Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 33 of 117
Found at i:8366196 original size:30 final size:31
Alignment explanation
Indices: 8366128--8366237 Score: 102
Period size: 30 Copynumber: 3.6 Consensus size: 31
8366118 TTTTTGATGT
* *
8366128 ACTT-AAATAAGTTATTAATTTTTAATTTAC
1 ACTTCAAATAAATTTTTAATTTTTAATTTAC
* **
8366158 ACTTCAAATAATTTTTTAATTTTTAATTTTT
1 ACTTCAAATAAATTTTTAATTTTTAATTTAC
* *
8366189 A-TTCAAATAAAATTTTT-ATCTTTAATTTAT
1 ACTTCAAAT-AAATTTTTAATTTTTAATTTAC
* *
8366219 AC-TAAAATAAAATTTTAAT
1 ACTTCAAATAAATTTTTAAT
8366238 ATAAATCAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
29 7 0.10
30 30 0.45
31 30 0.45
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (31 bp):
ACTTCAAATAAATTTTTAATTTTTAATTTAC
Found at i:8366205 original size:31 final size:31
Alignment explanation
Indices: 8366142--8366234 Score: 109
Period size: 30 Copynumber: 3.0 Consensus size: 31
8366132 AAATAAGTTA
* *
8366142 TTAATTTTTAATTTACACTTCAAAT-AATTTT
1 TTAATTTTTAATTTATA-TTCAAATAAAATTT
*
8366173 TTAATTTTTAATTTTTATTCAAATAAAATTT
1 TTAATTTTTAATTTATATTCAAATAAAATTT
* * *
8366204 TT-ATCTTTAATTTATACTAAAATAAAATTT
1 TTAATTTTTAATTTATATTCAAATAAAATTT
8366234 T
1 T
8366235 AATATAAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 32 0.59
31 22 0.41
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (31 bp):
TTAATTTTTAATTTATATTCAAATAAAATTT
Found at i:8366348 original size:29 final size:29
Alignment explanation
Indices: 8366306--8366362 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8366296 ATTAATTCAA
8366306 AAAAATAAAATTA-TAAAAATTTATTTAAG
1 AAAAATAAAATTATTAAAAATTT-TTTAAG
** *
8366335 AAAAATAAGTTTATTTAAAATTTTTTAA
1 AAAAATAAAATTATTAAAAATTTTTTAA
8366363 TATTTTAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (29 bp):
AAAAATAAAATTATTAAAAATTTTTTAAG
Found at i:8370572 original size:16 final size:16
Alignment explanation
Indices: 8370551--8370583 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8370541 TGATAAACGA
8370551 ATGATAATGATAATTT
1 ATGATAATGATAATTT
8370567 ATGATAATGATAATTT
1 ATGATAATGATAATTT
8370583 A
1 A
8370584 CGATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
ATGATAATGATAATTT
Found at i:8373354 original size:2 final size:2
Alignment explanation
Indices: 8373347--8373371 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8373337 ACATACATAC
8373347 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8373372 GCCATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8381359 original size:16 final size:17
Alignment explanation
Indices: 8381340--8381372 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8381330 CCTGGGTTTG
*
8381340 ATGGGTCATGGG-CCTC
1 ATGGCTCATGGGTCCTC
8381356 ATGGCTCATGGGTCCTC
1 ATGGCTCATGGGTCCTC
8381373 CAATAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.27, G:0.33, T:0.27
Consensus pattern (17 bp):
ATGGCTCATGGGTCCTC
Found at i:8383896 original size:19 final size:19
Alignment explanation
Indices: 8383865--8383901 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8383855 GCCACTAAAG
8383865 CTTTTTTTATTTTTTCTCC
1 CTTTTTTTATTTTTTCTCC
8383884 CTTTCTTTT-TTTTTTCTC
1 CTTT-TTTTATTTTTTCTC
8383902 TGTCATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
CTTTTTTTATTTTTTCTCC
Found at i:8383917 original size:152 final size:156
Alignment explanation
Indices: 8383679--8383976 Score: 460
Period size: 152 Copynumber: 1.9 Consensus size: 156
8383669 TTGCACCGTG
* *
8383679 TCGACCGTCACACCTTGTCATCCGCTACCAAAGCTTTTTTTATTTTTTTCTCCCTTTCTTTTCCT
1 TCGACCGTCACACCTTGCCATCCGCCACCAAAGCTTTTTTTATTTTTTTCTCCCTTTCTTTTCCT
* *
8383744 TTTCTCTGTTATCTCTCCCCATCACTACATCTT-CTTTC-CC-CTCCAGTCGAAACTGAGCCTTC
66 TTTCTCTGTCATCTCTCCCCATCACTACATCTTCCTTTCTCCTCTCCAATCGAAACTGAGCCTTC
*
8383806 TTATGCCACTGTCGCACCCTCTTTTC
131 TTATGCCACCGTCGCACCCTCTTTTC
* * **
8383832 TCGATCGTCACACCTTGCCATCCGCCACTAAAGCTTTTTTTA-TTTTTTCTCCCTTTCTTTTTTT
1 TCGACCGTCACACCTTGCCATCCGCCACCAAAGCTTTTTTTATTTTTTTCTCCCTTTCTTTTCCT
* * *
8383896 TTTCTCTGTCATCTTTTCCCATCACTACATCTTCCTTTCTCCTCTTCAATCGAAACTGAGCCTTC
66 TTTCTCTGTCATCTCTCCCCATCACTACATCTTCCTTTCTCCTCTCCAATCGAAACTGAGCCTTC
8383961 TTATGCCACCGTCGCA
131 TTATGCCACCGTCGCA
8383977 GGTGGTTTCG
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
152 50 0.38
153 43 0.33
154 2 0.02
155 35 0.27
ACGTcount: A:0.15, C:0.35, G:0.08, T:0.42
Consensus pattern (156 bp):
TCGACCGTCACACCTTGCCATCCGCCACCAAAGCTTTTTTTATTTTTTTCTCCCTTTCTTTTCCT
TTTCTCTGTCATCTCTCCCCATCACTACATCTTCCTTTCTCCTCTCCAATCGAAACTGAGCCTTC
TTATGCCACCGTCGCACCCTCTTTTC
Found at i:8385281 original size:28 final size:26
Alignment explanation
Indices: 8385211--8385281 Score: 61
Period size: 28 Copynumber: 2.5 Consensus size: 26
8385201 AAGTTAGTAT
*
8385211 AAATCTAAATGTTTAGATTAAATCTGA
1 AAAT-TAAATGTTTAAATTAAATCTGA
* * *
8385238 AAATTAAATTAATTTAAATTAATTTTGACA
1 AAATTAAA-T-GTTTAAATTAAATCTG--A
8385268 AAATTAAATGTTTA
1 AAATTAAATGTTTA
8385282 CATACTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
26 4 0.11
27 5 0.14
28 16 0.46
29 1 0.03
30 9 0.26
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (26 bp):
AAATTAAATGTTTAAATTAAATCTGA
Found at i:8386983 original size:18 final size:18
Alignment explanation
Indices: 8386960--8387002 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8386950 TCAAATACAT
*
8386960 ATTTCATCTATAA-TTTTA
1 ATTTCATC-ATAACATTTA
8386978 ATTTCATCATAACATTTA
1 ATTTCATCATAACATTTA
8386996 ATTTCAT
1 ATTTCAT
8387003 AATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTCATCATAACATTTA
Found at i:8388500 original size:23 final size:25
Alignment explanation
Indices: 8388458--8388503 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8388448 ATTTTATATA
*
8388458 TTATTAATGAATTAGTAATATTATT
1 TTATTAATGAAGTAGTAATATTATT
8388483 TTATTAATGAAGT-G-AATATTA
1 TTATTAATGAAGTAGTAATATTA
8388504 ACTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (25 bp):
TTATTAATGAAGTAGTAATATTATT
Found at i:8391980 original size:15 final size:16
Alignment explanation
Indices: 8391952--8391983 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8391942 TACATAGTTA
8391952 AATACTATTATTAAAT
1 AATACTATTATTAAAT
8391968 AATACTA-TATTAAAT
1 AATACTATTATTAAAT
8391983 A
1 A
8391984 CTAGTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AATACTATTATTAAAT
Found at i:8392999 original size:17 final size:18
Alignment explanation
Indices: 8392965--8393000 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8392955 ATTCAGATAG
*
8392965 TTATAATTTTTTGTATTA
1 TTATAATTTTTTGAATTA
8392983 TTATAATTTTTT-AATTA
1 TTATAATTTTTTGAATTA
8393000 T
1 T
8393001 ATTTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATAATTTTTTGAATTA
Found at i:8397086 original size:22 final size:21
Alignment explanation
Indices: 8397057--8397114 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
8397047 CTATATATGA
8397057 TAATAATTTTTTATATTAATT
1 TAATAATTTTTTATATTAATT
8397078 TAATTAA--TTTTATATT-ATT
1 TAA-TAATTTTTTATATTAATT
8397097 TAATAATTTATTTA-ATTA
1 TAATAATTT-TTTATATTA
8397115 TAATATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 3 0.09
19 6 0.19
20 13 0.41
21 7 0.22
22 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATAATTTTTTATATTAATT
Found at i:8397088 original size:20 final size:20
Alignment explanation
Indices: 8397065--8397118 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
8397055 GATAATAATT
8397065 TTTTATATTAATTTAATTAA
1 TTTTATATTAATTTAATTAA
8397085 TTTTATATT-ATTTAA-TAA
1 TTTTATATTAATTTAATTAA
8397103 -TTTAT-TTAATTATAAT
1 TTTTATATTAATT-TAAT
8397119 ATTATTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.06
17 8 0.26
18 6 0.19
19 6 0.19
20 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATATTAATTTAATTAA
Found at i:8397111 original size:27 final size:28
Alignment explanation
Indices: 8397073--8397127 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
8397063 TTTTTTATAT
*
8397073 TAATTTAATTAATT-TTATATTATTTAA
1 TAATTTAATTAATTATAATATTATTTAA
*
8397100 TAATTTATTTAATTATAATATTATTTAA
1 TAATTTAATTAATTATAATATTATTTAA
8397128 ATGTTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TAATTTAATTAATTATAATATTATTTAA
Found at i:8398060 original size:23 final size:21
Alignment explanation
Indices: 8398030--8398078 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
8398020 AATAATTGAA
8398030 TTTTATTTAATAAATACTATTAT
1 TTTTATTTAATAAA-A-TATTAT
*
8398053 TTTTATTTATTAAAATATTAT
1 TTTTATTTAATAAAATATTAT
*
8398074 ATTTA
1 TTTTA
8398079 CAAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 1 0.04
23 13 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATTTAATAAAATATTAT
Found at i:8400420 original size:66 final size:65
Alignment explanation
Indices: 8400314--8400443 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 65
8400304 TGCACAGGGG
*
8400314 GCTATTGGAATTGCATGTCGACGCAATGATGAAAAAATGGTATGTTTTTATTTTTATTCTGATTT
1 GCTATTGGAATTGCATGTCGAAGCAATGATGAAAAAATGGTATG-TTTTATTTTTATTCTGATTT
8400379 T
65 T
*
