Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014511.1 Kokia drynarioides strain JFW-HI SEQ_129550, whole genome shotgun sequence
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: 222793
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:10212 original size:17 final size:18
Alignment explanation
Indices: 10171--10208 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10161 ATATTTTCTC
10171 TAAATTAATTTAATTATT
1 TAAATTAATTTAATTATT
10189 TAAATTAA-TTAATT-TT
1 TAAATTAATTTAATTATT
10205 TAAA
1 TAAA
10209 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATTAATTTAATTATT
Found at i:10330 original size:20 final size:21
Alignment explanation
Indices: 10305--10356 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
10295 TTAAATTTCA
10305 AGATTTAAGGTTT-GAGATCG
1 AGATTTAAGGTTTAGAGATCG
*
10325 AGATTTAAGGTTTAGAGTTCG
1 AGATTTAAGGTTTAGAGATCG
10346 AG-TTTAAGGTT
1 AGATTTAAGGTT
10357 CAAAGATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (21 bp):
AGATTTAAGGTTTAGAGATCG
Found at i:13710 original size:10 final size:10
Alignment explanation
Indices: 13695--13802 Score: 57
Period size: 10 Copynumber: 10.9 Consensus size: 10
13685 TTGGATCTTG
13695 AATTTTTTAT
1 AATTTTTTAT
*
13705 AA-TTTTTAA
1 AATTTTTTAT
*
13714 ATATTTGTTTAC
1 A-ATTT-TTTAT
*
13726 ATTTTTTTA-
1 AATTTTTTAT
*
13735 AAATTTTTAT
1 AATTTTTTAT
*
13745 ATTTTTTTAT
1 AATTTTTTAT
13755 AA--TTTTA-
1 AATTTTTTAT
*
13762 AATATTTTTAC
1 AAT-TTTTTAT
13773 AA-TTTTTAT
1 AATTTTTTAT
*
13782 AGATATTTTAAT
1 A-AT-TTTTTAT
*
13794 GATTTTTTA
1 AATTTTTTA
13803 ACAATTTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 21 0.28
10 27 0.36
11 9 0.12
12 11 0.15
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:13743 original size:19 final size:19
Alignment explanation
Indices: 13707--13780 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
13697 TTTTTTATAA
*
13707 TTTTTAAATATTTGTTTACATT
1 TTTTTAAA-A-TT-TTTAAATT
*
13729 TTTTTAAAATTTTTATATT
1 TTTTTAAAATTTTTAAATT
* *
13748 TTTTTATAA-TTTTAAATA
1 TTTTTAAAATTTTTAAATT
*
13766 TTTTTACAATTTTTA
1 TTTTTAAAATTTTTA
13781 TAGATATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
18 15 0.33
19 20 0.43
20 2 0.04
21 1 0.02
22 8 0.17
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTAAAATTTTTAAATT
Found at i:17540 original size:41 final size:41
Alignment explanation
Indices: 17483--17566 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
17473 TAAAAGTAAT
17483 AACTAATTTTCACCATTTAATCTCTTTTCTCTTCCAACCCA
1 AACTAATTTTCACCATTTAATCTCTTTTCTCTTCCAACCCA
17524 AACTAATTTTCACCATTTAATCTCTTTTCTCTTCCAACCCA
1 AACTAATTTTCACCATTTAATCTCTTTTCTCTTCCAACCCA
17565 AA
1 AA
17567 ACTATCTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (41 bp):
AACTAATTTTCACCATTTAATCTCTTTTCTCTTCCAACCCA
Found at i:22674 original size:21 final size:21
Alignment explanation
Indices: 22648--22704 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
22638 AGAAGTGAAA
*
22648 CTTCTACCGATACAACTCTAAG
1 CTTCTACCGATACAAC-CTAAC
* *
22670 C-TCTACCGATACATCCTACC
1 CTTCTACCGATACAACCTAAC
22690 CTTCTACCGATACAA
1 CTTCTACCGATACAA
22705 TGAGTTCCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.13
21 25 0.83
22 1 0.03
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.26
Consensus pattern (21 bp):
CTTCTACCGATACAACCTAAC
Found at i:22876 original size:25 final size:25
Alignment explanation
Indices: 22842--22891 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
22832 AACTACATTA
22842 TCCTCTGTACTTCTACAGATACTCT
1 TCCTCTGTACTTCTACAGATACTCT
22867 TCCTCTGTACTTCTACAGATACTCT
1 TCCTCTGTACTTCTACAGATACTCT
22892 GATGGATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (25 bp):
TCCTCTGTACTTCTACAGATACTCT
Found at i:26657 original size:20 final size:20
Alignment explanation
Indices: 26620--26660 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26610 GGAAATTTTC
* **
26620 TCATTTATTTTTTTTTATTT
1 TCATTTAATTTTACTTATTT
26640 TCATTTAATTTTACTTATTT
1 TCATTTAATTTTACTTATTT
26660 T
1 T
26661 ATCTTCGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TCATTTAATTTTACTTATTT
Found at i:29871 original size:14 final size:14
Alignment explanation
Indices: 29854--29880 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29844 GCTATATTAA
29854 AAAATAAATATAAT
1 AAAATAAATATAAT
29868 AAAATAAATATAA
1 AAAATAAATATAA
29881 ATATATATAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATAAATATAAT
Found at i:30141 original size:18 final size:17
Alignment explanation
Indices: 30118--30170 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
30108 TTAACACATT
30118 AAAAAATATTTATATTAA
1 AAAAAATATTT-TATTAA
* *
30136 AAAAAATTTTTGTAAATAA
1 AAAAAATATTT-T-ATTAA
*
30155 AATAAATATTTTATTA
1 AAAAAATATTTTATTA
30171 TATTAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.11
18 12 0.43
19 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAAAATATTTTATTAA
Found at i:30342 original size:19 final size:19
Alignment explanation
Indices: 30312--30365 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
30302 AAAATAATTC
*
30312 AAAATAATTTTTAAAAAATG
1 AAAAT-ATTTTTAAAAAATA
* *
30332 AAAATATTTTTTAAAATTA
1 AAAATATTTTTAAAAAATA
*
30351 AAAATATTTATAAAA
1 AAAATATTTTTAAAA
30366 TTTCCAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 24 0.83
20 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATATTTTTAAAAAATA
Found at i:30364 original size:18 final size:19
Alignment explanation
Indices: 30332--30367 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30322 TTAAAAAATG
*
30332 AAAATATTTTTTAAAATTA
1 AAAATATTTTATAAAATTA
30351 AAAATA-TTTATAAAATT
1 AAAATATTTTATAAAATT
30368 TCCAAAGTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATATTTTATAAAATTA
Found at i:30712 original size:17 final size:18
Alignment explanation
Indices: 30681--30714 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30671 AATTTGATTT
30681 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
30699 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
30715 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:30820 original size:7 final size:7
Alignment explanation
Indices: 30808--30834 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30798 CCTAAATCCA
30808 AAGTTTT
1 AAGTTTT
30815 AAGTTTT
1 AAGTTTT
30822 AAGTTTT
1 AAGTTTT
30829 AAGTTT
1 AAGTTT
30835 GAAATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
AAGTTTT
Found at i:31213 original size:18 final size:18
Alignment explanation
Indices: 31190--31226 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31180 AAATATAATA
*
31190 AAAATAAATATAATTTTT
1 AAAATAAATAAAATTTTT
31208 AAAATAAATAAAATTTTT
1 AAAATAAATAAAATTTTT
31226 A
1 A
31227 TTCGAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAAATAAAATTTTT
Found at i:36428 original size:28 final size:28
Alignment explanation
Indices: 36384--36443 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
36374 ATATTTATAT
*
36384 TATATTATTTTAATATTTAATAA-TTTTA
1 TATATTATTTTAATATTGAA-AATTTTTA
*
36412 TATATT-TTTTATTTATTGAAAATTTTTA
1 TATATTATTTTA-ATATTGAAAATTTTTA
36440 TATA
1 TATA
36444 GTCAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TATATTATTTTAATATTGAAAATTTTTA
Found at i:36441 original size:26 final size:27
Alignment explanation
Indices: 36383--36442 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
36373 AATATTTATA
*
36383 TTATATTATTTTAATATTTAATAATTT
1 TTATATTATTTTAATATTGAATAATTT
*
36410 TATATATT-TTTTATTTATTGAA-AATTT
1 T-TATATTATTTTA-ATATTGAATAATTT
36437 TTATAT
1 TTATAT
36443 AGTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 5 0.17
27 12 0.41
28 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATATTATTTTAATATTGAATAATTT
Found at i:36951 original size:29 final size:30
Alignment explanation
Indices: 36903--36968 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
36893 TTTAATTTTC
36903 ATTA-TTAATAAAAAATTGAATAATT-AATT
1 ATTATTTAATAAAAAATTGAA-AATTAAATT
* *
36932 ATTATTTAATAAAACA-TGAAATTTAAATT
1 ATTATTTAATAAAAAATTGAAAATTAAATT
*
36961 ATTTTTTA
1 ATTATTTA
36969 CTGTTAGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 19 0.59
30 10 0.31
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
ATTATTTAATAAAAAATTGAAAATTAAATT
Found at i:38256 original size:3 final size:3
Alignment explanation
Indices: 38248--38275 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
38238 TGGCATTTAA
38248 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
38276 TAGAGATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:38366 original size:52 final size:51
Alignment explanation
Indices: 38270--38370 Score: 184
Period size: 52 Copynumber: 2.0 Consensus size: 51
38260 AAGAAGAAGA
38270 AGAAGATAGAGATTAGAACAAAACACATTCAACCAACTATAGAGATTTGCG
1 AGAAGATAGAGATTAGAACAAAACACATTCAACCAACTATAGAGATTTGCG
*
38321 AGAAGATAGAGATTAGAACAAATTCACATTCAACCAACTATAGAGATTTG
1 AGAAGATAGAGATTAGAACAAA-ACACATTCAACCAACTATAGAGATTTG
38371 GGATTTCTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 22 0.46
52 26 0.54
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.22
Consensus pattern (51 bp):
AGAAGATAGAGATTAGAACAAAACACATTCAACCAACTATAGAGATTTGCG
Found at i:46981 original size:24 final size:24
Alignment explanation
Indices: 46949--46997 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46939 CGATGATTTT
46949 CAACATGAGTTTTATCCAATAAGC
1 CAACATGAGTTTTATCCAATAAGC
46973 CAACATGAGTTTTATCCAATAAGC
1 CAACATGAGTTTTATCCAATAAGC
46997 C
1 C
46998 TTTCTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (24 bp):
CAACATGAGTTTTATCCAATAAGC
Found at i:50848 original size:165 final size:164
Alignment explanation
Indices: 50105--51349 Score: 1104
Period size: 165 Copynumber: 7.6 Consensus size: 164
50095 CAAAGTAAGC
* * ** * * *
50105 ATTTTGATTTTGTTTTTAACAAGTAAATACGTTTTCGAATTATACATATTTTTAA-GATGCTTAA
1 ATTTTGTTTTTG-TTTTAATACCTAAATAGGTTTTCAAATTATACAT-CTTTTAACGATGCTTAA
* * * * ** * * * *
50169 AGTTTATATGTCGTGGGTGTTGTACGAATGCTTATTGTGCTTTGATTATC-AGAATCATAAACCT
64 AGTTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGA-AATCATACACCT
*** * * * * * *
50233 TTTGTTATACTTAAATCTTTATTTTCTCATAGATACTT
128 TTCACTATACCTAAA-CCTCATTTTATTATAGATGCTT
* ** *
50271 ATTTTGTTTTTGTTTTAATACCTAAATTGCCTTTCAAATTATACATCTTTTAATGATGCTTAAAG
1 ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTTAACGATGCTTAAAG
* * * * *
50336 TTTATATGTCGTGGGTATTATATAAATACTTATTTTGCTTTGGTTATCGAAATTATACACCTTTC
66 TTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTTTC
* *
50401 ACTATACTTAAATTCTGCATTTTATTATAGATGCTT
131 ACTATACCTAAA-CCT-CATTTTATTATAGATGCTT
* * * *
50437 A------TTTTGTTTTAATACCTAAATTGATTTTCAAACTATACATATTTTAACGATGCTTAAAG
1 ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTTAACGATGCTTAAAG
* * *
50496 TTTATATTTTATGAGTGTTATATAAATGCTTATTTTGTTTTGGTTATCGAAATCATACACCTTTC
66 TTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTTTC
* * *
50561 ACTATACCTAAACCTATATTCTTTTTTATAAATGCTT
131 ACTATACCTAAACCT-CA-T-TTTATTATAGATGCTT
* * ** * * * * **
50598 ATATTGTTTTTGTTTTACTAAGTAAA-ACGGTTTTCGAATTGTATATCTTTTAACAATATTTAAA
1 ATTTTGTTTTTGTTTTAATACCTAAATA-GGTTTTCAAATTATACATCTTTTAACGATGCTTAAA
* * * * * * *
50662 GTTTATATTTCAT-AGGTGTTATGTAAATGCTTATTTTGCTTTCGTTATCGGAACCACACATCTT
65 GTTTATATTTCATGA-GTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTT
* *
50726 TCACTATACTTAAATCTACATTTTATTATAGATGCTT
129 TCACTATACCTAAACCT-CATTTTATTATAGATGCTT
* * *
50763 ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTGAGCGATGCTTAATG
1 ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTTAACGATGCTTAAAG
* * * *
50828 TTTATATTTTATGAGTGTTATATAAATATTTATTTTGCTTTGGCTATCGGAATCATACACCTTTC
66 TTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTTTC
* * *
50893 ATTATACCTAAACCTCTATTTTATTATAAATGCAT
131 ACTATACCTAAACCTC-ATTTTATTATAGATGCTT
* * * * * * *
50928 ATTTTGTTTTCAG-TTTAATACGTAAA-ACGATTTTCAAATTTTATATTTTTTAACGATACTTAA
1 ATTTTGTTTT-TGTTTTAATACCTAAATA-GGTTTTCAAATTATACATCTTTTAACGATGCTTAA
* * * * * * *
50991 AG-TTATATTTTATTA-TGTTTTATAATTGCTTATTTTGTTTTGGTTATCGAAATCATACACATT
64 AGTTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTT
51054 TCACTATACCTAAACCTCTATTTTA-T-T--ATGCTT
129 TCACTATACCTAAACCTC-ATTTTATTATAGATGCTT
* * * * * **
51087 ATTTTGTTTTTGTTCTAATACCTAAATTGGTTTTAAAATTATACATATTTTAATGATGCTTATTG
1 ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTTAACGATGCTTAAAG
* * * * * *
51152 TTTATATTTCATGGGTGTTATATAAATATTTATTTTGCTTTGGTTTTTGGAATAATACACCTTTC
66 TTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTTTC
51217 A-TCATACCTAAACCTCTATTTTA-T-T--ATGCTT
131 ACT-ATACCTAAACCTC-ATTTTATTATAGATGCTT
* ** * * * * *
51248 ATTTTGTTTTTGGTTTAATAAGTAAATACGTTTTCTAATTATATATCTTTTAACAATACTTAAAG
1 ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTTAACGATGCTTAAAG
* * *
51313 TCTATA-TTCAT-CGTGCTT-CATAAATAC-TATTTTGCTT
66 TTTATATTTCATGAGTG-TTATATAAATACTTATTTTGCTT
51350 CTTTTACTAT
Statistics
Matches: 889, Mismatches: 166, Indels: 56
0.80 0.15 0.05
Matches are distributed among these distances:
158 11 0.01
159 67 0.08
160 140 0.16
161 140 0.16
162 1 0.00
163 64 0.07
164 20 0.02
165 299 0.34
166 33 0.04
167 114 0.13
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (164 bp):
ATTTTGTTTTTGTTTTAATACCTAAATAGGTTTTCAAATTATACATCTTTTAACGATGCTTAAAG
TTTATATTTCATGAGTGTTATATAAATACTTATTTTGCTTTGGTTATCGAAATCATACACCTTTC
ACTATACCTAAACCTCATTTTATTATAGATGCTT
Found at i:51157 original size:324 final size:320
Alignment explanation
Indices: 50135--51927 Score: 1294
Period size: 325 Copynumber: 5.6 Consensus size: 320
50125 AAGTAAATAC
* * * ** * * ** *
50135 GTTTTCGAATTATACATATTTTTAA-GATGCTTAAAGTTTATATGTCGTGGGTGTTGTACGAATG
1 GTTTTCAAATTATACATA-TTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATA
* * * * * ** * * * * *
50199 CTTATTGTGCTTTGATTATCAGAATCATAAACCTTTTGTTATACTTAAATCTTTATTTTCTCATA
65 TTTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATTATACCTAAACCTCTATTTTATTATA
* * * ** ** * * ** *
50264 GATACTTATTTTGTTTTTGTTTTAATACCTAAATTGCCTTTCAAATTATACATCTTTTAATGATG
130 AATGCTTATTTTGTTTTAG-TTTAATAAGTAAAACG-TTTTCAAATTATATATCTTTTAACAATA
* * * * * *
