Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 206 of 222
Found at i:65301302 original size:92 final size:92
Alignment explanation
Indices: 65301194--65301378 Score: 277
Period size: 92 Copynumber: 2.0 Consensus size: 92
65301184 TATTTTATGA
* *
65301194 ATATAATTTAAAATAA-TAATAATTACATATAATTTAATAATTAATAT-TAAATTTCATAAAATT
1 ATATAATTTAAAATAATTAAT-ATTAAATATAATTTAAT-AGTAATATAT-AATTTCATAAAATT
* *
65301257 CTTGATAAT-AAATTTTCTTATATGAATTT
63 CTTAATAATAAAATGTTCTTATATGAATTT
*
65301286 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTT
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCATAAAATTCTT
65301351 AATAATAAAATGTTCTTATATGAATTT
66 AATAATAAAATGTTCTTATATGAATTT
65301378 A
1 A
65301379 CTAAAATCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 28 0.33
92 53 0.62
93 4 0.05
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCATAAAATTCTT
AATAATAAAATGTTCTTATATGAATTT
Found at i:65304374 original size:12 final size:12
Alignment explanation
Indices: 65304357--65304381 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65304347 GGTGTTCATT
65304357 CGGTTAACCGAC
1 CGGTTAACCGAC
65304369 CGGTTAACCGAC
1 CGGTTAACCGAC
65304381 C
1 C
65304382 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:65304553 original size:9 final size:9
Alignment explanation
Indices: 65304539--65304605 Score: 100
Period size: 9 Copynumber: 7.4 Consensus size: 9
65304529 TTTGGTTAAA
65304539 AATTACCCG
1 AATTACCCG
65304548 AATTACCCG
1 AATTACCCG
65304557 AATTACCCG
1 AATTACCCG
65304566 AATTACCCG
1 AATTACCCG
*
65304575 AATTAACCG
1 AATTACCCG
65304584 AATTA-CCG
1 AATTACCCG
*
65304592 AAAATACCCG
1 -AATTACCCG
65304602 AATT
1 AATT
65304606 TTTTTTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
8 3 0.06
9 47 0.89
10 3 0.06
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:65312911 original size:17 final size:18
Alignment explanation
Indices: 65312891--65312957 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
65312881 TATGAAAAAT
*
65312891 ATAATTTCTA-ATTTTTA
1 ATAATTTATACATTTTTA
* *
65312908 ATAATTTATATATTTCT-
1 ATAATTTATACATTTTTA
*
65312925 ATAATTTTTACATTTTATA
1 ATAATTTATACATTTT-TA
65312944 AT-ATTTATA-ATTTT
1 ATAATTTATACATTTT
65312958 AAAGCTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
17 27 0.66
18 12 0.29
19 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
ATAATTTATACATTTTTA
Found at i:65312914 original size:10 final size:9
Alignment explanation
Indices: 65312899--65312957 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
65312889 ATATAATTTC
65312899 TAATTTTTAA
1 TAATTTTT-A
*
65312909 TAATTTATA
1 TAATTTTTA
*
65312918 T-ATTTCTA
1 TAATTTTTA
65312926 TAATTTTTA
1 TAATTTTTA
*
65312935 -CA-TTTTA
1 TAATTTTTA
*
65312942 TAATATTTA
1 TAATTTTTA
65312951 TAATTTT
1 TAATTTT
65312958 AAAGCTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
7 5 0.13
8 9 0.23
9 18 0.46
10 7 0.18
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:65312934 original size:27 final size:25
Alignment explanation
Indices: 65312894--65312957 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
65312884 GAAAAATATA
*
65312894 ATTTCTAATTTTTA-ATAATTTAT-AT
1 ATTTATAATTTTTACAT--TTTATAAT
65312919 ATTTCTATAATTTTTACATTTTATAAT
1 A-TT-TATAATTTTTACATTTTATAAT
65312946 ATTTATAATTTT
1 ATTTATAATTTT
65312958 AAAGCTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 10 0.29
26 9 0.26
27 13 0.38
28 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTATAATTTTTACATTTTATAAT
Found at i:65313302 original size:17 final size:17
Alignment explanation
Indices: 65313270--65313316 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
65313260 TAATTCTTTT
65313270 ATAATTTTTAATATATTTA
1 ATAA-TTTT-ATATATTTA
65313289 A-ATATTTTATATATTTA
1 ATA-ATTTTATATATTTA
65313306 ATAATTTTATA
1 ATAATTTTATA
65313317 ATTCTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 18 0.69
18 6 0.23
19 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATAATTTTATATATTTA
Found at i:65313312 original size:8 final size:9
Alignment explanation
Indices: 65313276--65313312 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
65313266 TTTTATAATT
65313276 TTTAATATA
1 TTTAATATA
65313285 TTTAA-ATA
1 TTTAATATA
*
65313293 TTTTATATA
1 TTTAATATA
65313302 TTTAATA-A
1 TTTAATATA
65313310 TTT
1 TTT
65313313 TATAATTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 11 0.44
9 14 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAATATA
Found at i:65314521 original size:3 final size:3
Alignment explanation
Indices: 65314513--65314540 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
65314503 CAAAATTTGT
65314513 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
65314541 TTAAGTTATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:65319974 original size:19 final size:20
Alignment explanation
Indices: 65319950--65319987 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
65319940 TAAATTTTCC
65319950 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTCTTTCTTTCCCTT
65319969 TTTTCTTCTTTCTTTCCCT
1 TTTTCTTCTTTCTTTCCCT
65319988 ACTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTTCTTTCCCTT
Found at i:65319977 original size:16 final size:17
Alignment explanation
Indices: 65319948--65319980 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
65319938 CCTAAATTTT
*
65319948 CCTTTTCTTTTTCTTTC
1 CCTTTTCTTCTTCTTTC
65319965 CCTTTT-TTCTTCTTTC
1 CCTTTTCTTCTTCTTTC
65319981 TTTCCCTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CCTTTTCTTCTTCTTTC
Found at i:65320062 original size:24 final size:23
Alignment explanation
Indices: 65320035--65320085 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
65320025 TTTATTTCTT
65320035 TTATTTATTATAACTATTAT-ATTA
1 TTATTTATTATAA--ATTATAATTA
*
65320059 TTA--TATTTTAAATTATAATTA
1 TTATTTATTATAAATTATAATTA
65320080 TTATTT
1 TTATTT
65320086 CTTAGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 7 0.30
23 1 0.04
24 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATTATAAATTATAATTA
Found at i:65320097 original size:21 final size:21
Alignment explanation
Indices: 65320055--65320097 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65320045 TAACTATTAT
*
65320055 ATTATTATATTTTAAATTATA
1 ATTATTATATTTTAAATAATA
*
65320076 ATTATTAT-TTCTTAGATAATA
1 ATTATTATATT-TTAAATAATA
65320097 A
1 A
65320098 GTAAATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATTATATTTTAAATAATA
Found at i:65320662 original size:79 final size:79
Alignment explanation
Indices: 65320577--65320805 Score: 379
Period size: 79 Copynumber: 2.9 Consensus size: 79
65320567 TTCATTTTTT
** * *
65320577 TCTTCTCATTTTCTCCACTTTCAAATACCATTTTCTTGTTTCTAAATTGATGAGCATATTCTCTA
1 TCTTCTCATTTTCTCCACTTTCATCTACTATTTTCTTGCTTCTAAATTGATGAGCATATTCTCTA
65320642 GAATCTCTACTTCA
66 GAATCTCTACTTCA
* *
65320656 TCTTCTCATTTTCCCCACTTTCATCTACTATTTTCTTTGCTTCTAAATTGATGAGCATGTTCTCT
1 TCTTCTCATTTTCTCCACTTTCATCTACTATTTTC-TTGCTTCTAAATTGATGAGCATATTCTCT
65320721 A-AATCTCTACTTCA
65 AGAATCTCTACTTCA
*
65320735 TCTTCTCATTTTGTCCACTTTCATCTACTATTTTCTTGCTTCTAAATTGATGAGCATATTCTCTA
1 TCTTCTCATTTTCTCCACTTTCATCTACTATTTTCTTGCTTCTAAATTGATGAGCATATTCTCTA
65320800 GAATCT
66 GAATCT
65320806 TAAAAATTTT
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
78 29 0.21
79 82 0.59
80 28 0.20
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (79 bp):
TCTTCTCATTTTCTCCACTTTCATCTACTATTTTCTTGCTTCTAAATTGATGAGCATATTCTCTA
GAATCTCTACTTCA
Found at i:65323781 original size:6 final size:6
Alignment explanation
Indices: 65323756--65323841 Score: 83
Period size: 6 Copynumber: 14.7 Consensus size: 6
65323746 AATAAAGTTT
*
65323756 AAAATA AAAA-A ATAATATA AAAATA AAAATA AAAATA AAAATA AAGAT-
1 AAAATA AAAATA A-AA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
65323804 -AAATA AAGATA AAAATA AAAA-A ATAAA-A AAAACA AAAA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAA
65323842 AAACAAAGAT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
4 3 0.04
5 7 0.10
6 54 0.78
7 3 0.04
8 2 0.03
ACGTcount: A:0.81, C:0.01, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:65323807 original size:22 final size:20
Alignment explanation
Indices: 65323756--65323844 Score: 98
Period size: 22 Copynumber: 4.5 Consensus size: 20
65323746 AATAAAGTTT
*
65323756 AAAATAAAAAAAT-AATATA
1 AAAATAAAAAAATAAAAATA
65323775 AAAAT--AAAAATAAAAATA
1 AAAATAAAAAAATAAAAATA
*
65323793 AAAATAAAGATAAATAAAGATA
1 AAAATAAA-A-AAATAAAAATA
65323815 AAAATAAAAAAATAAAAA-A
1 AAAATAAAAAAATAAAAATA
65323834 AACAA-AAAAAA
1 AA-AATAAAAAA
65323845 CAAAGATAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
17 6 0.10
18 10 0.16
19 14 0.23
20 11 0.18
21 2 0.03
22 18 0.30
ACGTcount: A:0.82, C:0.01, G:0.02, T:0.15
Consensus pattern (20 bp):
AAAATAAAAAAATAAAAATA
Found at i:65323829 original size:48 final size:47
Alignment explanation
Indices: 65323757--65323853 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 47
