Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 92 of 145
Found at i:30719249 original size:21 final size:20
Alignment explanation
Indices: 30719220--30719262 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
30719210 TTTATTATCT
*
30719220 ATTGTATATTATTTATAAACAC
1 ATTGTATA-TATTT-TAAAAAC
30719242 ATTG-ATATATTTTAAAAAC
1 ATTGTATATATTTTAAAAAC
30719261 AT
1 AT
30719263 AATTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 5 0.25
21 3 0.15
22 4 0.20
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTGTATATATTTTAAAAAC
Found at i:30722318 original size:14 final size:14
Alignment explanation
Indices: 30722299--30722325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30722289 ACAAGAAATA
30722299 AGCACACATAATTT
1 AGCACACATAATTT
30722313 AGCACACATAATT
1 AGCACACATAATT
30722326 AGTTCATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (14 bp):
AGCACACATAATTT
Found at i:30722917 original size:26 final size:25
Alignment explanation
Indices: 30722871--30722919 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
30722861 ATCGATGTAT
* *
30722871 AAATAAATTGTATTGTGATAAAACA
1 AAATAAATTATATTGTAATAAAACA
*
30722896 AAATAAATATATATTTTAATAAAA
1 AAATAAAT-TATATTGTAATAAAA
30722920 TGTTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
AAATAAATTATATTGTAATAAAACA
Found at i:30728120 original size:54 final size:54
Alignment explanation
Indices: 30728038--30728150 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 54
30728028 AGAAGCAACC
*
30728038 ACTAAATGTACTCATCCTATCATCAATGTTTCTTGCCTAATCAACATCTCTATA
1 ACTAAATGTAATCATCCTATCATCAATGTTTCTTGCCTAATCAACATCTCTATA
* * *
30728092 ACTAAGTGTAATCTTCCTATCATCAATGTTTCTTGCCTAATCAACATCTCTGTA
1 ACTAAATGTAATCATCCTATCATCAATGTTTCTTGCCTAATCAACATCTCTATA
30728146 ACTAA
1 ACTAA
30728151 CCAGACTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (54 bp):
ACTAAATGTAATCATCCTATCATCAATGTTTCTTGCCTAATCAACATCTCTATA
Found at i:30734674 original size:14 final size:14
Alignment explanation
Indices: 30734655--30734684 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30734645 TATGTCAAAG
30734655 GAAAAATTGAGTTA
1 GAAAAATTGAGTTA
*
30734669 GAAAAATTGATTTA
1 GAAAAATTGAGTTA
30734683 GA
1 GA
30734685 CTTTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (14 bp):
GAAAAATTGAGTTA
Found at i:30744654 original size:6 final size:6
Alignment explanation
Indices: 30744643--30744676 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
30744633 GATTGATTGC
30744643 CTGATT CTGATT CTGATT CTGATT CTGATT CTGA
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGA
30744677 CTATGACCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:30746696 original size:23 final size:22
Alignment explanation
Indices: 30746654--30746695 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30746644 CCAAAAAATT
*
30746654 ATAAAAATTTCTCAAATTTTAA
1 ATAAAAAATTCTCAAATTTTAA
30746676 ATAAAAAATTCT-AAACTTTT
1 ATAAAAAATTCTCAAA-TTTT
30746696 TTAATGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAAAATTCTCAAATTTTAA
Found at i:30747038 original size:24 final size:24
Alignment explanation
Indices: 30747011--30747058 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
30747001 AAATTAGTAA
30747011 GTCAAATAAACTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
* *
30747035 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
30747059 ACTAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
GTCAAATAAACTATACTAATAAAT
Found at i:30748868 original size:98 final size:98
Alignment explanation
Indices: 30748699--30748885 Score: 347
Period size: 98 Copynumber: 1.9 Consensus size: 98
30748689 ATTATACTAA
* *
30748699 TAAATACTAAATTTTCTAGAAAGAAAATATTTTTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
1 TAAATACTAAATCTTCTAGAAAGAAAATATATTTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
30748764 GAATTTGGGTCACACAACTCTAACTGTATGCGG
66 GAATTTGGGTCACACAACTCTAACTGTATGCGG
30748797 TAAATACTAAATCTTCTAGAAAGAAAATATATTTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
1 TAAATACTAAATCTTCTAGAAAGAAAATATATTTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
*
30748862 GAATTTGGGTTACACAACTCTAAC
66 GAATTTGGGTCACACAACTCTAAC
30748886 ATTTAATTTT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (98 bp):
TAAATACTAAATCTTCTAGAAAGAAAATATATTTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
GAATTTGGGTCACACAACTCTAACTGTATGCGG
Found at i:30757835 original size:19 final size:20
Alignment explanation
Indices: 30757805--30757844 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
30757795 GTGGTAAAAT
30757805 TAAAGTTTTATTAATGCAAA
1 TAAAGTTTTATTAATGCAAA
30757825 TAAAG-TTTATTAATGCAAA
1 TAAAGTTTTATTAATGCAAA
30757844 T
1 T
30757845 GCCAGGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAAGTTTTATTAATGCAAA
Found at i:30758055 original size:20 final size:21
Alignment explanation
Indices: 30758030--30758075 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
30758020 ATGGAGATAA
30758030 TAAAATATGCATAATA-AAAT
1 TAAAATATGCATAATATAAAT
*
30758050 T-AAA-ATGTATAATATAAAT
1 TAAAATATGCATAATATAAAT
30758069 TAAAATA
1 TAAAATA
30758076 AAGCTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 4 0.18
21 1 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAAATATGCATAATATAAAT
Found at i:30759816 original size:23 final size:24
Alignment explanation
Indices: 30759772--30759816 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
30759762 AATGCATTTA
* *
30759772 TTTTTATAATTTGATTTTATGTAT
1 TTTTTATAATTTGAGTTGATGTAT
*
30759796 TTTTTTTAA-TTGAGTTGATGT
1 TTTTTATAATTTGAGTTGATGT
30759817 CACTAAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.22, C:0.00, G:0.13, T:0.64
Consensus pattern (24 bp):
TTTTTATAATTTGAGTTGATGTAT
Found at i:30760189 original size:21 final size:21
Alignment explanation
Indices: 30760161--30760219 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
30760151 ATTTTCCTAT
* *
30760161 ATTTATTTTTATTTTTTAA-A
1 ATTTATTTATAATTTTTAAGA
30760181 ATTTAATTTATAATTTTTAAGA
1 ATTT-ATTTATAATTTTTAAGA
*
30760203 ATTT-TTTAAAGATTTTT
1 ATTTATTTATA-ATTTTT
30760220 TTCATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 9 0.27
21 19 0.58
22 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (21 bp):
ATTTATTTATAATTTTTAAGA
Found at i:30761417 original size:2 final size:2
Alignment explanation
Indices: 30761410--30761434 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30761400 CAGATACTTG
30761410 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
30761435 TTGGTATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30765680 original size:23 final size:23
Alignment explanation
Indices: 30765654--30765721 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
30765644 TTTAATCCTG
30765654 ATCGTCGATGTAATTTAAACTGT
1 ATCGTCGATGTAATTTAAACTGT
**
30765677 ATCGT---TG-AATTT-TCCTG-
1 ATCGTCGATGTAATTTAAACTGT
30765694 ATCGTCGATGTAATTTAAACTGT
1 ATCGTCGATGTAATTTAAACTGT
30765717 ATCGT
1 ATCGT
30765722 TGAATTTGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
17 5 0.14
18 3 0.09
19 5 0.14
20 4 0.11
21 5 0.14
22 3 0.09
23 10 0.29
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (23 bp):
ATCGTCGATGTAATTTAAACTGT
Found at i:30765704 original size:40 final size:40
Alignment explanation
Indices: 30765649--30765728 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
30765639 TAAACTTTAA
30765649 TCCTGATCGTCGATGTAATTTAAACTGTATCGTTGAATTT
1 TCCTGATCGTCGATGTAATTTAAACTGTATCGTTGAATTT
30765689 TCCTGATCGTCGATGTAATTTAAACTGTATCGTTGAATTT
1 TCCTGATCGTCGATGTAATTTAAACTGTATCGTTGAATTT
30765729 GGGGGAGCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (40 bp):
TCCTGATCGTCGATGTAATTTAAACTGTATCGTTGAATTT
Found at i:30768398 original size:50 final size:50
Alignment explanation
Indices: 30768289--30768786 Score: 423
Period size: 50 Copynumber: 9.9 Consensus size: 50
30768279 AAATTAAGAG
*
30768289 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---A
*
30768340 GATTATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCAA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
** * *
30768393 GATGAGAGGTTTCATGTTAGA-CA------GGACATGGCGTTGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
* *
30768436 GATGAGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCA-TGGACACCTA
1 GATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCAA
* ** * * * *
30768486 TATGAGAACTCCCGTGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CAA
* *
30768539 GATTATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
* * *
30768592 GATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
** *
30768642 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCAA
* ** * * * *
30768692 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCAGTACAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCAA
** * * *
30768744 GA--A-ACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30768787 TGTTATATTC
Statistics
Matches: 365, Mismatches: 56, Indels: 54
0.77 0.12 0.11
Matches are distributed among these distances:
43 34 0.09
44 3 0.01
49 42 0.12
50 187 0.51
51 7 0.02