50329 CTTAAAGTTTATATGTCGTGGGTATTATATAAATACTTATTTTGCTTTGGTTATCGAAATTATAC
193 CTTAAAG-TTATATTTCAT-AGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
* * *
50394 ACCTTTCACTATACTTAAATTCTGCATTTTATTATAG---ATGCTT-ATTTTGTTTTAATACCTA
256 A-CTTTCACTATACTTAAACTCT--ATTTTATTAT-GCTTAT-TTTGTTTTTGTTTTAATACCTA
50455 AATTG
316 AATTG
* * * **
50460 ATTTTCAAACTATACATATTTTAACGATGCTTAAAGTTTATATTTTATGAGTGTTATATAAATGC
1 GTTTTCAAATTATACATATTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
* * * * *
50525 TTATTTTGTTTTGGTTATCGAAATCATACACCTTTCACTATACCTAAACCTATATTCTTTTTTAT
66 TTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATTATACCTAAACCTCTA-T-TTTATTAT
* * * * *
50590 AAATGCTTATATTGTTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTGTATATCTTTTAACAAT
129 AAATGCTTATTTTGTTTTAG-TTTAATAAGTAAAAC-GTTTTCAAATTATATATCTTTTAACAAT
* * * * * *
50655 ATTTAAAGTTTATATTTCATAGGTGTTATGTAAATGCTTATTTTGCTTTCGTTATCGGAACCACA
192 ACTTAAAG-TTATATTTCATA-GTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATA
50720 CATCTTTCACTATACTTAAA-TCTACATTTTATTATAGATGCTTATTTTGTTTTTGTTTTAATAC
255 CA-CTTTCACTATACTTAAACTCT--ATTTTA-T-T--ATGCTTATTTTGTTTTTGTTTTAATAC
*
50784 CTAAATAG
313 CTAAATTG
* * *
50792 GTTTTCAAATTATACATCTTTGAGCGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
1 GTTTTCAAATTATACATATTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
*
50857 TTATTTTGCTTTGGCTATCGGAATCATACACCTTTCATTATACCTAAACCTCTATTTTATTATAA
66 TTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATTATACCTAAACCTCTATTTTATTATAA
* * * * *
50922 ATGCATATTTTGTTTTCAGTTTAATACGTAAAACGATTTTCAAATTTTATATTTTTTAACGATAC
131 ATGCTTATTTTGTTTT-AGTTTAATAAGTAAAACG-TTTTCAAATTATATATCTTTTAACAATAC
* * * *
50987 TTAAAGTTATATTTTATTA-TGTTTTATAATTGCTTATTTTGTTTTGGTTATCGAAATCATACAC
194 TTAAAGTTATATTTCA-TAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACAC
* *
51051 ATTTCACTATACCTAAACCTCTATTTTATTATGCTTATTTTGTTTTTGTTCTAATACCTAAATTG
258 -TTTCACTATACTTAAA-CTCTATTTTATTATGCTTATTTTGTTTTTGTTTTAATACCTAAATTG
* * * * *
51116 GTTTTAAAATTATACATATTTTAATGATGCTTATTGTTTATATTTCATGGGTGTTATATAAATAT
1 GTTTTCAAATTATACATATTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
* * * *
51181 TTATTTTGCTTTGGTTTTTGGAATAATACACCTTTCATCATACCTAAACCTCTATTTTA-T-T--
66 TTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATTATACCTAAACCTCTATTTTATTATAA
* *
51242 ATGCTTATTTTGTTTTTGGTTTAATAAGTAAATACGTTTTCTAATTATATATCTTTTAACAATAC
131 ATGCTTATTTTG-TTTTAGTTTAATAAGTAAA-ACGTTTTCAAATTATATATCTTTTAACAATAC
* * * *
51307 TTAAAGTCTATA-TTCATCGTGCTT-CATAAATAC-TATTTTGCTTCT--TT-T---ACT-ATAC
194 TTAAAGT-TATATTTCATAGTG-TTATATAAATGCTTATTTTGCTT-TGGTTATCGAAATCATAC
** * * * * * * * * *
51362 -C--T-A--A-ACTTGTATTTTATTATA-AATACTTATTTTGTTCTTGTTTGAATAAGC-AAAAT
256 ACTTTCACTATACTTAAACTCTATTTTATTATGCTTATTTTGTTTTTGTTTTAAT-ACCTAAATT
51418 G
320 G
* * * * * * * ** * * * *
51419 GTTTTCCAATTGTATATCTTTT-ACGATACCTAAAG-TT-TATTCCAT-TGTATTTTATAAATAG
1 GTTTTCAAATTATACATATTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
* * * * * *
51480 TTATTTTGCTCTCGTTATCGAAATCATACACCTTT--TTCCATACCGAAACTTGTATTTTATTAT
66 TTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATT--ATACCTAAACCTCTATTTTATTAT
* * * * * * *
51543 AAATGCTTAATTTATATT--TTTAATAAATAAAATGATTTTTTAAATTATATATCTTTTAACGAT
129 AAATGCTTATTTTGTTTTAGTTTAATAAGTAAAACG--TTTTCAAATTATATATCTTTTAACAAT
* ** * *
51606 ACTTAAAGTTTATATTTCATCA-TGTTTTATAAATATTTATTTTACTTTTGTTATCGAAATCATA
192 ACTTAAAG-TTATATTTCAT-AGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATA
* * * * *
51670 CATCTTTTACTATACCTAAACATGTATTTTATTAAAAATGCTTATTTTGTTTTT-TTTTTATCAA
255 CA-CTTTCACTATACTTAAAC-TCTATTTTATT----ATGCTTATTTTGTTTTTGTTTTAAT-AC
* *
51734 GTAAAATG
313 CTAAATTG
* * * * * * * ** * * *
51742 GTTTTCGAATTATATATCTTTTAAAGATACTTAA-ATTTATACTCCAT-TGTGTTTTATAAATAC
1 GTTTTCAAATTATACATATTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
** *** * * * * * *
51805 TTATTTTTTTTTGGTTATTTAAATCATACACCTTTTACTACATCTAAACTTGTATTTTATTATAA
66 TTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATTATACCTAAACCTCTATTTTATTATAA
* * * * **
51870 ATACTTATTTTATATTTATTTTAATATGTAAATTGGTTTTCAAATTATATATCTTTTA
131 ATGCTTATTTTGT-TTTAGTTTAATAAGTAAA-ACGTTTTCAAATTATATATCTTTTA
51928 CTGTACTTGT
Statistics
Matches: 1188, Mismatches: 210, Indels: 138
0.77 0.14 0.09
Matches are distributed among these distances:
297 1 0.00
299 60 0.05
300 20 0.02
301 41 0.03
302 27 0.02
303 62 0.05
304 11 0.01
305 5 0.00
306 1 0.00
308 3 0.00
309 5 0.00
311 1 0.00
312 1 0.00
313 5 0.00
314 3 0.00
316 1 0.00
317 5 0.00
318 9 0.01
319 10 0.01
320 68 0.06
321 13 0.01
322 7 0.01
323 42 0.04
324 161 0.14
325 174 0.15
326 14 0.01
327 150 0.13
328 70 0.06
329 12 0.01
330 73 0.06
331 4 0.00
332 129 0.11
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (320 bp):
GTTTTCAAATTATACATATTTTAACGATGCTTAATGTTTATATTTTATGAGTGTTATATAAATAT
TTATTTTGCTTTGGTTATCGGAATCATACACCTTTCATTATACCTAAACCTCTATTTTATTATAA
ATGCTTATTTTGTTTTAGTTTAATAAGTAAAACGTTTTCAAATTATATATCTTTTAACAATACTT
AAAGTTATATTTCATAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATACACTTT
CACTATACTTAAACTCTATTTTATTATGCTTATTTTGTTTTTGTTTTAATACCTAAATTG
Found at i:51833 original size:163 final size:161
Alignment explanation
Indices: 51350--51927 Score: 680
Period size: 163 Copynumber: 3.6 Consensus size: 161
51340 TATTTTGCTT
* * *
51350 CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTCTTGTTTGAATAAGCAA
1 CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTT-TTTTTTTAATAAGTAA
* * * *
51415 AATGGTTTTCCAATTGTATATCTTTT-ACGATACCTAAAGTTTAT-TCCATTGTATTTTATAAAT
65 AATGGTTTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATATCCATTGTGTTTTATAAAT
* * *
51478 AGTTATTTTGCTCTCGTTATCGAAATCATACAC
130 ACTTATTTT-CTTTTGTTATCGAAATCATACAC
* * * * * * * *
51511 CTTTTTCCATACCGAAACTTGTATTTTATTATAAATGCTTA-ATT-TATATTTTTAATAAATAAA
1 CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTTTTTTTTAATAAGTAAA
* * * **
51574 ATGATTTTTTAAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATCATGTTTTATAAA
66 ATG-GTTTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATA-TCCATTGTGTTTTATAAA
* *
51639 TATTTATTTTACTTTTGTTATCGAAATCATACAT
129 TACTTATTTT-CTTTTGTTATCGAAATCATACAC
* * * *
51673 CTTTTACTATACCTAAACATGTATTTTATTAAAAATGCTTATTTTGTTTTTTTTTTATCAAGTAA
1 CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTTTTTTTTAAT-AAGTAA
* *
51738 AATGGTTTTCGAATTATATATCTTTTAAAGATACTTAAA-TTTATACTCCATTGTGTTTTATAAA
65 AATGGTTTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATA-TCCATTGTGTTTTATAAA
* **
51802 TACTTATTTTTTTTTGGTTATTTAAATCATACAC
129 TACTTATTTTCTTTT-GTTATCGAAATCATACAC
* * * * *
51836 CTTTTACTACATCTAAACTTGTATTTTATTATAAATACTTATTTTATATTTATTTTAATATGTAA
1 CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGT-TTTTTTTTAATAAGTAA
*
51901 ATTGGTTTTCAAATTATATATCTTTTA
65 AATGGTTTTCAAATTATATATCTTTTA
51928 CTGTACTTGT
Statistics
Matches: 349, Mismatches: 59, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
158 15 0.04
159 19 0.05
160 19 0.05
161 37 0.11
162 83 0.24
163 118 0.34
164 49 0.14
165 9 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (161 bp):
CTTTTACTATACCTAAACTTGTATTTTATTATAAATACTTATTTTGTTTTTTTTTAATAAGTAAA
ATGGTTTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATATCCATTGTGTTTTATAAATA
CTTATTTTCTTTTGTTATCGAAATCATACAC
Found at i:55871 original size:28 final size:28
Alignment explanation
Indices: 55829--56113 Score: 365
Period size: 28 Copynumber: 10.2 Consensus size: 28
55819 TCAAGTGGAA
* *
55829 GGCTCAGATAGAGCGTTATTTTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
* *
55857 GGCTCGAATAAAGCGTTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
*
55885 GGCTCGGATAGAGCATTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
** * *
55913 GGCTCAAATAAAGTGTTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
* *
55941 AGCTCGGATAGAGCGTTATTCTATTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
* * * *
55969 AGATCGGATAGAACGCTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
*
55997 AGCTCGGATAGAGCGTTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
* * *
56025 GGCTCTGATATAGCGTTATTCTGTTTTT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
56053 GGCTCGGATAGAGCGTTATTCTGTTTCT
1 GGCTCGGATAGAGCGTTATTCTGTTTCT
* *
56081 GGCTTAGG-TAGAGCGTCATTCTGTTTCT
1 GGC-TCGGATAGAGCGTTATTCTGTTTCT
56109 GGCTC
1 GGCTC
56114 AGAAAAAGGC
Statistics
Matches: 221, Mismatches: 35, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
27 1 0.00
28 217 0.98
29 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (28 bp):
GGCTCGGATAGAGCGTTATTCTGTTTCT
Found at i:56182 original size:28 final size:28
Alignment explanation
Indices: 55838--56205 Score: 153
Period size: 28 Copynumber: 13.2 Consensus size: 28
55828 AGGCTCAGAT
* * *
55838 AGAGCGTTATTTTGTTTCTGGCTCGAATA
1 AGAGCGATATTCTGATTCTGGCTCGAA-A
* * * *
55867 A-AGCGTTATTCTGTTTCTGGCTCGGAT
1 AGAGCGATATTCTGATTCTGGCTCGAAA
*
55894 AGAGC-ATTATTCTGTTTCTGGCTC-AAA
1 AGAGCGA-TATTCTGATTCTGGCTCGAAA
* * * * * * *
55921 TAAAGTGTTATTCTGTTTCTAGCTCGGAT
1 -AGAGCGATATTCTGATTCTGGCTCGAAA
* * * * *
55950 AGAGCGTTATTCT-ATTTCTAGATCGGAT
1 AGAGCGATATTCTGA-TTCTGGCTCGAAA
* * * * * *
55978 AGAACGCTATTCTGTTTCTAGCTCGGAT
1 AGAGCGATATTCTGATTCTGGCTCGAAA
* * *
56006 AGAGCGTTATTCTGTTTCTGGCTCTG-AT
1 AGAGCGATATTCTGATTCTGGCTC-GAAA
* * * * * *
56034 ATAGCGTTATTCTGTTTTTGGCTCGGAT
1 AGAGCGATATTCTGATTCTGGCTCGAAA
* * * **
56062 AGAGCGTTATTCTGTTTCTGGCT-TAGGT
1 AGAGCGATATTCTGATTCTGGCTCGA-AA
*
56090 AGAGCG-TCATTCTGTTTCTGGCTCAGAAA
1 AGAGCGAT-ATTCTGATTCTGGCTC-GAAA
* * **
56119 A-AGGCAATATTCTGA-T-TGGCTTGGGA
1 AGA-GCGATATTCTGATTCTGGCTCGAAA
*
56145 AGAGCGATATTCTGATTCTGGTTCGAAA
1 AGAGCGATATTCTGATTCTGGCTCGAAA
* *
56173 AGAGCGATATTTTGATTTTGGCTCGAAA
1 AGAGCGATATTCTGATTCTGGCTCGAAA
56201 AGAGC
1 AGAGC
56206 AACAATCTGT
Statistics
Matches: 275, Mismatches: 46, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
26 14 0.05
27 11 0.04
28 236 0.86
29 12 0.04
30 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (28 bp):
AGAGCGATATTCTGATTCTGGCTCGAAA
Found at i:58164 original size:20 final size:21
Alignment explanation
Indices: 58131--58197 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
58121 TTAAAAATTT
*
58131 AAAATT-TTCAAAAAATGATA
1 AAAATTATTTAAAAAATGATA
*
58151 AAAA-TATTTTAAAAAAT-ATT
1 AAAATTA-TTTAAAAAATGATA
58171 AAAATTATTTAAAAAA-GAT-
1 AAAATTATTTAAAAAATGATA
58190 AAAATTAT
1 AAAATTAT
58198 AAGAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 9 0.22
20 21 0.51
21 11 0.27
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAATTATTTAAAAAATGATA
Found at i:58185 original size:40 final size:39
Alignment explanation
Indices: 58117--58193 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
58107 AATTAATTAA
* *
58117 ATTTTTAAAAATTTAAAATTTTCAAAAAATGATAAAAAT
1 ATTTTAAAAAATTTAAAATTTTCAAAAAAAGATAAAAAT
*
58156 ATTTTAAAAAATATTAAAATTATT-TAAAAAAGATAAAA
1 ATTTTAAAAAAT-TTAAAATT-TTCAAAAAAAGATAAAA
58194 TTATAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 11 0.33
40 20 0.61
41 2 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (39 bp):
ATTTTAAAAAATTTAAAATTTTCAAAAAAAGATAAAAAT
Found at i:59482 original size:13 final size:13
Alignment explanation
Indices: 59460--59491 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
59450 ATTTGAACTC
59460 TATT-TTTAGGAT
1 TATTATTTAGGAT
59472 TATTATTTAGGAT
1 TATTATTTAGGAT
59485 TATTATT
1 TATTATT
59492 ATGATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (13 bp):
TATTATTTAGGAT
Found at i:65963 original size:31 final size:31
Alignment explanation
Indices: 65927--65988 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
65917 ATGCCACATT
65927 GAATTTTCCTATTTCGCTCTTATTTTACAAA
1 GAATTTTCCTATTTCGCTCTTATTTTACAAA
65958 GAATTTTCCTATTTCGCTCTTATTTTACAAA
1 GAATTTTCCTATTTCGCTCTTATTTTACAAA
65989 CTTCATCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (31 bp):
GAATTTTCCTATTTCGCTCTTATTTTACAAA
Found at i:69662 original size:28 final size:28
Alignment explanation
Indices: 69593--69745 Score: 121
Period size: 28 Copynumber: 5.5 Consensus size: 28
69583 GAGCCCAGAT
** *
69593 ACAGAATAACGCTCTTTCAGAGCTAGAA
1 ACAGAATAACGCTCTAACCGAGCTAGAA
* *
69621 ACA-AATTAATGCTCTAACTGAGCTAGAA
1 ACAGAA-TAACGCTCTAACCGAGCTAGAA
* * *
69649 ACAGAATAACGCTCTACCCGAGCAAAAA
1 ACAGAATAACGCTCTAACCGAGCTAGAA
* * *
69677 ATAGAGTACCGCTCT-ACTCGAGCTAGAA
1 ACAGAATAACGCTCTAAC-CGAGCTAGAA
* * * * *
69705 ACAGAGTAATGCTCTACCCGAGCCAAAA
1 ACAGAATAACGCTCTAACCGAGCTAGAA
*
69733 ACAAAATAACGCT
1 ACAGAATAACGCT
69746 ATTTCCAAGC
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 3 0.03
28 91 0.94
29 3 0.03
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.18
Consensus pattern (28 bp):
ACAGAATAACGCTCTAACCGAGCTAGAA
Found at i:72476 original size:26 final size:26
Alignment explanation
Indices: 72447--72502 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
72437 CTTCTTGTAA
* *
72447 TTTAGGTTTTAGTTA-TTATTATTTTT
1 TTTAAGTTTTAGTTAGTT-TCATTTTT
72473 TTTAAGTTTTAGTTAGTTTCATTTTT
1 TTTAAGTTTTAGTTAGTTTCATTTTT
72499 TTTA
1 TTTA
72503 CGGAAACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.68
Consensus pattern (26 bp):
TTTAAGTTTTAGTTAGTTTCATTTTT
Found at i:79900 original size:12 final size:12
Alignment explanation
Indices: 79868--79892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79858 CTTCGTAAAT
79868 ATCATCATCATA
1 ATCATCATCATA
79880 ATCATCATCATA
1 ATCATCATCATA
79892 A
1 A
79893 ATCTCATCTG
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATCATA
Found at i:83641 original size:29 final size:29
Alignment explanation
Indices: 83609--84029 Score: 215
Period size: 30 Copynumber: 14.4 Consensus size: 29
83599 AGAATTGAAC
83609 TTTTTGGAAATTTGAGGGT-AAAATGGTAA
1 TTTTTGGAAATTTGAGGGTCAAAAT-GTAA
** ** *
83638 TTTTTGGATGCTCGGGGGGT-AAAATGGTAA
1 TTTTTGGA-AATTTGAGGGTCAAAAT-GTAA
*
83668 TTTTT-GAAATTTCGAGGGTAAAAATGTAA
1 TTTTTGGAAATTT-GAGGGTCAAAATGTAA
** *
83697 TTTTTGAGAAGGTAG-GGGT-AAAATGTAA
1 TTTTTG-GAAATTTGAGGGTCAAAATGTAA
* ** * *
83725 TTTTTTGGAAGTACGGGGGTAAAAATGT-A