65323747 ATAAAGTTTA
* * *
65323757 AAATAAAAAAATAATATAAAAATAAAAATAAA-AATAAAAATAAAGAT
1 AAATAAAAAAATAATAAAAAAATAAAAA-AAACAAAAAAAACAAAGAT
65323804 AAATAAAGATAAA-AATAAAAAAATAAAAAAAACAAAAAAAACAAAGAT
1 AAATAAA-A-AAATAATAAAAAAATAAAAAAAACAAAAAAAACAAAGAT
65323852 AA
1 AA
65323854 TAGACTCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
47 10 0.23
48 31 0.70
49 3 0.07
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.14
Consensus pattern (47 bp):
AAATAAAAAAATAATAAAAAAATAAAAAAAACAAAAAAAACAAAGAT
Found at i:65323840 original size:16 final size:15
Alignment explanation
Indices: 65323756--65323844 Score: 63
Period size: 16 Copynumber: 5.5 Consensus size: 15
65323746 AATAAAGTTT
*
65323756 AAAATAAAAAAATAA
1 AAAAAAAAAAAATAA
*
65323771 TATAAAAATAAAAATAA
1 -A-AAAAAAAAAAATAA
65323788 AAATAAAAATAAAGATAA
1 AAA-AAAAA-AAA-ATAA
* *
65323806 ATAAAGATAAAAATAA
1 A-AAAAAAAAAAATAA
65323822 AAAAATAAAAAAA-ACA
1 AAAAA-AAAAAAATA-A
65323838 AAAAAAA
1 AAAAAAA
65323845 CAAAGATAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
15 8 0.14
16 23 0.39
17 18 0.31
18 8 0.14
19 2 0.03
ACGTcount: A:0.82, C:0.01, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAAAAAAAAATAA
Found at i:65324657 original size:247 final size:235
Alignment explanation
Indices: 65324208--65324667 Score: 692
Period size: 247 Copynumber: 1.9 Consensus size: 235
65324198 CTGAGGGGTA
* *
65324208 TCTGGCCGACGAGGGTAGTGTAATGCTGTTCGGTGTGTGAGAAGATGAAGTGTCAGGGATGAGTT
1 TCTGGCCGACGAGGGTAGTGTAATGCTGTCCGGTGTGTGAGAAGATGAAGTGTCAGCGATGAGTT
*
65324273 ACATAAGGGCCTAAAGATGGACTCTTCCTGTGACGATTTCTCTAGTTGCGAAGGCGAGAGTAATG
66 ACATAAGGGCCTAAAGATGGACTCTTCCTGTGACGATTTCTCTAGTTGCGAAGGCGAGAGCAATG
65324338 AAATAAGCTAAGTAAAATATATGGCTAGTTGCCATGCTCAGAGATAGTACGCGTCAGTAGTGCCA
131 AAATAAGC-AAG-AAAATATATGGCTAGTTGCCATGCTCAGAGATAGTACGCGTCAGTAGTGCCA
65324403 CACTCCTGTGCTCTCTCTTCTCCATGCTCACAACTCCTGTGC
194 CACTCCTGTGCTCTCTCTTCTCCATGCTCACAACTCCTGTGC
*
65324445 TCTGGCCGACGAGGGTAAGTGTCATGACTGCTCCGGTGTGTCGAGAAGATCGAAGTGTCGAGCGA
1 TCTGGCCGACGAGGGT-AGTGTAATG-CTG-TCCGGTGTGT-GAGAAGAT-GAAGTGTC-AGCGA
65324510 GTGAGTTACATAAGGGCCTAGACAGATGGGACTCTTCCTGTGACGATTTCTCTAGTTGCGAAAAG
60 -TGAGTTACATAAGGGCCTA-A-AGAT-GGACTCTTCCTGTGACGATTTCTCTAGTTGCG--AAG
* *
65324575 GCGAGAGCAATG-AATAAGC-AG-GAATATGTGGCTAGTTGCCATGCTCCAGAGATAGTACGCGT
119 GCGAGAGCAATGAAATAAGCAAGAAAATATATGGCTAGTTGCCATGCT-CAGAGATAGTACGCGT
65324637 CAGTAGTGCTCACAACTCCTGTGCTCTCTCT
183 CAGTAGTGC-CAC-ACTCCTGTGCTCTCTCT
65324668 CTAGTCAAAG
Statistics
Matches: 202, Mismatches: 6, Indels: 20
0.89 0.03 0.09
Matches are distributed among these distances:
237 16 0.08
238 8 0.04
239 3 0.01
240 9 0.04
241 8 0.04
242 8 0.04
243 4 0.02
244 41 0.20
245 26 0.13
246 9 0.04
247 49 0.24
248 7 0.03
249 14 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (235 bp):
TCTGGCCGACGAGGGTAGTGTAATGCTGTCCGGTGTGTGAGAAGATGAAGTGTCAGCGATGAGTT
ACATAAGGGCCTAAAGATGGACTCTTCCTGTGACGATTTCTCTAGTTGCGAAGGCGAGAGCAATG
AAATAAGCAAGAAAATATATGGCTAGTTGCCATGCTCAGAGATAGTACGCGTCAGTAGTGCCACA
CTCCTGTGCTCTCTCTTCTCCATGCTCACAACTCCTGTGC
Found at i:65325292 original size:8 final size:8
Alignment explanation
Indices: 65325272--65325315 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
65325262 AAACCAACAG
65325272 AATAA-AT
1 AATAATAT
65325279 AGATAATAT
1 A-ATAATAT
65325288 AAT-A-AT
1 AATAATAT
65325294 AAT-ATAT
1 AATAATAT
65325301 AATAATAT
1 AATAATAT
65325309 AATAATA
1 AATAATA
65325316 AATTGAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 6 0.18
7 7 0.21
8 17 0.52
9 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:65325294 original size:3 final size:3
Alignment explanation
Indices: 65325276--65325316 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
65325266 CAACAGAATA
65325276 AAT AGAT AAT -AT AAT AAT AAT ATAT AAT AAT -AT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
65325317 ATTGAATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.12
3 24 0.71
4 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:65336132 original size:15 final size:15
Alignment explanation
Indices: 65336100--65336144 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
65336090 GCTTTTATGA
*
65336100 AATTATATTCACTATT
1 AATTATATTTA-TATT
65336116 AATTATATTTATATT
1 AATTATATTTATATT
65336131 AATTAT-TTTA-ATT
1 AATTATATTTATATT
65336144 A
1 A
65336145 TATAATTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 4 0.14
14 4 0.14
15 10 0.36
16 10 0.36
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTATATTTATATT
Found at i:65336137 original size:22 final size:23
Alignment explanation
Indices: 65336102--65336147 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
65336092 TTTTATGAAA
*
65336102 TTATATTCACTA-TTAATTATAT
1 TTATATTAACTATTTAATTATAT
*
65336124 TTATATTAATTATTTTAATTATAT
1 TTATATTAACTA-TTTAATTATAT
65336148 AATTCATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATTAACTATTTAATTATAT
Found at i:65338670 original size:15 final size:16
Alignment explanation
Indices: 65338645--65338679 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
65338635 GATTTGCTAT
65338645 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
65338661 TACA-CTCTAATCTAA
1 TACACCTCTAATCCAA
65338676 TACA
1 TACA
65338680 GCGAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:65350222 original size:25 final size:24
Alignment explanation
Indices: 65350194--65350282 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 24
65350184 ATTCGAGAAT
*
65350194 GCTCATACGAGCACATAAACAGGAA
1 GCTCATGCGAGC-CATAAACAGGAA
* **
65350219 GCTCTTTTGAGCCATATAACAGGAA
1 GCTCATGCGAGCCATA-AACAGGAA
* *
65350244 GCTCATGTGAGCCATGTAACAGGAA
1 GCTCATGCGAGCCAT-AAACAGGAA
65350269 GCTCATGCGAGCCA
1 GCTCATGCGAGCCA
65350283 ATATCAGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 4 0.07
25 51 0.93
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (24 bp):
GCTCATGCGAGCCATAAACAGGAA
Found at i:65350304 original size:24 final size:24
Alignment explanation
Indices: 65350213--65350344 Score: 113
Period size: 25 Copynumber: 5.4 Consensus size: 24
65350203 AGCACATAAA
* ** *
65350213 CAGGAAGCTCTTTTGAGCCATATAA
1 CAGGAAGCTCATGAGAGCCA-ATAT
* * *
65350238 CAGGAAGCTCATGTGAGCCATGTAA
1 CAGGAAGCTCATGAGAGCCA-ATAT
*
65350263 CAGGAAGCTCATGCGAGCCAATAT
1 CAGGAAGCTCATGAGAGCCAATAT
* *
65350287 CAGGAAGTTCAAGAGAGCCAATAT
1 CAGGAAGCTCATGAGAGCCAATAT
* *
65350311 CGGGAAGCTC-TGGAGAGCCATTAAT
1 CAGGAAGCTCAT-GAGAGCCAAT-AT
65350336 CAGGAAGCT
1 CAGGAAGCT
65350345 TATAAAAGCT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
24 40 0.44
25 51 0.56
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (24 bp):
CAGGAAGCTCATGAGAGCCAATAT
Found at i:65350383 original size:25 final size:24
Alignment explanation
Indices: 65350300--65350406 Score: 69
Period size: 25 Copynumber: 4.3 Consensus size: 24
65350290 GAAGTTCAAG
* * *
65350300 AGAGCCAATATCGGGAAGCTCTGG
1 AGAGCCATTATCGGAAAGCTCTGA
*
65350324 AGAGCCATTAATCAGG-AAGCT-TATA
1 AGAGCCATT-ATC-GGAAAGCTCT-GA
* *
65350349 AAAGCTAGTTATCGGAAAGCTCTGA
1 AGAGCCA-TTATCGGAAAGCTCTGA
65350374 AGAGCCAGTTATC-GAGAAGCTC-GCA
1 AGAGCCA-TTATCGGA-AAGCTCTG-A
65350399 AGAGCCAT
1 AGAGCCAT
65350407 ATAACGGGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
24 15 0.22
25 47 0.70
26 5 0.07
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
AGAGCCATTATCGGAAAGCTCTGA
Found at i:65350523 original size:25 final size:25
Alignment explanation
Indices: 65350489--65350536 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65350479 GATCACAACC
65350489 AATCAGGATGCTCATAAGAGCTATG
1 AATCAGGATGCTCATAAGAGCTATG
* * *
65350514 AATCGGGATGCTTATGAGAGCTA
1 AATCAGGATGCTCATAAGAGCTA
65350537 ATAATGGAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (25 bp):
AATCAGGATGCTCATAAGAGCTATG
Found at i:65355308 original size:20 final size:22
Alignment explanation
Indices: 65355286--65355333 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
65355276 TATTTAAAAT
65355286 AAATAATATAAA-A-TTTTAATA
1 AAAT-ATATAAATAGTTTTAATA
*
65355307 AAATTTATAAATAGTTTTAATA
1 AAATATATAAATAGTTTTAATA
65355329 AAATA
1 AAATA
65355334 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATAAATAGTTTTAATA
Found at i:65368486 original size:22 final size:21
Alignment explanation
Indices: 65368448--65368494 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
65368438 TATTGAATAT
*
65368448 AATTAAAATATATTAATTTATA
1 AATTAAAATATATTAATATA-A
*
65368470 AATTCAAATAT-TATAATATAA
1 AATTAAAATATAT-TAATATAA
65368491 AATT
1 AATT
65368495 TTAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAAATATATTAATATAA
Found at i:65370672 original size:12 final size:13
Alignment explanation
Indices: 65370645--65370673 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
65370635 CGTTCGTTTT
65370645 ATTTTACTTCTAA
1 ATTTTACTTCTAA
65370658 ATTTTACTT-TAA
1 ATTTTACTTCTAA
65370670 ATTT
1 ATTT
65370674 CAGTCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTACTTCTAA
Found at i:65373624 original size:25 final size:25
Alignment explanation
Indices: 65373596--65373674 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
65373586 AGCTCCTTAG
65373596 AGCTGAATATCGAGAAGCTCATGCA
1 AGCTGAATATCGAGAAGCTCATGCA
* * * *
65373621 AGCTGTATAACG-GAAAGCTCAAGCG
1 AGCTGAATATCGAG-AAGCTCATGCA
*
65373646 AGTTGAATATC-AGGAAGCTCATGCA
1 AGCTGAATATCGA-GAAGCTCATGCA
65373671 AGCT
1 AGCT
65373675 ATGGTGTGTC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCTGAATATCGAGAAGCTCATGCA
Found at i:65373653 original size:50 final size:49
Alignment explanation
Indices: 65373572--65373674 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 49
65373562 TGCTCATATG
***
65373572 AGCTGTAAACGGAAAGCTCCTTAGAGCTGAATATC-GAGAAGCTCATGCA
1 AGCTGTAAACGGAAAGCTCAAGAGAGCTGAATATCAG-GAAGCTCATGCA
* *
65373621 AGCTGTATAACGGAAAGCTCAAGCGAGTTGAATATCAGGAAGCTCATGCA
1 AGCTGTA-AACGGAAAGCTCAAGAGAGCTGAATATCAGGAAGCTCATGCA
65373671 AGCT
1 AGCT
65373675 ATGGTGTGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
49 7 0.15
50 39 0.83
51 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (49 bp):
AGCTGTAAACGGAAAGCTCAAGAGAGCTGAATATCAGGAAGCTCATGCA
Found at i:65374502 original size:3 final size:3
Alignment explanation
Indices: 65374494--65374537 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
65374484 TGGCTAGGTT
65374494 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
65374538 TATTTGGTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:65376185 original size:17 final size:19
Alignment explanation
Indices: 65376149--65376187 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
65376139 TAGCATTTAA
*
65376149 TTTTAGAATATATATCTAT
1 TTTTAAAATATATATCTAT
65376168 TTTTAAAATATA-AT-TAT
1 TTTTAAAATATATATCTAT
65376185 TTT
1 TTT
65376188 GTTGATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTAAAATATATATCTAT
Found at i:65381288 original size:34 final size:34
Alignment explanation
Indices: 65381236--65381409 Score: 186
Period size: 34 Copynumber: 5.1 Consensus size: 34
65381226 ACTACTTTAA
* * * *
65381236 TGATTTGTTAGAAACATATGAATTGCTACCATAT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
* * * *
65381270 TGATTTGTTGTAAGCATATAAATTGCTATCATAT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
* ** *
65381304 TGATCTGTTATAAGCATATTAATTGTTACTGTTT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
* * ** *
65381338 TGATCTATTATAAGCATATTAATTACTACTGTAC
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
*
65381372 TGATCTGTTACAAGCATATTAATTGCTACCATAT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
65381406 TGAT
1 TGAT
65381410 ATGTGCATGT
Statistics
Matches: 116, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 116 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (34 bp):
TGATCTGTTATAAGCATATTAATTGCTACCATAT
Found at i:65385170 original size:60 final size:60
Alignment explanation
Indices: 65385105--65385223 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
65385095 ATATTATATC
* *
65385105 AATAATTAGATAAAATCAAAATTCATGTAAACAATTGCATATTAAACCATAGTTGATGTT
1 AATAATTAGATAAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGTT
*
65385165 AATAATTAGATCAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGT
1 AATAATTAGATAAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGT
65385224 ATAACTTTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (60 bp):
AATAATTAGATAAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGTT
Found at i:65385224 original size:31 final size:30
Alignment explanation
Indices: 65385129--65385224 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 30
65385119 ATCAAAATTC
*
65385129 ATGTAAACAATTGCATATTAAACCATAGTTG
1 ATGTAAACAATT-CATATAAAACCATAGTTG
* * * * * * * *
65385160 ATGTTAATAATT-AGATCAAATCAAAATTC
1 ATGTAAACAATTCATATAAAACCATAGTTG
65385189 ATGTAAACAATTACATATAAAACCATAGTTG
1 ATGTAAACAATT-CATATAAAACCATAGTTG
65385220 ATGTA
1 ATGTA
65385225 TAACTTTGAG
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
29 21 0.45
31 26 0.55
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.32
Consensus pattern (30 bp):
ATGTAAACAATTCATATAAAACCATAGTTG
Found at i:65391469 original size:32 final size:31
Alignment explanation
Indices: 65391419--65391480 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
65391409 AGTATGATGA
65391419 ATAATATAAATAACAATAT-TATAAAATAATG
1 ATAATATAAATAACAATATAT-TAAAATAATG
* *
65391450 ATAATAATAAATGATAATATATTAAAATAAT
1 ATAAT-ATAAATAACAATATATTAAAATAAT
65391481 AAAGAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 21 0.78
33 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
ATAATATAAATAACAATATATTAAAATAATG
Found at i:65393118 original size:43 final size:43
Alignment explanation
Indices: 65393070--65393861 Score: 567
Period size: 43 Copynumber: 18.3 Consensus size: 43
65393060 CGCTGTAACT
* ** ***
65393070 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * * *
65393113 TTAGGGAGATAAGACTTGAT-GC---GATCTGCTCCACTACTTC
1 TTAGGGAGATAAGA-TTGGTGGCTTAAATCTGCTTCACTACTGC
***** * * * * *
65393153 TTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGC
1 TTAGGGAGATAAGAT-TGGTGGCTTAAATCTGCTTCACTACTGC
* * *
65393197 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *
65393240 TTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * * ** *
65393283 TTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCTACTACTGC
1 TTAGGGAGATAAGATT-GGTGGCTTAAATCTGCTTC-ACTACTGC
***** ** * * *
65393328 TTAGGGAGAT-AGAATCTACCATCTTTGACCTACTCCACTACTGC
1 TTAGGGAGATAAG-AT-TGGTGGCTTAAATCTGCTTCACTACTGC
* *
65393372 TTAGGGAGATATGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *
65393415 TTAGGAAGATAAGATTGGTGGCTTAAATCTACTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * *
65393458 TTAGGAAGATAAGATTGGTAGCTTAAATCTGCTTCATTACT-C
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * * **
65393500 TTAGGAAGATAAGATTCGTCGTCTTCGATCTG-TTCCTACTACTGC
1 TTAGGGAGATAAGATTGGT-GGCTTAAATCTGCTT-C-ACTACTGC
* ***** ** * * * *
65393545 TTAAGGAGAT-AGAATCTACCATCTTTGACCTACTCCACTACTAC
1 TTAGGGAGATAAG-AT-TGGTGGCTTAAATCTGCTTCACTACTGC
* *
65393589 TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * *
65393632 TTAAGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *
65393675 TTAGGAAAATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* ** * ** *
65393718 TTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCTACTACTGC
1 TTAGGGAGATAAGATT-GGTGGCTTAAATCTGCTTC-ACTACTGC
***** * * * *
65393763 TTAGGGAGAT-AGAATCTACCATCTTTAACCTACTCCACTACTGC
1 TTAGGGAGATAAG-AT-TGGTGGCTTAAATCTGCTTCACTACTGC
* *
65393807 TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
*
65393850 TTAGGAAGATAA
1 TTAGGGAGATAA
65393862 AACTTGATAA
Statistics
Matches: 597, Mismatches: 128, Indels: 48
0.77 0.17 0.06
Matches are distributed among these distances:
39 1 0.00
40 29 0.05
41 1 0.00
42 21 0.04
43 332 0.56
44 122 0.20
45 87 0.15
46 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
Found at i:65393390 original size:175 final size:169
Alignment explanation
Indices: 65393097--65393645 Score: 584
Period size: 175 Copynumber: 3.2 Consensus size: 169
65393087 GTTTCTTCTG
* *
65393097 TCTGCTTCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTTCTTAGGGAGA
1 TCTGCTTCACTACTGCTTAGGAAGATAAGA-TTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
*
65393162 TAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCT
65 TAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCT
65393227 GCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
130 GCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
*
65393267 TCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCTACTACTGCTTAG
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATT-GATG----CGATCTGCTCC-ACTACTGCTTAG
* ** * *
65393332 GGAGAT-AGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATATGACTGGTGGCTT
60 GGAGATAAG-ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTT
*
65393396 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTGGTGGCTTAAA
124 AAATCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
* * * * * *
65393442 TCTACTTCACTACTGCTTAGGAAGATAAGATTGGTAGCTTAAATCTGCTTCATTACT-CTTAGGA
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATTGAT-GC---GATCTGCTCCACTACTGCTTAGGG
* * * ** * * * *****
65393506 AGATAAGATTCGT-C-GTCTTCGATCTGTTCCTACTACTGCTTAAGGAGATAGAATCTACCATCT
62 AGATAAGA-TC-TACAATCTTCAACCTACTCC-ACTACTGCTCAGGGAGATAGGA-CTGGTGGCT
** * * * * * *
65393569 TTGACCTACTCCACTACTACTTAGGGAGATAGGACTGGTGGCTTAAA
123 TAAATCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
*
65393616 TCTGCTTCACTACTGCTTAAGAAGATAAGA
1 TCTGCTTCACTACTGCTTAGGAAGATAAGA
65393646 CTGGTGGCTT
Statistics
Matches: 323, Mismatches: 40, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
169 2 0.01
170 32 0.10
171 1 0.00
172 22 0.07
173 29 0.09
174 94 0.29
175 143 0.44
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (169 bp):