52 3 0.01
53 5 0.01
54 6 0.02
55 1 0.00
56 77 0.21
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
Found at i:30768715 original size:206 final size:199
Alignment explanation
Indices: 30768296--30768722 Score: 701
Period size: 199 Copynumber: 2.1 Consensus size: 199
30768286 GAGGATGAGA
* * *
30768296 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAAGATTATGAGAGGTCCCATGTA
* *
30768361 AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTTTCATGTTAGACAGGACATGGCG
66 AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGACAGGACATGGCG
*
30768426 TTGGCACCAAGATGAGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGACACCTATATGA
131 TTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCTATATGA
30768491 GAAC
196 GAAC
*
30768495 TCCCGTGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAAGATTATGAGAGGTCCCATGTA
*
30768560 AGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTGGGA
66 AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGA-CA------GGA
*
30768625 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACC
124 CATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACC
30768690 TATATGAGAAC
189 TATATGAGAAC
*
30768701 TCCCATGTAAGACCATATCTGG
1 TCCCATGTAAGACCATGTCTGG
30768723 GATATGACAT
Statistics
Matches: 210, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
199 111 0.53
200 2 0.01
206 97 0.46
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (199 bp):
TCCCATGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAAGATTATGAGAGGTCCCATGTA
AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGACAGGACATGGCG
TTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCTATATGA
GAAC
Found at i:30768737 original size:156 final size:154
Alignment explanation
Indices: 30768416--30768737 Score: 370
Period size: 156 Copynumber: 2.1 Consensus size: 154
30768406 ATGTTAGACA
* *
30768416 GGACATGGCGTTGGCACCAAGATGAGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGAC
1 GGACATGGCATTGGCACCAAGATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGGCATGGAC
* * ** * *
30768481 ACCTATATGAGAACTCCCGTGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAAGATTATG
66 ACCGAGATGAGAACTCCCCCGTAAGACCATGTCTGGCACATGGCATGAGCATCACT-A-ATTATG
** * *
30768546 AGAGGTCCCATGTAAGACCATGTTTG
129 AGAACTCCCATGTAAGACCATATTGG
* * *
30768572 GGACATGGCATTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGG-
1 GGACATGGCATTGGCACCAAGATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGGC-ATGGA
** *
30768636 CACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATG-G-A-CACCT-A-TATG
65 CACCGAGATGAGAACTCCCCCGTAAGACCATGTCTGGCACATGGCATGAGCATCA-CTAATTATG
30768696 AGAACTCCCATGTAAGACCATATCT-G
129 AGAACTCCCATGTAAGACCATAT-TGG
* *
30768722 GGATATGACATTGGCA
1 GGACATGGCATTGGCA
30768738 GTACAAGAAA
Statistics
Matches: 144, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
150 39 0.27
151 2 0.01
153 2 0.01
154 2 0.01
155 1 0.01
156 95 0.66
157 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (154 bp):
GGACATGGCATTGGCACCAAGATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGGCATGGAC
ACCGAGATGAGAACTCCCCCGTAAGACCATGTCTGGCACATGGCATGAGCATCACTAATTATGAG
AACTCCCATGTAAGACCATATTGG
Found at i:30768756 original size:199 final size:196
Alignment explanation
Indices: 30768296--30768786 Score: 605
Period size: 199 Copynumber: 2.5 Consensus size: 196
30768286 GAGGATGAGA
* * * * ** *
30768296 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATATCTGGCACATGACATTAGCATCATCAAGA-TA-GACA-GTCCCATGTA
* *
30768361 AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTTTCATGTTAGACAGGACATGGCG
63 AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGACAGGACATGGCG
*
30768426 TTGGCACCAAGATGAGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGACACCTATATGA
128 TTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCTATATGA
30768491 GAAC
193 GAAC
* * * * *
30768495 TCCCGTGTAAGACCATGTCTGGCACATGGCATTAGCATCATTAAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATATCTGGCACATGACATTAGCATCATCAAGA-TA-GACA-GTCCCATGTA
*
30768560 AGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTGGGA
63 AGACCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGA-CA------GGA
*
30768625 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACC
121 CATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACC
30768690 TATATGAGAAC
186 TATATGAGAAC
* * *
30768701 TCCCATGTAAGACCATATCTGGGATATGACATTGGCAGT-A-CAAGA-A-ACA-TCCCATGTAAG
1 TCCCATGTAAGACCATATCTGGCACATGACATTAGCA-TCATCAAGATAGACAGTCCCATGTAAG
* * * *
30768761 ACTATGTCTGGGACATAGCTTTGGCA
65 ACCATGTTTGGGACATGGCATTGGCA
30768787 TGTTATATTC
Statistics
Matches: 263, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
199 144 0.55
200 2 0.01
201 2 0.01
203 1 0.00
205 4 0.02
206 109 0.41
207 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (196 bp):
TCCCATGTAAGACCATATCTGGCACATGACATTAGCATCATCAAGATAGACAGTCCCATGTAAGA
CCATGTTTGGGACATGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGACAGGACATGGCGTTG
GCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCTATATGAGAA
C
Found at i:30771082 original size:30 final size:31
Alignment explanation
Indices: 30771036--30771120 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
30771026 GATACACGAG
* *
30771036 AATA-AGTTGCTCACACAAGCTGACAATATTT
1 AATAGAGTTGCTTACACAAGCTGACAAT-TGT
*
30771067 CA-AG-GTTGCTTACACAAGCTGAC-ATTGT
1 AATAGAGTTGCTTACACAAGCTGACAATTGT
*
30771095 AATAGAGTTGCTTACATAAGCTGACA
1 AATAGAGTTGCTTACACAAGCTGACA
30771121 TTATATCGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
28 3 0.07
29 4 0.09
30 37 0.82
31 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (31 bp):
AATAGAGTTGCTTACACAAGCTGACAATTGT
Found at i:30772526 original size:30 final size:30
Alignment explanation
Indices: 30772465--30772532 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
30772455 ATATAGGTAA
* *
30772465 TTTTATATATTTTTAATGTTTATATTATAT
1 TTTTATATATTTTTAATGTTAAAATTATAT
30772495 TTTTATATATTATTGTAAT-TTAAAATT-TAT
1 TTTTATATATT-TT-TAATGTTAAAATTATAT
30772525 TTGTTATA
1 TT-TTATA
30772533 AGTTACGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 16 0.48
31 13 0.39
32 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTTATATATTTTTAATGTTAAAATTATAT
Found at i:30777049 original size:191 final size:191
Alignment explanation
Indices: 30776725--30777102 Score: 661
Period size: 191 Copynumber: 2.0 Consensus size: 191
30776715 ATAAAATAAG
*
30776725 TTATTTGAATGAAATTTGAAACGAAGATTAAAAGATGTATAAGCATGGATCTGGAATAAAAATTT
1 TTATTTGAATGAAATTTGAAACGAAGATTAAAAGATGTATAAGCATGGATCTAGAATAAAAATTT
* * *
30776790 GATGAACGTATCGTAAATAATAATATTTAATATTATATTAAGGAATGAACACATCATTGGAATAT
66 CATGAACGTATAGTAAATAATAATATGTAATATTATATTAAGGAATGAACACATCATTGGAATAT
30776855 TTCGAATAAGTAGAATATATATAGAAATTGGTGTAAAAGAATATAATTTAAAATTATCAAT
131 TTCGAATAAGTAGAATATATATAGAAATTGGTGTAAAAGAATATAATTTAAAATTATCAAT
* *
30776916 TTATTTGAATGAAATTTGAAGCGAAGATTAAAAGATGTATAAGCATGGATCTAGAATAAACATTT
1 TTATTTGAATGAAATTTGAAACGAAGATTAAAAGATGTATAAGCATGGATCTAGAATAAAAATTT
*
30776981 CATGAACGTATAGTAAATAATAATATGTAATAATGTATA-T-AGGAATGAACGCATCATTGGAAT
66 CATGAACGTATAGTAAATAATAATATGTAAT-AT-TATATTAAGGAATGAACACATCATTGGAAT
30777044 ATTTCGAATAAGTAGAATATATATAGAAATTGGTGTAAAAGAATATAATTTAAAATTAT
129 ATTTCGAATAAGTAGAATATATATAGAAATTGGTGTAAAAGAATATAATTTAAAATTAT
30777103 TGATAGATTT
Statistics
Matches: 178, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
191 171 0.96
192 3 0.02
193 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (191 bp):
TTATTTGAATGAAATTTGAAACGAAGATTAAAAGATGTATAAGCATGGATCTAGAATAAAAATTT
CATGAACGTATAGTAAATAATAATATGTAATATTATATTAAGGAATGAACACATCATTGGAATAT
TTCGAATAAGTAGAATATATATAGAAATTGGTGTAAAAGAATATAATTTAAAATTATCAAT
Found at i:30777653 original size:16 final size:16
Alignment explanation
Indices: 30777632--30777664 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30777622 TTTAAAAGAT
30777632 TTGAAA-GAAAACTCAA
1 TTGAAATGAAAA-TCAA
30777648 TTGAAATGAAAATCAA
1 TTGAAATGAAAATCAA
30777664 T
1 T
30777665 GTCGAAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (16 bp):
TTGAAATGAAAATCAA
Found at i:30778425 original size:22 final size:24
Alignment explanation
Indices: 30778399--30778442 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30778389 GAAAAATATT
30778399 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
30778421 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
30778443 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:30778588 original size:68 final size:66
Alignment explanation
Indices: 30778509--30778718 Score: 357
Period size: 68 Copynumber: 3.1 Consensus size: 66
30778499 TCAAGTTTGT
*
30778509 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAA--TTAATAATTTGAT
30778574 AAA
64 AAA
30778577 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT--AATTAATAATTTGAT
30778642 AAA
64 AAA
*
30778645 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
*
30778710 T
66 A
30778711 TTTACTAA
1 TTTACTAA
30778719 CAATTAATTT
Statistics
Matches: 137, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