1 -TTTTTGGAAATTTGAGGGTCAAAATGTAA
* * *
83754 TTTTTGGAAGTTCGAGGG-AAAAATGTAA
1 TTTTTGGAAATTTGAGGGTCAAAATGTAA
* * *
83782 TTTTT-GAGAAGTTAAGGATCAAAATGTAA
1 TTTTTGGA-AATTTGAGGGTCAAAATGTAA
* * * *
83811 TTTTTGGAAAGTTTAAAGTTTAAAATGTAA
1 TTTTTGGAAA-TTTGAGGGTCAAAATGTAA
** * *
83841 TTTTTGGAAAAGTAAGGGTCAAAATATAA
1 TTTTTGGAAATTTGAGGGTCAAAATGTAA
* * **
83870 TTTTTAGAAAATTTAAGGGTCAAAAAATAA
1 TTTTT-GGAAATTTGAGGGTCAAAATGTAA
* *
83900 TCTTTGGAAAGTTT-AGAGTCAAAATGTAA
1 TTTTTGGAAA-TTTGAGGGTCAAAATGTAA
* *
83929 TTTTTGGAAAATTT-AGGGGTTAAAATATAA
1 TTTTTGG-AAATTTGA-GGGTCAAAATGTAA
* *
83959 TTTTTAGAAAGATT-AGGAGTCAAAA--TAA
1 TTTTTGGAAA-TTTGAGG-GTCAAAATGTAA
* * *
83987 TTTTT-AAAAGTTT-AGGGGTTAAAATATAA
1 TTTTTGGAAA-TTTGA-GGGTCAAAATGTAA
84016 TTTTTGGACAATTT
1 TTTTTGGA-AATTT
84030 AAGGACCTTC
Statistics
Matches: 314, Mismatches: 54, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
27 23 0.07
28 52 0.17
29 112 0.36
30 121 0.39
31 6 0.02
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTTTGGAAATTTGAGGGTCAAAATGTAA
Found at i:83721 original size:58 final size:55
Alignment explanation
Indices: 83609--83819 Score: 183
Period size: 58 Copynumber: 3.7 Consensus size: 55
83599 AGAATTGAAC
* * *
83609 TTTTTGGAAATTTGAGGGT-AAAATGGTAATTTTTGGATGCTCGGGGGGTAAAATGGTAA
1 TTTTT-GAAAGTTGAGGGTAAAAAT-GTAATTTTTGGAAGCT--AGGGGTAAAAT-GTAA
* *
83668 TTTTTGAAATTTCGAGGGTAAAAATGTAATTTTTGAGAAGGTAGGGGTAAAATGTAA
1 TTTTTGAAAGTT-GAGGGTAAAAATGTAATTTTTG-GAAGCTAGGGGTAAAATGTAA
* * * * * *
83725 TTTTTTGGAAGTACGGGGGTAAAAATGT-ATTTTTGGAAGTTCGAGGGAAAAATGTAA
1 -TTTTTGAAAGT-TGAGGGTAAAAATGTAATTTTTGGAAGCTAG-GGGTAAAATGTAA
* * *
83782 TTTTTGAGAAGTTAAGGATCAAAATGTAATTTTTGGAA
1 TTTTTGA-AAGTTGAGGGTAAAAATGTAATTTTTGGAA
83820 AGTTTAAAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
56 22 0.17
57 37 0.29
58 39 0.30
59 21 0.16
60 9 0.07
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.36
Consensus pattern (55 bp):
TTTTTGAAAGTTGAGGGTAAAAATGTAATTTTTGGAAGCTAGGGGTAAAATGTAA
Found at i:83838 original size:30 final size:30
Alignment explanation
Indices: 83654--84033 Score: 251
Period size: 29 Copynumber: 13.1 Consensus size: 30
83644 GATGCTCGGG
*
83654 GGGT-AAAATGGTAATTTTT-GAAA-TTTCGA
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTT-AA
* * *
83683 GGGTAAAAATGTAATTTTT-GAGAAG-GTAG
1 GGGTCAAAATGTAATTTTTGGA-AAGTTTAA
****
83712 GGGT-AAAATGTAATTTTTTGG-AAGTACGG
1 GGGTCAAAATGTAA-TTTTTGGAAAGTTTAA
* **
83741 GGGTAAAAATGT-ATTTTTGG-AAGTTCGA
1 GGGTCAAAATGTAATTTTTGGAAAGTTTAA
*
83769 GGG-AAAAATGTAATTTTT-GAGAAG-TTAA
1 GGGTCAAAATGTAATTTTTGGA-AAGTTTAA
*
83797 GGATCAAAATGTAATTTTTGGAAAGTTTAA
1 GGGTCAAAATGTAATTTTTGGAAAGTTTAA
* * *
83827 AGTTTAAAATGTAATTTTTGGAAAAG--TAA
1 GGGTCAAAATGTAATTTTTGG-AAAGTTTAA
* * *
83856 GGGTCAAAATATAATTTTTAGAAAATTTAA
1 GGGTCAAAATGTAATTTTTGGAAAGTTTAA
** *
83886 GGGTCAAAAAATAATCTTTGGAAAGTTT-A
1 GGGTCAAAATGTAATTTTTGGAAAGTTTAA
* * *
83915 GAGTCAAAATGTAATTTTTGGAAAATTTAG
1 GGGTCAAAATGTAATTTTTGGAAAGTTTAA
* * * *
83945 GGGTTAAAATATAATTTTTAGAAAGATT-A
1 GGGTCAAAATGTAATTTTTGGAAAGTTTAA
* *
83974 GGAGTCAAAA--TAATTTTT-AAAAGTTTAG
1 GG-GTCAAAATGTAATTTTTGGAAAGTTTAA
* *
84002 GGGTTAAAATATAATTTTTGGACAA-TTTAA
1 GGGTCAAAATGTAATTTTTGGA-AAGTTTAA
84032 GG
1 GG
84034 ACCTTCTAGG
Statistics
Matches: 283, Mismatches: 45, Indels: 45
0.76 0.12 0.12
Matches are distributed among these distances:
27 21 0.07
28 51 0.18
29 103 0.36
30 102 0.36
31 6 0.02
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.36
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTTGGAAAGTTTAA
Found at i:83846 original size:59 final size:61
Alignment explanation
Indices: 83773--84034 Score: 264
Period size: 59 Copynumber: 4.5 Consensus size: 61
83763 GTTCGAGGGA
* * * *
83773 AAAATGTAATTTTTGAG-AAGTTAAGGA-TCAAAATGTAATTTTTGGAAAGTTTAAAGTTT
1 AAAATATAATTTTTGAGAAAGTTAAGGAGTCAAAATGTAATTTTTGGAAAATTTAAGGGTT
* * * *
83832 AAAATGTAATTTTTG-GAAAAG-TAAGG-GTCAAAATATAATTTTTAGAAAATTTAAGGGTC
1 AAAATATAATTTTTGAG-AAAGTTAAGGAGTCAAAATGTAATTTTTGGAAAATTTAAGGGTT
* * * *
83891 AAAAAATAATCTTTG-GAAAGTTTA-GAGTCAAAATGTAATTTTTGGAAAATTTAGGGGTT
1 AAAATATAATTTTTGAGAAAGTTAAGGAGTCAAAATGTAATTTTTGGAAAATTTAAGGGTT
*
83950 AAAATATAATTTTT-AGAAAGATT-AGGAGTCAAAA--TAATTTTT--AAAAGTTTAGGGGTT
1 AAAATATAATTTTTGAGAAAG-TTAAGGAGTCAAAATGTAATTTTTGGAAAA-TTTAAGGGTT
*
84007 AAAATATAATTTTTG-GACAATTTAAGGA
1 AAAATATAATTTTTGAGA-AAGTTAAGGA
84035 CCTTCTAGGC
Statistics
Matches: 174, Mismatches: 17, Indels: 25
0.81 0.08 0.12
Matches are distributed among these distances:
56 4 0.02
57 28 0.16
58 20 0.11
59 108 0.62
60 14 0.08
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (61 bp):
AAAATATAATTTTTGAGAAAGTTAAGGAGTCAAAATGTAATTTTTGGAAAATTTAAGGGTT
Found at i:84991 original size:108 final size:103
Alignment explanation
Indices: 84772--84968 Score: 236
Period size: 106 Copynumber: 1.9 Consensus size: 103
84762 TTCAAAATAA
*
84772 AAAAAATAAAAAATTATACATTTATATACATGCGTGTATATATAGGTATGAATTGAAAAATATAT
1 AAAAAATAAAAAATTAAACATTTATATACATGCGTGTATATATAGGTATGAATTGAAAAATATAT
* * * *
84837 ATATTATATAAAATATGGGTACGTCAACATATATATAT
66 AAAATATAAAAAATATAGGTACGTCAACATATATATAT
* ** *
84875 AAATAAATAAAAATTTAAATTTTTATGTACATGCGTGTATATATATATGGGTATGAATTGAAAAA
1 AAA-AAATAAAAAATTAAACATTTATATACATGCGTG--TATATATA--GGTATGAATTGAAAAA
* *
84940 -A-ATAAAATATAAAAAATATATGTATGTCA
61 TATATAAAATATAAAAAATATAGGTACGTCA
84969 GTATGCATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
103 3 0.04
104 28 0.36
106 30 0.38
107 1 0.01
108 16 0.21
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (103 bp):
AAAAAATAAAAAATTAAACATTTATATACATGCGTGTATATATAGGTATGAATTGAAAAATATAT
AAAATATAAAAAATATAGGTACGTCAACATATATATAT
Found at i:86404 original size:50 final size:50
Alignment explanation
Indices: 86325--86606 Score: 225
Period size: 50 Copynumber: 5.7 Consensus size: 50
86315 AGGTTTGACA
* * *
86325 GGGAAAGGTTGAGGCCGCAATGGCAAACCCGGTACTTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTCAAGAAGATGTGAT
* * * * *
86375 GGGAAAGGTTGATGCTGCAACGGCGAACCCAGTAC-CATGAAGA-GATGAA
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTCAAGAAGATG-TGAT
* * * **
86424 GGGAAAGATTGAGGCCACAATGGCGAACATGGTACCTCAA-AAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTA-CTCAAGAAGATGTGAT
* * * * * * * *
86474 GGGAATGATTGAGGCTGCAACGGTGAATCCAGTAC-CATGAA-ATGTAAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTCAAGAAGATGTGAT
* * * * *
86522 AGGAAAGGTTGAGGCCGCAACTGCGAACCCGGTAC-CTTAGAAGATATGAA
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTC-AAGAAGATGTGAT
* * * *
86572 AGGAAAGGTTGAGCCCGTAACGGCGAACCTGGTAC
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
86607 CTTAGAAAAC
Statistics
Matches: 179, Mismatches: 46, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
48 37 0.21
49 41 0.23
50 98 0.55
51 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTCAAGAAGATGTGAT
Found at i:86495 original size:99 final size:99
Alignment explanation
Indices: 86324--86514 Score: 267
Period size: 99 Copynumber: 1.9 Consensus size: 99
86314 TAGGTTTGAC
* * * * * *
86324 AGGGAAAGGTTGAGGCCGCAATGGCAAACCCGGTACTTAAGAAGATGTGATGGGAAAGGTTGATG
1 AGGGAAAGATTGAGGCCACAATGGCAAACACGGTACTCAAGAAGATGTGATGGGAAAGATTGAGG
86389 CTGCAACGGCGAACCCAGTACCATGAAGAGATGA
66 CTGCAACGGCGAACCCAGTACCATGAAGAGATGA
* * *
86423 AGGGAAAGATTGAGGCCACAATGGCGAACATGGTACCTCAA-AAGATGTGATGGGAATGATTGAG
1 AGGGAAAGATTGAGGCCACAATGGCAAACACGGTA-CTCAAGAAGATGTGATGGGAAAGATTGAG
* *
86487 GCTGCAACGGTGAATCCAGTACCATGAA
65 GCTGCAACGGCGAACCCAGTACCATGAA
86515 ATGTAATAGG
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 76 0.95
100 4 0.05
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (99 bp):
AGGGAAAGATTGAGGCCACAATGGCAAACACGGTACTCAAGAAGATGTGATGGGAAAGATTGAGG
CTGCAACGGCGAACCCAGTACCATGAAGAGATGA
Found at i:86906 original size:41 final size:41
Alignment explanation
Indices: 86849--86970 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
86839 ATCATCATTT
86849 AGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCC
1 AGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCC
* * * * * *
86890 AGTCTTTTACCCTTAATTAGGAAGGGAAAATTAAAGATTCT
1 AGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCC
* *
86931 AGT-TTTTTCCCTTAATCAAGAAGGGCAGAATGAAGATTCC
1 AGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCC
86971 GATCTCTTCC
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 29 0.43
41 38 0.57
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (41 bp):
AGTCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCC
Found at i:87099 original size:78 final size:78
Alignment explanation
Indices: 86995--87215 Score: 282
Period size: 78 Copynumber: 2.8 Consensus size: 78
86985 ATCCTAGAGA
* * *
86995 AGATCACCATCAGCTAATCTCTTACCCCGAGCTTGGGGTAGATTGCAGCCATTCGATCTCTTACC
1 AGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCCGATCTCTTACC
* *
87060 TAGAG-CTTGGGGT
66 TAGAGAC-TGGAGC
* * * *
87073 AGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATATTTTACC
1 AGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCCGATCTCTTACC
*
87138 TCGAGACTGGAGC
66 TAGAGACTGGAGC
* ** ** *
87151 AGATCACCATCAACCAATCTCTTACCTTGAGCTTGGGGCAGATCACAGCCATCCAATCTCTTACC
1 AGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCCGATCTCTTACC
87216 CCGATCATGG
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 121 0.99
79 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (78 bp):
AGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCCGATCTCTTACC
TAGAGACTGGAGC
Found at i:87176 original size:39 final size:38
Alignment explanation
Indices: 86995--87232 Score: 157
Period size: 39 Copynumber: 6.1 Consensus size: 38
86985 ATCCTAGAGA
* * *
86995 AGATCACCATCAGCTAATCTCTTACCCCGAGCTTGGGGT
1 AGATCACCATCA-CCAATCTCTTACCTCGAGCTTGGGGC
* * * *
87034 AGATTGCAGCCAT--TCGATCTCTTACCTAGAGCTTGGGGT
1 AGA-T-CA-CCATCACCAATCTCTTACCTCGAGCTTGGGGC
* * *
87073 AGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGC
1 AGATCACCATCA-CCAATCTCTTACCTCGAGCTTGGGGC
* *
87112 AGATTGCAGCCATC-CGATAT-T-TTACCTCGAGAC-TGGAGC
1 AGA-T-CA-CCATCACCA-ATCTCTTACCTCGAG-CTTGGGGC
*
87151 AGATCACCATCAACCAATCTCTTACCTTGAGCTTGGGGC
1 AGATCACCATC-ACCAATCTCTTACCTCGAGCTTGGGGC
* * * *
87190 AGATCA-CAGCCATCCAATCTCTTACCCCGATCATGGGGC
1 AGATCACCA-TCA-CCAATCTCTTACCTCGAGCTTGGGGC
87229 AGAT
1 AGAT
87233 TGCAGTTATC
Statistics
Matches: 157, Mismatches: 24, Indels: 36
0.72 0.11 0.17
Matches are distributed among these distances:
36 9 0.06
37 6 0.04
38 9 0.06
39 112 0.71
40 6 0.04
41 6 0.04
42 9 0.06
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (38 bp):
AGATCACCATCACCAATCTCTTACCTCGAGCTTGGGGC
Found at i:87664 original size:207 final size:207
Alignment explanation
Indices: 87245--88419 Score: 1688
Period size: 207 Copynumber: 5.7 Consensus size: 207
87235 CAGTTATCCA
* * * *
87245 AAGCAATAAAGTGGTCGTCTTCTTAATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATG
1 AAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGATG
* * *
87310 AAATACAGTGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGAAACTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * *
87375 ACCAAATCGATGAAGCAAAGCTCAATGTGAGCAAAACTTCGAATCTAGCTTCCTAATGAGATACT
131 ACCAAATCGATGAAGC-AAGCTCAATGTGAGCGAAACTTCAAACCCAGCTTCCTAATGAGATACT
87440 GAGAAGCA-GTCG
195 GAGAAGCAGGTCG
* * *
87452 AAGCAATAAAGCGGTCATCTTCCTGATGAGGTACAGAGAAGTAGACCAAATTCATCTTCCTCATG
1 AAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGATG
87517 AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
* *
87582 ACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCTAGCTTCCTAATGAGATACTG
131 ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAACTTCAAACCCAGCTTCCTAATGAGATACTG
*
87647 AGAAGCAGGTTG
196 AGAAGCAGGTCG
* * * *
87659 AAGCAATAAAGCAGTCATCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCATCTTCCTGATG
1 AAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGATG
* * *
87724 AGATACAGAGAAATGAATTAAAACAAGTGATGCGGTCATCTTCCTAATGAGATATTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * *
87789 ACCAAATCGATGAAGCAAGCTCAATGTTAGCAAAACTTCGAACCCCAGCTTCCTAATGAGATACT
131 ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAACTTC-AAACCCAGCTTCCTAATGAGATACT
*
87854 GAGAAGTAGGTCG
195 GAGAAGCAGGTCG
* * * *
87867 AAGCAATAAAGCGGTCGTCTTCCTGATGAGGTACAAAGAAGTAGACCAAATTCGTCTTCCTGTTG
1 AAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGATG
*
87932 AGATACAGAGAAATGAATTTAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * *
87997 ACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCCAGCTTCCTGATGAGATACTT
131 ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAACTTCAAACCCAGCTTCCTAATGAGATACTG
*
88062 AGAAGCAGGTTG
196 AGAAGCAGGTCG
* * * *
88074 AAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCGTCTTCCTAATG
1 AAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGATG
* ** * *
88139 AGATACAGAGAAACGAATTAAAACAAGTGATGTGGTCATCTTCCTAATAAGATACTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * * *
88204 ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAACTTTGAACCCCAACTTCTTAATGAGGTACT
131 ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAAC-TTCAAACCCAGCTTCCTAATGAGATACT
* *
88269 AAAAAGCAGGTCG
195 GAGAAGCAGGTCG
* * * * *
88282 AAGCAATTAAA-TGATCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGAT
1 AAGCAA-TAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGAT
* ** * * * * * * *
88346 AAGATACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATAAAATACAGAGAAGTG
65 GAGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTA
88411 GACCAAATC
130 GACCAAATC
88420 CGTCTTCTTG
Statistics
Matches: 874, Mismatches: 90, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
206 52 0.06
207 483 0.55
208 335 0.38
209 4 0.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (207 bp):
AAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGATG
AGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGAAGTAG
ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAACTTCAAACCCAGCTTCCTAATGAGATACTG
AGAAGCAGGTCG
Found at i:88014 original size:415 final size:415
Alignment explanation