TCTGCTTCACTACTGCTTAGGAAGATAAGATTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
AAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTG
CTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
Found at i:65393444 original size:218 final size:218
Alignment explanation
Indices: 65393188--65393861 Score: 1172
Period size: 218 Copynumber: 3.1 Consensus size: 218
65393178 CAACCTACTC
* * * *
65393188 CACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
1 CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
*
65393253 ACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTC
66 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTC
65393318 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
131 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
*
65393383 TGACTGGTGGCTTAAATCTGCTT
196 GGACTGGTGGCTTAAATCTGCTT
* *
65393406 CACTACTGCTTAGGAAGATAAGATTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAG
1 CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
* * *
65393471 ATTGGTAGCTTAAATCTGCTTCATTACT-CTTAGGAAGATAAGATTCG-TCGTCTTCGATCTGTT
66 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCT-GTCTTCGATCTGCT
* *
65393534 CCTACTACTGCTTAAGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTACTTAGGGAGAT
130 CCTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGAT
65393599 AGGACTGGTGGCTTAAATCTGCTT
195 AGGACTGGTGGCTTAAATCTGCTT
* *
65393623 CACTACTGCTTAAGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATAAG
1 CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
*
65393688 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTC
66 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTC
*
65393753 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTAACCTACTCCACTACTGCTTAGGGAGATA
131 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
65393818 GGACTGGTGGCTTAAATCTGCTT
196 GGACTGGTGGCTTAAATCTGCTT
65393841 CACTACTGCTTAGGAAGATAA
1 CACTACTGCTTAGGAAGATAA
65393862 AACTTGATAA
Statistics
Matches: 428, Mismatches: 25, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
216 1 0.00
217 205 0.48
218 222 0.52
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (218 bp):
CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTC
CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
GGACTGGTGGCTTAAATCTGCTT
Found at i:65393825 original size:175 final size:175
Alignment explanation
Indices: 65393435--65393861 Score: 506
Period size: 174 Copynumber: 2.4 Consensus size: 175
65393425 AAGATTGGTG
* * * *
65393435 GCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTGGTAGCTTAAATCTGCTTCATTACT-
1 GCTTAAACCTACTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTG
* **
65393499 CTTAGGAAGATAAGATTCGTCGTCTTCGATCTGTTCCTACTACTGCTTAAGGAGATAGAATCTAC
66 CTTAGGAAGATAAGATTCGTCGGCTTAAATCTGTTCCTACTACTGCTTAAGGAGATAGAATCTAC
* * ****
65393564 CATCTTTGACCTACTCCACTACTACTTAGGGAGATAGGACTGGTG
131 CATCTTCGACCTACTCCACTACTACTTAGGGAGATAGAACTACCA
* * *
65393609 GCTTAAATCTGCTTCACTACTGCTTAAGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTG
1 GCTTAAACCTACTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTG
* * *
65393674 CTTAGGAAAATAAGATTGGT-GGCTTAAATCTGCTT-C-ACTACTGCTT-AGGAAGATAAGATTC
66 CTTAGGAAGATAAGATTCGTCGGCTTAAATCTG-TTCCTACTACTGCTTAAGG-AGAT-AGAATC
* * * * *
65393735 -GCCGTCTTCGATCTGCTCCTACTACTGCTTAGGGAGATAGAATCTACCA
128 TACCATCTTCGACCTACTCC-ACTACTACTTAGGGAGATAGAA-CTACCA
* * * * *
65393784 TCTTTAACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTG
1 GCTTAAACCTACTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTG
65393849 CTTAGGAAGATAA
66 CTTAGGAAGATAA
65393862 AACTTGATAA
Statistics
Matches: 216, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
172 3 0.01
173 28 0.13
174 94 0.44
175 91 0.42
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (175 bp):
GCTTAAACCTACTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTG
CTTAGGAAGATAAGATTCGTCGGCTTAAATCTGTTCCTACTACTGCTTAAGGAGATAGAATCTAC
CATCTTCGACCTACTCCACTACTACTTAGGGAGATAGAACTACCA
Found at i:65394867 original size:108 final size:108
Alignment explanation
Indices: 65394658--65394879 Score: 302
Period size: 108 Copynumber: 2.1 Consensus size: 108
65394648 CAGTCCATCT
* * * *
65394658 TGAAAAAGATTATCAAAATGGACAAGATGGAATTTAATTGAGAATAAGGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
*
65394723 TAATCAAAATAGCAAATTTTGCTAAGATTCAGAATGAATAAGA
66 TAATCAAAATAGCAAATTTTGCTAAGATTCAAAATGAATAAGA
* * * * * * *
65394766 TTAAAAGGATTATCACAATGGATAAGATGAAATTTTACTGATAACAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* *
65394831 TAGTCAAAATAGCAAATTTTGCTAAGATAT-AAAATGAATGAGA
66 TAATCAAAATAGCAAATTTTGCTAAGAT-TCAAAATGAATAAGA
65394874 TGAAAA
1 TGAAAA
65394880 CGGGTGCCCC
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 97 0.99
109 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.27
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
TAATCAAAATAGCAAATTTTGCTAAGATTCAAAATGAATAAGA
Found at i:65406454 original size:32 final size:31
Alignment explanation
Indices: 65406404--65406465 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
65406394 AGTATGATGA
65406404 ATAATATAAATAACAATAT-TATAAAATAATG
1 ATAATATAAATAACAATATAT-TAAAATAATG
* *
65406435 ATAATAATAAATGATAATATATTAAAATAAT
1 ATAAT-ATAAATAACAATATATTAAAATAAT
65406466 AAAGAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 21 0.78
33 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
ATAATATAAATAACAATATATTAAAATAATG
Found at i:65414519 original size:13 final size:13
Alignment explanation
Indices: 65414501--65414527 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65414491 ATTTAGTATT
65414501 TATATAATAAATA
1 TATATAATAAATA
65414514 TATATAATAAATA
1 TATATAATAAATA
65414527 T
1 T
65414528 TTTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:65418732 original size:24 final size:24
Alignment explanation
Indices: 65418705--65418753 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
65418695 TAGAAGGATA
*
65418705 TGGGTTTG-ATAAGCTGAAGCGCAT
1 TGGGTTTGAAT-AGCTGAAGCACAT
65418729 TGGGTTTGAATAGCTGAAGCACAT
1 TGGGTTTGAATAGCTGAAGCACAT
65418753 T
1 T
65418754 ATCTTTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (24 bp):
TGGGTTTGAATAGCTGAAGCACAT
Found at i:65419083 original size:17 final size:16
Alignment explanation
Indices: 65419051--65419106 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 16
65419041 TTTATGCTTC
65419051 TTTTTAATTTTATAAT
1 TTTTTAATTTTATAAT
65419067 TTTTTATATTATT-TAAT
1 TTTTTA-ATT-TTATAAT
65419084 TTTTTGAATGTTTTATAAT
1 TTTTT-AA--TTTTATAAT
65419103 TTTT
1 TTTT
65419107 AATGGGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.18
17 13 0.38
18 5 0.15
19 10 0.29
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
TTTTTAATTTTATAAT
Found at i:65419107 original size:9 final size:8
Alignment explanation
Indices: 65419051--65419106 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
65419041 TTTATGCTTC
65419051 TTTTTAAT
1 TTTTTAAT
*
65419059 TTTATAAT
1 TTTTTAAT
65419067 TTTTTATAT
1 TTTTTA-AT
*
65419076 TATTTAAT
1 TTTTTAAT
65419084 TTTTTGAAT
1 TTTTT-AAT
65419093 GTTTTATAAT
1 -TTTT-TAAT
65419103 TTTT
1 TTTT
65419107 AATGGGTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 18 0.45
9 14 0.35
10 7 0.17
11 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (8 bp):
TTTTTAAT
Found at i:65419110 original size:17 final size:17
Alignment explanation
Indices: 65419058--65419110 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
65419048 TTCTTTTTAA
* *
65419058 TTTTATAATTTTTTATA
1 TTTTATAATTTTTAATG
65419075 TTATT-TAATTTTTTGAATG
1 TT-TTATAA-TTTTT-AATG
65419094 TTTTATAATTTTTAATG
1 TTTTATAATTTTTAATG
65419111 GGTTAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 9 0.30
18 14 0.47
19 7 0.23
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTTATAATTTTTAATG
Found at i:65429729 original size:11 final size:11
Alignment explanation
Indices: 65429715--65429780 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
65429705 TTAAATATGG
65429715 ATTTGAGAGAA
1 ATTTGAGAGAA
*
65429726 ATTTG-GAAGGA
1 ATTTGAG-AGAA
65429737 ATTTGAGAGCAA
1 ATTTGAGAG-AA
65429749 A-TTGAGAGGAA
1 ATTTGAGA-GAA
65429760 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
65429771 AATTGAGAGA
1 ATTTGAGAGA
65429781 GGATTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 1 0.02
11 37 0.77
12 10 0.21
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:65429740 original size:22 final size:22
Alignment explanation
Indices: 65429715--65429779 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
65429705 TTAAATATGG
65429715 ATTTGAGAG-AAATTTG-GAAGGA
1 ATTTGAGAGCAAA-TTGAG-AGGA
65429737 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAGCAAATTGAGAGGA
* *
65429759 AATTGAGAGGAAAATTGAGAG
1 ATTTGAGA-GCAAATTGAGAG
65429780 AGGATTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 23 0.61
23 15 0.39
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (22 bp):
