Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 16 of 175
Found at i:4552015 original size:18 final size:19
Alignment explanation
Indices: 4551981--4552017 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
4551971 ATTTTTCTGA
4551981 ATTTTTATATATATTTTTT
1 ATTTTTATATATATTTTTT
4552000 ATTTTTA-ATA-ATTTTTT
1 ATTTTTATATATATTTTTT
4552017 A
1 A
4552018 AGATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTATATATATTTTTT
Found at i:4554208 original size:4 final size:4
Alignment explanation
Indices: 4554199--4554223 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4554189 AAAAGTAAAC
4554199 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
4554224 ACTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:4560910 original size:22 final size:21
Alignment explanation
Indices: 4560873--4560916 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
4560863 AATGCCACCT
4560873 CATACTCCTCCTTACCTCTTC
1 CATACTCCTCCTTACCTCTTC
4560894 CATATCTCCTTCC-TACCTCTTC
1 CATA-CTCC-TCCTTACCTCTTC
4560916 C
1 C
4560917 CTTGTTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 14 0.67
23 3 0.14
ACGTcount: A:0.14, C:0.48, G:0.00, T:0.39
Consensus pattern (21 bp):
CATACTCCTCCTTACCTCTTC
Found at i:4565965 original size:60 final size:60
Alignment explanation
Indices: 4565901--4566044 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
4565891 TTTTAGGGGT
* * * *
4565901 TGCTCACATAAAAGCCAAATCTTTCAAAATACTCATATAAGGACCTAA-CATTTACAAAAG
1 TGCTCAAATAAAAGACAAATCTTTCAAAATACTCAAATAAGGACCAAAGCATTTAC-AAAG
* * * * *
4565961 TGCTCAAATGAAAGACAAA-CATTTCAAAGTTCTCAAATAAGGACCAAAGCTTTTTCAAAG
1 TGCTCAAATAAAAGACAAATC-TTTCAAAATACTCAAATAAGGACCAAAGCATTTACAAAG
*
4566021 TGCTCAAATAAGAA-TCAAATCTTT
1 TGCTCAAATAA-AAGACAAATCTTT
4566045 TTTGAAAGGG
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
59 1 0.01
60 60 0.87
61 8 0.12
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (60 bp):
TGCTCAAATAAAAGACAAATCTTTCAAAATACTCAAATAAGGACCAAAGCATTTACAAAG
Found at i:4565995 original size:29 final size:29
Alignment explanation
Indices: 4565901--4566031 Score: 97
Period size: 31 Copynumber: 4.4 Consensus size: 29
4565891 TTTTAGGGGT
* *
4565901 TGCTCACATAAA-AGCCAAATC-TTTCAAAA
1 TGCTCAAATAAAGA-CCAAA-CATTTCAAAG
* * * *
4565930 TACTCATATAAGGACCTAACATTTACAAAAG
1 TGCTCAAATAAAGACCAAACATTT-C-AAAG
4565961 TGCTCAAATGAAAGA-CAAACATTTCAAAG
1 TGCTCAAAT-AAAGACCAAACATTTCAAAG
* * *
4565990 TTCTCAAATAAGGACCAAAGCTTTTTCAAAG
1 TGCTCAAATAAAGACCAAA-C-ATTTCAAAG
4566021 TGCTCAAATAA
1 TGCTCAAATAA
4566032 GAATCAAATC
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.06
29 32 0.40
30 4 0.05
31 36 0.44
32 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (29 bp):
TGCTCAAATAAAGACCAAACATTTCAAAG
Found at i:4566032 original size:31 final size:30
Alignment explanation
Indices: 4565922--4566064 Score: 110
Period size: 31 Copynumber: 4.7 Consensus size: 30
4565912 AAGCCAAATC
* * * * *
4565922 TTTCAAAATACTCATATAAGGACCTAACAT
1 TTTCAAAGTGCTCAAATAAGGACCAAACTT
* * *
4565952 TTACAAAAGTGCTCAAATGAAAGA-CAAAC-A
1 TTTC-AAAGTGCTCAAAT-AAGGACCAAACTT
*
4565982 TTTCAAAGTTCTCAAATAAGGACCAAAGCTT
1 TTTCAAAGTGCTCAAATAAGGACCAAA-CTT
* *
4566013 TTTCAAAGTGCTCAAATAAGAATCAAATCTTT
1 TTTCAAAGTGCTCAAATAAGGACCAAA-C-TT
* *
4566045 TTTGAAAGGGCTCAAATAAG
1 TTTCAAAGTGCTCAAATAAG
4566065 AGCTTCTCAA
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
28 4 0.04
29 16 0.18
30 7 0.08
31 39 0.43
32 24 0.27
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (30 bp):
TTTCAAAGTGCTCAAATAAGGACCAAACTT
Found at i:4566558 original size:38 final size:39
Alignment explanation
Indices: 4566480--4566573 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
4566470 TTAAAATTAA
*
4566480 AAATATTAAAAATATATATTTTATACTTTTTTAATAA-TTTT
1 AAAT-TTAAAAA-ATATATTTTATAATTTTTT-ATAATTTTT
*
4566521 AATTTTTAAAAAATATA-TTTATAATTTTTT-TGAATTTTT
1 AA-ATTTAAAAAATATATTTTATAATTTTTTAT-AATTTTT
4566560 AAATTTAAAAAATA
1 AAATTTAAAAAATA
4566574 CTTAATTGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
37 1 0.02
38 13 0.28
39 18 0.38
40 5 0.11
41 9 0.19
42 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (39 bp):
AAATTTAAAAAATATATTTTATAATTTTTTATAATTTTT
Found at i:4566560 original size:39 final size:38
Alignment explanation
Indices: 4566466--4566573 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 38
4566456 AATTAATTGA
* **
4566466 TTTTTTAAAATTAAAAATATTAAAAATATATATTTTATAC
1 TTTTTTAATATTTTAAAT-TTAAAAA-ATATATTTTATAC
* *
4566506 TTTTTTAATAATTTTAATTTTTAAAAAATATA-TTTATAAT
1 TTTTTTAAT-ATTTTAA-ATTTAAAAAATATATTTTAT-AC
4566546 TTTTTTGAAT-TTTTAAATTTAAAAAATA
1 TTTTTT-AATATTTTAAATTTAAAAAATA
4566574 CTTAATTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
38 11 0.19
39 11 0.19
40 20 0.34
41 15 0.26
42 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (38 bp):
TTTTTTAATATTTTAAATTTAAAAAATATATTTTATAC
Found at i:4568291 original size:20 final size:20
Alignment explanation
Indices: 4568266--4568316 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
4568256 TTTATTAAGA
*
4568266 AATATTTATTTTAATATTTT
1 AATATTTATTTTAATATATT
4568286 AATATTTA-TTT-ATATATT
1 AATATTTATTTTAATATATT
*
4568304 -ATATATATTTTAA
1 AATATTTATTTTAA
4568317 AAATAGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 4 0.15
20 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATATTTATTTTAATATATT
Found at i:4571272 original size:66 final size:69
Alignment explanation
Indices: 4571138--4571274 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 69
4571128 GACTAGCTAC
4571138 GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
1 GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