66 25 0.18
68 110 0.80
70 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
A
Found at i:30778619 original size:9 final size:9
Alignment explanation
Indices: 30778607--30778634 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30778597 TTTTATTACA
30778607 ACAATTAAT
1 ACAATTAAT
30778616 ACAATTAAT
1 ACAATTAAT
30778625 ACAATTAAT
1 ACAATTAAT
30778634 A
1 A
30778635 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:30778728 original size:16 final size:16
Alignment explanation
Indices: 30778707--30778748 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
30778697 AATAATTTGA
*
30778707 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
30778723 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
30778739 TAGTTTTAAT
1 TAATTTTAAT
30778749 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:30778732 original size:22 final size:23
Alignment explanation
Indices: 30778722--30778777 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
30778712 TTACTAACAA
* * *
30778722 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
30778744 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
30778767 TTAATTTTAAT
1 TTAATTTTAAT
30778778 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:30781878 original size:29 final size:29
Alignment explanation
Indices: 30781811--30781890 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
30781801 GGCTCACACA
** *
30781811 GCTTAACACGCGCTCGTGTGACCCATATG
1 GCTTAACACATGCTCGTGTGACCCACATG
* *
30781840 GCTTAGCACATGCTCGTGTGACCTACA-G
1 GCTTAACACATGCTCGTGTGACCCACATG
30781868 GCTTTAACACATAG-TCGTGTGAC
1 GC-TTAACACAT-GCTCGTGTGAC
30781891 GTCGATGGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.07
29 39 0.91
30 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (29 bp):
GCTTAACACATGCTCGTGTGACCCACATG
Found at i:30785549 original size:31 final size:34
Alignment explanation
Indices: 30785507--30785577 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 34
30785497 AATATTCCTG
*
30785507 ATTTTTTTTATTAATTT-AGTTCATT-TTT-TTT
1 ATTTTTCTTATTAATTTAAGTTCATTATTTATTT
* *
30785538 ATTTTTCTTATTTATTTAATTTCATTATTTATTT
1 ATTTTTCTTATTAATTTAAGTTCATTATTTATTT
30785572 ATTTTT
1 ATTTTT
30785578 ATCACATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 15 0.44
32 7 0.21
33 3 0.09
34 9 0.26
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (34 bp):
ATTTTTCTTATTAATTTAAGTTCATTATTTATTT
Found at i:30785565 original size:17 final size:16
Alignment explanation
Indices: 30785541--30785572 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30785531 TTTTTTTATT
30785541 TTTCTTATTTATTTAA
1 TTTCTTATTTATTTAA
30785557 TTTCATTATTTATTTA
1 TTTC-TTATTTATTTA
30785573 TTTTTATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTCTTATTTATTTAA
Found at i:30788499 original size:50 final size:50
Alignment explanation
Indices: 30788400--30788589 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 50
30788390 AAAGAGATCC
* * *
30788400 CATGTAAGACCATGTCTGGGTCATGACATTGGCATCATTGAGATTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGTCT
* *
30788456 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCT
** * * * **
30788506 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCT
* * * *
30788556 CATGTAAGACCCTATCTAGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
30788590 GTTCAAGAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 78 0.69
53 2 0.02
56 33 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCT
Found at i:30796034 original size:35 final size:35
Alignment explanation
Indices: 30795935--30796035 Score: 121
Period size: 35 Copynumber: 2.9 Consensus size: 35
30795925 ATTTATTGAT
* * * *
30795935 ATTCTGATTCGCATGTTGAGCATGCTATTATTCTG
1 ATTCTGATTCGCATGTTAAGCATGCCATTGTTCTA
* * *
30795970 ATTCTGATTCACATGTTAAGCTTGTCATTGTTCTA
1 ATTCTGATTCGCATGTTAAGCATGCCATTGTTCTA
* *
30796005 ATTCTGATTCGCATATTAAACATGCCATTGT
1 ATTCTGATTCGCATGTTAAGCATGCCATTGT
30796036 GATAAATCGT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGCATGCCATTGTTCTA
Found at i:30797536 original size:50 final size:51
Alignment explanation
Indices: 30797477--30797626 Score: 205
Period size: 50 Copynumber: 3.0 Consensus size: 51
30797467 TGAAAGTGAA
*
30797477 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * * *
30797527 A-TGATTGGTCGCATGTGTAGTACTATGTGCAGGCTACTTCGTGTATCGGAT
1 AGTGA-TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * *
30797578 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCAG
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG
30797627 TATCATTAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.04
50 41 0.48
51 38 0.45
52 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
Found at i:30801891 original size:21 final size:21
Alignment explanation
Indices: 30801857--30801898 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30801847 ATTAGCATCA
30801857 ATTATAACAACTCAAAACATG
1 ATTATAACAACTCAAAACATG
30801878 ATTA-AACAAGCTCAAAACATG
1 ATTATAACAA-CTCAAAACATG
30801899 TCAAAACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.21
Consensus pattern (21 bp):
ATTATAACAACTCAAAACATG
Found at i:30819601 original size:57 final size:57
Alignment explanation
Indices: 30819507--30819666 Score: 257
Period size: 57 Copynumber: 2.8 Consensus size: 57
30819497 GCATGTAACA
* *
30819507 CTTAGAGACAACTCGCACTTCACCAGTTCGCAACTCCATCTCAGTTCACATGCAATG
1 CTTAGAGACAGCTCGCACTTCACCAGTTTGCAACTCCATCTCAGTTCACATGCAATG
* * *
30819564 CTTAGAGACAGCTCGCACTTCACCAGTTTGTATCTCCATCTCTGTTCACATGCAATG
1 CTTAGAGACAGCTCGCACTTCACCAGTTTGCAACTCCATCTCAGTTCACATGCAATG
* *
30819621 CTTAGAGACAGCTCACACTTCACCAGTTTGCAACTCCATCTTAGTT
1 CTTAGAGACAGCTCGCACTTCACCAGTTTGCAACTCCATCTCAGTT
30819667 TCCAAGCTCT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 93 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (57 bp):
CTTAGAGACAGCTCGCACTTCACCAGTTTGCAACTCCATCTCAGTTCACATGCAATG
Found at i:30824930 original size:99 final size:102
Alignment explanation
Indices: 30824766--30824970 Score: 344
Period size: 99 Copynumber: 2.0 Consensus size: 102
30824756 ATCAACAAAT
30824766 ATTTTAAAATTTTTAAAATACATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAG
1 ATTTTAAAATTTTTAAAATACATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAG
30824831 TACACGT-GGTTGCCATGCGGGCTGCCATATTTAAAA
66 TACACGTAGGTTGCCATGCGGGCTGCCATATTTAAAA
* *
30824867 ATTTT-AAA-TTTTAAAATATATATAATTATAAAGTACATAAAAATTAAAAACAAAAACATGAAG
1 ATTTTAAAATTTTTAAAATACATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAG
* * *
30824930 TACATGTAGGTTGCCATGCGGGCTGTCATATTTCAAA
66 TACACGTAGGTTGCCATGCGGGCTGCCATATTTAAAA
30824967 ATTT
1 ATTT
30824971 AATGTTTTAG
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
99 59 0.60
100 34 0.35
101 5 0.05
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (102 bp):
ATTTTAAAATTTTTAAAATACATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAG
TACACGTAGGTTGCCATGCGGGCTGCCATATTTAAAA
Found at i:30825045 original size:31 final size:31
Alignment explanation
Indices: 30825010--30825072 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
30825000 ATAATTCAAT
*
30825010 TCTTTTTT-AAAGATTGATGGTCAAATTTAAC
1 TCTTTTTTAAAAGATTGA-GATCAAATTTAAC
*
30825041 TCTTTTTTAAAAGCTTGAGATCAAATTTAAC
1 TCTTTTTTAAAAGATTGAGATCAAATTTAAC
30825072 T
1 T
30825073 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
TCTTTTTTAAAAGATTGAGATCAAATTTAAC
Found at i:30829374 original size:22 final size:21
Alignment explanation
Indices: 30829332--30829386 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
30829322 TTGTTAACCC
30829332 AAATTAAATTAGATATAAATTA
1 AAATT-AATTAGATATAAATTA
* *
30829354 AAATTAATTATATTATGAATTA
1 AAATTAATTAGA-TATAAATTA
30829376 ATAATATAATT
1 A-AAT-TAATT
30829387 TTGGACCGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.21
22 14 0.50
23 3 0.11
24 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AAATTAATTAGATATAAATTA
Found at i:30830374 original size:75 final size:76
Alignment explanation
Indices: 30830243--30830478 Score: 384
Period size: 75 Copynumber: 3.1 Consensus size: 76
30830233 TTTAAATACA
*
30830243 AAGTTGACTATTTAAATTGTAAAAAAAAAACATAAAATTGATAAATAAAATGGCAACAAATTCAT
1 AAGTTGACTATTTAAATTG-AAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCAT
30830308 TACATAAATATG
65 TACATAAATATG
* *
30830320 AAGTTGACTATTTAAATTG-AAAAAAGATCAAAAAATTGATAAATAAAATGGCAACAAATTCATT
1 AAGTTGACTATTTAAATTGAAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCATT
30830384 ACATAAATATG
66 ACATAAATATG
* *
30830395 AAGTTGACTATTTAAATTGAAAACAAATAAATCATAAAATTGATAAATAAAATGGAAAAAAATTC
1 AAGTTGACTATTTAAATTG-AAA-AAA-AAATCATAAAATTGATAAATAAAATGGCAACAAATTC
30830460 ATTACATAAATATG
63 ATTACATAAATATG
30830474 AAGTT
1 AAGTT
30830479 ATTTATATTA
Statistics
Matches: 148, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
75 72 0.49
77 21 0.14
78 3 0.02
79 52 0.35
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (76 bp):
AAGTTGACTATTTAAATTGAAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCATT
ACATAAATATG
Found at i:30830720 original size:33 final size:33