8400380 GCTATTGGAATTGCATGTTGAAGCAATGATGAAAAAATGGTATGTTTTATTTTTATTCTGATTT
1 GCTATTGGAATTGCATGTCGAAGCAATGATGAAAAAATGGTATGTTTTATTTTTATTCTGATTT
8400444 ATGTCCGACC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 20 0.32
66 42 0.68
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (65 bp):
GCTATTGGAATTGCATGTCGAAGCAATGATGAAAAAATGGTATGTTTTATTTTTATTCTGATTTT
Found at i:8404071 original size:20 final size:21
Alignment explanation
Indices: 8404048--8404087 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8404038 ATTATAATTA
*
8404048 ATATATTCATATTTA-AAAAT
1 ATATATACATATTTATAAAAT
8404068 ATATATACATATTTATAAAA
1 ATATATACATATTTATAAAA
8404088 AAAATTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATACATATTTATAAAAT
Found at i:8411992 original size:32 final size:33
Alignment explanation
Indices: 8411923--8411992 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
8411913 AAATTTATTT
* * *
8411923 ATTAGTTTATTATATAATAATACTTATTTAAAT
1 ATTAATTTATTATATAATAATACTTATTCAAAC
* *
8411956 ATTAATTTATTATAT-ATAATATTTATTCATAC
1 ATTAATTTATTATATAATAATACTTATTCAAAC
8411988 ATTAA
1 ATTAA
8411993 ATTAAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (33 bp):
ATTAATTTATTATATAATAATACTTATTCAAAC
Found at i:8412605 original size:34 final size:34
Alignment explanation
Indices: 8412567--8412635 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
8412557 CTTTTAGATG
* * *
8412567 TACATATTTGATAAAT-TATTTAATTTATTAAAAA
1 TACATATATGATAAGTAT-TTTAATTTACTAAAAA
8412601 TACATATATGATAAGTATTTTAATTTACTAAAAA
1 TACATATATGATAAGTATTTTAATTTACTAAAAA
8412635 T
1 T
8412636 GTATATTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (34 bp):
TACATATATGATAAGTATTTTAATTTACTAAAAA
Found at i:8422901 original size:43 final size:43
Alignment explanation
Indices: 8422853--8422938 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
8422843 TTACGAATTC
8422853 AGCGTCAACAACCCATCAAAACCCATATACTTTGCAATCAATG
1 AGCGTCAACAACCCATCAAAACCCATATACTTTGCAATCAATG
*
8422896 AGCGTCAACTACCCATCAAAACCCATATACTTTGCAATCAATG
1 AGCGTCAACAACCCATCAAAACCCATATACTTTGCAATCAATG
8422939 GCCCCATCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.30, G:0.09, T:0.22
Consensus pattern (43 bp):
AGCGTCAACAACCCATCAAAACCCATATACTTTGCAATCAATG
Found at i:8426154 original size:8 final size:8
Alignment explanation
Indices: 8426135--8426165 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
8426125 TATGTATGTC
8426135 ATTATT-T
1 ATTATTAT
8426142 ATTATTAT
1 ATTATTAT
8426150 ATTATTAT
1 ATTATTAT
8426158 ATTATTAT
1 ATTATTAT
8426166 TTTGCTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTATTAT
Found at i:8426360 original size:34 final size:34
Alignment explanation
Indices: 8426317--8426388 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
8426307 TTAATTAATG
* *
8426317 GCATGATAATTTATAACTAATTTACTATGTTATT
1 GCATGATAATTTATAACTAATATACTATATTATT
* *
8426351 GCATGATAATTTATAATTGATATACTATATTATT
1 GCATGATAATTTATAACTAATATACTATATTATT
8426385 GCAT
1 GCAT
8426389 AATATTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (34 bp):
GCATGATAATTTATAACTAATATACTATATTATT
Found at i:8432602 original size:34 final size:34
Alignment explanation
Indices: 8432504--8432602 Score: 90
Period size: 34 Copynumber: 2.9 Consensus size: 34
8432494 ATTCTTGCAG
** * *
8432504 ATCTAAAAATCTTTGTGAAACTTGGAACCTTGTGA
1 ATCT-AAAATCTTTGCAAAACTTGAAACCTTGCGA
* * * * * *
8432539 ATTTGAAACCTCTGCAAAAGTTGACACCTTGCGA
1 ATCTAAAATCTTTGCAAAACTTGAAACCTTGCGA
*
8432573 ATCTAAAATCTTTGCAAAACATGAAACCTT
1 ATCTAAAATCTTTGCAAAACTTGAAACCTT
8432603 TGTGAATTTG
Statistics
Matches: 47, Mismatches: 17, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
34 44 0.94
35 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (34 bp):
ATCTAAAATCTTTGCAAAACTTGAAACCTTGCGA
Found at i:8433524 original size:15 final size:15
Alignment explanation
Indices: 8433506--8433543 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8433496 TAAAGATACA
**
8433506 AAAAATCAAAATTTC
1 AAAAATCAAAATCCC
8433521 AAAAATC-AAATCCC
1 AAAAATCAAAATCCC
8433535 AAAAATCAA
1 AAAAATCAA
8433544 TGAAATTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAATCAAAATCCC
Found at i:8433820 original size:26 final size:25
Alignment explanation
Indices: 8433766--8433826 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 25
8433756 GTCTTTTAAA
8433766 TTTTGGTTTTTTTTTTATTTGATTTG
1 TTTTGGTTTTTTTTTTATTT-ATTTG
8433792 TTTTGAGTATTTTTTTTT-TTT-TTTGG
1 TTTTG-GT-TTTTTTTTTATTTATTT-G
8433818 TTTTAGGTT
1 TTTT-GGTT
8433827 AGTTGTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 4 0.13
26 12 0.39
27 6 0.19
28 9 0.29
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.75
Consensus pattern (25 bp):
TTTTGGTTTTTTTTTTATTTATTTG
Found at i:8436439 original size:9 final size:8
Alignment explanation
Indices: 8436421--8436600 Score: 80
Period size: 8 Copynumber: 21.5 Consensus size: 8
8436411 TGCAACTCCG
8436421 AACCTTAA
1 AACCTTAA
8436429 AACCTTTAA
1 AACC-TTAA
*
8436438 AATCTT-A
1 AACCTTAA
8436445 AACAC-TAA
1 AAC-CTTAA
*
8436453 AATGCTTAA
1 AA-CCTTAA
* *
8436462 AATCGTAA
1 AACCTTAA
* *
8436470 AACCCTCAC
1 AA-CCTTAA
8436479 AACTCTTGAA
1 AAC-CTT-AA
* *
8436489 ACCCTAAA
1 AACCTTAA
8436497 AACC-TAA
1 AACCTTAA
*
8436504 AATCTTAA
1 AACCTTAA
*
8436512 AACTCTCAA
1 AAC-CTTAA
8436521 AACCTTAA
1 AACCTTAA
* *
8436529 ACCCTCAA
1 AACCTTAA
*
8436537 AATCCCTAA
1 AA-CCTTAA
8436546 AACCCTTAA
1 AA-CCTTAA
*
8436555 AATCCTTGA
1 AA-CCTTAA
8436564 AACCTTAA
1 AACCTTAA
*
8436572 AATCTTAA
1 AACCTTAA
8436580 AA-CTTCAA
1 AACCTT-AA
*
8436588 AATCCTCAA
1 AA-CCTTAA
8436597 AACC
1 AACC
8436601 CCCCAAAACC
Statistics
Matches: 127, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
7 12 0.09
8 59 0.46
9 51 0.40
10 5 0.04
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.24
Consensus pattern (8 bp):
AACCTTAA
Found at i:8436507 original size:42 final size:42
Alignment explanation
Indices: 8436426--8436547 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
8436416 CTCCGAACCT
* * * * * *
8436426 TAAAACCTTTAAAATCTTAAACACT-AAAATGCTTAAAATCG
1 TAAAACCCTCAAAACCTTAAACCCTCAAAATACCTAAAATCG
* *
8436467 TAAAACCCTCACAACTCTTGAAACCCT-AAAA-ACCTAAAATCT
1 TAAAACCCTCAAAAC-CTT-AAACCCTCAAAATACCTAAAATCG
* *
8436509 TAAAACTCTCAAAACCTTAAACCCTCAAAATCCCTAAAA
1 TAAAACCCTCAAAACCTTAAACCCTCAAAATACCTAAAA
8436548 CCCTTAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
40 7 0.11
41 18 0.27
42 31 0.47
43 10 0.15
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (42 bp):
TAAAACCCTCAAAACCTTAAACCCTCAAAATACCTAAAATCG
Found at i:8436527 original size:17 final size:18
Alignment explanation
Indices: 8436493--8436601 Score: 97
Period size: 16 Copynumber: 6.4 Consensus size: 18
8436483 CTTGAAACCC
*
8436493 TAAAAACCT-AAAAT-CT
1 TAAAACCCTCAAAATCCT
*
8436509 TAAAACTCTCAAAA-CCT
1 TAAAACCCTCAAAATCCT
*
8436526 T-AAACCCTCAAAATCCC
1 TAAAACCCTCAAAATCCT
*
8436543 TAAAACCCTTAAAATCCT
1 TAAAACCCTCAAAATCCT
* *
8436561 TGAAA-CCTTAAAAT-CT
1 TAAAACCCTCAAAATCCT
*
8436577 TAAAA-CTTCAAAATCCT
1 TAAAACCCTCAAAATCCT
*
8436594 CAAAACCC
1 TAAAACCC
8436602 CCCAAAACCC
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
16 31 0.41
17 25 0.33
18 19 0.25
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (18 bp):
TAAAACCCTCAAAATCCT
Found at i:8436556 original size:51 final size:50
Alignment explanation
Indices: 8436490--8436601 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 50
8436480 ACTCTTGAAA
* *
8436490 CCCTAAAAACCTAAAAT-CTTAAAACTCTCAAAACCTTAAACCCTCAAAAT
1 CCCTAAAACCCTAAAATCCTTAAAAC-CTCAAAACCTTAAAACCTCAAAAT
* * * *
8436540 CCCTAAAACCCTTAAAATCCTTGAAACCTTAAAATCTTAAAACTTCAAAAT
1 CCCTAAAACCC-TAAAATCCTTAAAACCTCAAAACCTTAAAACCTCAAAAT
8436591 -CCTCAAAACCC
1 CCCT-AAAACCC
8436602 CCCAAAACCC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 13 0.25
51 33 0.62
52 7 0.13
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (50 bp):
CCCTAAAACCCTAAAATCCTTAAAACCTCAAAACCTTAAAACCTCAAAAT
Found at i:8436616 original size:9 final size:9
Alignment explanation
Indices: 8436510--8436619 Score: 52
Period size: 9 Copynumber: 12.7 Consensus size: 9
8436500 CTAAAATCTT
*
8436510 AAAACTCTC
1 AAAACCCTC
8436519 AAAA-CCT-
1 AAAACCCTC
*
8436526 TAAACCCTC
1 AAAACCCTC
8436535 AAAATCCCT-
1 AAAA-CCCTC
*
8436544 AAAACCCTT
1 AAAACCCTC
* *
8436553 AAAATCCTT
1 AAAACCCTC
* *
8436562 GAAA-CCTT
1 AAAACCCTC
* *
8436570 AAAA-TCTT
1 AAAACCCTC
*
8436578 AAAA-CTTC
1 AAAACCCTC
*
8436586 AAAATCCTC
1 AAAACCCTC
*
8436595 AAAACCCCCC
1 AAAA-CCCTC
8436605 AAAACCCTC
1 AAAACCCTC
8436614 AAAACC
1 AAAACC
8436620 TTTAAGACTC
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
7 3 0.04
8 28 0.35
9 39 0.48
10 11 0.14
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (9 bp):
AAAACCCTC
Found at i:8438351 original size:3 final size:3
Alignment explanation
Indices: 8438343--8438382 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8438333 TATGTCTTTC
8438343 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8438383 GATTAAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8438484 original size:23 final size:23