4571203 TTCT
66 TTCT
* ** * * *
4571207 GTTTATGGATTGATGGATATGTTGTCATAAT-T-TT-TTTATTCAACAATTATTTATAAAAAAGA
1 GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
4571269 TTCT
66 TTCT
4571273 GT
1 GT
4571275 CAATTTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
66 31 0.50
67 2 0.03
68 1 0.02
69 28 0.45
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (69 bp):
GTTTATGAATTGATACATATGTTGTCATAATCTCTTAATTATTCAACAATTAATTATAAAAAAAA
TTCT
Found at i:4572789 original size:27 final size:28
Alignment explanation
Indices: 4572739--4572795 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
4572729 AATACAATAT
* *
4572739 AATTATAAGTATAAATATATGTTAGAAC
1 AATTATAAGTATAAATATAAGTTAAAAC
4572767 AATTATAATGTA-AAAT-TAAGTTAAAAC
1 AATTATAA-GTATAAATATAAGTTAAAAC
4572794 AA
1 AA
4572796 AGCATAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 11 0.42
28 12 0.46
29 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (28 bp):
AATTATAAGTATAAATATAAGTTAAAAC
Found at i:4573186 original size:21 final size:20
Alignment explanation
Indices: 4573156--4573194 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4573146 TGTTGATGTA
*
4573156 TGTTACATTTTTTGCCCAAGT
1 TGTTACATTTATT-CCCAAGT
*
4573177 TGTTATATTTATTCCCAA
1 TGTTACATTTATTCCCAA
4573195 AATAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (20 bp):
TGTTACATTTATTCCCAAGT
Found at i:4575794 original size:29 final size:29
Alignment explanation
Indices: 4575757--4575824 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
4575747 GAGTTTCACG
*
4575757 TGTAT-AATTG-CATCAAATTAAAATTCA
1 TGTATAAATTGACATCAAATCAAAATTCA
* *
4575784 TTTATACAATTGCACATTAAATCAAAATTCA
1 TGTATA-AATTG-ACATCAAATCAAAATTCA
4575815 TGTATAAATT
1 TGTATAAATT
4575825 TGAGATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 4 0.12
29 5 0.15
30 4 0.12
31 20 0.61
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (29 bp):
TGTATAAATTGACATCAAATCAAAATTCA
Found at i:4578367 original size:12 final size:12
Alignment explanation
Indices: 4578350--4578382 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4578340 TGGCCCGCCC
4578350 ATATTAATTTTT
1 ATATTAATTTTT
4578362 ATATT-ATTTTT
1 ATATTAATTTTT
4578373 ATA-TAATTTT
1 ATATTAATTTT
4578383 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:4578403 original size:17 final size:19
Alignment explanation
Indices: 4578383--4578423 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4578373 ATATAATTTT
*
4578383 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
4578400 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
4578418 AAAATA
1 AAAATA
4578424 AATATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:4578548 original size:30 final size:30
Alignment explanation
Indices: 4578504--4578566 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4578494 ACTTAACAAG
*
4578504 CAAATGCTTCTAAAATAATAACAAAATTAA
1 CAAATGCTTCTAAAAAAATAACAAAATTAA
* * *
4578534 CAAATGTTTTTAAAAAAATAACAAAATTGA
1 CAAATGCTTCTAAAAAAATAACAAAATTAA
4578564 CAA
1 CAA
4578567 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCTTCTAAAAAAATAACAAAATTAA
Found at i:4585436 original size:6 final size:6
Alignment explanation
Indices: 4585425--4585465 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
4585415 TAGGTTTCTA
* *
4585425 GAAATG GAAATG GAAATG GAAATG AAAATG AAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
4585466 TTGTAATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:4589333 original size:18 final size:19
Alignment explanation
Indices: 4589300--4589336 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4589290 ATTGTTGCAC
4589300 ATGAATGGATTAGTTACAT
1 ATGAATGGATTAGTTACAT
4589319 ATGAATGGA-TAGTTACAT
1 ATGAATGGATTAGTTACAT
4589337 GTTAGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (19 bp):
ATGAATGGATTAGTTACAT
Found at i:4589961 original size:23 final size:23
Alignment explanation
Indices: 4589908--4589952 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4589898 TGTTAAATGA
* *
4589908 ACAAATTTGACAACGAAGATTCG
1 ACAACTTTGACAACGAAGACTCG
*
4589931 ACAACTTTGACAAGGAAGACTC
1 ACAACTTTGACAACGAAGACTC
4589953 AGCATCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (23 bp):
ACAACTTTGACAACGAAGACTCG
Found at i:4590068 original size:69 final size:69
Alignment explanation
Indices: 4589957--4590141 Score: 232
Period size: 69 Copynumber: 2.7 Consensus size: 69
4589947 AGACTCAGCA
*
4589957 TCTTTAAAATGTGTTCATTTACATTCTATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACATTCCATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
4590022 GTAT-
66 GT-TG
* * * ***
4590026 TCTTTAAAATGTGTTCATTTACATTCCATTTAAGTTCTTAATGTGTTGTTGTGTAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACATTCCATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
4590091 GTTG
66 GTTG
* * *
4590095 TC-TTAAAACTGTGTTCTTTTACGTT-AATTTTAAATGCTTAATGTGCT
1 TCTTTAAAA-TGTGTTCATTTACATTCCA-TTTAAATGCTTAATGTGCT
4590142 TTCCAAAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
68 8 0.08
69 92 0.92
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (69 bp):
TCTTTAAAATGTGTTCATTTACATTCCATTTAAATGCTTAATGTGCTGTTGCAAAGGGCTGATTT
GTTG
Found at i:4591888 original size:6 final size:6
Alignment explanation
Indices: 4591847--4591871 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4591837 CTTATATATT
4591847 TACATA TACATA TACATA TACATA T
1 TACATA TACATA TACATA TACATA T
4591872 TTTACTTCAT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TACATA
Found at i:4592539 original size:108 final size:108
Alignment explanation
Indices: 4592350--4592549 Score: 323
Period size: 108 Copynumber: 1.9 Consensus size: 108