Alignment explanation
Indices: 30830668--30830760 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
30830658 CTTGAGCAGA
* *
30830668 GAGAAGTGGTGTACAACGGTGGATACGGGCCGG
1 GAGAAGTGGAGTACGACGGTGGATACGGGCCGG
* *
30830701 GAGAAGTGGAGTACGACGGTGGATACAGGCTGG
1 GAGAAGTGGAGTACGACGGTGGATACGGGCCGG
* * *
30830734 AAGGAGTGGAGTACTGA-GTTGGATACG
1 GAGAAGTGGAGTAC-GACGGTGGATACG
30830761 AGCCAGGATG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 49 0.96
34 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.44, T:0.17
Consensus pattern (33 bp):
GAGAAGTGGAGTACGACGGTGGATACGGGCCGG
Found at i:30833238 original size:60 final size:60
Alignment explanation
Indices: 30833167--30833285 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
30833157 ATACTAAACT
* * *
30833167 AAACACGACAATTTATAGCATAATCCTAAATTAATAATAATTTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTAATAATAAATTAATTTTAAAATAATTAC
*
30833227 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTAATAATAAATTAATTTTAAAATAATTA
30833286 TAAAAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTAATAATAAATTAATTTTAAAATAATTAC
Found at i:30833400 original size:17 final size:16
Alignment explanation
Indices: 30833333--30833400 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
30833323 CCATAAACAC
*
30833333 TAAACATAAACAATTTA
1 TAAACA-AAATAATTTA
* *
30833350 T-AA-ATAATAATTAA
1 TAAACAAAATAATTTA
30833364 T-AACAAAAATAATTTA
1 TAAAC-AAAATAATTTA
*
30833380 TAAACAAAATTATTTA
1 TAAACAAAATAATTTA
30833396 CTAAA
1 -TAAA
30833401 ATAATACTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 22 0.54
17 8 0.20
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAACAAAATAATTTA
Found at i:30833401 original size:29 final size:30
Alignment explanation
Indices: 30833335--30833405 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
30833325 ATAAACACTA
* * *
30833335 AACATAAACAATTTATAAATAATAATTAAT
1 AACAAAAATAATTTATAAACAATAATTAAT
*
30833365 AACAAAAATAATTTATAAACAA-AATTATT
1 AACAAAAATAATTTATAAACAATAATTAAT
* *
30833394 TACTAAAATAAT
1 AACAAAAATAAT
30833406 ACTTACCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 16 0.46
30 19 0.54
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (30 bp):
AACAAAAATAATTTATAAACAATAATTAAT
Found at i:30833448 original size:19 final size:20
Alignment explanation
Indices: 30833413--30833451 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
30833403 AATACTTACC
30833413 TTTTCTTTCTTTCTTCTTCT
1 TTTTCTTTCTTTCTTCTTCT
*
30833433 TTTTCTTT-TTTTTTCTTCT
1 TTTTCTTTCTTTCTTCTTCT
30833452 CCTTTCTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTCTTTCTTCTTCT
Found at i:30833474 original size:22 final size:22
Alignment explanation
Indices: 30833416--30833471 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
30833406 ACTTACCTTT
* *
30833416 TCTTTCTTTCTTCTTCTTTTTC
1 TCTTTCTTTCTTCTCCTTTCTC
* *
30833438 TTTTTTTTTCTTCTCCTTTCTC
1 TCTTTCTTTCTTCTCCTTTCTC
30833460 TCCTTTCTTTCT
1 T-CTTTCTTTCT
30833472 CTCTTCCGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TCTTTCTTTCTTCTCCTTTCTC
Found at i:30840926 original size:60 final size:60
Alignment explanation
Indices: 30840853--30840971 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
30840843 ATACTAAACT
* * *
30840853 AAACACAATAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTACAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
30840913 AAACACAACAATTTACAACATAATCCTAAATTACTAACAAATTACTTTTAAAATAATTA
1 AAACACAACAATTTACAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
30840972 TAAAAAACAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTACAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:30843693 original size:29 final size:29
Alignment explanation
Indices: 30843589--30843744 Score: 102
Period size: 29 Copynumber: 5.2 Consensus size: 29
30843579 TTTGCATGAT
*
30843589 CATATAGGCTCGCATGTACCTAGGGTTCACATGG
1 CATATAGGCTCGCAAGTACCTAGGGTT--C---G
* * *
30843623 CATATAGGCAT-GCATGCT-CTTAGGGATCG
1 CATATAGGC-TCGCAAG-TACCTAGGGTTCG
* **
30843652 CATAAAGGCTCGCAAGTTTCTAGGGTTCG
1 CATATAGGCTCGCAAGTACCTAGGGTTCG
* * * *
30843681 CATGTAGGGTCGCATGTACCTAGGGTTCA
1 CATATAGGCTCGCAAGTACCTAGGGTTCG
* *
30843710 CATATAGGCTCACATAAT-CCTAGGGTTCG
1 CATATAGGCTCGCA-AGTACCTAGGGTTCG
30843739 CATATA
1 CATATA
30843745 ATCAACATAT
Statistics
Matches: 97, Mismatches: 20, Indels: 15
0.73 0.15 0.11
Matches are distributed among these distances:
28 2 0.02
29 70 0.72
30 1 0.01
32 1 0.01
34 21 0.22
35 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (29 bp):
CATATAGGCTCGCAAGTACCTAGGGTTCG
Found at i:30843814 original size:36 final size:36
Alignment explanation
Indices: 30843736--30843816 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
30843726 ATCCTAGGGT
* * **
30843736 TCGCATATAATCAACATATGGTTCGTATAACATGAC
1 TCGCATATAATAAACACATGGTTCACATAACATGAC
* * *
30843772 TTGCATATAATAAACACATGGTTCACATATCATGGC
1 TCGCATATAATAAACACATGGTTCACATAACATGAC
30843808 TCGCATATA
1 TCGCATATA
30843817 GATTCAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (36 bp):
TCGCATATAATAAACACATGGTTCACATAACATGAC
Found at i:30845382 original size:30 final size:30
Alignment explanation
Indices: 30845303--30845382 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
30845293 ACGAATTAAT
* * * * *
30845303 TTCAACAATGTACAACCCTGTACGAATCAA
1 TTCAACAATGTATAACCATATACCAAACAA
* *
30845333 GTCAACAACT-TATATCCATATACCAAACAA
1 TTCAACAA-TGTATAACCATATACCAAACAA
30845363 TTCAACAATGTATAACCATA
1 TTCAACAATGTATAACCATA
30845383 CACGAATCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.03
30 37 0.95
31 1 0.03
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (30 bp):
TTCAACAATGTATAACCATATACCAAACAA
Found at i:30845402 original size:31 final size:31
Alignment explanation
Indices: 30845183--30845416 Score: 86
Period size: 31 Copynumber: 7.6 Consensus size: 31
30845173 CAACAATTCA
* *
30845183 ACAATGTATAACCATTCACGAATCAAGATCG
1 ACAATATATAACCATACACGAATCAAGATCG
* ** *
30845214 GCAATATATAATTATACACAAATCAA-ATTCG
1 ACAATATATAACCATACACGAATCAAGA-TCG
* * ** * **
30845245 GC-ATCCTATATTCATAAAC-AATTCACTATCG
1 ACAAT-ATATAACCATACACGAA-TCAAGATCG
* * ** *
30845276 ACAATATATAACCA-AGTACGAATTAATTTCA
1 ACAATATATAACCATA-CACGAATCAAGATCG
* * * ** *
30845307 ACAATGTACAACCCTGTACGAATCAAG-TCA
1 ACAATATATAACCATACACGAATCAAGATCG
* * * * * *
30845337 ACAACT-TATATCCATATACCAAACAA-TTCA
1 ACAA-TATATAACCATACACGAATCAAGATCG
*
30845367 ACAATGTATAACCATACACGAATCAAGATCG
1 ACAATATATAACCATACACGAATCAAGATCG
*
30845398 ACAATATATAATCATACAC
1 ACAATATATAACCATACAC
30845417 AAATTAAATT
Statistics
Matches: 151, Mismatches: 40, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
29 1 0.01
30 50 0.33
31 95 0.63
32 5 0.03
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (31 bp):
ACAATATATAACCATACACGAATCAAGATCG
Found at i:30845483 original size:184 final size:184
Alignment explanation
Indices: 30845167--30845686 Score: 783
Period size: 184 Copynumber: 2.8 Consensus size: 184
30845157 TGAATATCGT
* * * *
30845167 TATACCCAACAATTCAACAATGTATAACCATTCACGAATCAAGATCGGCAATATATAATTATACA
1 TATACCAAACAATTCAACAATGTATAACCATACACGAATCAAGATCGACAATATATAATCATACA
30845232 CAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCAAGTACGA
66 CAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCAAGTACGA
*
30845297 ATTAATTTCAACAATGTACAACCCTGTACGAATCAAGTCAACAACTTATATCCA
131 ATTAATTTCAACAATGTAAAACCCTGTACGAATCAAGTCAACAACTTATATCCA
30845351 TATACCAAACAATTCAACAATGTATAACCATACACGAATCAAGATCGACAATATATAATCATACA
1 TATACCAAACAATTCAACAATGTATAACCATACACGAATCAAGATCGACAATATATAATCATACA
* *
30845416 CAAATTAAATTCGGCATCCCATATTCATAAACAATTCACTATCGACAATATATAACCAAGTACGA
66 CAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCAAGTACGA
** *
30845481 ATTAATTTCAGTAATGTAAAACCCTGTACGAATCAAGTCAGCAACTTATATCCA
131 ATTAATTTCAACAATGTAAAACCCTGTACGAATCAAGTCAACAACTTATATCCA
* ** * * * * *
30845535 TATACCAAATAATTCGGCAATGTATAACCATACACGAATCAAGTTCGAAAATGTATAATCAAATA
1 TATACCAAACAATTCAACAATGTATAACCATACACGAATCAAGATCGACAATATATAATCATACA
* * * * *
30845600 CAAATCCAATTCGGCATCCTATATACATAAAAAATTCAATATCG-CAAATATATAACCATGTAC-
66 CAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGAC-AATATATAACCAAGTACG
* *
30845663 AAGTTAATTTCAGCAAGGTAAAAC
130 AA-TTAATTTCAACAATGTAAAAC
30845687 ATTTATATTT
Statistics
Matches: 307, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
183 3 0.01
184 304 0.99
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.26
Consensus pattern (184 bp):
TATACCAAACAATTCAACAATGTATAACCATACACGAATCAAGATCGACAATATATAATCATACA
CAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCAAGTACGA
ATTAATTTCAACAATGTAAAACCCTGTACGAATCAAGTCAACAACTTATATCCA
Found at i:30851664 original size:30 final size:30
Alignment explanation
Indices: 30851628--30851687 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30851618 CATTTTACTT
30851628 ACTTTTTTTTTAAAACAATTAGAACTGTAC
1 ACTTTTTTTTTAAAACAATTAGAACTGTAC
30851658 ACTTTTTTTTTAAAACAATTAGAACTGTAC
1 ACTTTTTTTTTAAAACAATTAGAACTGTAC
30851688 CTAGATAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (30 bp):
ACTTTTTTTTTAAAACAATTAGAACTGTAC