Indices: 87245--88419 Score: 1852
Period size: 415 Copynumber: 2.8 Consensus size: 415
87235 CAGTTATCCA
* * *
87245 AAGCAATAAAGTGGTCGTCTTCTTAATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATG
1 AAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCGTCTTCCTGATG
* * * * *
87310 AAATACAGTGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGAAACTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAG
* *
87375 ACCAAATCGATGAAGCAAAGCTCAATGTGAGCAAAACTTCGAA-TCTAGCTTCCTAATGAGATAC
131 ACCAAATCGATGAAGC-AAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTAATGAGATAC
* *
87439 TGAGAAGCA-GTCGAAGCAATAAAGCGGTCATCTTCCTGATGAGGTACAGAGAAGTAGACCAAAT
195 TGAGAAGCAGGTCGAAGCAATAAAGCGGTCGTCTTCCTGATGAGGTACAAAGAAGTAGACCAAAT
*
87503 TCATCTTCCTCATGAGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAG
260 TCATCTTCCTGATGAGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAG
*
87568 ATACTGAGAAGTAGACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCTAGCTTC
325 ATACTGAGAAGTAGACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCCAGCTTC
87633 CTAATGAGATACTGAGAAGCAGGTTG
390 CTAATGAGATACTGAGAAGCAGGTTG
* * *
87659 AAGCAATAAAGCAGTCATCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCATCTTCCTGATG
1 AAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCGTCTTCCTGATG
*
87724 AGATACAGAGAAATGAATTAAAACAAGTGATGCGGTCATCTTCCTAATGAGATATTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAG
*
87789 ACCAAATCGATGAAGCAAGCTCAATGTTAGCAAAACTTCGAACCCCAGCTTCCTAATGAGATACT
131 ACCAAATCGATGAAGCAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTAATGAGATACT
*
87854 GAGAAGTAGGTCGAAGCAATAAAGCGGTCGTCTTCCTGATGAGGTACAAAGAAGTAGACCAAATT
196 GAGAAGCAGGTCGAAGCAATAAAGCGGTCGTCTTCCTGATGAGGTACAAAGAAGTAGACCAAATT
* * *
87919 CGTCTTCCTGTTGAGATACAGAGAAATGAATTTAAACAAGTGATGCAGTCATCTTCCTGATGAGA
261 CATCTTCCTGATGAGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGA
87984 TACTGAGAAGTAGACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCCAGCTTCC
326 TACTGAGAAGTAGACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCCAGCTTCC
* *
88049 TGATGAGATACTTAGAAGCAGGTTG
391 TAATGAGATACTGAGAAGCAGGTTG
*
88074 AAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCGTCTTCCTAATG
1 AAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCGTCTTCCTGATG
* * *
88139 AGATACAGAGAAACGAATTAAAACAAGTGATGTGGTCATCTTCCTAATAAGATACTGAGAAGTAG
66 AGATACAGAGAAATGAATTAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAG
* * * * *
88204 ACCAAATCGATGAAGCAAGCTCAATGTGAGCGAAACTTTGAACCCCAACTTCTTAATGAGGTACT
131 ACCAAATCGATGAAGCAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTAATGAGATACT
* * * * * *
88269 AAAAAGCAGGTCGAAGCAATTAAA-TGATCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAAT
196 GAGAAGCAGGTCGAAGCAA-TAAAGCGGTCGTCTTCCTGATGAGGTACAAAGAAGTAGACCAAAT
* * ** * * * * *
88333 CCATCTTCCTGATAAGATACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATAAA
260 TCATCTTCCTGATGAGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAG
* *
88398 ATACAGAGAAGTGGACCAAATC
325 ATACTGAGAAGTAGACCAAATC
88420 CGTCTTCTTG
Statistics
Matches: 698, Mismatches: 60, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
413 25 0.04
414 161 0.23
415 508 0.73
416 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (415 bp):
AAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGAAGTAGACCGAATTCGTCTTCCTGATG
AGATACAGAGAAATGAATTAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAG
ACCAAATCGATGAAGCAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTAATGAGATACT
GAGAAGCAGGTCGAAGCAATAAAGCGGTCGTCTTCCTGATGAGGTACAAAGAAGTAGACCAAATT
CATCTTCCTGATGAGATACAGAGAAATGAATTAAAACAAGTGATGCAGTCATCTTCCTGATGAGA
TACTGAGAAGTAGACCAAATCGATGAAGCAAGCTCAATGTGAGTGAAACTTCAAACCCAGCTTCC
TAATGAGATACTGAGAAGCAGGTTG
Found at i:88444 original size:86 final size:86
Alignment explanation
Indices: 88299--88505 Score: 308
Period size: 86 Copynumber: 2.4 Consensus size: 86
88289 TAAATGATCG
*
88299 TCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATAAGATACAGAGAAGCGGA
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATAAGATACAGAGAAGCGGA
* *
88364 TTAAAACAAGTGAGGCGGTCA
66 TTAAAACAAGTGAGGAGGTAA
* * * *
88385 TCTTCCTGATAAAATACAGAGAAGTGGACCAAATCCGTCTTCTTGATGAA-ATACAGAGAAGCGG
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGAT-AAGATACAGAGAAGCGG
*
88449 ATTAAGACAAGTGAGGAGGTAA
65 ATTAAAACAAGTGAGGAGGTAA
**
88471 TCTTCCTGATGAGATACAGAGAAGTATACCAAATC
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
88506 AATGAAACAA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
86 106 0.98
87 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (86 bp):
TCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATAAGATACAGAGAAGCGGA
TTAAAACAAGTGAGGAGGTAA
Found at i:89050 original size:17 final size:17
Alignment explanation
Indices: 89028--89120 Score: 132
Period size: 17 Copynumber: 5.4 Consensus size: 17
89018 CCATTTTTTA
*
89028 AAATTTATTTTAAGGTT
1 AAATTTATTTTAAGTTT
*
89045 AAATTTATTTTAAATTT
1 AAATTTATTTTAAGTTT
89062 AAATTTATTTTAAGTTT
1 AAATTTATTTTAAGTTT
* *
89079 AAATTTGTTTTAAATTT
1 AAATTTATTTTAAGTTT
*
89096 AAATTTAATTTAAGTTT
1 AAATTTATTTTAAGTTT
89113 AAAATTTA
1 -AAATTTA
89121 AAATTATTCT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
17 60 0.90
18 7 0.10
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTAAGTTT
Found at i:89068 original size:34 final size:34
Alignment explanation
Indices: 89028--89120 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
89018 CCATTTTTTA
*
89028 AAATTTATTTTAAGGTTAAATTTATTTTAAATTT
1 AAATTTATTTTAAGTTTAAATTTATTTTAAATTT
*
89062 AAATTTATTTTAAGTTTAAATTTGTTTTAAATTT
1 AAATTTATTTTAAGTTTAAATTTATTTTAAATTT
*
89096 AAATTTAATTTAAGTTTAAAATTTA
1 AAATTTATTTTAAGTTT-AAATTTA
89121 AAATTATTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
34 48 0.89
35 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (34 bp):
AAATTTATTTTAAGTTTAAATTTATTTTAAATTT
Found at i:89105 original size:11 final size:11
Alignment explanation
Indices: 89043--89121 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
89033 TATTTTAAGG
*
89043 TTAAATTTATT
1 TTAAATTTAAT
89054 TTAAATTTAAAT
1 TTAAATTT-AAT
*
89066 TT-ATTTTAAGT
1 TTAAATTTAA-T
**
89077 TTAAATTTGTT
1 TTAAATTTAAT
89088 TTAAATTTAAAT
1 TTAAATTT-AAT
89100 TT-AATTTAAGT
1 TTAAATTTAA-T
89111 TTAAAATTTAA
1 TT-AAATTTAA
89122 AATTATTCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
10 4 0.07
11 32 0.59
12 11 0.20
13 7 0.13
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:89125 original size:7 final size:6
Alignment explanation
Indices: 89043--89122 Score: 69
Period size: 6 Copynumber: 13.8 Consensus size: 6
89033 TATTTTAAGG
* * * **
89043 TTAAAT TT-ATT TTAAAT TTAAAT TT-ATT TTAAGT TTAAAT TT-GTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
89088 TTAAAT TTAAAT TT-AAT TTAAGT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
89123 ATTATTCTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
5 16 0.28
6 37 0.64
7 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:89137 original size:24 final size:24
Alignment explanation
Indices: 89090--89138 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
89080 AATTTGTTTT
* *
89090 AAATTTAAATTTAATTTAAGTTTA
1 AAATTTAAAATTAATTTAAATTTA
89114 AAATTTAAAATT-ATTCTAAATTTA
1 AAATTTAAAATTAATT-TAAATTTA
89138 A
1 A
89139 TTAATATGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
AAATTTAAAATTAATTTAAATTTA
Found at i:89740 original size:11 final size:11
Alignment explanation
Indices: 89721--89765 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
89711 TATATAATAG
89721 TATATATTTAT
1 TATATATTTAT
89732 T-TGATATTTAT
1 TAT-ATATTTAT
89743 TATATATTTA-
1 TATATATTTAT
*
89753 -ATACATTTAT
1 TATATATTTAT
89763 TAT
1 TAT
89766 TTCCTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
9 8 0.28
10 1 0.03
11 19 0.66
12 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TATATATTTAT
Found at i:89816 original size:73 final size:73
Alignment explanation
Indices: 89735--89893 Score: 282
Period size: 73 Copynumber: 2.2 Consensus size: 73
89725 TATTTATTTG
* * *
89735 ATATTTATTATATATTTAATACATTTATTATTTCCTTTAATATTTGGGATGTTGTGTATATATAT
1 ATATTTATTATATATTTAATAAATTTATTATTTCCTTTAATATTCGGGATGTTGTCTATATATAT
89800 GTATTAAT
66 GTATTAAT
*
89808 ATATTTATTATATATTTAATAAATTTATTATTTCCTTTAATATTCGGGATGTTTTCTATATATAT
1 ATATTTATTATATATTTAATAAATTTATTATTTCCTTTAATATTCGGGATGTTGTCTATATATAT
89873 GTATTAAT
66 GTATTAAT
89881 ATATTTATTATAT
1 ATATTTATTATAT
89894 TATTATTTAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 82 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (73 bp):
ATATTTATTATATATTTAATAAATTTATTATTTCCTTTAATATTCGGGATGTTGTCTATATATAT
GTATTAAT
Found at i:91115 original size:60 final size:59
Alignment explanation
Indices: 90999--91431 Score: 210
Period size: 60 Copynumber: 7.4 Consensus size: 59
90989 CCCAAAAGGT
* * * * *
90999 CCCTGAACTCTCCAAAAATCACATTTTGACCCTCGAACTTTCCAAAAATTATATTTTAA
1 CCCTAAACTTTCCAAAAATTACATCTTGACCCTCGAACTTTCCAAAAATTACATTTTAA
* * *
91058 CCCTCAAACTTTCCAAAAATTACACTCTTG-CTCTCGAACTTT-TAAAAATTACCATTTTAC
1 CCCT-AAACTTTCCAAAAATTACA-TCTTGACCCTCGAACTTTCCAAAAATTA-CATTTTAA
* * * * * * *
91118 CCCTAAACTTACAAAAAAATTACATTTTCACTCCT-AAACTTT-TATAAA-T-CATATTTATA
1 CCCTAAACTTTC-CAAAAATTACATCTTGAC-CCTCGAACTTTCCAAAAATTACAT-TTTA-A
* * * * **
91177 CCCTTAAACTTTCTAAAAATTACATTTTTG-CTCC-CAAAC-TTCTCAATAATTACACTTTTTC
1 CCC-TAAACTTTCCAAAAATTACA-TCTTGAC-CCTCGAACTTTC-CAAAAATTACA-TTTTAA
* *
91238 CCCTAAAC-TTCCAAAAATTACCAT-TTTACCCCTC-AAC-TTCCAAAAATTACATTTTCA
1 CCCTAAACTTTCCAAAAATTA-CATCTTGA-CCCTCGAACTTTCCAAAAATTACATTTTAA
* * * * *
91295 CCCTCGAAC-TTCCAAAAATCACAT-TTGTACCC-CCAAATTTCCAAAAATTACATTTT-T
1 CCCT-AAACTTTCCAAAAATTACATCTTG-ACCCTCGAACTTTCCAAAAATTACATTTTAA
* * * * * *
91352 CCCTTGAAC-AT-CTAAAATTACCAT-TTTACCCTCGAA-TTTCTAAAAAGTCACATTTTTAA
1 CCC-TAAACTTTCCAAAAATTA-CATCTTGACCCTCGAACTTTCCAAAAA-TTACA-TTTTAA
91411 -CCTCAAACTTTCC-AAAATTAC
1 CCCT-AAACTTTCCAAAAATTAC
91432 GTTTTCATCC
Statistics
Matches: 297, Mismatches: 44, Indels: 67
0.73 0.11 0.16
Matches are distributed among these distances:
56 21 0.07
57 42 0.14
58 62 0.21
59 72 0.24
60 84 0.28
61 10 0.03
62 5 0.02
63 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (59 bp):
CCCTAAACTTTCCAAAAATTACATCTTGACCCTCGAACTTTCCAAAAATTACATTTTAA
Found at i:91407 original size:29 final size:28
Alignment explanation
Indices: 90999--91436 Score: 235
Period size: 29 Copynumber: 15.0 Consensus size: 28
90989 CCCAAAAGGT
*
90999 CCCT-GAACTCTCCAAAAATCACATTTTGA
1 CCCTCGAACT-TCCAAAAATTACATTTT-A
*
91028 CCCTCGAACTTTCCAAAAATTATATTTTAA
1 CCCTCGAAC-TTCCAAAAATTACATTTT-A
* * *
91058 CCCTCAAACTTTCCAAAAATTACACTCTTG
1 CCCTCGAAC-TTCCAAAAATTACA-TTTTA
* **
91088 CTCTCGAACTTTTAAAAATTACCATTTTA
1 CCCTCGAACTTCCAAAAATTA-CATTTTA
* *
91117 CCC-CTAAACTTACAAAAAAATTACATTTTCA
1 CCCTC-GAACTT-C-CAAAAATTACATTTT-A
* ** * * *
91148 CTCCT-AAACTTTTATAAATCATATTTATA
1 C-CCTCGAACTTCCAAAAATTACATTT-TA
** * *
91177 CCCTTAAACTTTCTAAAAATTACATTTTTG
1 CCCTCGAAC-TTCCAAAAATTACA-TTTTA
* * *
91207 CTCC-CAAACTTCTCAATAATTACACTTTTT
1 C-CCTCGAACTTC-CAAAAATTACA-TTTTA
*
91237 CCC-CTAAACTTCCAAAAATTACCATTTTA
1 CCCTC-GAACTTCCAAAAATTA-CATTTTA
91266 CCCCTC-AACTTCCAAAAATTACATTTTCA
1 -CCCTCGAACTTCCAAAAATTACATTTT-A
*
91295 CCCTCGAACTTCCAAAAATCACATTTGTA
1 CCCTCGAACTTCCAAAAATTACATTT-TA
* * * *
91324 CCCCCAAATTTCCAAAAATTACATTTTT
1 CCCTCGAACTTCCAAAAATTACATTTTA
* * *
91352 CCCTTGAACAT-CTAAAATTACCATTTTA
1 CCCTCGAACTTCCAAAAATTA-CATTTTA
* * *
91380 CCCTCGAATTTCTAAAAAGTCACATTTTTA
1 CCCTCGAACTTCCAAAAA-TTACA-TTTTA
* * *
91410 ACCTCAAACTTTCC-AAAATTACGTTTT
1 CCCTCGAAC-TTCCAAAAATTACATTTT
91437 CATCCCGAAC
Statistics
Matches: 322, Mismatches: 59, Indels: 57
0.74 0.13 0.13
Matches are distributed among these distances:
27 8 0.02
28 40 0.12
29 125 0.39
30 118 0.37
31 29 0.09
32 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (28 bp):
CCCTCGAACTTCCAAAAATTACATTTTA
Found at i:91428 original size:86 final size:85
Alignment explanation
Indices: 91237--91436 Score: 224
Period size: 86 Copynumber: 2.3 Consensus size: 85
91227 TACACTTTTT
* * * * * *
91237 CCCCTAAACTTCCAAAAATTACCATTTTACCCCTCAACTTCCAAAAATTACATTTTCACCCTCGA
1 CCCC-AAATTTCCAAAAATTA-CATTTTTCCCTTGAACAT-CTAAAATTACATTTTCACCCTCGA
*
91302 ACTTCCAAAAATCACATTTGTAC
63 ACTTCCAAAAATCACATTTGTAA
*
91325 CCCCAAATTTCCAAAAATTACATTTTTCCCTTGAACATCTAAAATTACCATTTT-ACCCTCGAAT
1 CCCCAAATTTCCAAAAATTACATTTTTCCCTTGAACATCTAAAATTA-CATTTTCACCCTCGAAC
* *
91389 TTCTAAAAAGTCACATTTTTAA
65 TTCCAAAAA-TCACATTTGTAA
* *
91411 CCTCAAACTTTCC-AAAATTACGTTTT
1 CCCCAAA-TTTCCAAAAATTACATTTT
91437 CATCCCGAAC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
85 25 0.26
86 48 0.49
87 20 0.21
88 4 0.04
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (85 bp):
CCCCAAATTTCCAAAAATTACATTTTTCCCTTGAACATCTAAAATTACATTTTCACCCTCGAACT
TCCAAAAATCACATTTGTAA
Found at i:98713 original size:42 final size:42
Alignment explanation
Indices: 98662--98881 Score: 316
Period size: 42 Copynumber: 5.2 Consensus size: 42
98652 GAGTATATTA
*
98662 AAGGAAGACTCGTGACTCGAAAATAGCATGAGATTATGTTTT
1 AAGGAAGACTCGTGACTCGAAAAGAGCATGAGATTATGTTTT
98704 AAGGAAGACTCGTGACTC-AGAAAGAGCATGAGATTATGTTTT
1 AAGGAAGACTCGTGACTCGA-AAAGAGCATGAGATTATGTTTT
* *
98746 AAGGAAGACTCGTGACTCGAAAGGAGCATGAGTTTATGTTTT
1 AAGGAAGACTCGTGACTCGAAAAGAGCATGAGATTATGTTTT
* *
98788 AAGGAAGACTCGTGACTCGAAAGGAGCATGAGTTTATGTTTT
1 AAGGAAGACTCGTGACTCGAAAAGAGCATGAGATTATGTTTT
* ** * * * *
98830 AAGGAAGACTCATGACTCGGGATGAGCATGAGATTACGTCTA
1 AAGGAAGACTCGTGACTCGAAAAGAGCATGAGATTATGTTTT
98872 AAGGAAGACT
1 AAGGAAGACT
98882 TATGATTCGG
Statistics
Matches: 165, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
41 1 0.01
42 163 0.99
43 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (42 bp):
AAGGAAGACTCGTGACTCGAAAAGAGCATGAGATTATGTTTT
Found at i:120281 original size:18 final size:18
Alignment explanation
Indices: 120258--120294 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
120248 AAAGAAGACT
120258 TATGTCACCACAGATCCA
1 TATGTCACCACAGATCCA