4592340 AGGTTTTGCT
* *
4592350 AAATAAGGCAATATTTCGCGTTCGAAAAATCGAGAAAGCGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATACTTCGCGTTCGAAAAATCGAGAAAGCATGCCCTAACGTGCTGGGTTTCGATT
4592415 TCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAACTTTTA
* *
4592458 AAATAAGGCAATACTTCGCG-TCTGGAAAATCGAGGAAA-CATGCCCTAACGTGTTGGGTTTCGA
1 AAATAAGGCAATACTTCGCGTTC-GAAAAATCGA-GAAAGCATGCCCTAACGTGCTGGGTTTCGA
*
4592521 TTTCTCGTTCGACTAAATAGCCAAATATC
64 TTTCTCGTTCGACCAAATAGCCAAATATC
4592550 CTCTTAAAAC
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 2 0.02
108 79 0.93
109 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (108 bp):
AAATAAGGCAATACTTCGCGTTCGAAAAATCGAGAAAGCATGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAACTTTTA
Found at i:4595401 original size:9 final size:9
Alignment explanation
Indices: 4595383--4595433 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
4595373 GTGGAGGCAA
*
4595383 AAAAAAAAC
1 AAAAACAAC
4595392 AAAAACAAC
1 AAAAACAAC
*
4595401 AAAAATAA-
1 AAAAACAAC
* *
4595409 AAAAATAAT
1 AAAAACAAC
4595418 AAAAA-AAC
1 AAAAACAAC
4595426 AAAAACAA
1 AAAAACAA
4595434 AAATAAAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 15 0.41
9 22 0.59
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAACAAC
Found at i:4595410 original size:25 final size:24
Alignment explanation
Indices: 4595382--4595448 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
4595372 AGTGGAGGCA
*
4595382 AAAAAAAAACAAAAACAACAAAAAT
1 AAAAAAAAACAAAAA-AACAAAAAC
*
4595407 AAAAAAATAATAAAAAAACAAAAAC
1 AAAAAAA-AACAAAAAAACAAAAAC
*
4595432 AAAAATAAAAGAAAAAA
1 AAAAA-AAAACAAAAAA
4595449 CCTCTACCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 28 0.76
26 9 0.24
ACGTcount: A:0.85, C:0.07, G:0.01, T:0.06
Consensus pattern (24 bp):
AAAAAAAAACAAAAAAACAAAAAC
Found at i:4595429 original size:24 final size:24
Alignment explanation
Indices: 4595381--4595449 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 24
4595371 CAGTGGAGGC
* *
4595381 AAAAAAAAAACAAAA-ACAACAA-A
1 AAAAAAAAAATAAAAGA-AAAAACA
* *
4595404 AATAAAAAAATAATA-AAAAAACA
1 AAAAAAAAAATAAAAGAAAAAACA
*
4595427 AAAACAAAAATAAAAGAAAAAAC
1 AAAAAAAAAATAAAAGAAAAAAC
4595450 CTCTACCGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 4 0.11
23 26 0.70
24 7 0.19
ACGTcount: A:0.84, C:0.09, G:0.01, T:0.06
Consensus pattern (24 bp):
AAAAAAAAAATAAAAGAAAAAACA
Found at i:4595447 original size:6 final size:6
Alignment explanation
Indices: 4595380--4595441 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
4595370 TCAGTGGAGG
* * *
4595380 CAAAAA -AAAAA CAAAAA CAACAAA -AATAA -AAAAA TAATAA -AAAAA
1 CAAAAA CAAAAA CAAAAA CAA-AAA CAAAAA CAAAAA CAAAAA CAAAAA
*
4595425 CAAAAA CAAAAA TAAAA
1 CAAAAA CAAAAA CAAAA
4595442 GAAAAAACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
5 15 0.32
6 29 0.62
7 3 0.06
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (6 bp):
CAAAAA
Found at i:4595906 original size:19 final size:21
Alignment explanation
Indices: 4595884--4595928 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
4595874 CTTCACTTGA
4595884 AAAAAAAAG-AAACAAAAA-G
1 AAAAAAAAGAAAACAAAAACG
* *
4595903 AAAAAAAGGAAAAGAAAAACG
1 AAAAAAAAGAAAACAAAAACG
4595924 AAAAA
1 AAAAA
4595929 GAAAAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAAACAAAAACG
Found at i:4595920 original size:13 final size:13
Alignment explanation
Indices: 4595882--4595942 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
4595872 AACTTCACTT
*
4595882 GAAAAAAAAAGAAA
1 GAAAAAGAAA-AAA
*
4595896 CAAAAAGAAAAAAA
1 GAAAAAG-AAAAAA
* *
4595910 GGAAAAGAAAAAC
1 GAAAAAGAAAAAA
*
4595923 GAAAAAGAAAAGA
1 GAAAAAGAAAAAA
4595936 GAAAAAG
1 GAAAAAG
4595943 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
13 22 0.58
14 13 0.34
15 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:4595934 original size:32 final size:29
Alignment explanation
Indices: 4595882--4595944 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
4595872 AACTTCACTT
*
4595882 GAAAAAAAAAGAAACAAAAAGAAAAAAAG
1 GAAAAAAAAAGAAAAAAAAAGAAAAAAAG
*
4595911 GAAAAGAAAAACGAAAAAGAAAAGAGAAAAAG
1 GAAAA-AAAAA-GAAAAA-AAAAGAAAAAAAG
4595943 GA
1 GA
4595945 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 5 0.17
31 5 0.17
32 14 0.48
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (29 bp):
GAAAAAAAAAGAAAAAAAAAGAAAAAAAG
Found at i:4597015 original size:87 final size:87
Alignment explanation
Indices: 4596846--4597022 Score: 255
Period size: 87 Copynumber: 2.0 Consensus size: 87
4596836 ATCAATAAAA
** * * *
4596846 ATCGAAAGTAAAATCTTACCTCCATCGGTTGTAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAACCTTACCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAAATCTTGCCT
* *
4596911 TCCTGCATTAACAGCGAAGCAG
66 TCCTACACTAACAGCGAAGCAG
*
4596933 ATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAAATCTTGCCT
1 ATCGAAAACAAAACCTTACCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAAATCTTGCCT
* * *
4596998 TCCTATACTGACGGCGAAGCAG
66 TCCTACACTAACAGCGAAGCAG
4597020 ATC
1 ATC
4597023 AAAGAAGCCA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
ATCGAAAACAAAACCTTACCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAAATCTTGCCT
TCCTACACTAACAGCGAAGCAG
Found at i:4597027 original size:45 final size:45
Alignment explanation
Indices: 4596976--4597118 Score: 148
Period size: 44 Copynumber: 3.2 Consensus size: 45
4596966 GTGGAGCTGG
* *
4596976 TCAAAGATAGCAAATCTTGCCTTCCTATACTGACGGCGAAGCAGA
1 TCAAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
* * *
4597021 TCAAAGA-AGCCAGTCTTGCCTTCCTGTACTGACAGCGGAGCAGA