Found at i:30864217 original size:102 final size:102
Alignment explanation
Indices: 30864095--30864300 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 102
30864085 TCTTTTCTTT
* *
30864095 TTAGGTCTGCATATGATTTTTTTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAGATT
1 TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
* *
30864160 TTGTCTTCGGTTTCTTGTACTAACTCAGGACCCATTA
66 TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
30864197 TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
1 TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
30864262 TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
66 TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
30864299 TT
1 TT
30864301 TTTCTTTCTT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (102 bp):
TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
Found at i:30872350 original size:32 final size:32
Alignment explanation
Indices: 30872306--30872377 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
30872296 TATTTAGTAC
* * *
30872306 TTTTTAAACTTAAAATGTATTTTTAA-AAATTAA
1 TTTTT-AACTTAAAATATATTTTAAATAAAAT-A
30872339 TTTTTAACTTAAAATATATTTTAAATAAAATA
1 TTTTTAACTTAAAATATATTTTAAATAAAATA
30872371 TTTTTAA
1 TTTTTAA
30872378 TGACATTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 26 0.74
33 9 0.26
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
TTTTTAACTTAAAATATATTTTAAATAAAATA
Found at i:30872369 original size:16 final size:15
Alignment explanation
Indices: 30872338--30872377 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
30872328 TTAAAAATTA
*
30872338 ATTTTTAACTTAAAAT
1 ATTTTTAA-ATAAAAT
30872354 ATATTTTAAATAAAAT
1 AT-TTTTAAATAAAAT
30872370 ATTTTTAA
1 ATTTTTAA
30872378 TGACATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAAATAAAAT
Found at i:30872769 original size:63 final size:61
Alignment explanation
Indices: 30872666--30872785 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 61
30872656 ATGTGATATC
*
30872666 TGTATTTTAAAAATGTCCAATGACTGTACCTGAACTATCAATATGTATTTTATTATGATGCA
1 TGTATTTTAAAAATGTCCAATGA-TGTACCTGAACTATCAATATATATTTTATTATGATGCA
* *
30872728 TGTACTTTTATAAAATGTCCAATG-TGGTACTTGAACTATCAATATATGTTTTATTATG
1 TGTA-TTTTA-AAAATGTCCAATGAT-GTACCTGAACTATCAATATATATTTTATTATG
30872786 GTACCGTTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
62 5 0.10
63 34 0.65
64 13 0.25
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (61 bp):
TGTATTTTAAAAATGTCCAATGATGTACCTGAACTATCAATATATATTTTATTATGATGCA
Found at i:30872970 original size:33 final size:32
Alignment explanation
Indices: 30872907--30873000 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 32
30872897 AAATCAAATT
* * * *
30872907 TAATTAAAAAAGACAAATAACTAAACATATGGC
1 TAATAAAAAAAAATAAATAA-TAAAAATATGGC
*
30872940 TAATAAAAAAGAAATAAATAATAAAAATATGGT
1 TAATAAAAAA-AAATAAATAATAAAAATATGGC
*
30872973 TAATAAAAAAAAGTAAAT-ATAAATAATA
1 TAATAAAAAAAAATAAATAATAAA-AATA
30873001 CCATCTTATC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
31 5 0.09
32 11 0.21
33 29 0.55
34 8 0.15
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.23
Consensus pattern (32 bp):
TAATAAAAAAAAATAAATAATAAAAATATGGC
Found at i:30873168 original size:23 final size:23
Alignment explanation
Indices: 30873140--30873183 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30873130 TAACTATATG
30873140 TTTAATTATTATT-TTTAATTTAA
1 TTTAATT-TTATTCTTTAATTTAA
*
30873163 TTTAATTTTTTTCTTTAATTT
1 TTTAATTTTATTCTTTAATTT
30873184 TTCATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTAATTTTATTCTTTAATTTAA
Found at i:30873593 original size:20 final size:20
Alignment explanation
Indices: 30873548--30873595 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
30873538 TTTTTATATA
30873548 GTTATTA-TGAATTTATTAT
1 GTTATTATTGAATTTATTAT
*
30873567 GTAATTATTGAATTTATTAT
1 GTTATTATTGAATTTATTAT
*
30873587 TTTATTATT
1 GTTATTATT
30873596 TTAACCATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
GTTATTATTGAATTTATTAT
Found at i:30876416 original size:21 final size:22
Alignment explanation
Indices: 30876374--30876417 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
30876364 GAGTAGAAAA
30876374 TAAAAGAAACAAAATGAAAATT
1 TAAAAGAAACAAAATGAAAATT
30876396 TAAAA-AAA-AAAATGTAAAATT
1 TAAAAGAAACAAAATG-AAAATT
30876417 T
1 T
30876418 GGTAAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (22 bp):
TAAAAGAAACAAAATGAAAATT
Found at i:30879042 original size:40 final size:39
Alignment explanation
Indices: 30878995--30879107 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 39
30878985 GGCGTTTGGA
30878995 CAAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
1 CAAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
* * *
30879034 ACATAAAACGCCGCTAAAGATCGAGCATTAGCAGCTCTTT
1 -CAAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
* *
30879074 CAAAAAAGCGCCGCTAAAAAT-TAGCATTAGCGGC
1 CAAAAAA-CGCCGCTAAAGATCGAGCATTAGCGGC
30879108 ATTTTTTGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 17 0.26
40 48 0.74
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
CAAAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
Found at i:30879202 original size:41 final size:41
Alignment explanation
Indices: 30879157--30879347 Score: 346
Period size: 41 Copynumber: 4.7 Consensus size: 41
30879147 CCTTTCAGGG
30879157 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
30879198 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* *
30879239 CTTTAGCGGCGTTTTTGAAAAAGCGTCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
*
30879280 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
*
30879321 CTTTAGCGGCGTTTTTGAAAAAACGCC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCC
30879348 ACAAAAATAT
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:30879627 original size:14 final size:14
Alignment explanation
Indices: 30879608--30879644 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
30879598 GGGCTTAATA
*
30879608 TATATGGTTTAGGG
1 TATATGGTTTAAGG
30879622 TATATGGTTTAAGG
1 TATATGGTTTAAGG
*
30879636 TATGTGGTT
1 TATATGGTT
30879645 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAAGG
Found at i:30879721 original size:14 final size:15
Alignment explanation
Indices: 30879693--30879725 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
30879683 AAGGTTTATA
30879693 GATTATGGAATTAGG
1 GATTATGGAATTAGG
30879708 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
30879722 GATT
1 GATT
30879726 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:30879901 original size:7 final size:7
Alignment explanation
Indices: 30879865--30879912 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
30879855 TATTAAATAA
30879865 GGTTTAG
1 GGTTTAG
*
30879872 GGGTTAG
1 GGTTTAG
* *
30879879 GGATTCG
1 GGTTTAG
30879886 GG-TTAG
1 GGTTTAG
30879892 GGTTTAG
1 GGTTTAG
*
30879899 GGTTTAA
1 GGTTTAG
30879906 GGTTTAG
1 GGTTTAG
30879913 ATTAATTAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:30879901 original size:13 final size:13
Alignment explanation
Indices: 30879865--30879912 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
30879855 TATTAAATAA
30879865 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
* *
30879879 GGATTCGGGTTAG
1 GGTTTAGGGTTAG
*
30879892 GGTTTAGGGTTTAA
1 GGTTTAGGG-TTAG
30879906 GGTTTAG
1 GGTTTAG
30879913 ATTAATTAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 14 0.50
14 14 0.50
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.38
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:30879909 original size:20 final size:20
Alignment explanation
Indices: 30879862--30879909 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
30879852 TTATATTAAA
30879862 TAAGGTTTAGGGGTTAGGGAT
1 TAAGG-TTAGGGGTTAGGGAT
** * *
30879883 TCGGGTTAGGGTTTAGGGTT
1 TAAGGTTAGGGGTTAGGGAT
30879903 TAAGGTT
1 TAAGGTT
30879910 TAGATTAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.19, C:0.02, G:0.42, T:0.38
Consensus pattern (20 bp):
TAAGGTTAGGGGTTAGGGAT
Found at i:30880125 original size:21 final size:21
Alignment explanation
Indices: 30880101--30880156 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
30880091 ATTGTAAAAG
30880101 AGGGGTTAAGGGTTAGAGGTT
1 AGGGGTTAAGGGTTAGAGGTT
* *
30880122 AGGGGTTAGGGGTTAGGGGTT
1 AGGGGTTAAGGGTTAGAGGTT
* *
30880143 AGTGGTTTAGGGTT
1 AGGGGTTAAGGGTT
30880157 TATGTTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (21 bp):
AGGGGTTAAGGGTTAGAGGTT
Found at i:30880127 original size:14 final size:14
Alignment explanation
Indices: 30880104--30880154 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
30880094 GTAAAAGAGG
*
30880104 GGTTAAGGGTTAGA
1 GGTTAGGGGTTAGA
*
30880118 GGTTAGGGGTTAGG
1 GGTTAGGGGTTAGA
*
30880132 GGTTAGGGGTTAGT
1 GGTTAGGGGTTAGA
30880146 GGTTTAGGG
1 GG-TTAGGG
30880155 TTTATGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 27 0.82
15 6 0.18
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (14 bp):
GGTTAGGGGTTAGA
Found at i:30880155 original size:14 final size:14
Alignment explanation
Indices: 30880110--30880209 Score: 67