Alignment explanation
Indices: 8438440--8438484 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8438430 GATGCATTGT
**
8438440 TTATTTATTTATTTTTAATAATA
1 TTATTTATTTATGATTAATAATA
* *
8438463 TTATTTTTTTATGATTATTAAT
1 TTATTTATTTATGATTAATAAT
8438485 TAATTGCATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATTTATTTATGATTAATAATA
Found at i:8438502 original size:29 final size:29
Alignment explanation
Indices: 8438470--8438564 Score: 102
Period size: 29 Copynumber: 3.1 Consensus size: 29
8438460 ATATTATTTT
8438470 TTTATGATTATTAATTAATTGCATGATAA
1 TTTATGATTATTAATTAATTGCATGATAA
* *
8438499 TTTATAATTGATATACTATATTATTGCATGAT-A
1 TTTATGATT-AT-TA--AT-TAATTGCATGATAA
*
8438532 TTGCATGATTATTAATTAATTGCATGATAA
1 TT-TATGATTATTAATTAATTGCATGATAA
8438562 TTT
1 TTT
8438565 GTAATTGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
29 19 0.36
30 7 0.13
31 2 0.04
32 2 0.04
33 7 0.13
34 16 0.30
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (29 bp):
TTTATGATTATTAATTAATTGCATGATAA
Found at i:8438508 original size:18 final size:18
Alignment explanation
Indices: 8438485--8438531 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
8438475 GATTATTAAT
*
8438485 TAATTGCATGATAATTTA
1 TAATTGCATGATAATATA
*
8438503 TAATTG-AT-ATACTATA
1 TAATTGCATGATAATATA
*
8438519 TTATTGCATGATA
1 TAATTGCATGATA
8438532 TTGCATGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 11 0.46
17 4 0.17
18 9 0.38
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (18 bp):
TAATTGCATGATAATATA
Found at i:8438525 original size:34 final size:34
Alignment explanation
Indices: 8438487--8438590 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 34
8438477 TTATTAATTA
8438487 ATTGCATGATAATTTATAATTGATATACTATATT
1 ATTGCATGATAATTTATAATTGATATACTATATT
* * *
8438521 ATTGCATGAT-ATTGCATGATT-AT-TA--AT-TA
1 ATTGCATGATAATT-TATAATTGATATACTATATT
*
8438550 ATTGCATGATAATTTGTAATTGATATACTATATT
1 ATTGCATGATAATTTATAATTGATATACTATATT
8438584 ATTGCAT
1 ATTGCAT
8438591 AATATTGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
29 15 0.27
30 7 0.12
31 2 0.04
32 2 0.04
33 7 0.12
34 23 0.41
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (34 bp):
ATTGCATGATAATTTATAATTGATATACTATATT
Found at i:8438546 original size:63 final size:63
Alignment explanation
Indices: 8438473--8438603 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
8438463 TTATTTTTTT
*
8438473 ATGATTATTAATTAATTGCATGATAATTTATAATTGATATACTATATTATTGCATGATATTGC
1 ATGATTATTAATTAATTGCATGATAATTTATAATTGATATACTATATTATTGCATAATATTGC
*
8438536 ATGATTATTAATTAATTGCATGATAATTTGTAATTGATATACTATATTATTGCATAATATTGC
1 ATGATTATTAATTAATTGCATGATAATTTATAATTGATATACTATATTATTGCATAATATTGC
8438599 ATGAT
1 ATGAT
8438604 AATTTTGGTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (63 bp):
ATGATTATTAATTAATTGCATGATAATTTATAATTGATATACTATATTATTGCATAATATTGC
Found at i:8438555 original size:19 final size:19
Alignment explanation
Indices: 8438473--8438559 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 19
8438463 TTATTTTTTT
8438473 ATGATTATTAATTAATTGC
1 ATGATTATTAATTAATTGC
* * *
8438492 ATGATAATTTATAATTGATATAC
1 ATGAT--TAT-TAATTAAT-TGC
* *
8438515 TAT-ATTATTGCATGATATTGC
1 -ATGATTATT-AATTA-ATTGC
8438536 ATGATTATTAATTAATTGC
1 ATGATTATTAATTAATTGC
8438555 ATGAT
1 ATGAT
8438560 AATTTGTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
19 15 0.30
20 6 0.12
21 14 0.28
22 9 0.18
23 4 0.08
24 2 0.04
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (19 bp):
ATGATTATTAATTAATTGC
Found at i:8442364 original size:147 final size:150
Alignment explanation
Indices: 8442212--8442512 Score: 457
Period size: 151 Copynumber: 2.0 Consensus size: 150
8442202 AAAGTTTATC
* *
8442212 CAACAAATTTTACCATATAGATTTTTTTATGAACATTATGAC-ATTATCCAAGGAAAAGCTTCAC
1 CAACAAATTTTACCATATAGATTTTTTTATGAACATTACGACAATTACCCAAGGAAAAGCTTCAC
* * *
8442276 CTGTCTATGC-A-AGTAATAATAAATGCATAAAAATCATAAAAAGAGAC-AAAGATTAGCTCAAT
66 CTGTCTAAGCAAGAGTAATAACAAATGCATAAAAATCATAAAAAGAGACAAAAG-TCAGCTCAAT
* * *
8442338 CCGATAGCCAATAAAGCTCGA
130 CCGACAACCAAGAAAGCTCGA
*
8442359 CAACAAATTTTACCATCTAGATTTTTTTATGAACATTACGACATATTACCCAAGGAAAAGCTTCA
1 CAACAAATTTTACCATATAGATTTTTTTATGAACATTACGACA-ATTACCCAAGGAAAAGCTTCA
*
8442424 CCTGTCTAAGCAAGAGTTATAACAAATGCATAAAAATCATAAAAAGAGACAAAAGTCAGCTCAAT
65 CCTGTCTAAGCAAGAGTAATAACAAATGCATAAAAATCATAAAAAGAGACAAAAGTCAGCTCAAT
*
8442489 CCGACAACTAAGAAAGCTCGA
130 CCGACAACCAAGAAAGCTCGA
8442510 CAA
1 CAA
8442513 TTGCAATAGA
Statistics
Matches: 138, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
147 40 0.29
149 30 0.22
150 1 0.01
151 63 0.46
152 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (150 bp):
CAACAAATTTTACCATATAGATTTTTTTATGAACATTACGACAATTACCCAAGGAAAAGCTTCAC
CTGTCTAAGCAAGAGTAATAACAAATGCATAAAAATCATAAAAAGAGACAAAAGTCAGCTCAATC
CGACAACCAAGAAAGCTCGA
Found at i:8443132 original size:24 final size:24
Alignment explanation
Indices: 8443096--8443145 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
8443086 AATATTAAAC
8443096 TTTTTTAATTTTA-TATTCAAATTAA
1 TTTTTTAATTTTATTA-TC-AATTAA
*
8443121 TTTTTTTA-TTTATTATCAATTAA
1 TTTTTTAATTTTATTATCAATTAA
8443144 TT
1 TT
8443146 CTAAATTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 8 0.35
24 6 0.26
25 9 0.39
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTTAATTTTATTATCAATTAA
Found at i:8446116 original size:22 final size:22
Alignment explanation
Indices: 8446076--8446118 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8446066 CTGACATGAA
*
8446076 TTTAAAATTTAATTTAATTAAT
1 TTTAAAATTTAATTAAATTAAT
8446098 TTTAAATATTTAA-TAAATTAA
1 TTTAAA-ATTTAATTAAATTAA
8446119 ACATTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAAAATTTAATTAAATTAAT
Found at i:8447096 original size:19 final size:19
Alignment explanation
Indices: 8447072--8447115 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
8447062 AAAAGATCGT
8447072 AATTTAAA-ATAACATATAA
1 AATTTAAATATAA-ATATAA
*
8447091 AATTTAAATATAAATTTAA
1 AATTTAAATATAAATATAA
8447110 AATTTA
1 AATTTA
8447116 GACAATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTAAATATAAATATAA
Found at i:8448118 original size:11 final size:11
Alignment explanation
Indices: 8448073--8448131 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
8448063 TATTAGATTT
8448073 AATAATATAAA
1 AATAATATAAA
*
8448084 ATATAATATAAT
1 A-ATAATATAAA
* *
8448096 GATGCGATATAAA
1 AAT--AATATAAA
8448109 AATAATATAAA
1 AATAATATAAA
*
8448120 AATAAAATAAA
1 AATAATATAAA
8448131 A
1 A
8448132 TTTTTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
11 21 0.55
12 9 0.24
13 8 0.21
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (11 bp):
AATAATATAAA
Found at i:8448210 original size:31 final size:32
Alignment explanation
Indices: 8448172--8448241 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
8448162 TAAATTTTAT
*
8448172 ATTTTTATA-ATAATACGAAT-TATAATATAT-A
1 ATTTTTATATAAAATA-GAATATA-AATATATAA
*
8448203 ATTTTTATATAAAATATAATATAAATATATAA
1 ATTTTTATATAAAATAGAATATAAATATATAA
8448235 ATTTTTA
1 ATTTTTA
8448242 ATATTTCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 19 0.56
32 15 0.44
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
ATTTTTATATAAAATAGAATATAAATATATAA
Found at i:8449024 original size:10 final size:10
Alignment explanation
Indices: 8449009--8449064 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
8448999 AATTAAATAT
8449009 ATATATAAAA
1 ATATATAAAA
8449019 ATATATAAAA
1 ATATATAAAA
8449029 ATAATTATAAAA
1 AT-A-TATAAAA
* *
8449041 TTAAATAAATA
1 ATATATAAA-A
*
8449052 AT-TAAAAAA
1 ATATATAAAA
8449061 ATAT
1 ATAT
8449065 TTATATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 3 0.08
10 22 0.59
11 4 0.11
12 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATATAAAA
Found at i:8449042 original size:40 final size:40
Alignment explanation
Indices: 8448989--8449064 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
8448979 TATTTTTAAT
* *
8448989 ATAAATATAAAATTAAATATAT-ATATAAAAATATATAAAA
1 ATAAATATAAAATTAAATAAATAAT-TAAAAAAATATAAAA
*
8449029 ATAATTATAAAATTAAATAAATAATTAAAAAAATAT
1 ATAAATATAAAATTAAATAAATAATTAAAAAAATAT
8449065 TTATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (40 bp):
ATAAATATAAAATTAAATAAATAATTAAAAAAATATAAAA
Found at i:8449048 original size:22 final size:24
Alignment explanation
Indices: 8449003--8449049 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
8448993 ATATAAAATT
*
8449003 AAATATATATATAAAAATATATAA
1 AAATATATATATAAAAATAAATAA
*
8449027 AAATA-AT-TATAAAATTAAATAA
1 AAATATATATATAAAAATAAATAA
8449049 A
1 A
8449050 TAATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 2 0.10
24 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATATATATATAAAAATAAATAA
Found at i:8449052 original size:20 final size:20
Alignment explanation
Indices: 8448989--8449059 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
8448979 TATTTTTAAT
* *