ATTTGAGAGCAAATTGAGAGGA
Found at i:65429775 original size:12 final size:11
Alignment explanation
Indices: 65429733--65429779 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
65429723 GAAATTTGGA
*
65429733 AGGAATTTGAG
1 AGGAAATTGAG
*
65429744 AGCAAATTGAG
1 AGGAAATTGAG
65429755 AGGAAATTGAG
1 AGGAAATTGAG
65429766 AGGAAAATTGAG
1 AGG-AAATTGAG
65429778 AG
1 AG
65429780 AGGATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.34, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:65431630 original size:24 final size:23
Alignment explanation
Indices: 65431582--65431666 Score: 136
Period size: 24 Copynumber: 3.7 Consensus size: 23
65431572 CGTTATTGGG
65431582 AAAGGATGAATTGACGAAAATGT
1 AAAGGATGAATTGACGAAAATGT
65431605 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACG-AAAATGT
*
65431629 AAAGGATGAATTGACG-TAATGT
1 AAAGGATGAATTGACGAAAATGT
*
65431651 AAATGATGAATTGACG
1 AAAGGATGAATTGACG
65431667 GTAAGTTAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 20 0.34
23 16 0.27
24 23 0.39
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.24
Consensus pattern (23 bp):
AAAGGATGAATTGACGAAAATGT
Found at i:65433381 original size:83 final size:81
Alignment explanation
Indices: 65433223--65433382 Score: 239
Period size: 83 Copynumber: 2.0 Consensus size: 81
65433213 TTTGAAGAAA
* *
65433223 AATGATTATTGAATCAATTTATAAGTTGTTTAAATTTTTACTTTTTACTTGTTTATTTAATCATT
1 AATGAATATTGAATCAATTTATAAGTTGTTTAAATTTTTACTTTTTACTTGTTTAATTAATCATT
* *
65433288 GTTGGAATGACGATTG
66 ATTAGAATGACGATTG
* * *
65433304 AATGAATATTGAATTAATTTATAAGTTGTTTAATTTTTTTTATTTTTTACTTGTTTAATTAATCA
1 AATGAATATTGAATCAATTTATAAGTTGTTTAA--ATTTTTACTTTTTACTTGTTTAATTAATCA
65433369 TTATTAGAATGACG
64 TTATTAGAATGACG
65433383 GTCGGATCAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 31 0.44
83 39 0.56
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (81 bp):
AATGAATATTGAATCAATTTATAAGTTGTTTAAATTTTTACTTTTTACTTGTTTAATTAATCATT
ATTAGAATGACGATTG
Found at i:65446495 original size:29 final size:29
Alignment explanation
Indices: 65446454--65446512 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
65446444 TAATAGTATG
65446454 ATGATAATATAAATAACAATATA-TAAAT
1 ATGATAATATAAATAACAATATATTAAAT
* *
65446482 ATGATAATAATAAATGATAATATATTAAAT
1 ATGATAAT-ATAAATAACAATATATTAAAT
65446512 A
1 A
65446513 ATAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 8 0.30
29 13 0.48
30 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
ATGATAATATAAATAACAATATATTAAAT
Found at i:65446510 original size:15 final size:15
Alignment explanation
Indices: 65446471--65446516 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
65446461 TATAAATAAC
*
65446471 AATATATAAATATGAT
1 AATATATTAA-ATGAT
65446487 AATA-A-TAAATGAT
1 AATATATTAAATGAT
*
65446500 AATATATTAAATAAT
1 AATATATTAAATGAT
65446515 AA
1 AA
65446517 AGAAAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 10 0.38
16 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
AATATATTAAATGAT
Found at i:65454533 original size:13 final size:13
Alignment explanation
Indices: 65454515--65454541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65454505 ATTTAGTATT
65454515 TATATAATAAATA
1 TATATAATAAATA
65454528 TATATAATAAATA
1 TATATAATAAATA
65454541 T
1 T
65454542 TTTTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:65458782 original size:25 final size:25
Alignment explanation
Indices: 65458754--65458804 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
65458744 TAGAAGGATA
*
65458754 TGGGTTTGAATAAGCTGAAGCGCAT
1 TGGGTTTGAATAAGCTGAAGCACAT
65458779 TGGGTTTGAATAAGCTGAAGCACAT
1 TGGGTTTGAATAAGCTGAAGCACAT
65458804 T
1 T
65458805 ATCTTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (25 bp):
TGGGTTTGAATAAGCTGAAGCACAT
Found at i:65459144 original size:27 final size:26
Alignment explanation
Indices: 65459110--65459169 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
65459100 TTTATGCTTC
*
65459110 TTTTTAATTTTTATAAATTTTTTAT-A
1 TTTTTAATTTTT-TAAATGTTTTATAA
*
65459136 TTATTTAATTTTTTGAATGTTTTATAA
1 TT-TTTAATTTTTTAAATGTTTTATAA
65459163 TTTTTAA
1 TTTTTAA
65459170 ATGGGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTTTAATTTTTTAAATGTTTTATAA
Found at i:65459168 original size:9 final size:8
Alignment explanation
Indices: 65459110--65459167 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 8
65459100 TTTATGCTTC
65459110 TTTTTAAT
1 TTTTTAAT
65459118 TTTTATAAAT
1 TTTT-T-AAT
65459128 TTTTTATAT
1 TTTTTA-AT
*
65459137 TATTTAAT
1 TTTTTAAT
65459145 TTTTTGAAT
1 TTTTT-AAT
65459154 GTTTTATAAT
1 -TTTT-TAAT
65459164 TTTT
1 TTTT
65459168 AAATGGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 11 0.26
9 16 0.38
10 14 0.33
11 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (8 bp):
TTTTTAAT
Found at i:65465893 original size:27 final size:30
Alignment explanation
Indices: 65465854--65465919 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 30
65465844 TCAAAACTTT
65465854 ATGTATAAAATTGCACA-A-ATC-AAGTTC
1 ATGTATAAAATTGCACATAGATCAAAGTTC
* *
65465881 ATGTATGACATTGCACATTAGATCAAAGTTC
1 ATGTATAAAATTGCACA-TAGATCAAAGTTC
65465912 ATGTATAA
1 ATGTATAA
65465920 TTTTGATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.47
29 1 0.03
30 3 0.09
31 13 0.41
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (30 bp):
ATGTATAAAATTGCACATAGATCAAAGTTC
Found at i:65469840 original size:11 final size:11
Alignment explanation
Indices: 65469826--65469891 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
65469816 TTAAATATGG
65469826 ATTTGAGAGAA
1 ATTTGAGAGAA
*
65469837 ATTTG-GAAGGA
1 ATTTGAG-AGAA
65469848 ATTTGAGAGCAA
1 ATTTGAGAG-AA
65469860 A-TTGAGAGGAA
1 ATTTGAGA-GAA
65469871 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
65469882 AATTGAGAGA
1 ATTTGAGAGA
65469892 GGATTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 1 0.02
11 37 0.77
12 10 0.21
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:65469851 original size:22 final size:22
Alignment explanation
Indices: 65469826--65469890 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
65469816 TTAAATATGG
65469826 ATTTGAGAG-AAATTTG-GAAGGA
1 ATTTGAGAGCAAA-TTGAG-AGGA
65469848 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAGCAAATTGAGAGGA
* *
65469870 AATTGAGAGGAAAATTGAGAG
1 ATTTGAGA-GCAAATTGAGAG
65469891 AGGATTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 23 0.61
23 15 0.39
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (22 bp):
ATTTGAGAGCAAATTGAGAGGA
Found at i:65469886 original size:12 final size:11
Alignment explanation
Indices: 65469844--65469890 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
65469834 GAAATTTGGA
*
65469844 AGGAATTTGAG
1 AGGAAATTGAG
*
65469855 AGCAAATTGAG
1 AGGAAATTGAG
65469866 AGGAAATTGAG
1 AGGAAATTGAG
65469877 AGGAAAATTGAG
1 AGG-AAATTGAG
65469889 AG
1 AG
65469891 AGGATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.34, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:65471796 original size:24 final size:23
Alignment explanation
Indices: 65471748--65471832 Score: 136
Period size: 24 Copynumber: 3.7 Consensus size: 23
65471738 CGTTATTGGG
65471748 AAAGGATGAATTGACGAAAATGT
1 AAAGGATGAATTGACGAAAATGT
65471771 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACG-AAAATGT
*
65471795 AAAGGATGAATTGACG-TAATGT
1 AAAGGATGAATTGACGAAAATGT
*
65471817 AAATGATGAATTGACG
1 AAAGGATGAATTGACG
65471833 GTAAGTTAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 20 0.34
23 16 0.27
24 23 0.39
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.24
Consensus pattern (23 bp):
AAAGGATGAATTGACGAAAATGT
Found at i:65473547 original size:83 final size:81
Alignment explanation
Indices: 65473389--65473548 Score: 239
Period size: 83 Copynumber: 2.0 Consensus size: 81
65473379 TTTGAAGAAA
* *
65473389 AATGATTATTGAATCAATTTATAAGTTGTTTAAATTTTTACTTTTTACTTGTTTATTTAATCATT
1 AATGAATATTGAATCAATTTATAAGTTGTTTAAATTTTTACTTTTTACTTGTTTAATTAATCATT
* *
65473454 GTTGGAATGACGATTG
66 ATTAGAATGACGATTG
* * *
65473470 AATGAATATTGAATTAATTTATAAGTTGTTTAATTTTTTTTATTTTTTACTTGTTTAATTAATCA
1 AATGAATATTGAATCAATTTATAAGTTGTTTAA--ATTTTTACTTTTTACTTGTTTAATTAATCA
65473535 TTATTAGAATGACG
64 TTATTAGAATGACG
65473549 GTCGGATCAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 31 0.44
83 39 0.56
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (81 bp):
AATGAATATTGAATCAATTTATAAGTTGTTTAAATTTTTACTTTTTACTTGTTTAATTAATCATT
ATTAGAATGACGATTG
Found at i:65489321 original size:13 final size:13
Alignment explanation
Indices: 65489303--65489329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65489293 ATTTAGTATT
65489303 TATATAATAAATA
1 TATATAATAAATA
65489316 TATATAATAAATA
1 TATATAATAAATA
65489329 T
1 T
65489330 TTTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:65493573 original size:25 final size:25
Alignment explanation
Indices: 65493545--65493595 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