Period size: 14 Copynumber: 7.0 Consensus size: 14
30880100 GAGGGGTTAA
30880110 GGGTTAGAGG-TTAG
1 GGGTTAG-GGTTTAG
*
30880124 GGGTTAGGGGTTAG
1 GGGTTAGGGTTTAG
30880138 GGGTTAGTGGTTTAG
1 GGGTTAG-GGTTTAG
* * * *
30880153 GGTTTATGTTTTAT
1 GGGTTAGGGTTTAG
** *
30880167 GATTTAAGGTTTAG
1 GGGTTAGGGTTTAG
* * *
30880181 GAGATAGGGGTTAG
1 GGGTTAGGGTTTAG
30880195 GGGTTTAGGGTTTAG
1 GGG-TTAGGGTTTAG
30880210 ATTAACATTA
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
13 2 0.03
14 45 0.67
15 20 0.30
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (14 bp):
GGGTTAGGGTTTAG
Found at i:30880157 original size:7 final size:7
Alignment explanation
Indices: 30880103--30880209 Score: 58
Period size: 7 Copynumber: 15.1 Consensus size: 7
30880093 TGTAAAAGAG
*
30880103 GGGTTAA
1 GGGTTTA
30880110 GGG-TTA
1 GGGTTTA
30880116 GAGG-TTA
1 G-GGTTTA
*
30880123 GGGGTTA
1 GGGTTTA
*
30880130 GGGGTTA
1 GGGTTTA
*
30880137 GGGGTTA
1 GGGTTTA
30880144 GTGGTTTA
1 G-GGTTTA
30880152 GGGTTTA
1 GGGTTTA
* *
30880159 TGTTTTA
1 GGGTTTA
* *
30880166 TGATTTA
1 GGGTTTA
*
30880173 AGGTTTA
1 GGGTTTA
*
30880180 GGAG-ATA
1 GG-GTTTA
*
30880187 GGGGTTA
1 GGGTTTA
30880194 GGGGTTTA
1 -GGGTTTA
30880202 GGGTTTA
1 GGGTTTA
30880209 G
1 G
30880210 ATTAACATTA
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
6 6 0.07
7 64 0.77
8 13 0.16
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:30880685 original size:41 final size:39
Alignment explanation
Indices: 30880603--30880695 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 39
30880593 AATAGAGTGT
*
30880603 TAGCGGCGTTTTTGAAAAAACGCCACAAAAGGTAGGAAA
1 TAGCGGCGTTTTTGAAAAAACGCCACAAAAAGTAGGAAA
* *
30880642 TAGCGGCGTTTTTGTTAAAAACGCCACAAAAAAG-AGAGCAA
1 TAGCGGCGTTTTTG-AAAAAACGCCAC-AAAAAGTAG-GAAA
*
30880683 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
30880696 CTTCCAAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 14 0.30
40 13 0.28
41 20 0.43
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (39 bp):
TAGCGGCGTTTTTGAAAAAACGCCACAAAAAGTAGGAAA
Found at i:30884910 original size:43 final size:43
Alignment explanation
Indices: 30884832--30885018 Score: 232
Period size: 43 Copynumber: 4.3 Consensus size: 43
30884822 AGGTTATGTT
* * * *
30884832 TTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * ** * * *
30884874 TATAGTGGCGTTTGTGACAAAAAGCGTCGCTAAAGGTCATGGGC
1 TTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCTTGGTC
*
30884918 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
30884961 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGGC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
30885004 TTTAGCGACGTTTGT
1 TTTAGCGGCGTTTGT
30885019 TTCTAAAAAC
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 13 0.11
43 93 0.76
44 17 0.14
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:30887995 original size:27 final size:26
Alignment explanation
Indices: 30887961--30888068 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
30887951 TTTCCACTTA
30887961 TAAGATAGTCCTGACAGACTTCCCATT
1 TAAGATAGTCCTGACAGACTTCCCA-T
* *
30887988 TAAGATAGTCCTAACAGACTTCTACAT
1 TAAGATAGTCCTGACAGACTTC-CCAT
* * *
30888015 TAAGACAGTCTTGACGGACTTCCACAT
1 TAAGATAGTCCTGACAGACTTCC-CAT
* * **
30888042 TAAAATAGTCCTTATGGACTTCCCAT
1 TAAGATAGTCCTGACAGACTTCCCAT
30888068 T
1 T
30888069 TATCAGATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.06
27 61 0.91
28 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (26 bp):
TAAGATAGTCCTGACAGACTTCCCAT
Found at i:30898330 original size:50 final size:50
Alignment explanation
Indices: 30898257--30898496 Score: 243
Period size: 50 Copynumber: 4.7 Consensus size: 50
30898247 TCTTGTACTA
* * * *
30898257 CCAATGCCATATCCCAGATATGGTCTTACATGGGGGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGGGCTCTCATCTCGGTG
* * *
30898307 CCCATGCCATGTCCTAGACATGGTCTTA-A-GGGGGACCTCTCATCTCGGAG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGGG--CTCTCATCTCGGTG
* * **
30898357 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGGGCTCTCATCTCGGTG
** *
30898407 CCAACT-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATG
1 CCAA-TGCCATGTCCCAGACATGGTCTTACATGGGGGCTCTCAT---CTC---GGTG
*
30898463 CTAATGCCATGTCCCAGACATGGTCTTACATGGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGG
30898497 ATCTCTTTCC
Statistics
Matches: 160, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
48 5 0.03
49 1 0.01
50 113 0.71
51 1 0.01
52 2 0.01
53 3 0.02
55 1 0.01
56 34 0.21
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGGGCTCTCATCTCGGTG
Found at i:30898385 original size:100 final size:103
Alignment explanation
Indices: 30898257--30898502 Score: 286
Period size: 100 Copynumber: 2.4 Consensus size: 103
30898247 TCTTGTACTA
* * *** *
30898257 CCAATGCCATATCCCAGATATGGTCTTACATGGGGGTTCTCATATCGGTGCCCA-TGCCATGTCC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACT-CCATGTCC
*
30898321 TAGACATGGTCTTA-AGGGGGACCTCTCAT-CTC-GGA-G
65 CAGACATGGTCTTACA-GGGGACCTCTCATACTCAGGATG
* * *
30898357 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACTCCATGTCCC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACTCCATGTCCC
* *
30898422 AGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATG
66 AGACATGGTCTTACAGGGGACCTCTCAT-A-CTC-AGGATG
* *
30898463 CTAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30898503 TTCCCCAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
100 78 0.64
101 2 0.02
103 3 0.02
105 2 0.02
106 37 0.30
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (103 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACTCCATGTCCC
AGACATGGTCTTACAGGGGACCTCTCATACTCAGGATG
Found at i:30905435 original size:142 final size:143
Alignment explanation
Indices: 30905179--30905470 Score: 505
Period size: 142 Copynumber: 2.0 Consensus size: 143
30905169 GATATGGTTG
* *
30905179 ATCAAGATAGGATTTGTCCTTCCTACATAATGGGAGCAATATCTTAGGCCTCTTGATTGAGTGAG
1 ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGCAATATCTTAGGCCTCTTGATGGAGTGAG
30905244 ACTAGAAATGCATGGCCATACTCGAATAAGTTGATATGAGATATCACACTTA-TTTTTTATTATA
66 ACTAGAAATGCATGGCCATACTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTATTATA
30905308 GTCTACACAGAAT
131 GTCTACACAGAAT
*
30905321 ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGGAATATCTTAGGCCTCTTGATGGAGTGAG
1 ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGCAATATCTTAGGCCTCTTGATGGAGTGAG
* * *
30905386 ACTAGAAATGGATGGCCATGCTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTATTGTA
66 ACTAGAAATGCATGGCCATACTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTATTATA
*
30905451 GTCTACATAGAAT
131 GTCTACACAGAAT
*
30905464 CTCAAGA
1 ATCAAGA
30905471 AATATGAGAT
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
142 112 0.79
143 29 0.21
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (143 bp):
ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGCAATATCTTAGGCCTCTTGATGGAGTGAG
ACTAGAAATGCATGGCCATACTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTATTATA
GTCTACACAGAAT
Found at i:30906398 original size:11 final size:11
Alignment explanation
Indices: 30906384--30906412 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30906374 GATTTTAAGT
30906384 CCGTTTTAGCC
1 CCGTTTTAGCC
30906395 CCGTTTTAGCC
1 CCGTTTTAGCC
30906406 CCGTTTT
1 CCGTTTT
30906413 TAATGTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.34, G:0.17, T:0.41
Consensus pattern (11 bp):
CCGTTTTAGCC
Found at i:30913659 original size:39 final size:39
Alignment explanation
Indices: 30913605--30913683 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
30913595 AAAGTTCAAG
30913605 ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
1 ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
*
30913644 ATAATTTCGTTGTTCATTCTTTGACTGAGTGGATTATGT
1 ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
30913683 A
1 A
30913684 GAGGCTAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (39 bp):
ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
Found at i:30924516 original size:286 final size:286
Alignment explanation
Indices: 30923977--30924543 Score: 985
Period size: 286 Copynumber: 2.0 Consensus size: 286
30923967 AAAAGGCAAA
*
30923977 AGGGACTAAATCGTGTAGCACGCTGAAAGAAGGGGTACCAAAATGGTAAATACCCCAAAGCCCCA
1 AGGGACTAAATCGTGTAGCACGCTGAAAGAAGGGGGACCAAAATGGTAAATACCCCAAAGCCCCA
30924042 AAACGCTGCGCTTAGATGAGGACTAAAATAAATCAAAAATAAAACTTTATGGCCAAATTGCAAAT
66 AAACGCTGCGCTTAGATGAGGACTAAAATAAATCAAAAATAAAACTTTATGGCCAAATTGCAAAT
* *
30924107 ATGCGAAAAACTTCCATGAAAGCGCTACAAAATCAAAGGGACTATTTGCGCAAATATTCCAACTG
131 ATGCGAAAAACTTCCATGAAAGCGCTACAAAATCAAAGGGACTATTTGCACAAATAATCCAACTG
30924172 AAGAAAACGCGCGGATCCTCCCCCTGGGTCGGGTCACCGCGCGGGTCAGAGACCAAAACGACGCC
196 AAGAAAACGCGCGGATCCTCCCCCTGGGTCGGGTCACCGCGCGGGTCAGAGACCAAAACGACGCC
30924237 GTTTTGGT-CTCTGAACCCTAAATTCG
261 GTTTTGGTAC-CTGAACCCTAAATTCG
* *
30924263 AGGGACTAAATTGTGTAGCGCGCTGAAAGAAGGGGGACCAAAATGGTAAATACCCCAAAGCCCCA
1 AGGGACTAAATCGTGTAGCACGCTGAAAGAAGGGGGACCAAAATGGTAAATACCCCAAAGCCCCA
*
30924328 AAACGCTGCGCTTAGATGAGGACTAAAATGAATCAAAAATAAAACTTTATGGCCAAATTGCAAAT