8448989 ATAAATATAAAATTAAATAT
1 ATAATTATAAAATTAAATAA
8449009 AT-A-TATAAAAATATATAA-AA
1 ATAATTAT-AAAAT-TA-AATAA
8449029 ATAATTATAAAATTAAATAA
1 ATAATTATAAAATTAAATAA
8449049 ATAATTA-AAAA
1 ATAATTATAAAA
8449060 AATATTTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
18 3 0.07
19 12 0.27
20 18 0.41
21 8 0.18
22 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATTATAAAATTAAATAA
Found at i:8449601 original size:19 final size:18
Alignment explanation
Indices: 8449569--8449605 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
8449559 AGGATTTAGA
*
8449569 AATTTTTAATTTTATTTT
1 AATTTTTAAATTTATTTT
8449587 AATTTTTGAAATTTATTTT
1 AATTTTT-AAATTTATTTT
8449606 TTATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
AATTTTTAAATTTATTTT
Found at i:8451971 original size:31 final size:32
Alignment explanation
Indices: 8451933--8452009 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
8451923 TAAAATGTTA
* ** *
8451933 CAAATGAAATCCAA-GTGTATTAATATTTTAT
1 CAAATGAAATCAAACGTAAATTAATATTTTAC
*
8451964 CAAATGAAATCAAACGTAAATTACTATTTTAC
1 CAAATGAAATCAAACGTAAATTAATATTTTAC
8451996 CAAATGAAATCAAA
1 CAAATGAAATCAAA
8452010 TGAACTCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 13 0.32
32 27 0.68
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (32 bp):
CAAATGAAATCAAACGTAAATTAATATTTTAC
Found at i:8453090 original size:256 final size:260
Alignment explanation
Indices: 8452770--8453297 Score: 769
Period size: 264 Copynumber: 2.0 Consensus size: 260
8452760 GTATATTTGC
* * *
8452770 TTTATACATTTATATATGAAATACATCAATTACTCAAATGGATACTATATTTAATTAAATATAAA
1 TTTATACATTTACACATGAAATACATCAATTAC-C--ATGGATACTATATTTAATCAAATATAAA
* *
8452835 TATATCAAATAATTAATTATAGAATCAACTATTTTATAATTGTAATTATAG-T-ATTTATTAATT
63 TATATCAAACAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTTAATTTATTAATT
* *
8452898 ATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATATTTTTAATATAAA
128 ATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTGTAATACTTTTAATATAAA
**
8452963 TTGAATTGA-AAGTGATTTAAAATAAAAAATAAAAACATAAATATAATCAATTTAATTTTTTGAA
193 TTGAATTGAGAA-TGATTTAAAATAAAAAATAAAAACATAAATATAATCAATTTAAAATTTTGAA
8453027 TTAT
257 TTAT
* * *
8453031 TTTATATATTTACACATGAAATACATCAATTA-C-TGGATATTATATTTAATCAAATATAAATGT
1 TTTATACATTTACACATGAAATACATCAATTACCATGGATACTATATTTAATCAAATATAAATAT
*
8453094 ATCAAACAATTGATTAGAGAATCAACTATTTTATAATTGTAATTATAGTTTTTATTAATTTATTA
66 ATCAAACAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAG------TTAATTTATTA
8453159 ATTATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTGTAATACTTTTAATAT
125 ATTATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTGTAATACTTTTAATAT
** * * *
8453224 AAATTGAATTGAGAATGATTTAAGGTTAATAATAAAAATATAAATATAATCAATTTAAAATTTTG
190 AAATTGAATTGAGAATGATTTAAAATAAAAAATAAAAACATAAATATAATCAATTTAAAATTTTG
8453289 AATTAT
255 AATTAT
8453295 TTT
1 TTT
8453298 TAAATTAAAA
Statistics
Matches: 240, Mismatches: 18, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
256 72 0.30
259 1 0.00
261 29 0.12
263 1 0.00
264 135 0.56
265 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (260 bp):
TTTATACATTTACACATGAAATACATCAATTACCATGGATACTATATTTAATCAAATATAAATAT
ATCAAACAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTTAATTTATTAATTATA
TATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTGTAATACTTTTAATATAAATTG
AATTGAGAATGATTTAAAATAAAAAATAAAAACATAAATATAATCAATTTAAAATTTTGAATTAT
Found at i:8454453 original size:80 final size:81
Alignment explanation
Indices: 8454341--8454497 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 81
8454331 TAATAAATAA
8454341 ATAAATAAATTATAAAAGAAGAAGCTAGTTTTTAGAATTTGTTCTTTTTGATATATTTGAGATGG
1 ATAAATAAATTATAAAAGAAGAAGCTAGTTTTTAGAATTTGTTCTTTTTGATATATTTGAGATGG
8454406 AAAAGC-ATAAAAATTT
66 AAAA-CTATAAAAATTT
* *
8454422 ATAAATAAATTAT-AAAGAAGACGTTAGTTTTTAGAATTTGTTCTTTTTGATATATTTGAGATGG
1 ATAAATAAATTATAAAAGAAGAAGCTAGTTTTTAGAATTTGTTCTTTTTGATATATTTGAGATGG
8454486 AAAACTATAAAA
66 AAAACTATAAAA
8454498 TTTTGAAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
79 1 0.01
80 59 0.81
81 13 0.18
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.39
Consensus pattern (81 bp):
ATAAATAAATTATAAAAGAAGAAGCTAGTTTTTAGAATTTGTTCTTTTTGATATATTTGAGATGG
AAAACTATAAAAATTT
Found at i:8454800 original size:20 final size:22
Alignment explanation
Indices: 8454762--8454812 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
8454752 AAAAACTTTC
8454762 AAAAAATGAAATTAAAATA-TTA
1 AAAAAAT-AAATTAAAATATTTA
*
8454784 AAAAAATAAATT-TAATATTTA
1 AAAAAATAAATTAAAATATTTA
8454805 AAAAAATA
1 AAAAAATA
8454813 TAAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 16 0.59
22 7 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAATAAATTAAAATATTTA
Found at i:8460101 original size:2 final size:2
Alignment explanation
Indices: 8460094--8460122 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8460084 ATGGATTTGT
8460094 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8460123 TGGATTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8467094 original size:16 final size:17
Alignment explanation
Indices: 8467065--8467111 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
8467055 TGAAAATTAT
*
8467065 TTTTTATTTAATTTT-AA
1 TTTTTATAT-ATTTTAAA
8467082 TTTTTATATATTTTAAA
1 TTTTTATATATTTTAAA
*
8467099 TTATTTAAATATT
1 TT-TTTATATATT
8467112 ACTTTTAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 5 0.19
17 12 0.46
18 9 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTATATATTTTAAA
Found at i:8469449 original size:2 final size:2
Alignment explanation
Indices: 8469442--8469466 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8469432 AAGCTTGTGT
8469442 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8469467 TATCATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8470891 original size:32 final size:33
Alignment explanation
Indices: 8470838--8470899 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 33
8470828 AAAATGAGTT
*
8470838 TTATCATATTATAAGTAATAAA-ACAAATGAACC
1 TTATCATATTATAAATAATAAAGA-AAATGAACC
8470871 TTATCA-ATTATAAA-ATATAAAGAAAATGA
1 TTATCATATTATAAATA-ATAAAGAAAATGA
8470900 GCTTTGTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
31 1 0.04
32 18 0.69
33 7 0.27
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (33 bp):
TTATCATATTATAAATAATAAAGAAAATGAACC
Found at i:8473071 original size:39 final size:39
Alignment explanation
Indices: 8473028--8473106 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
8473018 CCAATTAACG
* * *
8473028 TGTAATACCCCAGCTCAAATAATTATTGGGTTAGATTAA
1 TGTAATACCCCAGCCCAAATAATAATTGGGTTAGACTAA
*
8473067 TGTAATACCTCAGCCCAAATAATAATTGGGTTAGACTAA
1 TGTAATACCCCAGCCCAAATAATAATTGGGTTAGACTAA
8473106 T
1 T
8473107 ATTAAAGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (39 bp):
TGTAATACCCCAGCCCAAATAATAATTGGGTTAGACTAA
Found at i:8475970 original size:424 final size:424
Alignment explanation
Indices: 8475182--8476032 Score: 1596
Period size: 424 Copynumber: 2.0 Consensus size: 424
8475172 AAAGATATGA
* * *
8475182 ATTTTACTTGGTATATTATTTTATTGAAGAATTTTAGAATGTTTAATAAATAAGGCTTCGTATTA
1 ATTTTACTTGGTATATTATTTTATTGAAGAATTTTAGAATGTTTAAGAAAGAAGGCTTCATATTA
* * *
8475247 CTTTGAGATTTTCTTCAAGGTAATATAGCCGTGTTATGCCTCGATTCGGAACGTGATATAATGTT
66 CTTTGAGATTTTCTTCAAGGTAATATAGCCGTATTATGCCTCAATTCGGAACGTGACATAATGTT
8475312 ACATGATTACATCAACTAACATCACACGTAACAAATGAGGGAGCAAAATAAAATTATTTCAAAGT
131 ACATGATTACATCAACTAACATCACACGTAACAAATGAGGGAGCAAAATAAAATTATTTCAAAGT
8475377 TTAAAGATAAAAGATGAAAACTATCTCAAAATTTTCTATATTCCACATATATTTTATAAAATATT
196 TTAAAGATAAAAGATGAAAACTATCTCAAAATTTTCTATATTCCACATATATTTTATAAAATATT
8475442 AAATTTAAAATTAAAATTTTTTATTTTTGTTGTAATATAATTTATTAGTTAGATTTTTTTGTTTT
261 AAATTTAAAATTAAAATTTTTTATTTTTGTTGTAATATAATTTATTAGTTAGATTTTTTTGTTTT
8475507 TAATAGAAAATAGATTTTTAAAAATTAAAATTAAGTTAAAAATTCATATTCTTTTTTTAAATAAT
326 TAATAGAAAATAGATTTTTAAAAATTAAAATTAAGTTAAAAATTCATATTCTTTTTTTAAATAAT
8475572 TTAATATCATTTAAAAAATATTTTTATTGAAAAT
391 TTAATATCATTTAAAAAATATTTTTATTGAAAAT
8475606 ATTTTACTTGGTATATTATTTTATTGAAGAATTTTAGAATGTTTAAGAAAGAAGGCTTCATATTA
1 ATTTTACTTGGTATATTATTTTATTGAAGAATTTTAGAATGTTTAAGAAAGAAGGCTTCATATTA
*
8475671 CTTTGAGATTTTCTTCAAGGTAATAT-GACCGTATTATGCCTCAATTCGGAGCGTGACATAATGT
66 CTTTGAGATTTTCTTCAAGGTAATATAG-CCGTATTATGCCTCAATTCGGAACGTGACATAATGT
* *
8475735 TATATGATTACATCAACTAACATCGCACGTAACAAATGAGGGAGCAAAATAAAATTATTTCAAAG
130 TACATGATTACATCAACTAACATCACACGTAACAAATGAGGGAGCAAAATAAAATTATTTCAAAG
8475800 TTTAAAGATAAAAGATGAAAACTATCTCAAAATTTTCTATATTCCACATATATTTTATAAAATAT
195 TTTAAAGATAAAAGATGAAAACTATCTCAAAATTTTCTATATTCCACATATATTTTATAAAATAT
*
8475865 TAAATTTAAAATTAAATTTTTTTATTTTTGTTGTAATATAATTTATTAGTTAGATTTTTTTGTTT
260 TAAATTTAAAATTAAAATTTTTTATTTTTGTTGTAATATAATTTATTAGTTAGATTTTTTTGTTT
8475930 TTAATAGAAAATAGATTTTTAAAAATTAAAATTAAGTTAAAAATTCATATTCTTTTTTTAAATAA
325 TTAATAGAAAATAGATTTTTAAAAATTAAAATTAAGTTAAAAATTCATATTCTTTTTTTAAATAA
8475995 TTTAATATCATTTAAAAAATATTTTTATTGAAAAT