65493535 TAGAAGGATA
*
65493545 TGGGTTTGAATAAGCTGAAGCGCAT
1 TGGGTTTGAATAAGCTGAAGCACAT
65493570 TGGGTTTGAATAAGCTGAAGCACAT
1 TGGGTTTGAATAAGCTGAAGCACAT
65493595 T
1 T
65493596 ATCTTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (25 bp):
TGGGTTTGAATAAGCTGAAGCACAT
Found at i:65497097 original size:21 final size:21
Alignment explanation
Indices: 65497068--65497107 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
65497058 AAATACTAAA
*
65497068 AAATTTTATTA-AGAAAATAAT
1 AAATATTATTACA-AAAATAAT
65497089 AAATATTATTACAAAAATA
1 AAATATTATTACAAAAATA
65497108 TTTTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATATTATTACAAAAATAAT
Found at i:65500833 original size:29 final size:30
Alignment explanation
Indices: 65500800--65500867 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
65500790 TCAAAACTTT
65500800 ATGTATAAAATTGCACA-AAATCAAAGTTC
1 ATGTATAAAATTGCACATAAATCAAAGTTC
* * *
65500829 ATGTATGACATTGCACATTAGATCAAAGTTC
1 ATGTATAAAATTGCACA-TAAATCAAAGTTC
65500860 ATGTATAA
1 ATGTATAA
65500868 TTTTGATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 15 0.45
31 18 0.55
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (30 bp):
ATGTATAAAATTGCACATAAATCAAAGTTC
Found at i:65504035 original size:6 final size:6
Alignment explanation
Indices: 65504024--65504048 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65504014 AGATTGGATA
65504024 TGGGCT TGGGCT TGGGCT TGGGCT T
1 TGGGCT TGGGCT TGGGCT TGGGCT T
65504049 AGTTGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TGGGCT
Found at i:65504943 original size:11 final size:11
Alignment explanation
Indices: 65504929--65504994 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
65504919 TTAAATATGG
65504929 ATTTGAGAGAA
1 ATTTGAGAGAA
*
65504940 ATTTG-GAAGGA
1 ATTTGAG-AGAA
65504951 ATTTGAGAGCAA
1 ATTTGAGAG-AA
65504963 A-TTGAGAGGAA
1 ATTTGAGA-GAA
65504974 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
65504985 AATTGAGAGA
1 ATTTGAGAGA
65504995 GGATTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 1 0.02
11 37 0.77
12 10 0.21
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:65504954 original size:22 final size:22
Alignment explanation
Indices: 65504929--65504993 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
65504919 TTAAATATGG
65504929 ATTTGAGAG-AAATTTG-GAAGGA
1 ATTTGAGAGCAAA-TTGAG-AGGA
65504951 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAGCAAATTGAGAGGA
* *
65504973 AATTGAGAGGAAAATTGAGAG
1 ATTTGAGA-GCAAATTGAGAG
65504994 AGGATTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 23 0.61
23 15 0.39
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (22 bp):
ATTTGAGAGCAAATTGAGAGGA
Found at i:65504989 original size:12 final size:11
Alignment explanation
Indices: 65504947--65504993 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
65504937 GAAATTTGGA
*
65504947 AGGAATTTGAG
1 AGGAAATTGAG
*
65504958 AGCAAATTGAG
1 AGGAAATTGAG
65504969 AGGAAATTGAG
1 AGGAAATTGAG
65504980 AGGAAAATTGAG
1 AGG-AAATTGAG
65504992 AG
1 AG
65504994 AGGATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.34, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:65506921 original size:24 final size:24
Alignment explanation
Indices: 65506873--65506958 Score: 131
Period size: 23 Copynumber: 3.7 Consensus size: 24
65506863 CGTTATTGGG
65506873 AAAGGATGAATTGACG-AAAATGT
1 AAAGGATGAATTGACGAAAAATGT
65506896 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACGAAAAATGT
**
65506920 AAAGGATGAATTGAC-AGTAATGT
1 AAAGGATGAATTGACGAAAAATGT
*
65506943 AAATGATGAATTGACG
1 AAAGGATGAATTGACG
65506959 GTAAGTTATC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
23 36 0.62
24 22 0.38
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.23
Consensus pattern (24 bp):
AAAGGATGAATTGACGAAAAATGT
Found at i:65508699 original size:83 final size:82
Alignment explanation
Indices: 65508532--65508699 Score: 237
Period size: 83 Copynumber: 2.0 Consensus size: 82
65508522 AAAAAATGAT
* * *
65508532 TATTGAATCAATTTATAAGTTGTTTAAATTTTTTACTTTTTACTTGTTTATTTAATCATTGTTGG
1 TATTGAATCAATTTATAAGTTGTTTAAATTTTTTACTTTTTACTTGTTTAATTAATCATTATTAG
* *
65508597 AATGACGATTGAATGAA
66 AATGACGATCGAATCAA
* * *
65508614 TATTGAATTAATTTATAAGTTGTTTAATTTTTTTTATTTTTTACTTGTTTAATTAATCATTATTA
1 TATTGAATCAATTTATAAGTTGTTTAA-ATTTTTTACTTTTTACTTGTTTAATTAATCATTATTA
* *
65508679 GAATGACGGTCGGATCAA
65 GAATGACGATCGAATCAA
65508697 TAT
1 TAT
65508700 GGTTTTCAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 26 0.35
83 49 0.65
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (82 bp):
TATTGAATCAATTTATAAGTTGTTTAAATTTTTTACTTTTTACTTGTTTAATTAATCATTATTAG
AATGACGATCGAATCAA
Found at i:65510507 original size:13 final size:13
Alignment explanation
Indices: 65510489--65510554 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
65510479 AGTTTAACAT
65510489 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
65510502 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
65510515 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
65510528 TGCATTTGAGAAG
1 TGCTTTTGAAAAG
*
65510541 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
65510554 T
1 T
65510555 TTAGCTTAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 39 0.93
14 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:65511855 original size:15 final size:15
Alignment explanation
Indices: 65511837--65511881 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
65511827 TATGGGTACC
65511837 ATTAATTGCACCTAT
1 ATTAATTGCACCTAT
*
65511852 ATTAATTGCACCTAC
1 ATTAATTGCACCTAT
*
65511867 AATAATTGCACCTAT
1 ATTAATTGCACCTAT
65511882 GCAATCCTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (15 bp):
ATTAATTGCACCTAT
Found at i:65512642 original size:72 final size:72
Alignment explanation
Indices: 65512532--65512716 Score: 291
Period size: 72 Copynumber: 2.6 Consensus size: 72
65512522 AACAAATTTT
* *
65512532 ATATCC-AAAATCAAACATAAACAACTATTGATAAAACTAGATTATACATAAATAAGTAGAACAT
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTACAACAT
65512596 AAATTCA
66 AAATTCA
* * * *
65512603 ATATCCAAAAACCAAACATAAGCAACTATTGATACAACTAGATTACACATAAATAAGTACAATAT
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTACAACAT
65512668 AAATTCA
66 AAATTCA
*
65512675 ATATCCAAAAATCAAACATAAACAACAATTGATAAAAACTAG
1 ATATCCAAAAATCAAACATAAACAACTATTGAT-AAAACTAG
65512717 TTTTGCATTG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 6 0.06
72 89 0.87
73 7 0.07
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.23
Consensus pattern (72 bp):
ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTACAACAT
AAATTCA
Found at i:65519758 original size:21 final size:20
Alignment explanation
Indices: 65519723--65519768 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
65519713 CTATATGAGT
* *
65519723 AAATTTAACTCAATTTAATG
1 AAATTTAACTCAATTCAATC
*
65519743 AAATTTATATTCAATTCAATC
1 AAATTTA-ACTCAATTCAATC
65519764 AAATT
1 AAATT
65519769 CACATTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTTAACTCAATTCAATC
Found at i:65525302 original size:15 final size:14
Alignment explanation
Indices: 65525282--65525342 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
65525272 AGACAACGCC
65525282 CAGCAGCAACAGCAG
1 CAGCAGCAACAG-AG
*
65525297 CAGCAGCCACAAGAG
1 CAGCAGCAAC-AGAG
65525312 CAGCAGCAACA-AG
1 CAGCAGCAACAGAG
*
65525325 -AGCAACAACAGCAG
1 CAGCAGCAACAG-AG
65525339 CAGC
1 CAGC
65525343 CACAACCGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.23
13 2 0.05
14 3 0.08
15 23 0.59
16 2 0.05
ACGTcount: A:0.43, C:0.33, G:0.25, T:0.00
Consensus pattern (14 bp):
CAGCAGCAACAGAG
Found at i:65525347 original size:15 final size:15
Alignment explanation
Indices: 65525282--65525354 Score: 59
Period size: 15 Copynumber: 5.3 Consensus size: 15
65525272 AGACAACGCC
*
65525282 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
*
65525297 CAGCAGCCAC-A-AG
1 CAGCAGCAACAACAG
*
65525310 -AGCAGCAGCAACA-
1 CAGCAGCAACAACAG
65525323 -AG-AGCAACAACAG
1 CAGCAGCAACAACAG
* *
65525336 CAGCAGCCACAACCG
1 CAGCAGCAACAACAG
65525351 CAGC
1 CAGC
65525355 TGCCGCGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 16 0.35
13 5 0.11
14 3 0.07
15 22 0.48
ACGTcount: A:0.41, C:0.36, G:0.23, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:65525417 original size:18 final size:18
Alignment explanation
Indices: 65525383--65525421 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65525373 AACTGGTCAA
*
65525383 GGTTAAGAAAGTAGTGGT
1 GGTTAAGAAAGAAGTGGT
65525401 GGTTAAG-AAGAAGGTGGT
1 GGTTAAGAAAGAA-GTGGT
65525419 GGT
1 GGT
65525422 GGGAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.26
Consensus pattern (18 bp):
GGTTAAGAAAGAAGTGGT
Found at i:65525431 original size:3 final size:3
Alignment explanation
Indices: 65525425--65525461 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
65525415 TGGTGGTGGG
* *