66 AAACGCTGCGCTTAGATGAGGACTAAAATAAATCAAAAATAAAACTTTATGGCCAAATTGCAAAT
* *
30924393 ATGCGAAAAACTTCCATGAAAGCGCTACAAAATGAAAGGGACTATTTGCACAAATAATCCATCTG
131 ATGCGAAAAACTTCCATGAAAGCGCTACAAAATCAAAGGGACTATTTGCACAAATAATCCAACTG
* * * *
30924458 AAGAAAAATGCGCGGATCCTCCCCCTGGGTCGGGTCACCGCGCGGGTCAG-GGCCAAAACGGCGT
196 AAG-AAAACGCGCGGATCCTCCCCCTGGGTCGGGTCACCGCGCGGGTCAGAGACCAAAACGACGC
*
30924522 CGTTTTGGTACCTGACCCCTAA
260 CGTTTTGGTACCTGAACCCTAA
30924544 GGGTAAAACG
Statistics
Matches: 266, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
286 220 0.83
287 46 0.17
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (286 bp):
AGGGACTAAATCGTGTAGCACGCTGAAAGAAGGGGGACCAAAATGGTAAATACCCCAAAGCCCCA
AAACGCTGCGCTTAGATGAGGACTAAAATAAATCAAAAATAAAACTTTATGGCCAAATTGCAAAT
ATGCGAAAAACTTCCATGAAAGCGCTACAAAATCAAAGGGACTATTTGCACAAATAATCCAACTG
AAGAAAACGCGCGGATCCTCCCCCTGGGTCGGGTCACCGCGCGGGTCAGAGACCAAAACGACGCC
GTTTTGGTACCTGAACCCTAAATTCG
Found at i:30927403 original size:25 final size:25
Alignment explanation
Indices: 30927357--30927430 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
30927347 AGATAACACG
* *
30927357 CCACAAA-GCTTTCAAGTG-AATTCG
1 CCACAAAGGCTTTCCA-TGAAATTCA
*
30927381 CCACAGAGGCTTTCCATGAAATTCA
1 CCACAAAGGCTTTCCATGAAATTCA
* * *
30927406 CCATAAAGGTTTTTCATGAAATTCA
1 CCACAAAGGCTTTCCATGAAATTCA
30927431 TGTTTACTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 8 0.20
25 33 0.80
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (25 bp):
CCACAAAGGCTTTCCATGAAATTCA
Found at i:30928287 original size:7 final size:7
Alignment explanation
Indices: 30928275--30928304 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
30928265 ACTTTTTCAA
30928275 TCATCCC
1 TCATCCC
30928282 TCATCCC
1 TCATCCC
30928289 TCATCCC
1 TCATCCC
30928296 TCATCCC
1 TCATCCC
30928303 TC
1 TC
30928305 TCATCTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.57, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:30934669 original size:16 final size:17
Alignment explanation
Indices: 30934644--30934678 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30934634 ACTTTTTCAA
30934644 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
30934660 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
30934677 TC
1 TC
30934679 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:30939602 original size:10 final size:10
Alignment explanation
Indices: 30939584--30939631 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
30939574 GCATATCTGC
30939584 AAAAA-TAAT
1 AAAAATTAAT
30939593 AAAAATTAAT
1 AAAAATTAAT
*
30939603 AAAAATTTGAT
1 AAAAA-TTAAT
30939614 ATAAAATTAAT
1 A-AAAATTAAT
*
30939625 TAAAATT
1 AAAAATT
30939632 CAACATGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 5 0.15
10 15 0.45
11 9 0.27
12 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:30941577 original size:29 final size:30
Alignment explanation
Indices: 30941517--30941577 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
30941507 GCCTTTTAAA
* * **
30941517 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAAATTT
30941547 AATATTTACAAAAAGAG-CAACCAAAATTT
1 AATATTTACAAAAAGAGACAACCAAAATTT
30941576 AA
1 AA
30941578 AAATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAAATTT
Found at i:30952390 original size:20 final size:20
Alignment explanation
Indices: 30952365--30952412 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
30952355 TATCATCATA
*
30952365 ACAGATACTCTTCTTGACAT
1 ACAGATACCCTTCTTGACAT
30952385 ACAGATACCCTTCTTGACAT
1 ACAGATACCCTTCTTGACAT
30952405 ACAGATAC
1 ACAGATAC
30952413 ACATCTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (20 bp):
ACAGATACCCTTCTTGACAT
Found at i:30954813 original size:40 final size:40
Alignment explanation
Indices: 30954750--30954827 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
30954740 TGCTATCAGG
* *
30954750 GGCACCAAAGTGCAAACATAGGCATGATTGTACAATCATA
1 GGCACCAAAGTGCAAACAGAGGCACGATTGTACAATCATA
* * * *
30954790 GGCACCGAAGTGGAAATAGAGGCACGATTGTGCAATCA
1 GGCACCAAAGTGCAAACAGAGGCACGATTGTACAATCA
30954828 AAGTTATCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (40 bp):
GGCACCAAAGTGCAAACAGAGGCACGATTGTACAATCATA
Found at i:30965125 original size:21 final size:22
Alignment explanation
Indices: 30965099--30965139 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
30965089 GGGAGAGAAA
30965099 GCAAAGGTAAATT-GTTGATAG
1 GCAAAGGTAAATTGGTTGATAG
30965120 GCAAAGGTAAATTGGTTGAT
1 GCAAAGGTAAATTGGTTGAT
30965140 TAATATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (22 bp):
GCAAAGGTAAATTGGTTGATAG
Found at i:30965523 original size:20 final size:19
Alignment explanation
Indices: 30965498--30965555 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
30965488 TCAACTTTTA
30965498 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
* *
30965518 AATCAAGTTAGAATTTTTC
1 AATCAAGTTAAAATGTTTC
*
30965537 AATCAAAGTTAAATTGTTT
1 AATC-AAGTTAAAATGTTT
30965556 TTAAAACAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:30969277 original size:2 final size:2
Alignment explanation
Indices: 30969270--30969300 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30969260 TTCAAATTAT
30969270 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30969301 ATGATATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30971736 original size:19 final size:20
Alignment explanation
Indices: 30971712--30971753 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
30971702 CAAATACCAG
*
30971712 AAAAGTAAATTATTTT-CAA
1 AAAAGTAAATCATTTTCCAA
30971731 AAAAGTAAATCATTTTCCAA
1 AAAAGTAAATCATTTTCCAA
30971751 AAA
1 AAA
30971754 TTATTTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCCAA
Found at i:30971759 original size:14 final size:14
Alignment explanation
Indices: 30971737--30971773 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
30971727 TCAAAAAAGT
*
30971737 AAATCATTTTCCAA
1 AAATTATTTTCCAA
30971751 AAATTA-TTTCCAA
1 AAATTATTTTCCAA
30971764 AAATTATTTT
1 AAATTATTTT
30971774 ACTGACAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTATTTTCCAA
Found at i:30974776 original size:29 final size:28
Alignment explanation
Indices: 30974726--30974781 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
30974716 CTTTACTCCT
30974726 AATAATGTTACTTCCAAGATTTGAAACCC
1 AATAATGTTACTTCCAAGATTT-AAACCC
*
30974755 AATAATGTTACCTT-CAATATTTAAACC
1 AATAATGTTA-CTTCCAAGATTTAAACC
30974782 TACATTCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 17 0.68
30 3 0.12
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (28 bp):
AATAATGTTACTTCCAAGATTTAAACCC
Found at i:30974993 original size:14 final size:14
Alignment explanation
Indices: 30974956--30974999 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
30974946 GAATTTAAAT
30974956 ATAAATATAATTACA
1 ATAAATATAATTA-A
*
30974971 ATAAATATATTTAA
1 ATAAATATAATTAA
*
30974985 ATAACTATAATTAA
1 ATAAATATAATTAA
30974999 A
1 A
30975000 ATTAATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAATATAATTAA
Found at i:30975040 original size:25 final size:25
Alignment explanation
Indices: 30974960--30975043 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
30974950 TTAAATATAA
* *
30974960 ATATAATTACAATAAATATATTTAAAT
1 ATATAATTA-AATTAATA-ATTAAAAT
** *
30974987 AACTATAATTAAAATTAATTGTTATAAT
1 -A-TATAATT-AAATTAATAATTAAAAT
30975015 ATATAATTAAATTAATAATTAAAAT
1 ATATAATTAAATTAATAATTAAAAT
30975040 ATAT
1 ATAT
30975044 TTAACCTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
25 18 0.39
26 7 0.15
27 1 0.02
28 6 0.13
29 13 0.28
30 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (25 bp):
ATATAATTAAATTAATAATTAAAAT
Found at i:30976866 original size:17 final size:18
Alignment explanation
Indices: 30976844--30976882 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
30976834 AGAAGGGAAA
30976844 AAGATA-AAAAGAAAAAG-
1 AAGATAGAAAA-AAAAAGC
30976861 AAGATAGAAAAAAAAAGC
1 AAGATAGAAAAAAAAAGC
30976879 AAGA
1 AAGA
30976883 AGTTAGGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGATAGAAAAAAAAAGC
Found at i:30990587 original size:16 final size:16
Alignment explanation
Indices: 30990566--30990601 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30990556 TGGTTCGCTA
*
30990566 TAATGGAATAGAGGCG
1 TAATGGAATAAAGGCG
30990582 TAATGGAATAAAGGCG
1 TAATGGAATAAAGGCG
30990598 TAAT
1 TAAT
30990602 AGGTAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.22
Consensus pattern (16 bp):
TAATGGAATAAAGGCG
Found at i:30990670 original size:44 final size:46
Alignment explanation
Indices: 30990581--30990671 Score: 150
Period size: 44 Copynumber: 2.0 Consensus size: 46
30990571 GAATAGAGGC
*
30990581 GTAATGGAATAAAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAAAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
*
30990627 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAAAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
30990671 G
1 G
30990672 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.47
45 3 0.07
46 20 0.47