390 TTTAATATCATTTAAAAAATATTTTTATTGAAAAT
8476030 ATT
1 ATT
8476033 ATTTACTCAT
Statistics
Matches: 416, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
423 1 0.00
424 415 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (424 bp):
ATTTTACTTGGTATATTATTTTATTGAAGAATTTTAGAATGTTTAAGAAAGAAGGCTTCATATTA
CTTTGAGATTTTCTTCAAGGTAATATAGCCGTATTATGCCTCAATTCGGAACGTGACATAATGTT
ACATGATTACATCAACTAACATCACACGTAACAAATGAGGGAGCAAAATAAAATTATTTCAAAGT
TTAAAGATAAAAGATGAAAACTATCTCAAAATTTTCTATATTCCACATATATTTTATAAAATATT
AAATTTAAAATTAAAATTTTTTATTTTTGTTGTAATATAATTTATTAGTTAGATTTTTTTGTTTT
TAATAGAAAATAGATTTTTAAAAATTAAAATTAAGTTAAAAATTCATATTCTTTTTTTAAATAAT
TTAATATCATTTAAAAAATATTTTTATTGAAAAT
Found at i:8480717 original size:50 final size:52
Alignment explanation
Indices: 8480651--8480776 Score: 177
Period size: 50 Copynumber: 2.5 Consensus size: 52
8480641 TTAGTGAGGC
* *
8480651 TTAAATTTTGACAATTTTAAATATAAAAAAATATTAATTTTGGTGA-GGA-T
1 TTAAATTTTGATAATTTTAAATATAAAAAAATATTAATTTTGCTGATGGAGT
** *
8480701 TTAAATTTTGATAATTTTAAATAT-AAAAGTTTTTAATTTTGCTGATGGAGT
1 TTAAATTTTGATAATTTTAAATATAAAAAAATATTAATTTTGCTGATGGAGT
*
8480752 TTAAATTTTGATAATTTTACATATA
1 TTAAATTTTGATAATTTTAAATATA
8480777 TATATTTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 17 0.25
50 26 0.39
51 24 0.36
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (52 bp):
TTAAATTTTGATAATTTTAAATATAAAAAAATATTAATTTTGCTGATGGAGT
Found at i:8481459 original size:16 final size:16
Alignment explanation
Indices: 8481434--8481464 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8481424 ACGATTAGAT
8481434 ACATGAAAAAGATTAG
1 ACATGAAAAAGATTAG
*
8481450 ACATGTAAAAGATTA
1 ACATGAAAAAGATTA
8481465 ATTATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.23
Consensus pattern (16 bp):
ACATGAAAAAGATTAG
Found at i:8487719 original size:43 final size:43
Alignment explanation
Indices: 8487658--8487741 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
8487648 AAAGGAAAAT
*
8487658 TAAAAATACTGCTAAGGTAAGGAAACAACATAGAAAAAAAGTA
1 TAAAAATACTGCTAAGGTAAGGAAACAACACAGAAAAAAAGTA
8487701 TAAAAATACTGCTAAGGTAAGGAAACAACACAGAAAAAAAG
1 TAAAAATACTGCTAAGGTAAGGAAACAACACAGAAAAAAAG
8487742 AATTTCTACG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.58, C:0.11, G:0.17, T:0.14
Consensus pattern (43 bp):
TAAAAATACTGCTAAGGTAAGGAAACAACACAGAAAAAAAGTA
Found at i:8489803 original size:17 final size:19
Alignment explanation
Indices: 8489780--8489823 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
8489770 AGGCGGTAGG
8489780 AAAATAAAAT-AATA-ATA
1 AAAATAAAATAAATATATA
*
8489797 GAAAT-AAATAAATATATA
1 AAAATAAAATAAATATATA
8489815 AAAATAAAA
1 AAAATAAAA
8489824 AGGTTGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 7 0.32
19 3 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATAAAATAAATATATA
Found at i:8490364 original size:23 final size:21
Alignment explanation
Indices: 8490323--8490364 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
8490313 TTAATTTATT
8490323 TAAAATATAAAAATTTAAAAG
1 TAAAATATAAAAATTTAAAAG
8490344 TAAAATATAATATAATTTAAA
1 TAAAATATAA-A-AATTTAAA
8490365 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAATATAAAAATTTAAAAG
Found at i:8499979 original size:3 final size:3
Alignment explanation
Indices: 8499973--8500020 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8499963 TTAGATGATG
8499973 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8500021 GTCATAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8503804 original size:18 final size:18
Alignment explanation
Indices: 8503781--8503815 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8503771 TTACATCACT
*
8503781 TGCATTTGCATCATGAAC
1 TGCATTTGCATAATGAAC
8503799 TGCATTTGCATAATGAA
1 TGCATTTGCATAATGAA
8503816 AAAGATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
TGCATTTGCATAATGAAC
Found at i:8504347 original size:34 final size:34
Alignment explanation
Indices: 8504309--8504393 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
8504299 ACTTTTATTA
8504309 AAATTTTTTTGGTGGTGATATCTGAGCATTAATC
1 AAATTTTTTTGGTGGTGATATCTGAGCATTAATC
*** * * *
8504343 AAATTCACTAGGTGGTGATATTTGAGCTTTAATC
1 AAATTTTTTTGGTGGTGATATCTGAGCATTAATC
8504377 AAGATCTTTTATTGGTG
1 AA-AT-TTTT-TTGGTG
8504394 ATATGCAAGA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
34 30 0.79
35 2 0.05
36 1 0.03
37 5 0.13
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTTTTTTGGTGGTGATATCTGAGCATTAATC
Found at i:8504511 original size:34 final size:36
Alignment explanation
Indices: 8504431--8504512 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
8504421 TTCGAAGTTA
* * * *
8504431 TTTTTTATTTTTCTCAGTGGTGATATTCGAAATCAC
1 TTTTTTATTCTCCTCAGTAGTGATATCCGAAATCAC
* *
8504467 TTTTTCATTCTCCTCAGTAGTGATATCCG-AA-GAC
1 TTTTTTATTCTCCTCAGTAGTGATATCCGAAATCAC
8504501 TTTTTTATTCTC
1 TTTTTTATTCTC
8504513 GGTAGTGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 13 0.33
35 2 0.05
36 24 0.62
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (36 bp):
TTTTTTATTCTCCTCAGTAGTGATATCCGAAATCAC
Found at i:8504588 original size:59 final size:58
Alignment explanation
Indices: 8504517--8504683 Score: 153
Period size: 58 Copynumber: 2.8 Consensus size: 58
8504507 ATTCTCGGTA
* *
8504517 GTGATATTCGAGAATCTTTTGGTGGTGATATCGAAAGTCATTTTGCATTTTCCTCAGTG
1 GTGATA-TCGAGAATCTTTTGGTGGTGATATCGAAAGTCATTTTACATTTTCCTCAATG
* * * * ** * *
8504576 GTGATATCCGAGAATCCTTTAGTGATGATATCCG-AAGAC-TTTTTTATTCTCCTTAATG
1 GTGATAT-CGAGAATCTTTTGGTGGTGATAT-CGAAAGTCATTTTACATTTTCCTCAATG
*
8504634 GTGATATCTATGAAT-TATTTGGTGGTGATATTCGAAA-TCATTTTACATTT
1 GTGATATCGA-GAATCT-TTTGGTGGTGATA-TCGAAAGTCATTTTACATTT
8504684 AACTCGGTGG
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
57 2 0.02
58 40 0.48
59 40 0.48
60 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (58 bp):
GTGATATCGAGAATCTTTTGGTGGTGATATCGAAAGTCATTTTACATTTTCCTCAATG
Found at i:8504663 original size:58 final size:56
Alignment explanation
Indices: 8504486--8504669 Score: 151
Period size: 58 Copynumber: 3.2 Consensus size: 56
8504476 CTCCTCAGTA
**
8504486 GTGATATCCGAAGACTTTTTTATTCTCGGT-A--GTGATATTCGAGAATCTTTTGGTG
1 GTGATATCCGAAGACTTTTTTATTCTCCTTAATGGTGATA-TCGAGAAT-TTTTGGTG
* ** * * * * *
8504541 GTGATAT-CGAAAGTCATTTTGCATTTTCCTCAGTGGTGATATCCGAGAATCCTTTAGTG
1 GTGATATCCG-AAGAC-TTTTTTATTCTCCTTAATGGTGATAT-CGAGAAT-TTTTGGTG
* *
8504600 ATGATATCCGAAGACTTTTTTATTCTCCTTAATGGTGATATCTATGAATTATTTGGTG
1 GTGATATCCGAAGACTTTTTTATTCTCCTTAATGGTGATATCGA-GAATT-TTTGGTG
*
8504658 GTGATATTCGAA
1 GTGATATCCGAA
8504670 ATCATTTTAC
Statistics
Matches: 98, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
54 2 0.02
55 11 0.11
56 9 0.09
57 2 0.02
58 42 0.43
59 30 0.31
60 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (56 bp):
GTGATATCCGAAGACTTTTTTATTCTCCTTAATGGTGATATCGAGAATTTTTGGTG
Found at i:8504700 original size:117 final size:114
Alignment explanation
Indices: 8504487--8504700 Score: 272
Period size: 117 Copynumber: 1.9 Consensus size: 114
8504477 TCCTCAGTAG
*
8504487 TGATATCCGAAGACTTTTTTATTCTCGGTAGTGATATTCGAGAATCTTTTGGTGGTGATATCGAA
1 TGATATCCGAAGACTTTTTTATTCTCCGTAGTGATATTCGAGAATCTTTTGGTGGTGATATCGAA
* ** **
8504552 AGTCATTTTGCATTTTCCTCAGTGGTGATATCCGAGAATCCTTTAGTGA
66 AGTCATTTTACATTTAACTCAGTGGCAATATCCGAGAATCCTTTAGTGA
* *
8504601 TGATATCCGAAGACTTTTTTATTCTCCTTAATGGTGATA-TCTATGAAT-TATTTGGTGGTGATA
1 TGATATCCGAAGACTTTTTTATTCTCCGT-A--GTGATATTCGA-GAATCT-TTTGGTGGTGATA
*
8504664 TTCGAAA-TCATTTTACATTTAACTCGGTGGCAATATC
61 -TCGAAAGTCATTTTACATTTAACTCAGTGGCAATATC
8504701 TGAGTCTCTA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
114 27 0.32
115 1 0.01
116 4 0.05
117 47 0.55
118 6 0.07
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (114 bp):
TGATATCCGAAGACTTTTTTATTCTCCGTAGTGATATTCGAGAATCTTTTGGTGGTGATATCGAA
AGTCATTTTACATTTAACTCAGTGGCAATATCCGAGAATCCTTTAGTGA
Found at i:8504883 original size:68 final size:69
Alignment explanation
Indices: 8504811--8504955 Score: 204
Period size: 68 Copynumber: 2.1 Consensus size: 69
8504801 ATCATTCTAT
* *
8504811 TATCATTGCCTCTAATTAGAGGAGTTCTTTTAAAATTTCATAGCCTTTGGTTAGA-TGAGTTTTT
1 TATCATAGCCTCTAATTAGAGGAGTTCTTTTAAAATCTCATAGCCTTTGGTTAGAGT-AGTTTTT
8504875 T-AAG
65 TAAAG
* * * *
8504879 TATCATAGCCTTTAGTTAGATGAGTTCTTTTAAAGTCTCATAGCCTTTGGTTAGAGTAGTTTTTT
1 TATCATAGCCTCTAATTAGAGGAGTTCTTTTAAAATCTCATAGCCTTTGGTTAGAGTAGTTTTTT
8504944 AAAG
66 AAAG
8504948 TATTCATA
1 TA-TCATA
8504956 AACTTTGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 57 0.84
69 6 0.09
70 5 0.07
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (69 bp):
TATCATAGCCTCTAATTAGAGGAGTTCTTTTAAAATCTCATAGCCTTTGGTTAGAGTAGTTTTTT
AAAG
Found at i:8504890 original size:33 final size:33
Alignment explanation
Indices: 8504826--8505013 Score: 187
Period size: 35 Copynumber: 5.5 Consensus size: 33
8504816 TTGCCTCTAA
* *
8504826 TTAGAGGAGTTCTTTTAAAATTTCATAGCCTTTGG
1 TTAGAGGAGTT-TTTT-AAGTATCATAGCCTTTGG
* *
8504861 TTAGATGAGTTTTTTAAGTATCATAGCCTTTAG
1 TTAGAGGAGTTTTTTAAGTATCATAGCCTTTGG