65525425 AGC AGC AGC AGC AGC AGC AGC AGC CGC AGC CGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC A
65525462 ACATCACAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:65526648 original size:21 final size:21
Alignment explanation
Indices: 65526600--65526640 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65526590 GAGCGATCCC
* *
65526600 CATGGGACAGATCCCCATATA
1 CATGTGACAAATCCCCATATA
65526621 CATGTGACAAATCCCCATAT
1 CATGTGACAAATCCCCATAT
65526641 GCTCGTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (21 bp):
CATGTGACAAATCCCCATATA
Found at i:65543793 original size:9 final size:9
Alignment explanation
Indices: 65543779--65543803 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
65543769 TGACAATTTA
65543779 AAAAAAAAT
1 AAAAAAAAT
65543788 AAAAAAAAT
1 AAAAAAAAT
65543797 AAAAAAA
1 AAAAAAA
65543804 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:65561764 original size:10 final size:10
Alignment explanation
Indices: 65561749--65561779 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
65561739 ATAAACTCAG
65561749 ATTAATTTTA
1 ATTAATTTTA
*
65561759 ATTAATTATA
1 ATTAATTTTA
65561769 ATTAATTTTA
1 ATTAATTTTA
65561779 A
1 A
65561780 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:65562455 original size:18 final size:20
Alignment explanation
Indices: 65562420--65562456 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
65562410 TTTTTTGTGG
65562420 GTTGGGTCATGAATAAATTA
1 GTTGGGTCATGAATAAATTA
65562440 GTTGGGT-ATG-ATAAATT
1 GTTGGGTCATGAATAAATT
65562457 TTATCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (20 bp):
GTTGGGTCATGAATAAATTA
Found at i:65564280 original size:46 final size:46
Alignment explanation
Indices: 65564096--65564272 Score: 275
Period size: 46 Copynumber: 3.8 Consensus size: 46
65564086 ACAATGCTAT
* * *
65564096 AACTCAGTATGGTTTTCGTT-ATTGAAATACTATACCTACGTTTCAC
1 AACTCAGTATGGTTTTC-TTCACTGAAATACCATACCTACGTTCCAC
*
65564142 AACTCAGTATGGTTTTCTTCACTGAAATACCATACTTACGTTCCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTCCAC
*
65564188 AACTCAGTATTGTTTTCTTCACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTCCAC
* *
65564234 AACTCAGTATGGTTTTCTTTACTGAATTACCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC
65564273 ATCCCACACT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 2 0.02
46 119 0.98
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTCCAC
Found at i:65567254 original size:14 final size:16
Alignment explanation
Indices: 65567225--65567264 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
65567215 TAATCAATAG
65567225 AAATAATAAAACAAC-A
1 AAATAA-AAAACAACAA
65567241 AAATAAAAAA-AACAA
1 AAATAAAAAACAACAA
65567256 AAATAAAAA
1 AAATAAAAA
65567265 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 14 0.61
16 6 0.26
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (16 bp):
AAATAAAAAACAACAA
Found at i:65567254 original size:17 final size:16
Alignment explanation
Indices: 65567232--65567277 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
65567222 TAGAAATAAT
65567232 AAAACAACAAAATAAAA
1 AAAACAA-AAAATAAAA
65567249 AAAAC-AAAAATAAAA
1 AAAACAAAAAATAAAA
65567264 ATAAA-AATAAAATA
1 A-AAACAA-AAAATA
65567278 CACAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.38
16 5 0.19
17 11 0.42
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAACAAAAAATAAAA
Found at i:65567275 original size:27 final size:27
Alignment explanation
Indices: 65567240--65567294 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
65567230 ATAAAACAAC
65567240 AAAATAAAAAAAACAAAAATAAA-AATA
1 AAAATAAAAAAAACAAAAA-AAAGAATA
* *
65567267 AAAATAAAATACACAAAAAAAAGAATA
1 AAAATAAAAAAAACAAAAAAAAGAATA
65567294 A
1 A
65567295 TCTATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (27 bp):
AAAATAAAAAAAACAAAAAAAAGAATA
Found at i:65567370 original size:22 final size:21
Alignment explanation
Indices: 65567331--65567382 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
65567321 AAGGATGAAG
*
65567331 AAATAAAAATTAACAAATAAT
1 AAATAAAAATAAACAAATAAT
*
65567352 AAATAAAAAGTAAATAAATAAT
1 AAATAAAAA-TAAACAAATAAT
65567374 ATAATAAAA
1 A-AATAAAA
65567383 GAATGCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 11 0.41
23 7 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAAAATAAACAAATAAT
Found at i:65572495 original size:13 final size:13
Alignment explanation
Indices: 65572477--65572521 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
65572467 TAGACTCATA
65572477 AATATTAAATAAT
1 AATATTAAATAAT
*
65572490 AATATTAACT-A-
1 AATATTAAATAAT
65572501 AATATTAAATAAT
1 AATATTAAATAAT
65572514 AATATTAA
1 AATATTAA
65572522 CTAACTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.32
12 2 0.07
13 17 0.61
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTAAATAAT
Found at i:65572503 original size:24 final size:24
Alignment explanation
Indices: 65572475--65572525 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
65572465 GATAGACTCA
65572475 TAAATATTAAATAATAATATTAAC
1 TAAATATTAAATAATAATATTAAC
65572499 TAAATATTAAATAATAATATTAAC
1 TAAATATTAAATAATAATATTAAC
65572523 TAA
1 TAA
65572526 CTCAATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAATATTAAATAATAATATTAAC
Found at i:65575485 original size:24 final size:24
Alignment explanation
Indices: 65575453--65575501 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
65575443 GATAAAGAAG
65575453 ATTAAAACTTATGTTAATTTTTCT
1 ATTAAAACTTATGTTAATTTTTCT
*
65575477 ATTAAAACTTCTGTTAATTTTTCT
1 ATTAAAACTTATGTTAATTTTTCT
65575501 A
1 A
65575502 GTGTCTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTAAAACTTATGTTAATTTTTCT
Found at i:65583700 original size:14 final size:15
Alignment explanation
Indices: 65583681--65583709 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65583671 TTAACTTGAC
65583681 AAACAAAAA-TAAAT
1 AAACAAAAACTAAAT
65583695 AAACAAAAACTAAAT
1 AAACAAAAACTAAAT
65583710 TTTTCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACAAAAACTAAAT
Found at i:65587712 original size:19 final size:21
Alignment explanation
Indices: 65587667--65587721 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
65587657 CCCCATAAAC
*
65587667 AGAA-ATAAAAAAAAACAACA
1 AGAATATAATAAAAAACAACA
65587687 ATGAATATAATAAAAAACAA-A
1 A-GAATATAATAAAAAACAACA
65587708 A-AATATATATAAAA
1 AGAATATA-ATAAAA
65587722 CTATATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 6 0.19
20 7 0.23
21 5 0.16
22 13 0.42
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (21 bp):
AGAATATAATAAAAAACAACA
Found at i:65588991 original size:24 final size:22
Alignment explanation
Indices: 65588959--65589008 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
65588949 GGCCTCTCCT
*
65588959 TTTTCTTTTTTCATTCTTCTTTTC
1 TTTTCTTTTTTC-TT-TTCGTTTC
65588983 TTTTCTTTTTTCTTTTCGTTTC
1 TTTTCTTTTTTCTTTTCGTTTC
65589005 TTTT
1 TTTT
65589009 TTTCAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
24 12 0.48
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTTCGTTTC
Found at i:65588995 original size:17 final size:17
Alignment explanation
Indices: 65588975--65589010 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
65588965 TTTTTCATTC
*
65588975 TTCTTTTCTTTTCTTTT
1 TTCTTTTCGTTTCTTTT
65588992 TTCTTTTCGTTTCTTTT
1 TTCTTTTCGTTTCTTTT
65589009 TT
1 TT
65589011 TCAAGTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (17 bp):
TTCTTTTCGTTTCTTTT
Found at i:65589462 original size:14 final size:13
Alignment explanation
Indices: 65589445--65589484 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 13
65589435 GGTAGAGTTT
65589445 TTTTTGTCTTTTTG
1 TTTTT-TCTTTTTG
65589459 TTTTTTCGTTTTTG
1 TTTTTTC-TTTTTG
65589473 TTTTTTCTTTTT
1 TTTTTTCTTTTT
65589485 TCGTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTTG
Found at i:65589477 original size:21 final size:20
Alignment explanation
Indices: 65589445--65589502 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
65589435 GGTAGAGTTT
65589445 TTTTTGTCTTTTTGTTTTTTCG
1 TTTTTGT-TTTTT-TTTTTTCG
65589467 TTTTTGTTTTTTCTTTTTTCG
1 TTTTTGTTTTTT-TTTTTTCG
65589488 -TTTTGTTTTTTTTTT
1 TTTTTGTTTTTTTTTT
65589503 GCCTCCACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 13 0.37
22 7 0.20
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (20 bp):
TTTTTGTTTTTTTTTTTTCG
Found at i:65589485 original size:14 final size:14
Alignment explanation
Indices: 65589453--65589500 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
65589443 TTTTTTTGTC
*
65589453 TTTTTGTTTTTTCG
1 TTTTTGTTTTTTCT
65589467 TTTTTGTTTTTTCT
1 TTTTTGTTTTTTCT
65589481 TTTTTCGTTTTGTT-T
1 TTTTT-GTTTT-TTCT
65589496 TTTTT
1 TTTTT
65589501 TTGCCTCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 18 0.58
15 11 0.35
16 2 0.06
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.83
Consensus pattern (14 bp):
TTTTTGTTTTTTCT
Found at i:65596310 original size:19 final size:20
Alignment explanation
Indices: 65596286--65596326 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