120276 TATGTCACCACAGATCCA
1 TATGTCACCACAGATCCA
120294 T
1 T
120295 CTTTATGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.24
Consensus pattern (18 bp):
TATGTCACCACAGATCCA
Found at i:124563 original size:14 final size:14
Alignment explanation
Indices: 124526--124571 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
124516 CGTGTAGTAT
*
124526 TATAATATT-ATAA
1 TATAATATTAAAAA
124539 TATAATATTAAAAA
1 TATAATATTAAAAA
124553 TA-AATATTTAAAAA
1 TATAATA-TTAAAAA
124567 TATAA
1 TATAA
124572 GATGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.45
14 14 0.48
15 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAATATTAAAAA
Found at i:128384 original size:163 final size:160
Alignment explanation
Indices: 128005--128532 Score: 488
Period size: 166 Copynumber: 3.2 Consensus size: 160
127995 TAGGTTTTTG
* * * * ** * *
128005 AATTATGCATCTTTTAAAGATGCTTAATGCTTATATGTCGTGAGTGTTGTATAAATGTTTATTTT
1 AATTATACATCTTTTAACGATGCTTAA-GTTTATATTTTATGAGTGTTATATAAATGCTTATTTT
* * * * * *
128070 GCTTTGGTTATCGGAATCATAAACTTTTTATTATATCTAAATATTTATATTTTTATAGATATTTA
65 GCTTT-GTTATCAGAATCATAAACCTTTCACTATATCTAAATCTTTAT-TTTTTATAGATACTTA
*
128135 TTTTGTTTTTGTTTTAATATACTAAATTAGCTTTCA
128 TTTTGTTTTTGTTTTAATAT-CTAAA--GGCTTTCA
* * *
128171 AATTATACATCTTTTAACGATACTTAAAGTTTATATTTTATGACTGTTATATAAATGGTTATTTT
1 AATTATACATCTTTTAACGATGCTT-AAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTT
* * * * * * ** * *
128236 GCTCTTGTTATTAGAATTATACACCTTTTACTATATTTAATTCTGCATTTTATTGTAGATGCTTA
65 GCT-TTGTTATCAGAATCATAAACCTTTCACTATATCTAAATCTTTATTTT-TTATAGATACTTA
* *
128301 -TTTGTTTTTGTTTAAATATCTAAACGGATTTTCA
128 TTTTGTTTTTGTTTTAATATCTAAA-GG-CTTTCA
* * *
128335 AACTATACATCTTTTAATGATGCTTAAGTTTATATTTTATGAGTGTTATATAAATGTTTATTTTG
1 AATTATACATCTTTTAACGATGCTTAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTG
* * * * * *
128400 CTTTGGTTATCGGAATCATAAACCTTCCACTATA-C-CAATTTTTTTTTTCTTTTAGATACTTAT
66 CTTT-GTTATCAGAATCATAAACCTTTCACTATATCTAAATCTTTATTTT-TTATAGATACTTAT
*
128463 TTTGTTTTTGTTTTAATACCTAGATTA-GCTTTCA
129 TTTGTTTTTGTTTTAATATCTA-A--AGGCTTTCA
* * *
128497 AATTATACATCTTTTAATGATACTCAAGGTTTATAT
1 AATTATACATCTTTTAACGATGCTTAA-GTTTATAT
128533 GTCGGACTTA
Statistics
Matches: 297, Mismatches: 55, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
161 18 0.06
162 51 0.17
163 74 0.25
164 32 0.11
165 22 0.07
166 96 0.32
167 4 0.01
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (160 bp):
AATTATACATCTTTTAACGATGCTTAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTG
CTTTGTTATCAGAATCATAAACCTTTCACTATATCTAAATCTTTATTTTTTATAGATACTTATTT
TGTTTTTGTTTTAATATCTAAAGGCTTTCA
Found at i:128481 original size:23 final size:24
Alignment explanation
Indices: 128437--128481 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
128427 CACTATACCA
*
128437 ATTTTTTTTTTCTTTTAGATACTT
1 ATTTTGTTTTTCTTTTAGATACTT
*
128461 ATTTTGTTTTTGTTTTA-ATAC
1 ATTTTGTTTTTCTTTTAGATAC
128482 CTAGATTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (24 bp):
ATTTTGTTTTTCTTTTAGATACTT
Found at i:128903 original size:165 final size:162
Alignment explanation
Indices: 128689--129220 Score: 622
Period size: 165 Copynumber: 3.2 Consensus size: 162
128679 GTAAAACGGT
* * * * * *
128689 TTTCAAATTATATATCTTTTAATGATACTTAAAGTTTATATTTCATGGGTGTTAAATAAATTCTT
1 TTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATA-TCCATGGGTGTTATATAAATACTT
* * * ** *
128754 ATTTTGCTTTAGTTATCGGAATCATAAACCTTTCACTATACCTAAATCTTTATTTCCTTCTAGAT
65 A-TTTGCTTT-GTTATCGAAATCATACACCTTTCACTATACCTAAATCTCTATTTTATTATAGAT
*
128819 ACTTATTTTGTTTTTGTTTTAATATCTAAATTGGC
128 ACTTATTTTGTTTTTGTTTTAATACCTAAATTGGC
*
128854 TTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATATGCCATGGGTGTGATATAAATACTT
1 TTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATAT-CCATGGGTGTTATATAAATACTT
* * * *
128919 A-TTGCTCTGGTTATCAAAATTATACACCTTTCACTATACTTAAATCTGC-ATTTTATTATAGAT
65 ATTTGCT-TTGTTATCGAAATCATACACCTTTCACTATACCTAAATCT-CTATTTTATTATAGAT
* * * *
128982 GCTTATTTTGTTTTTGTTTTTATACCTAAATAGGT
128 ACTTATTTTGTTTTTGTTTTAATACCTAAATTGGC
* * * * *
129017 TTTCAAACTATACATCTTTTAACGATGCTTAAGGTTTATATCTTATGAGTGTTATATAAATGCTT
1 TTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATATC-CATGGGTGTTATATAAATACTT
* * *
129082 AATTTGCTTTGATTATCGAAATCATACGCCATTT-ACTATACCTAAACCTCTATTTTATTATAAA
65 -ATTTGCTTTG-TTATCGAAATCATACACC-TTTCACTATACCTAAATCTCTATTTTATTATAGA
* * **
129146 TACTTACTTTGTTTTTGTTTTAATACCCAAATTAAC
127 TACTTATTTTGTTTTTGTTTTAATACCTAAATTGGC
* *
129182 TTTCAAATTATACATC-TTTAACCATGTTTAAAGTTTATA
1 TTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATA
129221 AGTTGTGGGT
Statistics
Matches: 311, Mismatches: 47, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
162 1 0.00
163 136 0.44
164 26 0.08
165 145 0.47
166 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.46
Consensus pattern (162 bp):
TTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTATATCCATGGGTGTTATATAAATACTTA
TTTGCTTTGTTATCGAAATCATACACCTTTCACTATACCTAAATCTCTATTTTATTATAGATACT
TATTTTGTTTTTGTTTTAATACCTAAATTGGC
Found at i:129288 original size:55 final size:54
Alignment explanation
Indices: 129182--129288 Score: 142
Period size: 55 Copynumber: 2.0 Consensus size: 54
129172 CCAAATTAAC
* * * *
129182 TTTCAAATTATACATCTTTAACCATGTTTAAAGTTTATAAGTTGTGGGTGTTGT
1 TTTCAAACTATACATCTTTAACCATGCTTAAAGTTTATAAGTTATGAGTGTTGT
* **
129236 TTTCAAACTATACATCTTTTAACGATGCTTAAAGTTTATATTTTATGAGTGTT
1 TTTCAAACTATACATC-TTTAACCATGCTTAAAGTTTATAAGTTATGAGTGTT
129289 ATATAAATGC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 15 0.33
55 30 0.67
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (54 bp):
TTTCAAACTATACATCTTTAACCATGCTTAAAGTTTATAAGTTATGAGTGTTGT
Found at i:129729 original size:165 final size:165
Alignment explanation
Indices: 129432--130367 Score: 966
Period size: 165 Copynumber: 5.7 Consensus size: 165
129422 TTTCATGGGT
* * * * *
129432 TTTTGCTTTGGTTATCGAAATCATACGCCTTTCACTATACCTAAACCTCTACCTTTTGTTGTAAA
1 TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATA--TTTTATTATAAA
* * ** *
129497 CGCTTATTTTGTTTTTGTTTTAATATGTAAAACAGTTTTCCAATTATATATCTTTTAACGATACT
64 TGCTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATATCTTTTAACGATACT
* *
129562 TAAAGTTTATATTTCATGGGTATTATATAAGTGTTTA
129 TAAAGTTTATATTTCATGGGTATTATATAAATGCTTA
* * * * * *
129599 TTTTGCTTTAGTTATAGGAATCATACATCTTTCACTATACTTAAATCTATATTTTATTATAGATG
1 TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATTTTATTATAAATG
* *
129664 CTTATATTT-TTTTTGCTTTAATACA-TAAAATGGTTTTCGAATTATATA-CTTTTTAAC-AGTA
66 CTTAT-TTTGTTTTTGTTTTAATA-AGTAAAATGGTTTTCAAATTATATATC-TTTTAACGA-TA
* * * *
129725 CTTAAAGTTTATATTTCAT-TGTGTTGTATAAATGTTTA
127 CTTAAAGTTTATATTTCATGGGTATTATATAAATGCTTA
* * * ** * * ** * *
129763 TTTTGCTTTGGTTATTGGAACCATACACATTTCACCGTACTTAAATCTGCATTTCATTATAGATG
1 TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATTTTATTATAAATG
* * * * * * *
129828 CTTATTTTGTTTTTATTTTAATACA-TAAATTGGATTTCAAATTATACATCTTTGAGCGATCCTT
66 CTTATTTTGTTTTTGTTTTAATA-AGTAAAATGGTTTTCAAATTATATATCTTTTAACGATACTT
* * * * *
129892 AATGTTTATATTTTATGTGTGTTATATAAATACTTA
130 AAAGTTTATATTTCATGGGTATTATATAAATGCTTA
* * * *
129928 TTTTACTTTGGCTATCGGAATCATACACCCTTCACTATACCTAAACCTTTATTTTATTATAAATG
1 TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATTTTATTATAAATG
* * * * *
129993 CTTATTTTGTTTTTATTTTAATAAGTAAAACGGTTTTCGATTTATATATATTTTAACGATACTTA
66 CTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATATCTTTTAACGATACTTA
* *
130058 AAGTCTATATTTCATGGGTGA-TATATAAAAGCTTA
131 AAGTTTATATTTCATGGGT-ATTATATAAATGCTTA
* * * ** *
130093 TTTTACTTTTGTTATCGGAATCATACACTTTTCTTTATACCTAAACCTCTATTTTA-T-T--ATG
1 TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATTTTATTATAAATG
* * *
130154 CTTATTTTGCTTTTAG-TTTAATAAGT-AAATAGGTTTTCAAATTATATATTTTTTTAACGATAT
66 CTTATTTTG-TTTTTGTTTTAATAAGTAAAAT-GGTTTTCAAATTATATA-TCTTTTAACGATAC
* *
130217 TTAAAGTTTATATTTCACTGTG-CTT-TATAAATGCTTA
128 TTAAAGTTTATATTTCA-TGGGTATTATATAAATGCTTA
* * * * * *
130254 TTTTGTTTTGGTTATTGAAATCATACACCTTTCACTATAACTAAACCTCTATTTTATTATAAATA
1 TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATTTTATTATAAATG
* *
130319 CTTAATTTGTTTTTGTTTTAATAAGTAAAATAGTTTTCAAATTATATAT
66 CTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATAT
130368 ATATTACTAT
Statistics
Matches: 641, Mismatches: 107, Indels: 45
0.81 0.13 0.06
Matches are distributed among these distances:
160 3 0.00
161 95 0.15
162 34 0.05
163 8 0.01
164 141 0.22
165 310 0.48
166 7 0.01
167 43 0.07
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (165 bp):
TTTTGCTTTGGTTATCGGAATCATACACCTTTCACTATACCTAAACCTATATTTTATTATAAATG
CTTATTTTGTTTTTGTTTTAATAAGTAAAATGGTTTTCAAATTATATATCTTTTAACGATACTTA
AAGTTTATATTTCATGGGTATTATATAAATGCTTA
Found at i:129950 original size:329 final size:325
Alignment explanation
Indices: 129432--130369 Score: 980
Period size: 329 Copynumber: 2.8 Consensus size: 325
129422 TTTCATGGGT
* * * * * * *
129432 TTTTGCTTTGGTTATCGAAATCATACGCCTTTCACTATACCTAAACCTCTACCTTTTGTTGTAAA
1 TTTTACTTTGGTTATCGGAACCATACACATTTCACCATACCTAAACCTCTA--TTTT-ATG---A
* * * * *
129497 CGCTTATTTTGTTTTTGTTTTAATATGTAAA-ACAGTTTTCCAATTATATATCTTTTAACGATAC
60 TGCTTATTTTGTTTTTATTTTAATA-ATAAATA-GGTTTTCAAATTATATATCTTTTAACGATAC
* * * *
129561 TTAAAGTTTATATTTCATGGGTATTATATAAGTGTTTATTTTGCTTTAGTTATAGGAATCATACA
123 TTAAAGTTTATATTTCATGTGTATTATATAAATGCTTATTTTGCTTTGGTTATAGGAATCATACA
* * * *
129626 TCTTTCACTATACTTAAATCTATATTTTATTATAGATGCTTATATTT-TTTTTGCTTTAATACA-
188 CCTTTCACTATAC-TAAACCTATATTTTATTATAAATGCTTATATTTGTTTTTGTTTTAATA-AG
* * * *
129689 TAAAATGGTTTTCGAATTATATACT-TTTTAAC-AGTACTTAAAGTTTATATTTCAT-TGTGTTG
251 TAAAATGGTTTTCGAATTATATA-TATTTTAACGA-TACTTAAAGTCTATATTTCATGGGTGATA
* *
129751 TATAAATGTTTA
314 TATAAAAGCTTA
* * * * *
129763 TTTTGCTTTGGTTATTGGAACCATACACATTTCACCGTACTTAAATCTGC-ATTTCATTATAGAT
1 TTTTACTTTGGTTATCGGAACCATACACATTTCACCATACCTAAACCT-CTA-TT--TTAT-GAT
* * * * * *
129827 GCTTATTTTGTTTTTATTTTAATACATAAATTGGATTTCAAATTATACATCTTTGAGCGATCCTT
61 GCTTATTTTGTTTTTATTTTAATA-ATAAATAGGTTTTCAAATTATATATCTTTTAACGATACTT
* * * * * * *
129892 AATGTTTATATTTTATGTGTGTTATATAAATACTTATTTTACTTTGGCTATCGGAATCATACACC
125 AAAGTTTATATTTCATGTGTATTATATAAATGCTTATTTTGCTTTGGTTATAGGAATCATACACC
* * *
129957 CTTCACTATACCTAAACCTTTATTTTATTATAAATGCTTAT-TTTGTTTTTATTTTAATAAGTAA
190 TTTCACTATA-CTAAACCTATATTTTATTATAAATGCTTATATTTGTTTTTGTTTTAATAAGTAA
* *
130021 AACGGTTTTCGATTTATATATATTTTAACGATACTTAAAGTCTATATTTCATGGGTGATATATAA
254 AATGGTTTTCGAATTATATATATTTTAACGATACTTAAAGTCTATATTTCATGGGTGATATATAA
130086 AAGCTTA
319 AAGCTTA
* * * *** *
130093 TTTTACTTTTGTTATCGGAATCATACACTTTTCTTTATACCTAAACCTCTATTTTATTATGCTTA
1 TTTTACTTTGGTTATCGGAACCATACACATTTCACCATACCTAAACCTCTATTTTATGATGCTTA
* * * *
130158 TTTTGCTTTTAGTTTAATAAGTAAATAGGTTTTCAAATTATATATTTTTTTAACGATATTTAAAG
66 TTTTGTTTTTATTTTAATAA-TAAATAGGTTTTCAAATTATATA-TCTTTTAACGATACTTAAAG
* * * *
130223 TTTATATTTCACTGTG-CTT-TATAAATGCTTATTTTGTTTTGGTTATTGAAATCATACACCTTT
129 TTTATATTTCA-TGTGTATTATATAAATGCTTATTTTGCTTTGGTTATAGGAATCATACACCTTT
* *
130286 CACTATAACTAAACCTCTATTTTATTATAAATACTTA-ATTTGTTTTTGTTTTAATAAGTAAAAT
193 CACTAT-ACTAAACCTATATTTTATTATAAATGCTTATATTTGTTTTTGTTTTAATAAGTAAAAT
* *
130350 AGTTTTCAAATTATATATAT
257 GGTTTTCGAATTATATATAT
130370 ATTACTATAC
Statistics
Matches: 502, Mismatches: 88, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
325 1 0.00
326 155 0.31
327 31 0.06
328 9 0.02
329 205 0.41
330 56 0.11
331 41 0.08
332 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (325 bp):
TTTTACTTTGGTTATCGGAACCATACACATTTCACCATACCTAAACCTCTATTTTATGATGCTTA
TTTTGTTTTTATTTTAATAATAAATAGGTTTTCAAATTATATATCTTTTAACGATACTTAAAGTT
TATATTTCATGTGTATTATATAAATGCTTATTTTGCTTTGGTTATAGGAATCATACACCTTTCAC
TATACTAAACCTATATTTTATTATAAATGCTTATATTTGTTTTTGTTTTAATAAGTAAAATGGTT
TTCGAATTATATATATTTTAACGATACTTAAAGTCTATATTTCATGGGTGATATATAAAAGCTTA
Found at i:133585 original size:100 final size:100
Alignment explanation
Indices: 133451--133639 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
133441 ATCTTCTTCC
* * *
133451 CTTTTGATTCCAATATCTTTAGTTATAAATCTGTCTCAAAGCTTGAATCTTTAAAACCCATTAGC
1 CTTTTGATTCCAATATCTTTAGTTACAAACCTGTCTCAAAGCTTGAATCTTTAAAACCCATTAAC
133516 CAAAAGATTCAATATCTTTGGTTCCCATTATGTTT
66 CAAAAGATTCAATATCTTTGGTTCCCATTATGTTT
* * *
133551 CTTTTGATTCCAATATTTTTAGTTACAAACCTGTCTTAAAGTTTGAATCTTTAAAACCCATTAAC
1 CTTTTGATTCCAATATCTTTAGTTACAAACCTGTCTCAAAGCTTGAATCTTTAAAACCCATTAAC
*
133616 CAAAAGATTCAATATCTTTTGTTC
66 CAAAAGATTCAATATCTTTGGTTC
133640 TAATATCTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (100 bp):
CTTTTGATTCCAATATCTTTAGTTACAAACCTGTCTCAAAGCTTGAATCTTTAAAACCCATTAAC
CAAAAGATTCAATATCTTTGGTTCCCATTATGTTT
Found at i:140732 original size:24 final size:24
Alignment explanation
Indices: 140684--140733 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
140674 AAACATTTTT
* **
140684 ATATATTTATAATTAAATTAAAAA
1 ATATATTTAAAATTAAACGAAAAA
140708 ATATATTTAAAATTAAACGAGAAAA
1 ATATATTTAAAATTAAACGA-AAAA
140733 A
1 A
140734 AAGTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATATTTAAAATTAAACGAAAAA
Found at i:142619 original size:91 final size:91
Alignment explanation
Indices: 142464--142630 Score: 298
Period size: 91 Copynumber: 1.8 Consensus size: 91
142454 AGAGTGTTGA
* *
142464 TTCTAGGGCAATTGCCAATAGATTTTGGAAGTGGTTGGATAGATGTATTGATAAATCCCAGAGTG
1 TTCTACGGCAATTACCAATAGATTTTGGAAGTGGTTGGATAGATGTATTGATAAATCCCAGAGTG
142529 CTTTTGTCCTAGGGGAGGAAAATTGT
66 CTTTTGTCCTAGGGGAGGAAAATTGT
* *
142555 TTCTACGGTAATTACCAATAGATTTTGGAAGTGGTTGGATAGATGTATTGATAAATCCTAGAGTG
1 TTCTACGGCAATTACCAATAGATTTTGGAAGTGGTTGGATAGATGTATTGATAAATCCCAGAGTG
142620 CTTTTGTCCTA
66 CTTTTGTCCTA
142631 AGGAGGCTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (91 bp):
TTCTACGGCAATTACCAATAGATTTTGGAAGTGGTTGGATAGATGTATTGATAAATCCCAGAGTG
CTTTTGTCCTAGGGGAGGAAAATTGT
Found at i:154903 original size:139 final size:139
Alignment explanation
Indices: 154721--155091 Score: 508
Period size: 139 Copynumber: 2.7 Consensus size: 139
154711 TTCAATCTTT
* * * * *