1 TCAAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
* * * *
4597065 CTGAAA-ATTA-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGA
1 -TCAAAGA-TAGCAAATCTTGCCTTCCTGTA-CTGACAGCGAAGCAGA
*
4597111 TCGAAGAT
1 TCAAAGAT
4597119 GGCAGATTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
44 33 0.42
45 31 0.39
46 15 0.19
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (45 bp):
TCAAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
Found at i:4597338 original size:95 final size:95
Alignment explanation
Indices: 4597114--4598616 Score: 1273
Period size: 95 Copynumber: 16.1 Consensus size: 95
4597104 AAGCAGATCG
* *
4597114 AAGATGGCAGATTTTACCTCCCTGTGACTATAGTGGAGTACATTGAAGCCGATAACTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* *
4597179 CTGTATTCGGTAGTGGAATAGATCGAAGA-T-
66 CTG-ATT-GGCAGTGGAATAGATTGAAGATTA
* *
4597209 ---A--GCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
*
4597269 CTGATTGGCAGTGGAATAGATTGAATATTA
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
* * *
4597299 AAGATGGCAGATTTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCT
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
*
4597364 CTGGTTGGCAGTGGAATAGATTGAAGATTGA
66 CTGATTGGCAGTGGAATAGATTGAAGATT-A
* * * * *
4597395 AA-ATGACAGATTTTACCTCCCTATGACTACAGTAGAGTACATTAAAGCCGATAACTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
4597459 CTGTATTTGGCAGTGGAATAGATTGAAGATT-
66 CTG-A-TTGGCAGTGGAATAGATTGAAGATTA
* * * * *** * * ** * * *
4597490 ---A---CAGATCTTGCCTTCCTAT-A-TTTGGTAGCGAAGCAGATTGAAGATGGTAGATTTTAC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGT-G-G-AGTACATTGAAGCCGATA-ATTCTAT
* * *
4597547 CTCCCTGTGACT-ACAGTGG---AG--T--ACATTA
62 CTCCC--TGATTGGCAGTGGAATAGATTGAAGATTA
** ** * * * * * **
4597575 AAGCCGATA-ATTCTATCTCCCTGGTTG-GT--AGTGGAATAGATTGATGATCGAAGATGACAGA
1 AAGATGGCAGATTTTACCTCCCT-G-TGACTACAGTGGAGTACATTGA--A--GCCGAT---A-A
* * * * * *
4597636 TTTTACCTCCCTGTGACT-ACAGTGGAGTACATTGAAG----
56 TTCTATCTCCC--TGATTGGCAGTGGAATAGATTGAAGATTA
** * * * * * * * * ** *
4597673 CCGAT---A-ACTCTATCTCTCTGT-ATTTGGCAGTGGAATAGATTGAAGATTGCA-GA-TCT-T
1 AAGATGGCAGATTTTACCTCCCTGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAATTCTAT
* * * *
4597730 GGCTTCCTGTATTTGGCAG-CG---A-A--GCAGATTG
62 --CTCCCTG-A-TTGGCAGTGGAATAGATTGAAGATTA
4597761 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* *
4597826 CTCG-TTGGCAGTAGAATAGATTGAAGATTG
66 CT-GATTGGCAGTGGAATAGATTGAAGATTA
* * *
4597856 AAGATGGTAGATTTTACCTCCCTATGACTACAGTGGAGTAAATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * *
4597921 CTGGTTGGCAGTGGAATAGATTAAAGATTG
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
* * * *
4597951 AAGATGGCAGATTTTACCTGCCTGTGACTACAGTGGAGTACATTGAAGCTGATAATTCTATTTCT
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
*
4598016 CTGGTTGGCAGTGGAATAGATTGAAGATTA
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
* *
4598046 AAAATGGCAGATTTTACCTCACTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * *
4598111 CT-AGTTAGCAGTGGAATAGATTAAAGATCA
66 CTGA-TTGGCAGTGGAATAGATTGAAGATTA
*
4598141 AAGATGGCAAATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * * *
4598204 CTGATTAGTAGTGGAATAGATTGAATATCA
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
* *
4598234 AAGATGGCAGATTTTACCTCCC--TAACTACAGTGGAGTACATTGAAACCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * **
4598297 CTGGTTAGCAGTGGAATAGATTGAAGATCG
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
*
4598327 AAGATGGCAGATTTTACCTTCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* *
4598392 TTGGTTGGCAGTGGAATAGATTGAAGATTA
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
4598422 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* ** * **
4598487 CTGGTTGGCAGTGGAATAGAAAGCAGATCG
66 CTGATTGGCAGTGGAATAGATTGAAGATTA
* * *
4598517 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCC-AGTAGTTCTATCTC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA-TAATTCTATCTC
***** *
4598581 CCTGGGCAACAGTGGAATAGATTGAAGGTTA
65 CCTGATTGGCAGTGGAATAGATTGAAGATTA
*
4598612 CAGAT
1 AAGAT
4598617 CTTATCTCCC
Statistics
Matches: 1174, Mismatches: 155, Indels: 158
0.79 0.10 0.11
Matches are distributed among these distances:
84 7 0.01
86 2 0.00
87 1 0.00
88 43 0.04
89 11 0.01
90 98 0.08
91 45 0.04
92 30 0.03
93 181 0.15
94 8 0.01
95 701 0.60
96 3 0.00
97 40 0.03
98 2 0.00
100 1 0.00
102 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (95 bp):
AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
CTGATTGGCAGTGGAATAGATTGAAGATTA
Found at i:4597659 original size:326 final size:323
Alignment explanation
Indices: 4597198--4598138 Score: 1055
Period size: 326 Copynumber: 2.9 Consensus size: 323
4597188 GTAGTGGAAT
* * * * *
4597198 AGATCGAAGATAGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCT
1 AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* * *
4597263 ATCTCCCTGATTGGCAGTGGAATAGATTGAAT-ATTAAAGATGGCAGATTTTACCTCCCTGTAAC
66 ATCTCCCTGGTTGGCAGTGGAATAGATTG-ATGATTGAAGATGGCAGATTTTACCTCCCTGTGAC
*
4597327 TACAGTGGAGTACATTGAAGCCAATAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGAT
130 TACAGTGGAGTACATTGAAGCCGATAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGAT
* * *
4597392 TGAAAATGACAGATTTTACCTCCCTATGACTACAGTAGAGTACATTAAAGCCGATAACTCTATCT
195 T-AAAATG-CAGATTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCT
* * * *
4597457 CCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGA-TCT-TGCCTTCCTATATTTG-GTAG-
258 CCCTGTA-TT-GCAGTGGAATAGATTGAAGATGACA-ATTCTAT--CTCCCT-CATTGGAGTAGA
* *
4597518 CGA-AGC
317 AGATAGA
*
4597524 AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCGATAATTCT
1 AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* * *
4597589 ATCTCCCTGGTTGGTAGTGGAATAGATTGATGATCGAAGATGACAGATTTTACCTCCCTGTGACT
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGATGATTGAAGATGGCAGATTTTACCTCCCTGTGACT
* *
4597654 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGA
131 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCTCTG--GTTGGCAGTGGAATAGATTGAAGA
* ** * * * * * * ** ** *
4597719 -T----TGCAGATCTTGGCTTCCTGT-ATTTGGCAG-CGAAGCAGATTGAAGATGGCAGATTTTA
194 TTAAAATGCAGATTTTACCTCCCTGTGA-CT-ACAGTAG-AGTACATTGAAGCCGATA-ATTCTA
* * * * * ** * *
4597777 CCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTCGTTGGCAGTAGAA
255 TCTCCCTGT-ATTGCAGTGGAATAGATTGAAGATGACAATTCTATCTCCCTCATTGG-AGTAG-A
*
4597842 TAGATTGA
317 -AGATAGA
* *
4597850 AGATTGAAGATGGTAGATTTTACCTCCCTATGACTACAGTGGAGTAAATTGAAGCCGATAATTCT
1 AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
* * *
4597915 ATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTGAAGATGGCAGATTTTACCTGCCTGTGACT
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGATGATTGAAGATGGCAGATTTTACCTCCCTGTGACT
* *
4597980 ACAGTGGAGTACATTGAAGCTGATAATTCTATTTCTCTGGTTGGCAGTGGAATAGATTGAAGATT
131 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATT
* *
4598045 AAAAATGGCAGATTTTACCTCACTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTC
196 -AAAAT-GCAGATTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
* *
4598110 CCTAGT-TAGCAGTGGAATAGATTAAAGAT
259 CCT-GTATTGCAGTGGAATAGATTGAAGAT
4598139 CAAAGATGGC
Statistics
Matches: 504, Mismatches: 85, Indels: 50
0.79 0.13 0.08
Matches are distributed among these distances:
320 4 0.01
321 21 0.04
322 41 0.08
323 14 0.03
324 24 0.05
325 5 0.01
326 310 0.62
327 1 0.00
328 38 0.08
329 11 0.02
330 18 0.04
331 16 0.03
332 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (323 bp):
AGATTGAAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
ATCTCCCTGGTTGGCAGTGGAATAGATTGATGATTGAAGATGGCAGATTTTACCTCCCTGTGACT
ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATT
AAAATGCAGATTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCC
TGTATTGCAGTGGAATAGATTGAAGATGACAATTCTATCTCCCTCATTGGAGTAGAAGATAGA
Found at i:4597702 original size:231 final size:231
Alignment explanation
Indices: 4597299--4597949 Score: 1063
Period size: 231 Copynumber: 2.8 Consensus size: 231
4597289 TTGAATATTA
* * *
4597299 AAGATGGCAGATTTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCT
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* *
4597364 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAAATGACAGATTTTACCTCCCTATGACTACAGTA
66 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTATGACTACAGTG
*
4597429 GAGTACATTAAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
131 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
*
4597494 ATCTTGCCTTCCTATATTTGGTAGCGAAGCAGATTG
196 ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
* *
4597530 AAGATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * * *
4597595 CTGGTTGGTAGTGGAATAGATTGATGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTG
66 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTATGACTACAGTG
* *
4597660 GAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAG
131 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
* *
4597725 ATCTTGGCTTCCTGTATTTGGCAGCGAAGCAGATTG
196 ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
4597761 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
* * **
4597826 CTCGTTGGCAGTAGAATAGATTGAAGATTGAAGATGGTAGATTTTACCTCCCTATGACTACAGTG
66 CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTATGACTACAGTG
* * * *
4597891 GAGTAAATTGAAGCCGATAATTCTATCTCCCTG--GTTGGCAGTGGAATAGATTAAAGATT
131 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
4597950 GAAGATGGCA
Statistics
Matches: 388, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
229 24 0.06
231 364 0.94
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (231 bp):
AAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
CTGGTTGGCAGTGGAATAGATTGAAGATTGAAGATGACAGATTTTACCTCCCTATGACTACAGTG
GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAG
ATCTTGCCTTCCTATATTTGGCAGCGAAGCAGATTG
Found at i:4597785 original size:46 final size:46
Alignment explanation
Indices: 4597690--4597785 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
4597680 CTCTATCTCT
* * * ** *
4597690 CTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGGCTTC
1 CTGTATTTGGCAGTCGAACAGATTGAAGATGGCAGATCTTACCTCC
*
4597736 CTGTATTTGGCAG-CGAAGCAGATTGAAGATGGCAGATTTTACCTCC
1 CTGTATTTGGCAGTCGAA-CAGATTGAAGATGGCAGATCTTACCTCC
4597782 CTGT
1 CTGT
4597786 GACTACAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 3 0.07
46 39 0.93
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (46 bp):
CTGTATTTGGCAGTCGAACAGATTGAAGATGGCAGATCTTACCTCC
Found at i:4598227 original size:43 final size:43
Alignment explanation
Indices: 4598158--4598504 Score: 126
Period size: 43 Copynumber: 7.5 Consensus size: 43
4598148 CAAATTTTAC
* *
4598158 CTCCCTGACTA-CAGTGGAGTACATTGAAGCCGATAATTCTAT
1 CTCCCTGATTAGCAGTGGAATACATTGAAGCCGATAATTCTAT
* * * * * *
4598200 CTCCCTGATTAGTAGTGGAATAGATTGAATATCAAAGATGGCAGATTTTAC
1 CTCCCTGATTAGCAGTGGAATACATTG-A-AGC--CGAT---A-ATTCTAT
* * * *
4598251 CTCCCTAACTA-CAGTGGAGTACATTGAAACCGATAATTCTAT
1 CTCCCTGATTAGCAGTGGAATACATTGAAGCCGATAATTCTAT
* * * * *
4598293 CTCCCTGGTTAGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGATTAGCAGTGGAATACATTGAAG--C--CGAT---A-ATTCTAT
* * *
4598344 CTTCCTGTGACTA-CAGTGGAGTACATTGAAGCCGATAATTCTAT
1 C-TCC-CTGATTAGCAGTGGAATACATTGAAGCCGATAATTCTAT
* * * * ** * *