65596276 AAAACAACTA
65596286 AAAGAAGAAAT-TTAAAAAC
1 AAAGAAGAAATATTAAAAAC
* *
65596305 AAAGAATAAATATTTAAAAC
1 AAAGAAGAAATATTAAAAAC
65596325 AA
1 AA
65596327 TAAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGAAGAAATATTAAAAAC
Found at i:65596341 original size:20 final size:20
Alignment explanation
Indices: 65596300--65596341 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
65596290 AAGAAATTTA
*
65596300 AAAACAAAGAATAAATATTT
1 AAAACAAAGAATAAATAATT
*
65596320 AAAACAATA-AATAATTAATT
1 AAAACAA-AGAATAAATAATT
65596340 AA
1 AA
65596342 TTAAAAGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAACAAAGAATAAATAATT
Found at i:65597157 original size:22 final size:23
Alignment explanation
Indices: 65597124--65597192 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 23
65597114 TATGCACTAT
* *
65597124 TAAACAAAGAGCACTAAA-GTGT
1 TAAACAGAGAGCACTAAATGTGC
*
65597146 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAATGTGC
*
65597168 TAAACGGAGAGCACT-AATGTGC
1 TAAACAGAGAGCACTAAATGTGC
65597190 TAA
1 TAA
65597193 TAATCGGAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.08
22 37 0.93
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATGTGC
Found at i:65597206 original size:25 final size:25
Alignment explanation
Indices: 65597152--65597229 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
65597142 GTGTTATACA
*
65597152 GAGAGCACAAATGTGCT-A-AA-CG
1 GAGAGCACTAATGTGCTAATAATCG
65597174 GAGAGCACTAATGTGCTAATAATCG
1 GAGAGCACTAATGTGCTAATAATCG
* *
65597199 GAGAGCACTAACGTGCTAATAATCA
1 GAGAGCACTAATGTGCTAATAATCG
65597224 GAGAGC
1 GAGAGC
65597230 GCGCTAGGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 16 0.32
23 1 0.02
24 2 0.04
25 31 0.62
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (25 bp):
GAGAGCACTAATGTGCTAATAATCG
Found at i:65599604 original size:19 final size:19
Alignment explanation
Indices: 65599580--65599621 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
65599570 TAAATTTCGA
65599580 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
65599599 AATAAAAACTAATAAATAT
1 AATAAAAAATAATAAATAT
65599618 AATA
1 AATA
65599622 TTGGGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:65604590 original size:23 final size:23
Alignment explanation
Indices: 65604564--65604636 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
65604554 AACAATATGC
65604564 CACAATAGCATCAACACACATAA
1 CACAATAGCATCAACACACATAA
*
65604587 CACAAT--CA-CTAAC-CA-ATATGC
1 CACAATAGCATC-AACACACATA--A
65604608 CACAATAGCATCAACACACATAA
1 CACAATAGCATCAACACACATAA
65604631 CACAAT
1 CACAAT
65604637 CACATGAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 11 0.28
23 17 0.43
24 3 0.08
25 3 0.08
ACGTcount: A:0.49, C:0.32, G:0.04, T:0.15
Consensus pattern (23 bp):
CACAATAGCATCAACACACATAA
Found at i:65604613 original size:44 final size:44
Alignment explanation
Indices: 65604550--65604639 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
65604540 TTCCTGACAA
65604550 ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
1 ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
*
65604594 ACTAACCAATATGCCACAATAGCATCAACACACATAACACAATC
1 ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
65604638 AC
1 AC
65604640 ATGAATCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (44 bp):
ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
Found at i:65614602 original size:15 final size:14
Alignment explanation
Indices: 65614572--65614615 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
65614562 ATACAACAAA
65614572 AAAATAATGTTATAAT
1 AAAATAAT-TT-TAAT
*
65614588 AAATTTAATTTTAAT
1 AAA-ATAATTTTAAT
65614603 AAAATAATTTTAA
1 AAAATAATTTTAA
65614616 CAGTATGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 5 0.20
17 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
AAAATAATTTTAAT
Found at i:65620714 original size:120 final size:119
Alignment explanation
Indices: 65620484--65620855 Score: 534
Period size: 120 Copynumber: 3.1 Consensus size: 119
65620474 GAAGCTGCAA
** *
65620484 CAGTTTGAGATTGAGGAGCCGCCGTCGTCATTGGTGGTTTAGGCTCAGTTACAGCC-TT--TGGA
1 CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
* * *
65620546 GATGACGGTACTTTCTCGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGCTATAG
66 GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGC-ACAG
* * * *
65620601 CAGTTTGAGCCTGAGGAACCGCCATCGCCATTTGTGGTTTAGGCTCAGTTACATCCTTTGGTGGA
1 CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
* * *
65620666 GGTGACGGTACTTTCTGGTCTCTCTGTTTTTCAACACTGGAGGTTGAAGCGACAG
66 GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGC-ACAG
* *
65620721 CAGTTTGAGCCTGAGGAGCCGTCGTCGCCATTGGTGGTTTAGGCTCAGATACAGCCTTTGGTGGA
1 CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
* * *
65620786 GGTGACGGTACTTTTTGGCCTCTTTGTTTTTCAATACCGGAGGCTGAAGCAGCAG
66 GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGCA-CAG
65620841 CAGTTTGAGCCTGAG
1 CAGTTTGAGCCTGAG
65620856 CCGTTGGCAA
Statistics
Matches: 225, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
117 49 0.22
118 2 0.01
119 1 0.00
120 173 0.77
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (119 bp):
CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGCACAG
Found at i:65634843 original size:12 final size:12
Alignment explanation
Indices: 65634826--65634850 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65634816 AGTTACCCAC
65634826 TGGCTAAAGTTT
1 TGGCTAAAGTTT
65634838 TGGCTAAAGTTT
1 TGGCTAAAGTTT
65634850 T
1 T
65634851 CGATTCATGT
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TGGCTAAAGTTT
Found at i:65638607 original size:98 final size:98
Alignment explanation
Indices: 65638489--65638685 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
65638479 AAAAAAATAA
** *
65638489 TAAAGGAAATATTCGGAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
*
65638554 TTAAATTTTGAATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
* *
65638587 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCTCTAACGTATTAGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
*
65638652 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
65638685 T
1 T
65638686 TTTATTGCAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
Found at i:65640321 original size:3 final size:3
Alignment explanation
Indices: 65640295--65640345 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
65640285 AATATAGTGG
* * * * *
65640295 TTA TAA TTA TTA TAA TAA TAA TTA TTA TTA TCA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65640342 TTA T
1 TTA T
65640346 ACTTACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:65649952 original size:76 final size:76
Alignment explanation
Indices: 65649862--65650017 Score: 260
Period size: 76 Copynumber: 2.1 Consensus size: 76
65649852 AACCACTTAA
* * *
65649862 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATA-AGTTTTTTTAGTTGCATTTATCTCAC
1 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATATA-TTTTTGTAGTTACATTTATCTCAA
65649926 ATATTTTCCTTT
65 ATATTTTCCTTT
*
65649938 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAGATATATTTTTGTAGTTACATTTATCTCAAA
1 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATATATTTTTGTAGTTACATTTATCTCAAA
65650003 TATTTTCCTTT
66 TATTTTCCTTT
65650014 TTAA
1 TTAA
65650018 ATTTTACCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 74 0.99
77 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (76 bp):
TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATATATTTTTGTAGTTACATTTATCTCAAA
TATTTTCCTTT
Found at i:65653650 original size:15 final size:15
Alignment explanation
Indices: 65653626--65653664 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
65653616 TTGCAATACG
*
65653626 AAAACATAAGTGACT
1 AAAACGTAAGTGACT
65653641 AAAACGTAAGTGACT
1 AAAACGTAAGTGACT
*
65653656 AAAATGTAA
1 AAAACGTAA
65653665 CCTGAGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (15 bp):
AAAACGTAAGTGACT
Found at i:65658240 original size:30 final size:31
Alignment explanation
Indices: 65658196--65658274 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
65658186 GCTTATATAC
*
65658196 TAAATATAATAATAAAATAATA-ATATCTCAT
1 TAAA-ATAATAATAAAATAATATATATCTAAT
* * *
65658227 TAAAATATTAATAAAATGATATTTATCTAAT
1 TAAAATAATAATAAAATAATATATATCTAAT
*
65658258 T-AAATAATCATAAAATA
1 TAAAATAATAATAAAATA
65658275 TTAAAATATC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 28 0.70
31 12 0.30
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (31 bp):
TAAAATAATAATAAAATAATATATATCTAAT
Found at i:65659932 original size:17 final size:17
Alignment explanation
Indices: 65659910--65659947 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
65659900 AACACAGGCA
*
65659910 ATCCACATGGCCATGTG
1 ATCCACATAGCCATGTG
*
65659927 ATCCACATAGCCGTGTG
1 ATCCACATAGCCATGTG
65659944 -TCCA
1 ATCCA
65659948 GGGAGTGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (17 bp):
ATCCACATAGCCATGTG
Done.