ACGTcount: A:0.27, C:0.04, G:0.30, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAAAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:30990672 original size:39 final size:44
Alignment explanation
Indices: 30990581--30990688 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 44
30990571 GAATAGAGGC
* *
30990581 GTAATGGAATAAAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
30990627 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
30990667 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
30990689 CATCAGGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 20 0.34
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:30990850 original size:15 final size:15
Alignment explanation
Indices: 30990830--30990868 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
30990820 CATAATTGTT
30990830 ATAAAATATAATTTA
1 ATAAAATATAATTTA
30990845 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
30990862 ATAAAAT
1 ATAAAAT
30990869 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:30990875 original size:17 final size:17
Alignment explanation
Indices: 30990835--30990868 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30990825 TTGTTATAAA
30990835 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30990852 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30990869 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30990940 original size:20 final size:21
Alignment explanation
Indices: 30990901--30990940 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30990891 AATTTACTAA
*
30990901 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
30990922 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
30990941 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:30991066 original size:32 final size:32
Alignment explanation
Indices: 30991030--30991093 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
30991020 TATATAATAC
*
30991030 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
30991062 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
30991094 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:30995218 original size:13 final size:13
Alignment explanation
Indices: 30995200--30995224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30995190 AACATTCGGC
30995200 CGGTGGGAATAAT
1 CGGTGGGAATAAT
30995213 CGGTGGGAATAA
1 CGGTGGGAATAA
30995225 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:30997490 original size:5 final size:5
Alignment explanation
Indices: 30997480--30997515 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
30997470 TAGGAGGCAT
*
30997480 ATCTA ATCTA ATCTA ATCTA ATCTA TTCTA ATCTA A
1 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA A
30997516 CATACAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
ATCTA
Found at i:31008249 original size:14 final size:15
Alignment explanation
Indices: 31008230--31008272 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
31008220 TGGTAGCTGG
31008230 TTCGGTTC-ACTAGA
1 TTCGGTTCAACTAGA
31008244 TTCGGTTCAACTA-A
1 TTCGGTTCAACTAGA
*
31008258 TGCGGTTCAACTAGA
1 TTCGGTTCAACTAGA
31008273 CCCCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (15 bp):
TTCGGTTCAACTAGA
Found at i:31008521 original size:12 final size:11
Alignment explanation
Indices: 31008494--31008531 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
31008484 GAAAATAGTC
31008494 AAAATTAATA-
1 AAAATTAATAT
31008504 AAAATTAACTAT
1 AAAATTAA-TAT
31008516 AAAATTAAT-T
1 AAAATTAATAT
31008526 AAAATT
1 AAAATT
31008532 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:31019424 original size:15 final size:16
Alignment explanation
Indices: 31019404--31019462 Score: 77
Period size: 15 Copynumber: 3.8 Consensus size: 16
31019394 TATAGTCTCA
*
31019404 TATAGTGTCACAA-TC
1 TATAGTTTCACAAGTC
*
31019419 TATAGTTTTCACAATTC
1 TATAG-TTTCACAAGTC
31019436 TATAGTTTCA-AAGTC
1 TATAGTTTCACAAGTC
31019451 TATAGTTTCACA
1 TATAGTTTCACA
31019463 TCTAAACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 19 0.49
16 13 0.33
17 7 0.18
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (16 bp):
TATAGTTTCACAAGTC
Found at i:31020486 original size:22 final size:21
Alignment explanation
Indices: 31020437--31020487 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
31020427 TGGATAAGCC
*
31020437 ACCACATAATTGCCGATAACG
1 ACCACATAATTGCCAATAACG
*
31020458 ACCACATAATTG-CAATTAAACT
1 ACCACATAATTGCCAA-T-AACG
31020480 ACCACATA
1 ACCACATA
31020488 GCTTCCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 13 0.50
22 11 0.42
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (21 bp):
ACCACATAATTGCCAATAACG
Found at i:31032450 original size:67 final size:67
Alignment explanation
Indices: 31032338--31032478 Score: 246
Period size: 67 Copynumber: 2.1 Consensus size: 67
31032328 ATACTATGGA
*
31032338 TTAGGGATTAATTGTGAAAATAAGCTTGTTTTAGTTTTAGAGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTAATTGTGAAAATAAGCTTGTTTCAGTTTTAGAGACTAAATTAAACAAATTGAAAAA
31032403 CT
66 CT
* * *
31032405 TTAGGGATTGATTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTAATTGTGAAAATAAGCTTGTTTCAGTTTTAGAGACTAAATTAAACAAATTGAAAAA
31032470 CT
66 CT
31032472 TTAGGGA
1 TTAGGGA
31032479 AATTATGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (67 bp):
TTAGGGATTAATTGTGAAAATAAGCTTGTTTCAGTTTTAGAGACTAAATTAAACAAATTGAAAAA
CT
Found at i:31034508 original size:18 final size:18
Alignment explanation
Indices: 31034487--31034521 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31034477 TATTCTTTTT
31034487 GTTTTTCATCTTTTTTAC
1 GTTTTTCATCTTTTTTAC
* *
31034505 GTTTTTTATGTTTTTTA
1 GTTTTTCATCTTTTTTA
31034522 TAATTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.71
Consensus pattern (18 bp):
GTTTTTCATCTTTTTTAC
Found at i:31046660 original size:34 final size:34
Alignment explanation
Indices: 31046622--31046694 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
31046612 CACATTCGAG
* *
31046622 CCAATATTGGACGTTATGTCACCACATAGGAGAT
1 CCAATATTGGACATTATGTCACCACATAGGAGAC
*
31046656 CCAATATTGGACATTATGTCACCACATGGGAGAC
1 CCAATATTGGACATTATGTCACCACATAGGAGAC
31046690 CCAAT
1 CCAAT
31046695 GTCGCAACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (34 bp):
CCAATATTGGACATTATGTCACCACATAGGAGAC
Found at i:31051480 original size:17 final size:17
Alignment explanation
Indices: 31051435--31051482 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
31051425 CATTGTCCCC
*
31051435 AATGCATTGAC-ATGAA
1 AATGCAATGACAATGAA
* * *
31051451 TATGTAATTACAATGAA
1 AATGCAATGACAATGAA
31051468 AATGCAATGACAATG
1 AATGCAATGACAATG
31051483 TATACTTATC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:31053671 original size:17 final size:17
Alignment explanation
Indices: 31053626--31053673 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
31053616 CATTGTCCCC
*
31053626 AATGCATTGAC-ATGAA
1 AATGCAATGACAATGAA
* * *
31053642 TATGTAATTACAATGAA
1 AATGCAATGACAATGAA
31053659 AATGCAATGACAATG
1 AATGCAATGACAATG
31053674 TATACTTATC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:31083265 original size:19 final size:19
Alignment explanation
Indices: 31083241--31083280 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
31083231 ATCTCACCTC
31083241 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
31083260 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
31083279 AT
1 AT
31083281 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:31088628 original size:29 final size:29
Alignment explanation
Indices: 31088586--31088644 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
31088576 TGTATCATGA
*
31088586 TGTGCTTTCAATGTTACTATATGTTACTT
1 TGTGCTTTCAATGTTACTATATCTTACTT
31088615 TGTGCTTTCAATGTTACTATATCTTACTT
1 TGTGCTTTCAATGTTACTATATCTTACTT
31088644 T
1 T
31088645 TGTTGGTGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (29 bp):
TGTGCTTTCAATGTTACTATATCTTACTT
Found at i:31096506 original size:58 final size:58
Alignment explanation
Indices: 31096378--31096513 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 58
31096368 AGTGATCATC
* *
31096378 TTAAAT-TTAAATTTAATTTAATATTTATTTTCTTGATGAATATTATATTAATATAATAGA
1 TTAAATATTAAATTTAATCTAATATTTA--TTCTTGATAAATATTATATTAATATAATA-A
* *
31096438 TTTAATATTAAATTTAATCTAATATTTA-TCTTGATAAATATTATATTAATTTAAT-A
1 TTAAATATTAAATTTAATCTAATATTTATTCTTGATAAATATTATATTAATATAATAA
*
31096494 TTAAAGTGATTAAGTTTAAT
1 TTAAA-T-ATTAAATTTAAT
31096514 TATAGTTGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
56 5 0.07
57 1 0.01
58 36 0.54
60 5 0.07
61 20 0.30
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAAATATTAAATTTAATCTAATATTTATTCTTGATAAATATTATATTAATATAATAA
Found at i:31097425 original size:24 final size:23
Alignment explanation
Indices: 31097398--31097452 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
31097388 TTTATGGACA
*
31097398 ATTTTTACTTAAGTTTTATTTT-T
1 ATTTTTACTT-AGTTCTATTTTCT
*
31097421 CATTTCCTACTTAGTTCTATTTTCT
1 -ATTT-TTACTTAGTTCTATTTTCT
31097446 ATTTTTA
1 ATTTTTA
31097453 GTTTAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.08
24 18 0.69
25 6 0.23
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTTTTACTTAGTTCTATTTTCT
Done.