154721 TTTTTTTATAGATACTTATTTTATTTTTGTTTTAATACTTAAATTGGTTTTCAAATTATACATCT
1 TTTTATTATAAATACTTACTTTGTTTTTGTTTTAATACCTAAATTGGTTTTCAAATTATACATCT
* * *
154786 TTTAACGATGTTTAAAGTTTATAATTTGCTTTGATTATCGAAATCATACACCATTCACTATTCCT
66 TTTAACGATGTTTAAAGTTTATAATTTACTTTGATTATCAAAATCATACACCATTCACTATACCT
154851 AAACCTCTA
131 AAACCTCTA
* * * **
154860 TTTTGTTATAAATGCTTACTTTGTTTTTATTTTAATACCTAAATTGACTTTCAAATTATACATCT
1 TTTTATTATAAATACTTACTTTGTTTTTGTTTTAATACCTAAATTGGTTTTCAAATTATACATCT
* * * * *
154925 TTTAACGATGTTTAAGGTTTATAATTTACTTTGATTATCAAAATTATATATCTTTCACTATACCT
66 TTTAACGATGTTTAAAGTTTATAATTTACTTTGATTATCAAAATCATACACCATTCACTATACCT
*
154990 AAACCTTTA
131 AAACCTCTA
* * *
154999 TTTTATTATAAATACTTACTTTGTTTTTGTTTTAATACCTAATTTGGTTTTCAAACTATAGATCT
1 TTTTATTATAAATACTTACTTTGTTTTTGTTTTAATACCTAAATTGGTTTTCAAATTATACATCT
* * * *
155064 TCTAACGATGCTTACAGTTTATATTTTA
66 TTTAACGATGTTTAAAGTTTATAATTTA
155092 TGAGTGTTAT
Statistics
Matches: 201, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
139 201 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (139 bp):
TTTTATTATAAATACTTACTTTGTTTTTGTTTTAATACCTAAATTGGTTTTCAAATTATACATCT
TTTAACGATGTTTAAAGTTTATAATTTACTTTGATTATCAAAATCATACACCATTCACTATACCT
AAACCTCTA
Found at i:155240 original size:168 final size:164
Alignment explanation
Indices: 154949--155419 Score: 444
Period size: 168 Copynumber: 2.8 Consensus size: 164
154939 AGGTTTATAA
* * * * ** *
154949 TTTACTTT-GATTATCAAAATTATATATCTTTCACTATACCTAAACCTTTATTTTATTATAAATA
1 TTTACTTTGGA-TATCAAAATCAAACACCTTTCACTATACCTAAACCTACATTTTATTATAAATG
* **** * * * *
155013 CTTACT-TTGTTTTTGTTTTAATACCTAATTTGGTTTTCAAACTATAGATCTTCTAACGATGCTT
65 CTTA-TATTG-TTTTGTTTTAATAACTAAAACAGCTTTCAAATTATACATCTTTTAACGATGCTT
* * * *
155077 ACAGTTTATATTTTAT-GAGTGTTATATAAATGTTTAT
128 AAAGTTTATATTTCATGGA-TGTTATACAAATGCTTAT
* * * *
155114 TTTGCTTTGGATATTAAAATCAAACACCTTTCACTATACCTAAACCTATATTTTTTTTTTATAAA
1 TTTACTTTGGATATCAAAATCAAACACCTTTCACTATACCTAAACCTACA---TTTTATTATAAA
* * * ** * *
155179 TGCTTATATTGCTTTTGTTTTATTAAGTAAAACAGTTTTTGAATTATATATCTTTTAACGATACT
63 TGCTTATATTG-TTTTGTTTTAATAACTAAAACAGCTTTCAAATTATACATCTTTTAACGATGCT
*
155244 TAAAGTTTATATTTCATGGATGTTATACAGATGCTTAT
127 TAAAGTTTATATTTCATGGATGTTATACAAATGCTTAT
* * * * * * * *
155282 TTTACTTTGGTTATCAGAATTATACACCTTTCACTATACTTAAATCTGCATTTTATTATAGATGC
1 TTTACTTTGGATATCAAAATCAAACACCTTTCACTATACCTAAACCTACATTTTATTATAAATGC
* * ***
155347 TTATTTTGTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTTTAACGATGCTTAAA
66 TTATATTGTTTTGTTTTAATAACTAAAACAGCTTTCAAATTATACATCTTTTAACGATGCTTAAA
155412 GTTTATAT
131 GTTTATAT
155420 GTCGTGGGTG
Statistics
Matches: 248, Mismatches: 52, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
164 54 0.22
165 60 0.24
166 2 0.01
167 1 0.00
168 129 0.52
169 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (164 bp):
TTTACTTTGGATATCAAAATCAAACACCTTTCACTATACCTAAACCTACATTTTATTATAAATGC
TTATATTGTTTTGTTTTAATAACTAAAACAGCTTTCAAATTATACATCTTTTAACGATGCTTAAA
GTTTATATTTCATGGATGTTATACAAATGCTTAT
Found at i:155636 original size:223 final size:219
Alignment explanation
Indices: 155223--155654 Score: 508
Period size: 223 Copynumber: 2.0 Consensus size: 219
155213 GTTTTTGAAT
* * * * * *
155223 TATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGATGTTATACAGATGCTTATTTTACT
1 TATAAATCTTCTAACGATACTTAAAGCTTATATTTCATGGATGCTATACAAATGATTATTTTACT
* * * * * * *
155288 TTGGTTATCAGAATTATACACCTTTCACTATACTTAAATCTGCATTTTATTATAGATGCTTATTT
66 TTGGTTATCAGAATCATACACCTTTCACTATACCTAAAACTACATTATATTATAAATGCTTATAT
* ** * * *
155353 TGTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTTTAACGATGCTTAAAGTTTAT
131 TGTTTTGTTTTAATAACTAAAACGGCTTTCAAATTATACATATTTCAACGATACTTAAAGTTTAT
155418 ATGTCGTGGGTGTTGTTTTCAAAC
196 ATGTCGTGGGTGTTGTTTTCAAAC
* * * * *
155442 TATAAATCTTCTAACGGTGCTTAAAGCTTATATTTTAT-GAGTGCTATATAAATGATTATTTTTT
1 TATAAATCTTCTAACGATACTTAAAGCTTATATTTCATGGA-TGCTATACAAATGATTA-TTTTA
* *
155506 CTTTGGTTATC-GAAATCATATACCTTTCACTATACCTAAAACTATATATATATTTATAAATGCT
64 CTTTGGTTATCAG-AATCATACACCTTTCACTATACCTAAAACTACAT-TATA-TTATAAATGCT
* * * * *
155570 TATATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATATTTCAACGATACTTAAA
126 TATATTG-TTTTGTTTTAATAACTAAAACGGCTTTCAAATTATACATATTTCAACGATACTTAAA
*
155635 GTTTATATTTCGTGGGTGTT
190 GTTTATATGTCGTGGGTGTT
155655 ATATAAATGC
Statistics
Matches: 175, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
218 2 0.01
219 46 0.26
220 43 0.25
221 3 0.02
222 16 0.09
223 65 0.37
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (219 bp):
TATAAATCTTCTAACGATACTTAAAGCTTATATTTCATGGATGCTATACAAATGATTATTTTACT
TTGGTTATCAGAATCATACACCTTTCACTATACCTAAAACTACATTATATTATAAATGCTTATAT
TGTTTTGTTTTAATAACTAAAACGGCTTTCAAATTATACATATTTCAACGATACTTAAAGTTTAT
ATGTCGTGGGTGTTGTTTTCAAAC
Found at i:155738 original size:167 final size:166
Alignment explanation
Indices: 155461--155920 Score: 607
Period size: 167 Copynumber: 2.8 Consensus size: 166
155451 TCTAACGGTG
* ** * * * *
155461 CTTAAAGCTTATATTTTATGAGTGCTATATAAATGATTATTTTTTCTTTGGTTATCGAAATCATA
1 CTTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTA-TTTTTCTTTGGTTATCAAAATCATA
* * * *
155526 TACCTTTCACTATACCTAAAACTATATATATATTTATAAATGCTTATATTGCTTTTGTTTTACTA
65 CACCTTTCACTATACTTAAAACTATATAT-TTTTTATTAATGCTTATATTGCTTTTGTTTTACTA
*
155591 AGTAAAACGGTTTTCGAATTATATATATTTCAACGATA
129 AGTAAAACGGTTTTCAAATTATATATATTTCAACGATA
*
155629 CTTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATAC
1 CTTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTTCTTTGGTTATCAAAATCATAC
* *
155694 ACCTTTCACTATACTTAAACCTATATAATTTTTTATTAATGCTTATATTTCTTTTGTTTTACTAA
66 ACCTTTCACTATACTTAAAACTATAT-ATTTTTTATTAATGCTTATATTGCTTTTGTTTTACTAA
* * * *
155759 GTAAAACTGTTTTCAAATTATATATCTTTTAATGATA
130 GTAAAACGGTTTTCAAATTATATATATTTCAACGATA
* * * *
155796 CTTTAAGTTTATATTTCGTGGGTGTTATATAAATGCTTTTTTTATATTTGGTTATCAGAATCATA
1 CTTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTT-TCTTTGGTTATCAAAATCATA
* ** * * * *
155861 CACCTTTCACTATACTTAAATCTGCAT-TTTATTATTGATGCTTATTTTGTTTTTGTTTTA
65 CACCTTTCACTATACTTAAAACTATATATTTTTTATTAATGCTTATATTGCTTTTGTTTTA
155921 ATACCTAAAT
Statistics
Matches: 258, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
166 28 0.11
167 153 0.59
168 77 0.30
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (166 bp):
CTTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTTCTTTGGTTATCAAAATCATAC
ACCTTTCACTATACTTAAAACTATATATTTTTTATTAATGCTTATATTGCTTTTGTTTTACTAAG
TAAAACGGTTTTCAAATTATATATATTTCAACGATA
Found at i:155972 original size:166 final size:167
Alignment explanation
Indices: 155462--155987 Score: 542
Period size: 167 Copynumber: 3.1 Consensus size: 167
155452 CTAACGGTGC
* ** * * * ** * *
155462 TTAAAGCTTATATTTTATGAGTGCTATATAAATGATTATTTTTTCTTTGGTTATCGAAATCATAT
1 TTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTA-TTTTGATTTGGTTATCAAAATCATAC
* * * * * * *
155527 ACCTTTCACTATACCTAAAACTATATATATATTTATAAATGCTTATATTGCTTTTGTTTTACTAA
65 ACCTTTCACTATACTTAAACCTACATATTTA-TTATTAATGCTTATATTTCTTTTGTTTTAATAA
* * * * * * * **
155592 GTAAAACGGTTTTCGAATTATATATATTTCAACGATAC-
129 CTAAAACTGCTTTCAAATTATACATCTTTTAATAATACT
*
155630 TTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACA
1 TTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGATTTGGTTATCAAAATCATACA
* * * *
155695 CCTTTCACTATACTTAAACCTATATAATTTTTTATTAATGCTTATATTTCTTTTGTTTTACTAAG
66 CCTTTCACTATACTTAAACCTACAT-ATTTATTATTAATGCTTATATTTCTTTTGTTTTAATAAC
* * *
155760 TAAAACTGTTTTCAAATTATATATCTTTTAATGATACT
130 TAAAACTGCTTTCAAATTATACATCTTTTAATAATACT
* * *
155798 TT-AAGTTTATATTTCGTGGGTGTTATATAAATGCTTTTTTTATATTTGGTTATCAGAATCATAC
1 TTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTT-GATTTGGTTATCAAAATCATAC
* * * * *
155862 ACCTTTCACTATACTTAAATCTGCAT-TTTATTATTGATGCTTAT-TTTGTTTTTGTTTTAATAC
65 ACCTTTCACTATACTTAAACCTACATATTTATTATTAATGCTTATATTT-CTTTTGTTTTAATAA
* *
155925 CT-AAATTGACTTTCAAATTATACATCTTTTAATAAT-GT
129 CTAAAACTG-CTTTCAAATTATACATCTTTTAATAATACT
* *
155963 TTAAAGTTTATATGTCGTAGGTGTT
1 TTAAAGTTTATATTTCGTGGGTGTT
155988 GTTTTCAAAC
Statistics
Matches: 312, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
165 11 0.04
166 73 0.23
167 149 0.48
168 79 0.25
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.48
Consensus pattern (167 bp):
TTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGATTTGGTTATCAAAATCATACA
CCTTTCACTATACTTAAACCTACATATTTATTATTAATGCTTATATTTCTTTTGTTTTAATAACT
AAAACTGCTTTCAAATTATACATCTTTTAATAATACT
Found at i:156067 original size:555 final size:551
Alignment explanation
Indices: 154953--156307 Score: 1867
Period size: 555 Copynumber: 2.4 Consensus size: 551
154943 TTATAATTTA
* * * * * * *
154953 CTTTGATTATCAAAATTATATATCTTTCACTATACCTAAACCTTTAT-TTTA-TTATAAATACTT
1 CTTTGGTTATCGAAATCATATACCTTTCACTATACCTAAACCTATATATATATTTATAAATGCTT
* * ** *** * * * * * *
155016 ACT-TTGTTTTTGTTTTAATACCTAATTTGGTTTTCAAACTATAGATCTTCTAACGATGCTTACA
66 A-TATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATTTTC-AACGATACTTAAA
** * * * * *
155080 GTTTATATTTTATGAGTGTTATATAAATGTTTATTTTGCTTTGGATATTAAAATCAAACACCTTT
129 GTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCTTT
* * * *
155145 CACTATACCTAAACCTATATTTTTTTTTTATAAATGCTTATATTGCTTTTGTTTTATTAAGTAAA
194 CACTATACTTAAACCTATA---TTTTTTTATTAATGCTTATATTTCTTTTGTTTTACTAAGTAAA
** *
155210 ACAGTTTTTGAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGATGTTATACAGA
256 ACAGTTTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGATGTTATACAAA
* *
155275 TGCTTATTTTACTTTGGTTATCAGAATTATACACCTTTCACTATACTTAAATCTGCATTTTATTA
321 TGCTTATTTTAATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTTTATTA
* *
155340 TAGATGCTTATTTTGTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTTTAACGAT
386 TAGATGCTTATTTTGTTTTGTTTTAATACCTAAATTGACTTTCAAATTATACATCTTTTAACAAT
*
155405 GCTTAAAGTTTATATGTCGTGGGTGTTGTTTTCAAACTATAAATCTTCTAACGGTGCTTAAAGCT
451 GCTTAAAGTTTATATGTCGTAGGTGTTGTTTTCAAACTATAAATCTTCTAACGGTGCTTAAAGCT
* * *
155470 TATATTTTATGAGTGCTATATAAATGATTATTTTTT
516 TATATTTTATGAGTGCTATACAAATGATTATGTTTG
*
155506 CTTTGGTTATCGAAATCATATACCTTTCACTATACCTAAAACTATATATATATTTATAAATGCTT
1 CTTTGGTTATCGAAATCATATACCTTTCACTATACCTAAACCTATATATATATTTATAAATGCTT
155571 ATATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATATTTCAACGATACTTAAAG
66 ATATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATAT-TTTCAACGATACTTAAAG
155636 TTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCTTTC
130 TTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCTTTC
155701 ACTATACTTAAACCTATATAATTTTTTATTAATGCTTATATTTCTTTTGTTTTACTAAGTAAAAC
195 ACTATACTTAAACCTATAT--TTTTTTATTAATGCTTATATTTCTTTTGTTTTACTAAGTAAAAC
* * * * * *
155766 TGTTTTCAAATTATATATCTTTTAATGATACTTTAAGTTTATATTTCGTGGGTGTTATATAAATG
258 AGTTTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGATGTTATACAAATG
*
155831 CTTTTTTTATATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTTTATTAT
323 CTTATTTTA-ATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTTTATTAT
* *
155896 TGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATTATACATCTTTTAATAAT
387 AGATGCTTATTTTG-TTTTGTTTTAATACCTAAATTGACTTTCAAATTATACATCTTTTAACAAT
* * * * *
155961 GTTTAAAGTTTATATGTCGTAGGTGTTGTTTTCAAACTCTACATCTTCTAACGGTGCTTAACGTT
451 GCTTAAAGTTTATATGTCGTAGGTGTTGTTTTCAAACTATAAATCTTCTAACGGTGCTTAAAGCT
* *
156026 TATATTTTATGAGTGTTATACAAATGCTTA-GTTTG
516 TATATTTTATGAGTGCTATACAAATGATTATGTTTG
* * * * * *
156061 CTTTGGTTATTGAAATCATACACCATTCGCGATACCTAAACCTATATACACT-TTTATAAATGCT
1 CTTTGGTTATCGAAATCATATACCTTTCACTATACCTAAACCTATATATA-TATTTATAAATGCT
* *
156125 TATATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATCTTTTAACAATACTTAAA
65 TATATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATAT-TTTCAACGATACTTAAA
* * * *
156190 GTTTATATTCCGTGGCTGTTATATAAATGCTTATTTTGATTTGGTTATCAGAATCATACACCTTT
129 GTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCTTT
* * * * *
156255 CACTATACTTAAATCTACATTTTATTATTTATGCTTAT-TTTGTTTTTGTTTTA
194 CACTATACTTAAACCTATATTTTTTTATTAATGCTTATATTT-CTTTTGTTTTA
156308 ATACCTAAAT
Statistics
Matches: 714, Mismatches: 78, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
552 4 0.01
553 67 0.09
554 109 0.15
555 397 0.56
556 137 0.19
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (551 bp):
CTTTGGTTATCGAAATCATATACCTTTCACTATACCTAAACCTATATATATATTTATAAATGCTT
ATATTGCTTTTGTTTTACTAAGTAAAACGGTTTTCGAATTATATATTTTCAACGATACTTAAAGT
TTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATACACCTTTCA
CTATACTTAAACCTATATTTTTTTATTAATGCTTATATTTCTTTTGTTTTACTAAGTAAAACAGT
TTTCAAATTATATATCTTTTAACGATACTTAAAGTTTATATTTCATGGATGTTATACAAATGCTT
ATTTTAATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTTTATTATAGAT
GCTTATTTTGTTTTGTTTTAATACCTAAATTGACTTTCAAATTATACATCTTTTAACAATGCTTA
AAGTTTATATGTCGTAGGTGTTGTTTTCAAACTATAAATCTTCTAACGGTGCTTAAAGCTTATAT
TTTATGAGTGCTATACAAATGATTATGTTTG
Found at i:156394 original size:387 final size:387
Alignment explanation
Indices: 155629--157121 Score: 2218
Period size: 387 Copynumber: 3.9 Consensus size: 387
155619 TTCAACGATA
** * *
155629 CTTAAAGTTTATATTTCGTGGGTGTTATATAAATGCTTATTTTGCTTTGGTTATCAAAATCATAC
1 CTTAAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
* * *
155694 ACCTTTCACTATACTTAAACCTATATA-ATTTTTTATTAATGCTTATATTTCTTTTGTTTTACTA
66 ACCTTTCACTATACCTAAACCTATATATA-TTTTTATAAATGCTTATATTGCTTTTGTTTTACTA
* * * *
155758 AGTAAAACTGTTTTCAAATTATATATCTTTTAATGATACTTTAAGTTTATATTTCGTGGGTGTTA
130 AGTAAAACGGTTTTCGAATTATATATCTTTTAATAATACTTAAAGTTTATATTTCGTGGGTGTTA
* *
155823 TATAAATGCTTTTTTTATATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCAT
195 TATAAATGCTTATTTT-GATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCAT
* *
155888 TTTATTATTGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGACTTTCAAATTATACATCTT
259 TTTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTT
** * * *
155953 TTAATAATGTTTAAAGTTTATATGTCGTAGGTGTTGTTTTCAAACTCTACATCTTCTAACGGTG
324 TTAACGATGATTAAAGTTTATATGTCGTGGGTGTTGTTTTCAAACTATACATCTTCTAACGGTG
* * * *
156017 CTTAACGTTTATATTTTATGAGTGTTATACAAATGCTTAGTTTGCTTTGGTTATTGAAATCATAC