4598388 CTCCTTGGTTGGCAGTGGAATAGATTGAAGATTAAAGATGGCAGATTTTAC
1 CTCCCTGATTAGCAGTGGAATACATTGAAG----CCGAT---A-ATTCTAT
* *
4598439 CTCCCTGTGACTA-CAGTGGAGTACATTGAAGCCGATAATTCTAT
1 CTCCC--TGATTAGCAGTGGAATACATTGAAGCCGATAATTCTAT
* *
4598483 CTCCCTGGTTGGCAGTGGAATA
1 CTCCCTGATTAGCAGTGGAATA
4598505 GAAAGCAGAT
Statistics
Matches: 215, Mismatches: 58, Indels: 63
0.64 0.17 0.19
Matches are distributed among these distances:
42 29 0.13
43 56 0.26
44 17 0.08
45 5 0.02
46 3 0.01
47 9 0.04
48 8 0.04
49 1 0.00
50 16 0.07
51 29 0.13
52 35 0.16
53 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
CTCCCTGATTAGCAGTGGAATACATTGAAGCCGATAATTCTAT
Found at i:4598639 original size:44 final size:43
Alignment explanation
Indices: 4598612--4599134 Score: 584
Period size: 44 Copynumber: 12.4 Consensus size: 43
4598602 TTGAAGGTTA
* *
4598612 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---GCATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAGAAAC
* *
4598653 AAG-TCTTATCTCTCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACG-AAGAAAC
* * *
4598696 CAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC--A-TATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAGAAAC
* *
4598737 AAG-TATTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACG-AAGAAAC
* *
4598780 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC--A-CATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAGAAAC
* *
4598821 AAG-TCTTATCTCTCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACG-AAGAAAC
4598864 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACG-AAGAAAC
4598908 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACG-AAGAAAC
* * *
4598952 CAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATC--A-CATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAGAAAC
* *
4598993 AAG-TCTTATCTCCCTAAGCAGTAGTGGAACAGACGAACGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAA-GAAAC
* * * *
4599036 CCGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC---GTATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAGAAAC
4599077 CAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACG-AAGAAAC
*
4599120 CA-ATCCTATCTCCCT
1 CAGATCTTATCTCCCT
4599135 GAAGTTGCAG
Statistics
Matches: 410, Mismatches: 43, Indels: 56
0.81 0.08 0.11
Matches are distributed among these distances:
39 5 0.01
40 143 0.35
41 20 0.05
42 5 0.01
43 32 0.08
44 201 0.49
45 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (43 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAGAAAC
Found at i:4599063 original size:256 final size:252
Alignment explanation
Indices: 4598612--4599134 Score: 834
Period size: 256 Copynumber: 2.1 Consensus size: 252
4598602 TTGAAGGTTA
* * *
4598612 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAACAAGTCTTATCTCCCTAAGCAGTAG
*
4598677 TGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCATATCAAGTA
66 TGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATCAAGTA
*
4598742 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
131 TTATCTCCCTAAGCAGTAGTGGAACAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
*
4598807 GAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
196 GAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
*
4598864 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAAACAAG-TCTTATCTCCCTAAGC
* *
4598928 AGTAGTGGAGCAGACGAAAGAAACCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATC
61 AGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATC
* * * *
4598993 AAGTCTTATCTCCCTAAGCAGTAGTGGAACAGACGAACGAAACCCGATCTTATCTCCCTAAGTAG
126 AAGTATTATCTCCCTAAGCAGTAGTGGAACAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAG
** *
4599058 TAGTGGAGCAGATCGTATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
191 TAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
*
4599120 CA-ATCCTATCTCCCT
1 CAGATCTTATCTCCCT
4599135 GAAGTTGCAG
Statistics
Matches: 249, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
251 1 0.00
252 34 0.14
255 17 0.07
256 197 0.79
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (252 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAACAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCACATCAAGTA
TTATCTCCCTAAGCAGTAGTGGAACAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
Found at i:4599150 original size:84 final size:84
Alignment explanation
Indices: 4598612--4599134 Score: 825
Period size: 84 Copynumber: 6.2 Consensus size: 84
4598602 TTGAAGGTTA
* *
4598612 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4598677 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * *
4598696 CAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCATATCAAGTATTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4598761 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
4598780 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4598845 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * *
4598864 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCTAAGC
4598928 AGTAGTGGAGCAGACGAAAGAAAC
61 AGTAGTGGAGCAGACGAAAGAAAC
*
4598952 CAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
4599017 TGGAACAGACGAACGAAAC
66 TGGAGCAGACGAAAGAAAC
* * ** *
4599036 CCGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGTATCCAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
4599101 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
4599120 CA-ATCCTATCTCCCT
1 CAGATCTTATCTCCCT
4599135 GAAGTTGCAG
Statistics
Matches: 404, Mismatches: 29, Indels: 13
0.91 0.07 0.03
Matches are distributed among these distances:
83 13 0.03
84 308 0.76
85 4 0.01
86 2 0.00
87 4 0.01