* *
8504894 TTAGATGAGTTCTTTTAAAGTCTCATAGCCTTTGG
1 TTAGAGGAGTT-TTTT-AAGTATCATAGCCTTTGG
* ** *
8504929 TTAGAGTAGTTTTTTAAAGTATTCATAAACTTTGA
1 TTAGAGGAGTTTTTT-AAGTA-TCATAGCCTTTGG
* * *
8504964 TTAAAGGAGTTTTTCAAGTATCATAACCTTTGG
1 TTAGAGGAGTTTTTTAAGTATCATAGCCTTTGG
* *
8504997 TTAAAGGAATTTTTTAA
1 TTAGAGGAGTTTTTTAA
8505014 ATTTAAAAGC
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
33 52 0.40
34 22 0.17
35 57 0.44
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (33 bp):
TTAGAGGAGTTTTTTAAGTATCATAGCCTTTGG
Found at i:8504988 original size:68 final size:69
Alignment explanation
Indices: 8504830--8505014 Score: 200
Period size: 68 Copynumber: 2.7 Consensus size: 69
8504820 CTCTAATTAG
* * **
8504830 AGGAGTTCTTTTAAAATTTCATAGCCTTTGGTTAGA-TGAGTTTTTT-AAGTATCATAGCCTTTA
1 AGGAGTTCTTTTAAAGTATCATAGCCTTTGGTTAGAGT-AGTTTTTTAAAGTATCATAAACTTTA
*
8504893 GTTAG
65 GTTAA
* *
8504898 ATGAGTTCTTTTAAAGTCTCATAGCCTTTGGTTAGAGTAGTTTTTTAAAGTATTCATAAACTTT-
1 AGGAGTTCTTTTAAAGTATCATAGCCTTTGGTTAGAGTAGTTTTTTAAAGTA-TCATAAACTTTA
8504962 GATTAA
65 G-TTAA
* * * * *
8504968 AGGAG-T-TTTTCAAGTATCATAACCTTTGGTTAAAGGAATTTTTTAAA
1 AGGAGTTCTTTTAAAGTATCATAGCCTTTGGTTAGAGTAGTTTTTTAAA
8505015 TTTAAAAGCC
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
68 76 0.76
69 8 0.08
70 16 0.16
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (69 bp):
AGGAGTTCTTTTAAAGTATCATAGCCTTTGGTTAGAGTAGTTTTTTAAAGTATCATAAACTTTAG
TTAA
Found at i:8505182 original size:35 final size:35
Alignment explanation
Indices: 8505102--8505452 Score: 207
Period size: 35 Copynumber: 10.2 Consensus size: 35
8505092 TTTGAGAATA
* * **
8505102 TTTTAAATTTTCATAGCCTCTAGTTAGAATAGTT-
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * *
8505136 TTTTAAAGTCTCGTAGCCTCTGGTTAGATGAGTTC
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * *
8505171 TTTTAAAGTCTCATAACCTCTAGTTAGATGA--AC
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * ** * * *
8505204 TTTTTAAGTATCATAATCTATGGTTAGAGGAGTTTT
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAG-TTC
* * * *
8505240 TTTTTAAGTTTCATAACCTTTAGTTAGAGGAGTTC
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * * * **
8505275 TTTTAAAATCTCGTAGCCTATGGTTAGAAAAGTTC
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * *
8505310 TTTTAAAGTTTTATAACCTCTAGTTATGA-GAG--C
1 TTTTAAAGTCTCATAGCCTCTAGTTA-GAGGAGTTC
* * * * *
8505343 TTTTTAAGTATCATAGCCTCTAATTAAAGGAATT-
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * *
8505377 TTTTAAAAGTCTCATAGCCTCTGGTTAAAAGAGTT-
1 TTTT-AAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
* * * * * * *
8505412 TTTTTAAGTATCATAACTTCTACTTATAAGAGTT-
1 TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
8505446 TTTTAAA
1 TTTTAAA
8505453 TATCATAACC
Statistics
Matches: 247, Mismatches: 61, Indels: 18
0.76 0.19 0.06
Matches are distributed among these distances:
32 1 0.00
33 50 0.20
34 61 0.25
35 105 0.43
36 30 0.12
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (35 bp):
TTTTAAAGTCTCATAGCCTCTAGTTAGAGGAGTTC
Found at i:8505218 original size:33 final size:33
Alignment explanation
Indices: 8505170--8505492 Score: 114
Period size: 33 Copynumber: 9.5 Consensus size: 33
8505160 TAGATGAGTT
* * *
8505170 CTTTTAAAGTCTCATAACCTCTAGTTAGATGAA
1 CTTTTTAAGTATCATAACCTCTAGTTAGAAGAA
* * * **
8505203 CTTTTTAAGTATCATAATCTATGGTTAGAGGAGTTT
1 CTTTTTAAGTATCATAACCTCTAGTTAGA--AG-AA
* * * **
8505239 TTTTTTAAGTTTCATAACCTTTAGTTAGAGGAGTT
1 CTTTTTAAGTATCATAACCTCTAGTTAGA--AGAA
* * * * * * *
8505274 CTTTTAAAATCTCGTAGCCTATGGTTAGAA-AA
1 CTTTTTAAGTATCATAACCTCTAGTTAGAAGAA
* * * *
8505306 GTTCTTTTAAAGTTTTATAACCTCTAGTTATG-AGAG
1 ---CTTTTTAAGTATCATAACCTCTAGTTA-GAAGAA
* *
8505342 CTTTTTAAGTATCATAGCCTCTAATTA-AAGGAA
1 CTTTTTAAGTATCATAACCTCTAGTTAGAA-GAA
* * * * * *
8505375 TTTTTTAAAAGTCTCATAGCCTCTGGTTAAAAGAGT
1 CTTTTT--AAGTATCATAACCTCTAGTTAGAAGA-A
* * * * *
8505411 TTTTTTAAGTATCATAACTTCTACTTATAAGAG
1 CTTTTTAAGTATCATAACCTCTAGTTAGAAGAA
* * * *
8505444 TTTTTTAAATATCATAACCTTTAATTAGAAGAA
1 CTTTTTAAGTATCATAACCTCTAGTTAGAAGAA
*
8505477 -TTTTTCATGTATCATA
1 CTTTTT-AAGTATCATA
8505493 GTTTCTGGTT
Statistics
Matches: 218, Mismatches: 57, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
32 6 0.03
33 89 0.41
34 20 0.09
35 65 0.30
36 38 0.17
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (33 bp):
CTTTTTAAGTATCATAACCTCTAGTTAGAAGAA
Found at i:8505379 original size:139 final size:138
Alignment explanation
Indices: 8505110--8505415 Score: 364
Period size: 139 Copynumber: 2.2 Consensus size: 138
8505100 TATTTTAAAT
* * * * **
8505110 TTTCATAGCCTCTAGTTAGAATAGTTTTTTAAAGTCTCGTAGCCTCTGGTTAGATGAGTTCTTTT
1 TTTCATAACCTCTAGTTAGAAGAGTTTTTTAAAATCTCGTAGCCTATGGTTAGAAAAGTTCTTTT
* ** * *
8505175 AAAGTCTCATAACCTCTAGTTAGATGAACTTTTTAAGTATCATAATCTATGGTTAGAGGAGTTTT
66 AAAGTCTCATAACCTCTAGTTAGATGAACTTTTTAAGTATCATAACCTATAATTAAAGGAATTTT
8505240 TTTTTAAG
131 TTTTTAAG
* *
8505248 TTTCATAACCTTTAGTTAGAGGAGTTCTTTTAAAATCTCGTAGCCTATGGTTAGAAAAGTTCTTT
1 TTTCATAACCTCTAGTTAGAAGAGTT-TTTTAAAATCTCGTAGCCTATGGTTAGAAAAGTTCTTT
* * * * *
8505313 TAAAGTTTTATAACCTCTAGTTATGA-GAGCTTTTTAAGTATCATAGCCTCTAATTAAAGGAA-T
65 TAAAGTCTCATAACCTCTAGTTA-GATGAACTTTTTAAGTATCATAACCTATAATTAAAGGAATT
**
8505376 TTTTTAAAAG
129 TTTTTTTAAG
* * * *
8505386 TCTCATAGCCTCTGGTTAAAAGAGTTTTTT
1 TTTCATAACCTCTAGTTAGAAGAGTTTTTT
8505416 TAAGTATCAT
Statistics
Matches: 140, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
137 4 0.03
138 51 0.36
139 83 0.59
140 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (138 bp):
TTTCATAACCTCTAGTTAGAAGAGTTTTTTAAAATCTCGTAGCCTATGGTTAGAAAAGTTCTTTT
AAAGTCTCATAACCTCTAGTTAGATGAACTTTTTAAGTATCATAACCTATAATTAAAGGAATTTT
TTTTTAAG
Found at i:8505457 original size:102 final size:102
Alignment explanation
Indices: 8505239--8505481 Score: 285
Period size: 102 Copynumber: 2.4 Consensus size: 102
8505229 AGAGGAGTTT
* * * * *
8505239 TTTTTTAAGTTTCATAACCTTTAGTTAGAGGAGTTCTTTTAAAATCTCGTAGCCTATGGTTAGAA
1 TTTTTTAAGTATCATAACCTTTAATTAAAGGAATT-TTTTAAAATCTCATAGCCTATGGTTAGAA
* * * *
8505304 AAGTTCTTTTAAAGTTTTATAACCTCTAGTTATGAGAG
65 AAGTTCTTTTAAAGTATCATAACCTCTACTTATAAGAG
* * * *
8505342 CTTTTTAAGTATCATAGCCTCTAATTAAAGGAATTTTTTAAAAGTCTCATAGCCTCTGGTTA-AA
1 TTTTTTAAGTATCATAACCTTTAATTAAAGGAATTTTTTAAAA-TCTCATAGCCTATGGTTAGAA
* *
8505406 AGAGTT-TTTTTAAGTATCATAACTTCTACTTATAAGAG
65 A-AGTTCTTTTAAAGTATCATAACCTCTACTTATAAGAG
*
8505444 TTTTTTAAATATCATAACCTTTAATTAGAA-GAATTTTT
1 TTTTTTAAGTATCATAACCTTTAATTA-AAGGAATTTTT
8505482 CATGTATCAT
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
102 68 0.58
103 50 0.42
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (102 bp):
TTTTTTAAGTATCATAACCTTTAATTAAAGGAATTTTTTAAAATCTCATAGCCTATGGTTAGAAA
AGTTCTTTTAAAGTATCATAACCTCTACTTATAAGAG
Found at i:8507112 original size:19 final size:20
Alignment explanation
Indices: 8507068--8507119 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
8507058 AGAGAATGTG
*
8507068 AAAGAGAGAGAGAAAGAAGAA
1 AAAGA-AGAGAAAAAGAAGAA
*
8507089 AAAGAAGAGAAAAAG-AGGA
1 AAAGAAGAGAAAAAGAAGAA
8507108 AAAGAAGA-AAAA
1 AAAGAAGAGAAAA
8507120 TAAAAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 9 0.31
21 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAGAGAAAAAGAAGAA
Found at i:8508759 original size:81 final size:82
Alignment explanation
Indices: 8508563--8508760 Score: 308
Period size: 82 Copynumber: 2.4 Consensus size: 82
8508553 TGAGGGTTTG
* *
8508563 GCAATCAATTTAGGGTTTAAAATTGGGGGTTTAGGGCAATCAATTTAAAAAGTGCAATCGATTAG
1 GCAATCAATTTAGGGTTTAAAATTGGGGGTTTAGAGCAATCAATTCAAAAAGTGCAATCGATTAG
*
8508628 GGGATTTTGTGTTTAGG
66 GGGATTTTGTGTTTAGA
* * * * *
8508645 GCAATCGATTTATGGTTTAAACTTGGGGGTTTAGAGCAATCGATTCAAAAAGTGCAATTGATTAG
1 GCAATCAATTTAGGGTTTAAAATTGGGGGTTTAGAGCAATCAATTCAAAAAGTGCAATCGATTAG
8508710 GGG-TTTTGTGTTTAGA
66 GGGATTTTGTGTTTAGA
*
8508726 GCAATCAATTTAGGGTTTAAAATTGAGGGTTTAGA
1 GCAATCAATTTAGGGTTTAAAATTGGGGGTTTAGA
8508761 TTAGTGATGT
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 43 0.41
82 61 0.59
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (82 bp):
GCAATCAATTTAGGGTTTAAAATTGGGGGTTTAGAGCAATCAATTCAAAAAGTGCAATCGATTAG
GGGATTTTGTGTTTAGA
Found at i:8511247 original size:15 final size:16
Alignment explanation
Indices: 8511227--8511264 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8511217 AATAAAAAAT
*
8511227 AATTAT-TAGATTAAA
1 AATTATATAGAATAAA
*
8511242 AATTATATATAATAAA
1 AATTATATAGAATAAA
8511258 AATTATA
1 AATTATA
8511265 AATTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTATATAGAATAAA
Found at i:8511292 original size:27 final size:27
Alignment explanation
Indices: 8511256--8511315 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
8511246 ATATATAATA
* *
8511256 AAAATT-ATAAATTATTTAATATTTAT
1 AAAATTAATAAATAATTTAAAATTTAT
8511282 AAAATTAATAAATAATTTAAAATTTAT
1 AAAATTAATAAATAATTTAAAATTTAT
*
8511309 TAAATTA
1 AAAATTA
8511316 TTTTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATTAATAAATAATTTAAAATTTAT
Found at i:8511312 original size:19 final size:19
Alignment explanation
Indices: 8511260--8511318 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
8511250 ATAATAAAAA
*
8511260 TTAT-AAATTATTTAATAT
1 TTATAAAATTATTAAATAT
*
8511278 TTATAAAATTAATAAATAAT
1 TTATAAAATTATTAAAT-AT
*
8511298 TTA-AAATTTATTAAATTAT
1 TTATAAAATTATTAAA-TAT
8511317 TT
1 TT
8511319 TATATTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.12
19 24 0.71
20 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATAAAATTATTAAATAT
Found at i:8511326 original size:37 final size:36
Alignment explanation
Indices: 8511244--8511351 Score: 86
Period size: 37 Copynumber: 3.0 Consensus size: 36
8511234 AGATTAAAAA
*
8511244 TTATATATAATAAA-AA-TTATAAATTATTTAATATT
1 TTATAT-TAATAAATAATTTATAAATTATTAAATATT
*
8511279 TATAAAATTAATAAATAATTTA-AAATTTATTAAATTATT
1 T-T-ATATTAATAAATAATTTATAAA-TTATTAAA-TATT
*
8511318 TTATATTAA-ATAATAATTT-T--ATTAATAAATATT
1 TTATATTAATA-AATAATTTATAAATTATTAAATATT
8511351 T
1 T
8511352 ATAATTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
33 5 0.08
34 7 0.11
35 2 0.03
36 9 0.15
37 22 0.36
38 11 0.18
39 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATATTAATAAATAATTTATAAATTATTAAATATT
Found at i:8532018 original size:30 final size:32
Alignment explanation
Indices: 8531984--8532055 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 32
8531974 TATTTTTAGA
8531984 TAAAATTATTTAATTATT-TTATAAAAAA-TT
1 TAAAATTATTTAATTATTATTATAAAAAATTT
** * *
8532014 TAAAATT-TAAAATTTTTATTTTAAAAAATTT
1 TAAAATTATTTAATTATTATTATAAAAAATTT
*
8532045 TTAAATTATTT
1 TAAAATTATTT
8532056 TGAATTTAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
29 7 0.22
30 16 0.50
31 8 0.25
32 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TAAAATTATTTAATTATTATTATAAAAAATTT
Found at i:8538363 original size:36 final size:36
Alignment explanation
Indices: 8538322--8538400 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
8538312 GACCACCACG
* * *
8538322 ACCACCATGGCCACCACCATTCCTTCCCCCACTCC-
1 ACCACCACGGCCACCACCATCCCTTCCACCACTCCT
8538357 ATCCACCACGGCCACCACCATCCCTTCCACCACTCCT
1 A-CCACCACGGCCACCACCATCCCTTCCACCACTCCT
8538394 ACCACCA
1 ACCACCA
8538401 ACTCTTCCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 1 0.03
36 37 0.95
37 1 0.03
ACGTcount: A:0.23, C:0.57, G:0.05, T:0.15
Consensus pattern (36 bp):
ACCACCACGGCCACCACCATCCCTTCCACCACTCCT
Found at i:8538872 original size:193 final size:192
Alignment explanation
Indices: 8538542--8538928 Score: 630
Period size: 193 Copynumber: 2.0 Consensus size: 192
8538532 CAAATAAGCA
* * *
8538542 TAACTGCAATTGCTTGTATTTAATCAGTTATGGCAAACCACTAAACTTTACAACATACTAAAATT
1 TAACTGCAATTGATTGTATTTAATCAGATATGGCAAACCACTAAACATTACAACATACTAAAATT
* * * ** ** *
8538607 ACAAGGAAAAAGGTTATTTTCAAACGAGGACAGTCCAATATTGGCTATCCAAGGATATTTCAACC
66 ACAAGGAAAAAGGCTACTTTCAAACAAAAACAGTCCAATACCGGCTATCCAAGGATACTTCAACC
*
8538672 AGGGTTAAGTGCATATACCATAACTATAGAACAAATCCAACATGCAGTAATTGAATAAGTTC
131 AGGGTTAACTGCATATACCATAACTATAGAACAAATCCAACATGCAGTAATTGAATAAGTTC
*
8538734 TAACTGCAATTGATTGTATTTAATCAGATATGGCATACCACTAAACATTACAACATACTAAACAT
1 TAACTGCAATTGATTGTATTTAATCAGATATGGCAAACCACTAAACATTACAACATACTAAA-AT
*
8538799 TACAAGGAAAAAGGCTACTTTCAAACAAAAACAGTCCAATACCGGCTATTCAAGGATACTTCAAC
65 TACAAGGAAAAAGGCTACTTTCAAACAAAAACAGTCCAATACCGGCTATCCAAGGATACTTCAAC
*
8538864 CAGGGTTAACTGCATATACCATAACTATAGAACACATCCAACATGCAGTAATTGAATAAGTTC
130 CAGGGTTAACTGCATATACCATAACTATAGAACAAATCCAACATGCAGTAATTGAATAAGTTC
8538927 TA
1 TA
8538929 CTTCGCTATT
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
192 58 0.32
193 121 0.68
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (192 bp):
TAACTGCAATTGATTGTATTTAATCAGATATGGCAAACCACTAAACATTACAACATACTAAAATT
ACAAGGAAAAAGGCTACTTTCAAACAAAAACAGTCCAATACCGGCTATCCAAGGATACTTCAACC
AGGGTTAACTGCATATACCATAACTATAGAACAAATCCAACATGCAGTAATTGAATAAGTTC
Found at i:8545016 original size:47 final size:48
Alignment explanation
Indices: 8544920--8545016 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
8544910 AATGAATAAA
* * *
8544920 AAAAATCAAAAATTAAAAAATTAATTTGATTTTATCTTTTAAATCTAT
1 AAAAATCAAAAATTAAAAAAATAATTTGATTTTATATTTTAAATATAT
* * *
8544968 AAAAATCAATAATTAAAAAAATAATTT-TTTTTA-ATTTTACATGATAT
1 AAAAATCAAAAATTAAAAAAATAATTTGATTTTATATTTTAAAT-ATAT
8545015 AA
1 AA
8545017 GTTCATCCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
46 7 0.17
47 10 0.24
48 25 0.60
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (48 bp):
AAAAATCAAAAATTAAAAAAATAATTTGATTTTATATTTTAAATATAT
Found at i:8545626 original size:4 final size:4
Alignment explanation
Indices: 8545617--8545642 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8545607 CTCTGGCAAA
8545617 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
8545643 GCAAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8546841 original size:15 final size:15
Alignment explanation
Indices: 8546823--8546855 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8546813 TAGCCCACAA
8546823 ACATAAAACATTTTG
1 ACATAAAACATTTTG
*
8546838 ACATAAAACCTTTTG
1 ACATAAAACATTTTG
8546853 ACA
1 ACA
8546856 ATCTACGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (15 bp):
ACATAAAACATTTTG
Found at i:8551373 original size:28 final size:28
Alignment explanation
Indices: 8551341--8551396 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8551331 AAAAATAAAA
8551341 AACTAAAGGAAGAGTATAGGATCTTTTT
1 AACTAAAGGAAGAGTATAGGATCTTTTT
8551369 AACTAAAGGAAGAGTATAGGATCTTTTT
1 AACTAAAGGAAGAGTATAGGATCTTTTT
8551397 CTTACTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (28 bp):
AACTAAAGGAAGAGTATAGGATCTTTTT
Found at i:8554266 original size:19 final size:20
Alignment explanation
Indices: 8554239--8554279 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
8554229 CAAAATTAAT
8554239 AAATATTA-TTTTTAATATA
1 AAATATTATTTTTTAATATA
*
8554258 AAATCTTATTTTTTAATATA
1 AAATATTATTTTTTAATATA
8554278 AA
1 AA
8554280 TATAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATATTATTTTTTAATATA
Found at i:8554280 original size:19 final size:18
Alignment explanation
Indices: 8554237--8554282 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
8554227 CCCAAAATTA
8554237 ATAAATATTATTTTTAAT
1 ATAAATATTATTTTTAAT
*
8554255 ATAAAATCTTATTTTTTAAT
1 AT-AAATATTA-TTTTTAAT
8554275 ATAAATAT
1 ATAAATAT
8554283 AAATTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 12 0.50
20 10 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATAAATATTATTTTTAAT
Found at i:8554300 original size:8 final size:8
Alignment explanation
Indices: 8554279--8554307 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8554269 TTTAATATAA
8554279 ATATAAAT
1 ATATAAAT
8554287 -TATAAAT
1 ATATAAAT
8554294 ATATAAAT
1 ATATAAAT
8554302 ATATAA
1 ATATAA
8554308 TTAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:8561351 original size:22 final size:23
Alignment explanation
Indices: 8561326--8561378 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
8561316 AATTTGCGTA
*
8561326 TAAAAATA-TAAATAT-TTATATT
1 TAAAAATATTAAATATCATAT-TT
**
8561348 TAAATTTATTAAATATCATATTT
1 TAAAAATATTAAATATCATATTT
8561371 TAAAAATA
1 TAAAAATA
8561379 ATATATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAAATATTAAATATCATATTT
Found at i:8569876 original size:37 final size:37
Alignment explanation
Indices: 8569816--8569893 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
8569806 ATGATTTTAA
* * *
8569816 AAAAATAAATTTTATAATTAAATCCTA-CTAAATTATT
1 AAAAATAAATTTCAAAATAAAATCCTATC-AAATTATT
*
8569853 GAAAAAT-AATTTCAAAATAAAATCTTATCAAATTATT
1 -AAAAATAAATTTCAAAATAAAATCCTATCAAATTATT
8569890 AAAA
1 AAAA
8569894 TATTTTATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 4 0.11
37 24 0.69
38 7 0.20
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAAATAAATTTCAAAATAAAATCCTATCAAATTATT
Found at i:8570713 original size:23 final size:21
Alignment explanation
Indices: 8570698--8570740 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
8570688 AAAAAATATT
*
8570698 AAAATAAATAATTAAAAAAAG
1 AAAACAAATAATTAAAAAAAG
8570719 AAAACAAA-AATTAAAAAAAG
1 AAAACAAATAATTAAAAAAAG
8570739 AA
1 AA
8570741 TGGCTTAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAACAAATAATTAAAAAAAG
Found at i:8570895 original size:2 final size:2
Alignment explanation
Indices: 8570888--8570931 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
8570878 TGATCTCGAT
* * * *
8570888 TA TA TA TA TA TA TA TA TA TA TG CA TG TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8570930 TA
1 TA
8570932 ACTTTTATCT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8571749 original size:16 final size:18
Alignment explanation
Indices: 8571728--8571761 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
8571718 TATAATATTT
8571728 ATAAAAA-TAT-TTTTAA
1 ATAAAAATTATATTTTAA
8571744 ATAAAAATTATATTTTAA
1 ATAAAAATTATATTTTAA
8571762 TTATGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAAATTATATTTTAA
Found at i:8577402 original size:18 final size:16
Alignment explanation
Indices: 8577377--8577426 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
8577367 AATTAATACA
8577377 TTATTTATTAATTATAT
1 TTATTTATTAATTA-AT
8577394 TTCATTTATTACA-TAAT
1 TT-ATTTATTA-ATTAAT
*
8577411 TTATTTTTTAATTAAT
1 TTATTTATTAATTAAT
8577427 AATTTATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.03
16 11 0.38
17 6 0.21
18 10 0.34
19 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTTATTAATTAAT
Found at i:8581507 original size:20 final size:20
Alignment explanation
Indices: 8581464--8581507 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8581454 CCTTTGTCTT
** * *
8581464 TTTCATATCTTTTTTTATTT
1 TTTCATATCTGGTTTAATTC
8581484 TTTCATATCTGGTTTAATTC
1 TTTCATATCTGGTTTAATTC
8581504 TTTC
1 TTTC
8581508 CTATTAACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATATCTGGTTTAATTC
Found at i:8585691 original size:33 final size:33
Alignment explanation
Indices: 8585614--8585724 Score: 102
Period size: 33 Copynumber: 3.4 Consensus size: 33
8585604 TAATATTTTA
* *
8585614 TAGAAAATTTTAA-GCTTTTGGATATGTAAATT
1 TAGAAAATTTTAAGGCTTTTGGATATATAAATC
* *
8585646 TAAAAAATTTTAAGGTTTTTTGGATATAT-AATC
1 TAGAAAATTTTAAGG-CTTTTGGATATATAAATC
*** *
8585679 TAGAAAATTTTAAGAGCTTTCAAATTTATAAATC
1 TAGAAAATTTTAAG-GCTTTTGGATATATAAATC
*
8585713 TA-AAAGTTTTAA
1 TAGAAAATTTTAA
8585725 AATAAAAAGG
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
32 12 0.19
33 34 0.53
34 18 0.28
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (33 bp):
TAGAAAATTTTAAGGCTTTTGGATATATAAATC
Found at i:8590805 original size:22 final size:23
Alignment explanation
Indices: 8590775--8590823 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
8590765 TTTTATATCT
*
8590775 AAATTTATTTAAAT-ATAT-AAA
1 AAATTTATTGAAATAATATCAAA
8590796 AAATTATATTGAAATAATATCAAA
1 AAATT-TATTGAAATAATATCAAA
8590820 AAAT
1 AAAT
8590824 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 4 0.17
24 7 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATTTATTGAAATAATATCAAA
Found at i:8592231 original size:25 final size:24
Alignment explanation
Indices: 8592196--8592242 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
8592186 TTGTTATTGT
*
8592196 TGAAAAGCTAAGAAATAAAACTGTG
1 TGAAAAACTAAG-AATAAAACTGTG
*
8592221 TGAAAAACTAAGACTAAAACTG
1 TGAAAAACTAAGAATAAAACTG
8592243 AATGTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TGAAAAACTAAGAATAAAACTGTG
Found at i:8592412 original size:22 final size:22
Alignment explanation
Indices: 8592384--8592427 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8592374 ATTTTTTGTC
**
8592384 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAAGATACAAATA
8592406 CTTAATTCTAAAGATACAAATA
1 CTTAATTCTAAAGATACAAATA
8592428 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAAGATACAAATA
Found at i:8592432 original size:2 final size:2
Alignment explanation
Indices: 8592425--8592449 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8592415 AAAGATACAA
8592425 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8592450 CACAGTCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8596483 original size:22 final size:22
Alignment explanation
Indices: 8596455--8596499 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8596445 ATTTTTTCTC
* *
8596455 TTTAATTCTAGGGATATAAATA
1 TTTAATTCTAGAGATACAAATA
8596477 TTTAATTCTAGAGATACAAATA
1 TTTAATTCTAGAGATACAAATA
8596499 T
1 T
8596500 AAATATACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAATTCTAGAGATACAAATA
Found at i:8598625 original size:20 final size:20
Alignment explanation
Indices: 8598600--8598643 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
8598590 AAACTCCAAT
8598600 GCCTGATTGGCACCAGAGGG
1 GCCTGATTGGCACCAGAGGG
8598620 GCCTGATTGGCACCAGAGGG
1 GCCTGATTGGCACCAGAGGG
8598640 GCCT
1 GCCT
8598644 TTGGCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.16
Consensus pattern (20 bp):
GCCTGATTGGCACCAGAGGG
Found at i:8598649 original size:18 final size:19
Alignment explanation
Indices: 8598600--8598649 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
8598590 AAACTCCAAT
8598600 GCCTGATTGGCACCAGAGGG
1 GCCT-ATTGGCACCAGAGGG
8598620 GCCTGATTGGCACCAGAGGG
1 GCCT-ATTGGCACCAGAGGG
8598640 GCCT-TTGGCA
1 GCCTATTGGCA
8598650 TTAATCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.20
20 24 0.80
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (19 bp):
GCCTATTGGCACCAGAGGG
Found at i:8600259 original size:2 final size:2
Alignment explanation
Indices: 8600247--8600280 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8600237 TTCAAGTGCC
*
8600247 CT CT GT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8600281 ATCTGAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8600512 original size:16 final size:16
Alignment explanation
Indices: 8600491--8600541 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
8600481 AATGCTTCTG
*
8600491 TCTGTCTGTCTCTGTC
1 TCTGTCTGTCTCTCTC
* *
8600507 TCTGTCTGTCTGTCTG
1 TCTGTCTGTCTCTCTC
8600523 TCTGTCTGTCTCTCTC
1 TCTGTCTGTCTCTCTC
8600539 TCT
1 TCT
8600542 CTTTTAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.00, C:0.31, G:0.18, T:0.51
Consensus pattern (16 bp):
TCTGTCTGTCTCTCTC
Found at i:8600542 original size:8 final size:8
Alignment explanation
Indices: 8600487--8600543 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
8600477 TCCAAATGCT
*
8600487 TCTGTCTG
1 TCTGTCTC
8600495 TCTGTCTC
1 TCTGTCTC
* * *
8600503 TGTCTCTG
1 TCTGTCTC
*
8600511 TCTGTCTG
1 TCTGTCTC
*
8600519 TCTGTCTG
1 TCTGTCTC
8600527 TCTGTCTC
1 TCTGTCTC
*
8600535 TCTCTCTC
1 TCTGTCTC
8600543 T
1 T
8600544 TTTAATCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.51
Consensus pattern (8 bp):
TCTGTCTC
Found at i:8600543 original size:4 final size:4
Alignment explanation
Indices: 8600487--8600533 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
8600477 TCCAAATGCT
* * *
8600487 TCTG TCTG TCTG TCTC TGTC TCTG TCTG TCTG TCTG TCTG TCTG TCT
1 TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCT
8600534 CTCTCTCTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.00, C:0.28, G:0.21, T:0.51
Consensus pattern (4 bp):
TCTG
Found at i:8601028 original size:30 final size:30
Alignment explanation
Indices: 8600994--8601050 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
8600984 GACAGAAAAA
*
8600994 TGATAAATAATGTTTACTGTCCATTTTTCC
1 TGATAAATAATGTTTACTATCCATTTTTCC
8601024 TGATAAATAATGTTTACTATCCATTTT
1 TGATAAATAATGTTTACTATCCATTTT
8601051 CTTGTATGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (30 bp):
TGATAAATAATGTTTACTATCCATTTTTCC
Found at i:8626418 original size:16 final size:16
Alignment explanation
Indices: 8626405--8626435 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8626395 AAATTTTTAT
*
8626405 TTTATTTTATTTTTTG
1 TTTATTGTATTTTTTG
8626421 TTTATTGTATTTTTT
1 TTTATTGTATTTTTT
8626436 ATAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTATTGTATTTTTTG
Found at i:8626459 original size:7 final size:7
Alignment explanation
Indices: 8626449--8626476 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8626439 AAATATATTT
8626449 AATTAAA
1 AATTAAA
8626456 AATTAAA
1 AATTAAA
8626463 AATTAAA
1 AATTAAA
8626470 AATTAAA
1 AATTAAA
8626477 TAAAAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAA
Found at i:8626557 original size:16 final size:18
Alignment explanation
Indices: 8626524--8626586 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
8626514 AAAATTTATC
*
8626524 AAATCAAAAAATTA-AAAA
1 AAAT-AAAAAATGAGAAAA
*
8626542 AAAT-GAAAA-GAGAAAA
1 AAATAAAAAATGAGAAAA
8626558 AAATAAAAAATGAGAAAAA
1 AAATAAAAAATGAG-AAAA
8626577 AAATAAAAAA
1 AAATAAAAAA
8626587 AAGCTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.03
16 12 0.32
17 4 0.11
18 7 0.18
19 14 0.37
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (18 bp):
AAATAAAAAATGAGAAAA
Found at i:8626557 original size:23 final size:21
Alignment explanation
Indices: 8626529--8626588 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
8626519 TTATCAAATC
*
8626529 AAAAAATTAAAAAAAATGA-A
1 AAAAAAATAAAAAAAATGAGA
*
8626549 AAGAGAAAAAAATAAAAAATGAGA
1 AA-A-AAAATAA-AAAAAATGAGA
8626573 AAAAAAATAAAAAAAA
1 AAAAAAATAAAAAAAA
8626589 GCTCATAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.06
21 7 0.21
22 11 0.33
23 10 0.30
24 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (21 bp):
AAAAAAATAAAAAAAATGAGA
Found at i:8626558 original size:18 final size:17
Alignment explanation
Indices: 8626529--8626585 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
8626519 TTATCAAATC
*
8626529 AAAAAATTA-AAAAAAA
1 AAAAAATGAGAAAAAAA
**
8626545 TGAAAA-GAGAAAAAAA
1 AAAAAATGAGAAAAAAA
8626561 TAAAAAATGAGAAAAAAA
1 -AAAAAATGAGAAAAAAA
8626579 ATAAAAA
1 A-AAAAA
8626586 AAAGCTCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 1 0.03
16 11 0.34
17 5 0.16
18 15 0.47
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAAAATGAGAAAAAAA
Done.