1 CTTAAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
* * * * *
156082 ACCATTCGCGATACCTAAACCTATATACACTTTTATAAATGCTTATATTGCTTTTGTTTTACTAA
66 ACCTTTCACTATACCTAAACCTATATATATTTTTATAAATGCTTATATTGCTTTTGTTTTACTAA
* * *
156147 GTAAAACGGTTTTCGAATTATATATCTTTTAACAATACTTAAAGTTTATATTCCGTGGCTGTTAT
131 GTAAAACGGTTTTCGAATTATATATCTTTTAATAATACTTAAAGTTTATATTTCGTGGGTGTTAT
*
156212 ATAAATGCTTATTTTGATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTACATTT
196 ATAAATGCTTATTTTGATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTT
** * * *
156277 TATTATTTATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATTCAACTTTG
261 TATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTTT
**
156342 AACGATGATTAAAGTTTATATGTCGTGGGTGTTGCCTTCAAACTATACATCTTCTAACGGTG
326 AACGATGATTAAAGTTTATATGTCGTGGGTGTTGTTTTCAAACTATACATCTTCTAACGGTG
* * *
156404 CTTAATGTTTATATTTTATGAATGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATTATAC
1 CTTAAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
156469 ACCTTTCACTATACCTAAACCTATATATATTTTTATAAATGCTTATATTGCTTTTGTTTTACTAA
66 ACCTTTCACTATACCTAAACCTATATATATTTTTATAAATGCTTATATTGCTTTTGTTTTACTAA
* * * **
156534 GTAAAATGATTTTTGAATTATATATCTTTTAATAATACTTAAAGTTTATATTTAATGGGTGTTAT
131 GTAAAACGGTTTTCGAATTATATATCTTTTAATAATACTTAAAGTTTATATTTCGTGGGTGTTAT
* * ** * *
156599 ATAAATACTTATTTTGATTTCGTTATTGGAATCATACACCTTTCACAAATACTTAAATCTGTATT
196 ATAAATGCTTATTTTGATTTGGTTATCAGAATCATACACCTTTCAC-TATACTTAAATCTGCATT
* * *
156664 TTATTATAGATGCTTATTTTGTTTTTG-TTTAATACCTAAATTAGCTTTTAAATTATATATCTTT
260 TTATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTT
* * * * * * *
156728 TAACGATGCTTAAAATTTATATGTCGTGAGTGTTGTTTTCAAACTATATATTTTTTAACAGTG
325 TAACGATGATTAAAGTTTATATGTCGTGGGTGTTGTTTTCAAACTATACATCTTCTAACGGTG
* *
156791 CTTAAAATTTATATTTTATGAGTATTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
1 CTTAAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
* * *
156856 ACCTGTCACTATACCTAAACCTATATATTTTTTTATAAATGCTTATATTGCTTTTGTTTTAATAA
66 ACCTTTCACTATACCTAAACCTATATATATTTTTATAAATGCTTATATTGCTTTTGTTTTACTAA
* *
156921 GTAAAACGGTTTTCGAATTGTATATCTTTTAATGATACTTAAAGTTTATATTTCGTGGGTGTTAT
131 GTAAAACGGTTTTCGAATTATATATCTTTTAATAATACTTAAAGTTTATATTTCGTGGGTGTTAT
* * * * * *
156986 ATAAATCCTTATTTTGATTTTGTTATCAAAATCATACACCTTTCGCTATACTTAAAT-TTCAGTT
196 ATAAATGCTTATTTTGATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTT
* * *
157050 TATTATAGATGCTTATTTTGTTTTTGTTTTAATACTTAAATTGGTTTTCAGATTATACATCTTTT
261 TATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTTT
157115 AACGATG
326 AACGATG
157122 CTTACAATTT
Statistics
Matches: 991, Mismatches: 111, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
385 30 0.03
386 49 0.05
387 686 0.69
388 225 0.23
389 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (387 bp):
CTTAAAGTTTATATTTTATGAGTGTTATATAAATGCTTATTTTGCTTTGGTTATCGAAATCATAC
ACCTTTCACTATACCTAAACCTATATATATTTTTATAAATGCTTATATTGCTTTTGTTTTACTAA
GTAAAACGGTTTTCGAATTATATATCTTTTAATAATACTTAAAGTTTATATTTCGTGGGTGTTAT
ATAAATGCTTATTTTGATTTGGTTATCAGAATCATACACCTTTCACTATACTTAAATCTGCATTT
TATTATAGATGCTTATTTTGTTTTTGTTTTAATACCTAAATTGGCTTTCAAATTATACATCTTTT
AACGATGATTAAAGTTTATATGTCGTGGGTGTTGTTTTCAAACTATACATCTTCTAACGGTG
Found at i:156813 original size:55 final size:54
Alignment explanation
Indices: 156709--156813 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 54
156699 CTAAATTAGC
* *
156709 TTTTAAATTATATATCTTTTAACGATGCTTAAAATTTATATGTCGTGAGTGTTG
1 TTTTAAACTATATATCTTTTAACGATGCTTAAAATTTATATGTCATGAGTGTTG
* * *
156763 TTTTCAAACTATATATTTTTTAAC-AGTGCTTAAAATTTATATTTTATGAGT
1 TTTT-AAACTATATATCTTTTAACGA-TGCTTAAAATTTATATGTCATGAGT
156814 ATTATATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
54 5 0.11
55 39 0.89
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (54 bp):
TTTTAAACTATATATCTTTTAACGATGCTTAAAATTTATATGTCATGAGTGTTG
Found at i:157152 original size:164 final size:166
Alignment explanation
Indices: 156762--157164 Score: 437
Period size: 164 Copynumber: 2.4 Consensus size: 166
156752 CGTGAGTGTT
* * *
156762 GTTTTCAAACTATATATTTTTTAAC-AGTGCTTAAAATTTATATTT-TATGAGTATTATATAAAT
1 GTTTTCAGATTATATATCTTTTAACGA-TGCTT-AAATTTATATTTGTATGAGTATTATATAAAT
* * * *
156825 GCTTATTTTGCTTTGGTTATCGAAATCATACACCTGTCACTATACCTAAACCTATATATTTTTTT
64 GCTTATTTTGATTTGGTTATCAAAATCATACACCTGTCACTATACCTAAA-CTATATAGTTTATT
156890 ATAAATGCTTATATTGCTTTTGTTTTAATAAGTAAAACG
128 ATAAATGCTTATATTGCTTTTGTTTTAATAAGTAAAACG
* * * * *
156929 GTTTTC-GAATTGTATATCTTTTAATGATACTTAAAGTTTATATTTCG--TGGGTGTTATATAAA
1 GTTTTCAG-ATTATATATCTTTTAACGATGCTTAAA-TTTATATTT-GTATGAGTATTATATAAA
* * * * *
156991 TCCTTATTTTGATTTTGTTATCAAAATCATACACCTTTCGCTATACTTAAA-T-T-TCAGTTTAT
63 TGCTTATTTTGATTTGGTTATCAAAATCATACACCTGTCACTATACCTAAACTATAT-AGTTTAT
* * * ** **
157053 TATAGATGCTTATTTTGTTTTTGTTTTAATACTTAAATTG
127 TATAAATGCTTATATTGCTTTTGTTTTAATAAGTAAAACG
*
157093 GTTTTCAGATTATACATCTTTTAACGATGCTTACAATTTAT-TTTGTATGAGTATTATATAAATG
1 GTTTTCAGATTATATATCTTTTAACGATGCTTA-AATTTATATTTGTATGAGTATTATATAAATG
*
157157 TTTATTTT
65 CTTATTTT
157165 TCACTATACC
Statistics
Matches: 194, Mismatches: 32, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
162 1 0.01
163 4 0.02
164 92 0.47
165 4 0.02
166 3 0.02
167 89 0.46
168 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (166 bp):
GTTTTCAGATTATATATCTTTTAACGATGCTTAAATTTATATTTGTATGAGTATTATATAAATGC
TTATTTTGATTTGGTTATCAAAATCATACACCTGTCACTATACCTAAACTATATAGTTTATTATA
AATGCTTATATTGCTTTTGTTTTAATAAGTAAAACG
Found at i:163857 original size:24 final size:25
Alignment explanation
Indices: 163807--163862 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
163797 ATTTACCCAA
* *
163807 TTTTAA-ACCCCTAAAACACCTATT
1 TTTTAACACACCTAAAACACCTAGT
163831 TTTTAACACACCTAAAACA-CTAGT
1 TTTTAACACACCTAAAACACCTAGT
*
163855 TTTAAACA
1 TTTTAACA
163863 TCTCCCCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (25 bp):
TTTTAACACACCTAAAACACCTAGT
Found at i:163857 original size:25 final size:24
Alignment explanation
Indices: 163807--163862 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
163797 ATTTACCCAA
*
163807 TTTTAAACCCCTAAAACACCTATT
1 TTTTAAACACCTAAAACACCTATT
*
163831 TTTTAACACACCTAAAACA-CTA-G
1 TTTTAA-ACACCTAAAACACCTATT
163854 TTTTAAACA
1 TTTTAAACA
163863 TCTCCCCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 6 0.21
24 9 0.31
25 11 0.38
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (24 bp):
TTTTAAACACCTAAAACACCTATT
Found at i:171826 original size:26 final size:29
Alignment explanation
Indices: 171796--171852 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 29
171786 TTACTAATGA
171796 TTCTTTTG-TTTTTACTC-ATTT-T-TCTT
1 TTCTTTTGATTTTT-CTCTATTTATCTCTT
171822 TTCTTTTGATTTTTCTCTATTTATCTCTT
1 TTCTTTTGATTTTTCTCTATTTATCTCTT
171851 TT
1 TT
171853 TGGCTAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 11 0.41
27 9 0.33
28 1 0.04
29 6 0.22
ACGTcount: A:0.09, C:0.16, G:0.04, T:0.72
Consensus pattern (29 bp):
TTCTTTTGATTTTTCTCTATTTATCTCTT
Found at i:173677 original size:17 final size:19
Alignment explanation
Indices: 173641--173677 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
173631 AACAAGTGAT
173641 AAAATAAAACAAATAATTA
1 AAAATAAAACAAATAATTA
173660 AAAATAAAA-AAA-AATTA
1 AAAATAAAACAAATAATTA
173677 A
1 A
173678 TTTAGGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAAAACAAATAATTA
Found at i:176146 original size:23 final size:23
Alignment explanation
Indices: 176117--176242 Score: 110
Period size: 23 Copynumber: 5.4 Consensus size: 23
176107 CATTAGCGCT
176117 CTCTCTGTTTAGCAC-GTCTCATG
1 CTCTCTGTTTAGCACTGTCT-ATG
* *
176140 CTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTG-T-TTAGCACTGTCTATG
* * * *
176165 CTCTCTGATTAGCACTTTGTGTG
1 CTCTCTGTTTAGCACTGTCTATG
* * *
176188 CTCTCTGGTTAGCACTGTGTGTG
1 CTCTCTGTTTAGCACTGTCTATG
* * *
176211 CTCTCTGGTTAGCACTGTGTGTG
1 CTCTCTGTTTAGCACTGTCTATG
176234 CTCTCTGTT
1 CTCTCTGTT
176243 GCCCAGCACT
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
23 73 0.78
24 1 0.01
25 16 0.17
26 3 0.03
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.42
Consensus pattern (23 bp):
CTCTCTGTTTAGCACTGTCTATG
Found at i:176166 original size:25 final size:23
Alignment explanation
Indices: 176138--176240 Score: 161
Period size: 23 Copynumber: 4.4 Consensus size: 23
176128 GCACGTCTCA
176138 TGCTCTCTGTTATTAGCACTGTGTG
1 TGCTCTCTG--ATTAGCACTGTGTG
*
176163 TGCTCTCTGATTAGCACTTTGTG
1 TGCTCTCTGATTAGCACTGTGTG
*
176186 TGCTCTCTGGTTAGCACTGTGTG
1 TGCTCTCTGATTAGCACTGTGTG
*
176209 TGCTCTCTGGTTAGCACTGTGTG
1 TGCTCTCTGATTAGCACTGTGTG
176232 TGCTCTCTG
1 TGCTCTCTG
176241 TTGCCCAGCA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
23 66 0.88
25 9 0.12
ACGTcount: A:0.10, C:0.22, G:0.26, T:0.42
Consensus pattern (23 bp):
TGCTCTCTGATTAGCACTGTGTG
Found at i:177491 original size:3 final size:3
Alignment explanation
Indices: 177483--177535 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
177473 CTATAGCCTA
177483 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
177531 CAT AA
1 AAT AA
177536 ACAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:179383 original size:13 final size:13
Alignment explanation
Indices: 179367--179391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179357 TTGCTTTGCT
179367 TTTTTATTTTTTG
1 TTTTTATTTTTTG
179380 TTTTTATTTTTT
1 TTTTTATTTTTT
179392 TTGTCGTGTG
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:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTG
Found at i:197371 original size:19 final size:19
Alignment explanation
Indices: 197334--197372 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
197324 TGAATAAATT
* *
197334 ATTAAAAAAAGATATAAAA
1 ATTAAAAAAAAATAAAAAA
197353 ATTAAAAAAAAATAAAAAA
1 ATTAAAAAAAAATAAAAAA
197372 A
1 A
197373 AAATCAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
ATTAAAAAAAAATAAAAAA
Found at i:200332 original size:61 final size:60
Alignment explanation
Indices: 200258--200424 Score: 223
Period size: 60 Copynumber: 2.8 Consensus size: 60
200248 AGACACTCGA
*
200258 GGTAAAATGGTAATTTTTGGAAAAAAATCGAGGTCAAAAATGGAATTTTTGCG-AGTTTAGG
1 GGTAAAATGGTAATATTTGG-AAAAAATCGAGGTCAAAAATGGAATTTTTG-GAAGTTTAGG
* * *
200319 GGTAAAATGGTAATCTTAGGAAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTGGG
1 GGTAAAATGGTAATATTTGGAAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTAGG
* * * *
200379 GGTAAATTGGTAA-ATTTGGAAAAATTAG-GGTCAAAAATGAAATTTT
1 GGTAAAATGGTAATATTTGGAAAAAATCGAGGTCAAAAATGGAATTTT
200425 GAAAGGTTCG
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
58 17 0.18
59 12 0.12
60 49 0.51
61 18 0.19
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.31
Consensus pattern (60 bp):
GGTAAAATGGTAATATTTGGAAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTAGG
Found at i:200440 original size:58 final size:60
Alignment explanation
Indices: 200254--200443 Score: 176
Period size: 60 Copynumber: 3.2 Consensus size: 60
200244 TTCTAGACAC
* * * * **
200254 TCGA-GGTAAAATGGTAATTTTTGGAAAAAAATCGAGGTCAAAAATGGAATTTTTGCGAGT
1 TCGAGGGTAAAATGGTAATCTTAGG-AAAAAATAGAGGTCAAAAATGGAAATTTTGAAAGT
* * * *
200314 T-TAGGGGTAAAATGGTAATCTTAGGAAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGT
1 TCGA-GGGTAAAATGGTAATCTTAGGAAAAAATAGAGGTCAAAAATGGAAATTTTGAAAGT
* * * *
200374 TTGGGGGTAAATTGGTAAAT-TT-GGAAAAATTAG-GGTCAAAAAT-GAAATTTTGAAAGGT
1 TCGAGGGTAAAATGGT-AATCTTAGGAAAAAATAGAGGTCAAAAATGGAAATTTTGAAA-GT
200432 TCGAGGGTAAAA
1 TCGAGGGTAAAA
200444 ATGATTTTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
57 10 0.09
58 21 0.19
59 10 0.09
60 48 0.44
61 21 0.19
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (60 bp):
TCGAGGGTAAAATGGTAATCTTAGGAAAAAATAGAGGTCAAAAATGGAAATTTTGAAAGT
Found at i:201616 original size:12 final size:12
Alignment explanation
Indices: 201599--201707 Score: 87
Period size: 12 Copynumber: 8.9 Consensus size: 12
201589 TTAATAATAA
*
201599 TAATATTTTTAT
1 TAATATTATTAT
*
201611 TAATATTATTAA
1 TAATATTATTAT
*
201623 TGATATTTATTACCT
1 TAATA-TTATTA--T
201638 CT-AT-TTATTAT
1 -TAATATTATTAT
* *
201649 TAACACTATTAT
1 TAATATTATTAT
*
201661 TATTATTATTAT
1 TAATATTATTAT
*
201673 TATTATTATTAT
1 TAATATTATTAT
*
201685 TATTATTATTAT
1 TAATATTATTAT
*
201697 TATTATTATTA
1 TAATATTATTA
201708 ATGTTATTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
10 1 0.01
11 2 0.02
12 64 0.78
13 12 0.15
15 2 0.02
16 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (12 bp):
TAATATTATTAT
Found at i:201648 original size:16 final size:15
Alignment explanation
Indices: 201642--201695 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
201632 TTACCTCTAT
201642 TTATTATTAACACTA
1 TTATTATTAACACTA
** *
201657 TTATTATTATTATTA
1 TTATTATTAACACTA
** *
201672 TTATTATTATTATTA
1 TTATTATTAACACTA
201687 TTATTATTA
1 TTATTATTA
201696 TTATTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATTAACACTA
Found at i:201661 original size:3 final size:3
Alignment explanation
Indices: 201655--201723 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
201645 TTATTAACAC
201655 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
201703 TAT TAA TGT TATT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TA
201724 CTAAACCTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:202506 original size:6 final size:6
Alignment explanation
Indices: 202465--202561 Score: 60
Period size: 6 Copynumber: 16.2 Consensus size: 6
202455 GTTTCAAATC
* **
202465 ATTTCAA ATTT-A A-TTAA ATTTTA ATTTAA A-ACAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* **
202511 GATAGATAA ATTTAA ATTTAA GA--TAA ATTTAA ATTTAA AAATAA ATTTAA
1 -AT--TTAA ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
202561 A
1 A
202562 ACCAATTTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
4 3 0.04
5 10 0.14
6 44 0.64
7 7 0.10
8 2 0.03
9 3 0.04
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (6 bp):
ATTTAA
Found at i:202523 original size:21 final size:22
Alignment explanation
Indices: 202497--202549 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