88 72 0.18
89 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:4601701 original size:107 final size:108
Alignment explanation
Indices: 4601515--4601821 Score: 467
Period size: 108 Copynumber: 2.9 Consensus size: 108
4601505 AGGTTTTGCT
* * * *
4601515 AAATAAGGCAATATTTCGCGTTCGAAAAATCGA-GAAAGCGTGCCCTAACGTGCTGGGTTTCGAT
1 AAATAAGGCAATATCTCGCGTTTGGAAAATCGAGGAAA-CGTGCCCTAACGTGTTGGGTTTCGAT
4601579 TTCTCGTTCGACCAAATAGCCAAATATCATTTTT-AAACTTTTA
65 TTCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAACTTTTA
* * *
4601622 AAATAAGGCAATATCTCGCGTTTGGAAAATCGAGGAATCGTGCCCTAACGTGTTAGGTTTCAATT
1 AAATAAGGCAATATCTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATT
* *
4601687 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAACTTTTA
* *
4601730 AAATAAGGCAATA-CTTCGCGTCTGGAAAATCGAGGAAACATGCCCTAACGTGTTGGGTTTCGAT
1 AAATAAGGCAATATC-TCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGAT
*
4601794 TTCTCGTTCGACTAAATAGCCAAATATC
65 TTCTCGTTCGACCAAATAGCCAAATATC
4601822 CTCTTAAAAC
Statistics
Matches: 181, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
107 86 0.48
108 95 0.52
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (108 bp):
AAATAAGGCAATATCTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAACTTTTA
Found at i:4603704 original size:26 final size:27
Alignment explanation
Indices: 4603675--4603728 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4603665 TGCCTTATTT
*
4603675 ATTGAAATT-ATTTAAAATAAAATAAA
1 ATTGAAATTAAATTAAAATAAAATAAA
* *
4603701 ATTGAAATTAAATTAAATTAAATTAAA
1 ATTGAAATTAAATTAAAATAAAATAAA
4603728 A
1 A
4603729 ATATAAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (27 bp):
ATTGAAATTAAATTAAAATAAAATAAA
Found at i:4603713 original size:5 final size:5
Alignment explanation
Indices: 4603689--4603727 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
4603679 AAATTATTTA
* *
4603689 AAATA AAATA AAATT GAAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT -AAATT AAATT AAATT AAATT AAA
4603728 AATATAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (5 bp):
AAATT
Found at i:4603907 original size:10 final size:9
Alignment explanation
Indices: 4603884--4603916 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
4603874 AATTGAACCC
4603884 TTTTC-TTT
1 TTTTCTTTT
4603892 TTTTCTTTT
1 TTTTCTTTT
4603901 TTCTTCTTTT
1 TT-TTCTTTT
4603911 TTTTCT
1 TTTTCT
4603917 GCTGCTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 9 0.39
10 9 0.39
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:4604223 original size:10 final size:10
Alignment explanation
Indices: 4604210--4604243 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4604200 TTTTTTTGCC
4604210 CTTTTTCTTT
1 CTTTTTCTTT
*
4604220 CTTTTTCCTT
1 CTTTTTCTTT
*
4604230 CTTCTTCTTT
1 CTTTTTCTTT
4604240 CTTT
1 CTTT
4604244 CTTTCTTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:4604231 original size:14 final size:15
Alignment explanation
Indices: 4604214--4604265 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 15
4604204 TTTGCCCTTT
4604214 TTCTTTCTT-TTTCC
1 TTCTTTCTTCTTTCC
*
4604228 TTC-TTCTTCTTTCT
1 TTCTTTCTTCTTTCC
*
4604242 TTCTTTCTTCTTCCC
1 TTCTTTCTTCTTTCC
4604257 TT-TTTCTTC
1 TTCTTTCTTC
4604266 CTTTTCCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 5 0.15
14 17 0.52
15 11 0.33
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTTTCTTCTTTCC
Found at i:4604258 original size:46 final size:46
Alignment explanation
Indices: 4604182--4604270 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
4604172 ATTAAAAAAT
* * * * *
4604182 TTCTTCTTTTTTTTTTTTTTTTTTTGCCCTTTTTCTTTCTTTTTCC
1 TTCTTCTTTTTCTTTCTTTCTTCTTGCCCTTTTTCTTCCTTTTTCC
4604228 TTCTTCTTCTTTCTTTCTTTCTTCTT-CCCTTTTTCTTCCTTTT
1 TTCTTCTT-TTTCTTTCTTTCTTCTTGCCCTTTTTCTTCCTTTT
4604271 CCGTTCAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 24 0.65
47 13 0.35
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (46 bp):
TTCTTCTTTTTCTTTCTTTCTTCTTGCCCTTTTTCTTCCTTTTTCC
Found at i:4604262 original size:18 final size:17
Alignment explanation
Indices: 4604210--4604264 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
4604200 TTTTTTTGCC
*
4604210 CTTT-TTCTTTCTTTTT
1 CTTTCTTCTTCCTTTTT
* *
4604226 CCTTCTTCTTCTTTCTTT
1 CTTTCTTCTTCCTT-TTT
4604244 CTTTCTTCTTCCCTTTTT
1 CTTTCTTCTT-CCTTTTT
4604262 CTT
1 CTT
4604265 CCTTTTCCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 18 0.58
19 3 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTCTTCTTCCTTTTT
Found at i:4604270 original size:10 final size:10
Alignment explanation
Indices: 4604209--4604270 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 10
4604199 TTTTTTTTGC
4604209 CCTTTTTCTT
1 CCTTTTTCTT
*
4604219 TCTTTTTCCTT
1 CCTTTTT-CTT
4604230 CTTCTTCTTTCTT
1 C--CTT-TTTCTT
*
4604243 TCTTTCTTCTT
1 CCTTT-TTCTT
4604254 CCCTTTTTCTT
1 -CCTTTTTCTT
4604265 CCTTTT
1 CCTTTT
4604271 CCGTTCAGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 13 0.31
11 16 0.38
12 4 0.10
13 6 0.14
14 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CCTTTTTCTT
Found at i:4604374 original size:16 final size:16
Alignment explanation
Indices: 4604350--4604388 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4604340 TCCTCTTCTC
4604350 CTCTCTTTTTCTTCTTT
1 CTCT-TTTTTCTTCTTT
* *
4604367 TTCTTTTTTTTTCTTT
1 CTCTTTTTTCTTCTTT
4604383 CTCTTT
1 CTCTTT
4604389 CTCTTTTGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTCTTTTTTCTTCTTT
Found at i:4604384 original size:20 final size:21
Alignment explanation
Indices: 4604355--4604395 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
4604345 TTCTCCTCTC
4604355 TTTTTCTTCT-TTT-TCTTTT
