATCTTTCAAATATTTAATTTTAATGGTTAACAAGGAGATAATTTAT
**
41326854 AAAATATTGGATATTAATAAATTAAATTATAAATCTATTCAATGAAATAAATACTTG
64 AAAATATTGGATATTAATAAATTAAATTATAAAAATATTCAATGAAATAAATACTTG
41326911 AAAATTAAAATATATAAATCTTTCAAATATTTAATTTTAATGGTTAACAAGGAGATAATTTATAA
1 AAAATTAAAATATATAAATCTTTCAAATATTTAATTTTAATGGTTAACAAGGAGATAATTTATAA
41326976 AATATTGGATATTAATAAATTAAATTATAAAAATATTCAATGAAATAAATACTTG
66 AATATTGGATATTAATAAATTAAATTATAAAAATATTCAATGAAATAAATACTTG
41327031 AAAATTAAAATATATAAA
1 AAAATTAAAATATATAAA
41327049 GAAGAAAAAT
Statistics
Matches: 135, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
120 121 0.90
121 2 0.01
122 12 0.09
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (120 bp):
AAAATTAAAATATATAAATCTTTCAAATATTTAATTTTAATGGTTAACAAGGAGATAATTTATAA
AATATTGGATATTAATAAATTAAATTATAAAAATATTCAATGAAATAAATACTTG
Found at i:41337265 original size:19 final size:18
Alignment explanation
Indices: 41337230--41337265 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41337220 GAAGCAAGCA
*
41337230 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
41337248 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
41337266 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:41359972 original size:41 final size:41
Alignment explanation
Indices: 41359925--41360002 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
41359915 ATATTTTATT
* *
41359925 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATTTTCC
41359966 TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATT
1 TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATT
41360003 ATCCCAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTACTTTATTAAAATAAGGGAATTATTTTCC
Found at i:41361407 original size:14 final size:14
Alignment explanation
Indices: 41361388--41361415 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41361378 AAAACTCTAA
41361388 ACTATAGAACTCAT
1 ACTATAGAACTCAT
41361402 ACTATAGAACTCAT
1 ACTATAGAACTCAT
41361416 TTCAATCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
ACTATAGAACTCAT
Found at i:41361872 original size:35 final size:35
Alignment explanation
Indices: 41361832--41361900 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
41361822 TAGAGTCTGA
41361832 TCATGAGAATAAAGAACAAACAAATGAGTTAATTG
1 TCATGAGAATAAAGAACAAACAAATGAGTTAATTG
41361867 TCATGAGAATAAAGAACAAACAAATGAGTTAATT
1 TCATGAGAATAAAGAACAAACAAATGAGTTAATT
41361901 CTTTACTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (35 bp):
TCATGAGAATAAAGAACAAACAAATGAGTTAATTG
Done.