202487 AATTTAAAAC
*
202497 AAATTTAAATTTAAGATAGA-T
1 AAATTTAAATTTAAGATAAATT
202518 AAATTTAAATTTAAGATAAATTT
1 AAATTTAAATTTAAGATAAA-TT
202541 AAATTTAAA
1 AAATTTAAA
202550 AATAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 19 0.66
23 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (22 bp):
AAATTTAAATTTAAGATAAATT
Found at i:202536 original size:17 final size:17
Alignment explanation
Indices: 202465--202561 Score: 97
Period size: 17 Copynumber: 5.4 Consensus size: 17
202455 GTTTCAAATC
*
202465 ATTTCAAATTT-AATTAA
1 ATTT-AAATTTAAAATAA
* *
202482 ATTTTAATTTAAAACAA
1 ATTTAAATTTAAAATAA
202499 ATTTAAATTTAAGATAGATAA
1 ATTTAAATTT-A-A-A-ATAA
*
202520 ATTTAAATTTAAGATAA
1 ATTTAAATTTAAAATAA
202537 ATTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
202555 ATTTAAA
1 ATTTAAA
202562 ACCAATTTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.07
17 31 0.46
18 14 0.21
19 2 0.03
20 2 0.03
21 13 0.19
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:203093 original size:97 final size:97
Alignment explanation
Indices: 202958--203595 Score: 915
Period size: 97 Copynumber: 6.6 Consensus size: 97
202948 TTCCTTAAAT
* * * **
202958 TTTCCTTTCATGTCTTTGAGGTATTAGGTTCGTTATTGCGACTTAAACCTTTCCCTTGTGTCTTC
1 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
* *
203023 GTGGTACTGGATTCGTCGTTGCGGCTTAAATC
66 GTGGTACTGGATTCGCCGTTGCGGCTTAGATC
*
203055 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGTCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
1 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
* *
203120 GTGGTACTAGATTTGCCGTTGCGGCTTAGATC
66 GTGGTACTGGATTCGCCGTTGCGGCTTAGATC
*
203152 TTTCCCTTCATGTCTCTGAGGTGCTAGGCTT-GCCATTGCGACTTAAACCTTTCCCTTGTGTCTT
1 TTTCCCTTCATGTCTCTGAGGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTT
*
203216 CGTGGTACTGGATTCGTCGTTGCGGCTTAGATC
65 CGTGGTACTGGATTCGCCGTTGCGGCTTAGATC
* *
203249 TTTCCCTTCATGTCTTTGAGGTAGTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
1 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
* *
203314 GTGGTACTGGATCCGCCATTGCGGCTTAGATC
66 GTGGTACTGGATTCGCCGTTGCGGCTTAGATC
* * *
203346 TTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTACGACTTAAACCTTTCCCTTCTGTCTTC
1 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
* *
203411 GTGGTACTGGATCCGCCGTTGCAGCTTAGATC
66 GTGGTACTGGATTCGCCGTTGCGGCTTAGATC
* * * *
203443 TTTCCCCTCATGTTTCTGAGGTACTAGGTTCGTCATTGCGACTTAAAACTTTCCCTTGTGTCTTC
1 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
* * *
203508 GTGGTACTGGATTCACTGTTGCGGCTTAAATC
66 GTGGTACTGGATTCGCCGTTGCGGCTTAGATC
* * * * * *
203540 TTTCCCTT-GTGTCT-TCGTGGTACT-GGATCCGCCGTTGCGACTTAGATCTTTCCCTT
1 TTTCCCTTCATGTCTCT-GAGGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCCTT
203596 CATGTCTTTG
Statistics
Matches: 490, Mismatches: 47, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
95 3 0.01
96 37 0.08
97 448 0.91
98 2 0.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (97 bp):
TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTC
GTGGTACTGGATTCGCCGTTGCGGCTTAGATC
Found at i:203627 original size:97 final size:97
Alignment explanation
Indices: 203526--203740 Score: 306
Period size: 97 Copynumber: 2.2 Consensus size: 97
203516 GGATTCACTG
* * * *
203526 TTGCGGCTTAAATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTTGCGACTTAGATCTTT
1 TTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCATTGCGACTTAAATCTTT
* * * * *
203591 CCCTTCATG-TCTTTGAGGTACTAGGTTTGTTA
66 CCCTTCATGAT-TCTGAGGTACAAGATTCGTCA
* * *
203623 TTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCTATTGTGGCTTAAATCTTT
1 TTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCATTGCGACTTAAATCTTT
203688 CCCTTCATGATTCTGAGGTACAAGATTCGTCA
66 CCCTTCATGATTCTGAGGTACAAGATTCGTCA
203720 TTGCGACTTAAACCTTTCCCT
1 TTGCGACTTAAACCTTTCCCT
203741 CCACATCTTC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 104 0.99
98 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (97 bp):
TTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCATTGCGACTTAAATCTTT
CCCTTCATGATTCTGAGGTACAAGATTCGTCA
Found at i:203651 original size:145 final size:144
Alignment explanation
Indices: 202993--203692 Score: 668
Period size: 145 Copynumber: 4.8 Consensus size: 144
202983 AGGTTCGTTA
* * * * * * * * *
202993 TTGCGACTTAAACCTTTCCCTT-GTGTCTTCGTGGTACT-GGATTCGTCGTTGCGGCTTAAATCT
1 TTGCGACTTAGATCTTTCCCTTCATGTCTTTGAGGTACTAGG-TTCGCCATTGCGACTTAAACCT
* * * * *
203056 TTCCCTTCATGTC-TCTGAGGTACTAGG-TTCGTCATTGCGACTTAAACCTTTCCCTTGTGTCTT
65 TTCCCTT-GTGTCTTC-GTGGTACT-GGATTCCT-ATTGCGGCTTAAATCTTTCCCTTGTGTCTT
* **
203119 CGTGGTACTAGATTTGCCG
126 CGTGGTACTGGATCCGCCG
* * *
203138 TTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTGCTAGGCTT-GCCATTGCGACTTAAACCT
1 TTGCGACTTAGATCTTTCCCTTCATGTCTTTGAGGTACTAGG-TTCGCCATTGCGACTTAAACCT
* * * * *
203202 TTCCCTTGTGTCTTCGTGGTACTGGATTCGTCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTTG
65 TTCCCTTGTGTCTTCGTGGTACTGGATTCCT-ATTGCGGCTTAAATCTTTCCCTT-GTGTCTTCG
* * * *
203267 AGGTAGTAGG-TTCGCCA
128 TGGTACT-GGATCCGCCG
* * * * * * * * *
203284 TTGCGACTTAAACCTTTCCCTT-GTGTCTTCGTGGTACT-GGATCCGCCATTGCGGCTTAGATCT
1 TTGCGACTTAGATCTTTCCCTTCATGTCTTTGAGGTACTAGG-TTCGCCATTGCGACTTAAACCT
* * * * * * *
203347 TTCCCTTCATGTC-TCTGAGGTACTAGGTTTGCC-ATTACGACTTAAACCTTTCCCTTCTGTCTT
65 TTCCCTT-GTGTCTTC-GTGGTACT-GGATT-CCTATTGCGGCTTAAATCTTTCCCTTGTGTCTT
203410 CGTGGTACTGGATCCGCCG
126 CGTGGTACTGGATCCGCCG
* * *
203429 TTGC-AGCTTAGATCTTTCCCCTCATGT-TTCTGAGGTACTAGGTTCGTCATTGCGACTTAAAAC
1 TTGCGA-CTTAGATCTTTCCCTTCATGTCTT-TGAGGTACTAGGTTCGCCATTGCGACTTAAACC
*
203492 TTTCCCTTGTGTCTTCGTGGTACTGGATTCACTGTTGCGGCTTAAATCTTTCCCTTGTGTCTTCG
64 TTTCCCTTGTGTCTTCGTGGTACTGGATTC-CTATTGCGGCTTAAATCTTTCCCTTGTGTCTTCG
203557 TGGTACTGGATCCGCCG
128 TGGTACTGGATCCGCCG
* **
203574 TTGCGACTTAGATCTTTCCCTTCATGTCTTTGAGGTACTAGGTTTGTTATTGCGACTTAAACCTT
1 TTGCGACTTAGATCTTTCCCTTCATGTCTTTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTT
* *
203639 TCCCTTGTGTCTTCGTGGTACTGGATCCGCTATTGTGGCTTAAATCTTTCCCTT
66 TCCCTTGTGTCTTCGTGGTACTGGATTC-CTATTGCGGCTTAAATCTTTCCCTT
203693 CATGATTCTG
Statistics
Matches: 453, Mismatches: 81, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
143 1 0.00
144 13 0.03
145 288 0.64
146 139 0.31
147 11 0.02
148 1 0.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (144 bp):
TTGCGACTTAGATCTTTCCCTTCATGTCTTTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTT
TCCCTTGTGTCTTCGTGGTACTGGATTCCTATTGCGGCTTAAATCTTTCCCTTGTGTCTTCGTGG
TACTGGATCCGCCG
Found at i:215755 original size:60 final size:57
Alignment explanation
Indices: 215656--216013 Score: 314
Period size: 60 Copynumber: 6.1 Consensus size: 57
215646 ATTCAGGGGA
* * * *
215656 AAAATGGTAA-TTTT-GAGAAGTTCAAGGTCAAAAACGGAATTTTTAGACACTCGAGGGT
1 AAAATGGTAATTTTTGGAAAAATT-AAGGTCAAAAATGGAATTTTT-GA-AGTCGAGGGT
* *
215714 AAAATGGTAA-TTTTGGAAAAAATTCAAGGTCAAAAATGGAATTTTTGGGAGTTTGAGGGT
1 AAAATGGTAATTTTTGG-AAAAATT-AAGGTCAAAAATGGAATTTTT-GAAG-TCGAGGGT
* ** * *
215774 AAAATGCTAATTTTTGGAAAAAAAATTGGGGTTAAAAAT-GAAATTTTGAAAGTCGAGGGT
1 AAAATGGTAATTTTTGG---AAAAATTAAGGTCAAAAATGGAATTTTTG-AAGTCGAGGGT
* ** * * **
215834 AAAATGGTAATTTTTGGAAAAGTTGGGGT-TAAAATGAAATTTTTGAGAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGA-AGTCGA-GGGT
* * *
215892 AAAATGGTAATTTTTGGAAAAAATCAAGGTCAAAAATGAAATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGG-AAAAATTAAGGTCAAAAATGGAATTTTT-GAAG-TCGAGGGT
*
215952 AAAATGGTAA-TTTTGGAAAAATTAAGGTCAAAAATGGAATTTTGGAAGGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGAA-G-TCGAGGGT
216010 AAAA
1 AAAA
216014 ATGATTTCTG
Statistics
Matches: 252, Mismatches: 33, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
56 6 0.02
57 25 0.10
58 73 0.29
59 16 0.06
60 97 0.38
61 18 0.07
62 9 0.04
63 8 0.03
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (57 bp):
AAAATGGTAATTTTTGGAAAAATTAAGGTCAAAAATGGAATTTTTGAAGTCGAGGGT
Found at i:215868 original size:118 final size:118
Alignment explanation
Indices: 215677--216013 Score: 389
Period size: 118 Copynumber: 2.8 Consensus size: 118
215667 TTTGAGAAGT
* * * *
215677 TCAAGGTCAAAAACGGAATTTTTAGACA-CTCGAGGGTAAAATGGTAATTTTGGAAAAAATTCAA
1 TCAAGGTCAAAAATGAAATTTTT-GAAAGTTCGAGGGTAAAATGGTAATTTTGG-AAAAATT-AA
215741 GGTCAAAAATGGAATTTTTGGGAGTTTGAGGGTAAAATGCTAATTTTTGGAAAAAAAA
63 GGTCAAAAATGGAATTTTTGGGAGTTTGAGGGTAAAATGCTAATTTTTGG--AAAAAA
*** * * **
215799 TTGGGGTTAAAAATGAAA-TTTTGAAAG-TCGAGGGTAAAATGGTAATTTTTGGAAAAGTTGGGG
1 TCAAGGTCAAAAATGAAATTTTTGAAAGTTCGAGGGTAAAATGGTAA-TTTTGGAAAAATTAAGG
* * * *
215862 T-TAAAATGAAATTTTTGAGAGTTT-AGGGGTAAAATGGTAATTTTTGGAAAAAA
65 TCAAAAATGGAATTTTTGGGAGTTTGA-GGGTAAAATGCTAATTTTTGGAAAAAA
* *
215915 TCAAGGTCAAAAATGAAATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTGGAAAAATTAAGGT
1 TCAAGGTCAAAAATGAAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATTAAGGT
* *
215980 CAAAAATGGAA-TTTTGGAAGGTTCGAGGGTAAAA
66 CAAAAATGGAATTTTTGGGA-GTTTGAGGGTAAAA
216014 ATGATTTCTG
Statistics
Matches: 179, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
116 20 0.11
117 30 0.17
118 76 0.42
119 4 0.02
120 27 0.15
121 10 0.06
122 12 0.07
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (118 bp):
TCAAGGTCAAAAATGAAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATTAAGGT
CAAAAATGGAATTTTTGGGAGTTTGAGGGTAAAATGCTAATTTTTGGAAAAAA
Found at i:215965 original size:29 final size:29
Alignment explanation
Indices: 215817--215969 Score: 95
Period size: 28 Copynumber: 5.3 Consensus size: 29
215807 AAAAATGAAA
* *
215817 TTTTGAAAG-TCGAGGGTAAAATGGTAAT
1 TTTTGGAAGTTCGGGGGTAAAATGGTAAT
* *
215845 TTTTGGAAAAGTT-GGGGTTAAAAT-GAAAT
1 TTTTGG--AAGTTCGGGGGTAAAATGGTAAT
**
215874 TTTT-GAGAGTTTAGGGGTAAAATGGTAAT
1 TTTTGGA-AGTTCGGGGGTAAAATGGTAAT
** ** *
215903 TTTTGGAAAAAATC-AAGGTCAAAAAT-GAAAT
1 TTTTGG--AAGTTCGGGGGT--AAAATGGTAAT
215934 TTTTGGAAGTTCGGGGGTAAAATGGTAA-
1 TTTTGGAAGTTCGGGGGTAAAATGGTAAT
215962 TTTTGGAA
1 TTTTGGAA
215970 AAATTAAGGT
Statistics
Matches: 94, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
26 1 0.01
27 4 0.04
28 28 0.30
29 23 0.24
30 19 0.20
31 13 0.14
32 6 0.06
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
TTTTGGAAGTTCGGGGGTAAAATGGTAAT
Found at i:216013 original size:29 final size:28
Alignment explanation
Indices: 215806--216016 Score: 82
Period size: 30 Copynumber: 7.3 Consensus size: 28
215796 AAATTGGGGT
* *
215806 TAAAAATGAAATTTTGAAAG-TCGAGGG
1 TAAAAATGGAATTTTGGAAGTTCGAGGG
215833 T-AAAATGGTAATTTTTGGAAAAGTT-G-GGG
1 TAAAAATGG-AA-TTTTGG--AAGTTCGAGGG
* * * *
215862 TTAAAATGAAATTTTTGAGAGTT-TAGGGG
1 TAAAAATGGAATTTTGGA-AGTTCGA-GGG
** *
215891 T-AAAATGGTAATTTTTGGAAAAAATC-AAGG
1 TAAAAATGG-AA-TTTTGG--AAGTTCGAGGG
* *
215921 TCAAAAATGAAATTTTTGGAAGTTCGGGGG
1 T-AAAAATGGAA-TTTTGGAAGTTCGAGGG
* *
215951 T-AAAATGGTAATTTTGGAAAAATT--AAGG
1 TAAAAATGG-AATTTTGG--AAGTTCGAGGG
215979 TCAAAAATGGAATTTTGGAAGGTTCGAGGG
1 T-AAAAATGGAATTTTGGAA-GTTCGAGGG
216009 TAAAAATG
1 TAAAAATG
216017 ATTTCTGAAC
Statistics
Matches: 138, Mismatches: 21, Indels: 48
0.67 0.10 0.23
Matches are distributed among these distances:
26 7 0.05
27 9 0.07
28 33 0.24
29 33 0.24
30 36 0.26
31 13 0.09
32 7 0.05
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.31
Consensus pattern (28 bp):
TAAAAATGGAATTTTGGAAGTTCGAGGG
Found at i:216552 original size:29 final size:31
Alignment explanation
Indices: 216520--216586 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
216510 AAACTTCAAC
*
216520 AAAAAA-TCATTTCTT-CCTTTTGTTT-TCTA
1 AAAAAACTCATTCCTTCCCTTTT-TTTCTCTA
*
216549 AAAAAACTCCTTCCTTCCCTTTTTTTCTCTA
1 AAAAAACTCATTCCTTCCCTTTTTTTCTCTA
*
216580 AACAAAC
1 AAAAAAC
216587 ACCCCATGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.19
30 10 0.31
31 16 0.50
ACGTcount: A:0.30, C:0.25, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAAAACTCATTCCTTCCCTTTTTTTCTCTA
Found at i:217223 original size:3 final size:3
Alignment explanation
Indices: 217215--217241 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
217205 TTACCTCTAT
217215 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
217242 CTAAACCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:217922 original size:19 final size:19
Alignment explanation
Indices: 217898--217940 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
217888 GTAATTAGAC
217898 ATTTTGTAATTGGACTTTT
1 ATTTTGTAATTGGACTTTT
217917 ATTTTGTAATTGGACTTTT
1 ATTTTGTAATTGGACTTTT
217936 ATTTT
1 ATTTT
217941 AGACATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (19 bp):
ATTTTGTAATTGGACTTTT
Found at i:218008 original size:6 final size:6
Alignment explanation
Indices: 217984--218062 Score: 58
Period size: 6 Copynumber: 13.2 Consensus size: 6
217974 GTTTTAAATC
**
217984 ATTTCAA ATTT-A A-TTAA ATTTAA ATTTAA A-ACAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* *
218030 GATAGATAA ATTTAA ATTTAA A-ATAA ATTTAA A
1 -AT--TTAA ATTTAA ATTTAA ATTTAA ATTTAA A
218063 ACCAATTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
4 2 0.04
5 11 0.19
6 33 0.58
7 6 0.11
8 2 0.04
9 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (6 bp):
ATTTAA
Found at i:218019 original size:17 final size:17
Alignment explanation
Indices: 217984--218062 Score: 88
Period size: 17 Copynumber: 4.4 Consensus size: 17
217974 GTTTTAAATC
*
217984 ATTTCAAATTT-AATTAA
1 ATTT-AAATTTAAAATAA
*
218001 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAATAA
218018 ATTTAAATTTAAGATAGATAA
1 ATTTAAATTT-A-A-A-ATAA
218039 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
218056 ATTTAAA
1 ATTTAAA
218063 ACCAATTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.11
17 29 0.54
18 2 0.04
19 2 0.04
20 2 0.04
21 13 0.24
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:218417 original size:12 final size:12
Alignment explanation
Indices: 218402--218427 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
218392 TATTAGTTTT
218402 TATTTAAAAATA
1 TATTTAAAAATA
218414 TATTTAAAAATA
1 TATTTAAAAATA
218426 TA
1 TA
218428 ATGCACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTTAAAAATA
Done.