1 TTTTTCTTCTCTTTCTCTTTT
4604374 TTTTTCTTTCTCTTTCTCTTTT
1 TTTTTC-TTCTCTTTCTCTTTT
4604396 GCTTTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 4 0.21
21 3 0.16
22 6 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCTTCTCTTTCTCTTTT
Found at i:4604785 original size:30 final size:30
Alignment explanation
Indices: 4604751--4604888 Score: 118
Period size: 30 Copynumber: 4.6 Consensus size: 30
4604741 CAAAACTTTT
* *
4604751 GGGGTCGAAACGTAATTTTTAGAAAGTTTA
1 GGGGTCGAAATGTAATTTTGAGAAAGTTTA
* **
4604781 GGGGTCAAAATGTAATTTTGAGAACTTTTA
1 GGGGTCGAAATGTAATTTTGAGAAAGTTTA
* * *
4604811 GGGATTGAAATGTAA-TTTCA-AAATGTTTA
1 GGGGTCGAAATGTAATTTTGAGAAA-GTTTA
** * *
4604840 GGGGTTTAAATGTAATTTTGAAAAATTTTA
1 GGGGTCGAAATGTAATTTTGAGAAAGTTTA
** *
4604870 GGGGTAAAAATGCAATTTT
1 GGGGTCGAAATGTAATTTT
4604889 CTTAAAACAC
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
28 2 0.02
29 21 0.24
30 61 0.70
31 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (30 bp):
GGGGTCGAAATGTAATTTTGAGAAAGTTTA
Found at i:4604881 original size:59 final size:59
Alignment explanation
Indices: 4604776--4604887 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 59
4604766 TTTTTAGAAA
* * ** *
4604776 GTTTAGGGGTCAAAATGTAATTTTGAGAACTTTTAGGGATTGAAATGTAATTTCAAAAT
1 GTTTAGGGGTCAAAATGTAATTTTGAAAAATTTTAGGGATAAAAATGCAATTTCAAAAT
** *
4604835 GTTTAGGGGTTTAAATGTAATTTTGAAAAATTTTAGGGGTAAAAATGCAATTT
1 GTTTAGGGGTCAAAATGTAATTTTGAAAAATTTTAGGGATAAAAATGCAATTT
4604888 TCTTAAAACA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 45 1.00
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (59 bp):
GTTTAGGGGTCAAAATGTAATTTTGAAAAATTTTAGGGATAAAAATGCAATTTCAAAAT
Found at i:4609603 original size:13 final size:13
Alignment explanation
Indices: 4609585--4609609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4609575 ATGACGTGAC
4609585 TTCTTGTAAAAGT
1 TTCTTGTAAAAGT
4609598 TTCTTGTAAAAG
1 TTCTTGTAAAAG
4609610 GGGCTAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TTCTTGTAAAAGT
Found at i:4614588 original size:21 final size:21
Alignment explanation
Indices: 4614562--4614602 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4614552 AGACGAGCAA
* *
4614562 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4614583 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4614603 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4620579 original size:25 final size:26
Alignment explanation
Indices: 4620551--4620599 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4620541 TTCCTCTAAC
4620551 GTTTTCTTCTTCTTTC-TTTCTTTAT
1 GTTTTCTTCTTCTTTCATTTCTTTAT
* *
4620576 GTTTTGTTTTTCTTTCATTTCTTT
1 GTTTTCTTCTTCTTTCATTTCTTT
4620600 TCATTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.73
Consensus pattern (26 bp):
GTTTTCTTCTTCTTTCATTTCTTTAT
Found at i:4621763 original size:20 final size:20
Alignment explanation
Indices: 4621726--4621763 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4621716 TCTGTTCTGA
*
4621726 TAGCTTGACTGCAAATATAG
1 TAGCTTGACTACAAATATAG
*
4621746 TAGCTTGACTACATATAT
1 TAGCTTGACTACAAATAT
4621764 CTGATCTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
TAGCTTGACTACAAATATAG
Found at i:4624131 original size:20 final size:20
Alignment explanation
Indices: 4624106--4624155 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4624096 TGGCTTAAAA
4624106 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4624126 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4624143 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4624156 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4628770 original size:20 final size:20
Alignment explanation
Indices: 4628745--4628794 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4628735 TGGCTTAAAA
4628745 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4628765 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4628782 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4628795 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4630810 original size:10 final size:10
Alignment explanation
Indices: 4630771--4630819 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
4630761 AGCAATTTAA
4630771 TTTTTTTTCT
1 TTTTTTTTCT
* *
4630781 TTTATGTTCT
1 TTTTTTTTCT
*
4630791 TTTAACTTTTCT
1 TTT--TTTTTCT
4630803 TTTTTTTTCT
1 TTTTTTTTCT
4630813 TTTTTTT
1 TTTTTTT
4630820 CCTTCTCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 24 0.75
12 8 0.25
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:4633045 original size:5 final size:5
Alignment explanation
Indices: 4633035--4633064 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4633025 CGGATCTCCT
4633035 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
4633065 ACACGCAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:4635450 original size:16 final size:16
Alignment explanation
Indices: 4635429--4635459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4635419 ATTTATGCAA
*
4635429 AATAAAGATATATATT
1 AATAAAAATATATATT
4635445 AATAAAAATATATAT
1 AATAAAAATATATAT
4635460 GCCAAGATAT
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:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATAAAAATATATATT
Found at i:4637050 original size:25 final size:27
Alignment explanation
Indices: 4637011--4637067 Score: 100
Period size: 25 Copynumber: 2.2 Consensus size: 27
4637001 ACCTCATTAA
4637011 ATTTTCTTTTAAATTTATTAATGTAAC
1 ATTTTCTTTTAAATTTATTAATGTAAC
4637038 ATTTT-TTTT-AATTTATTAATGTAAC
1 ATTTTCTTTTAAATTTATTAATGTAAC
4637063 ATTTT
1 ATTTT
4637068 GAAATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 21 0.70
26 4 0.13
27 5 0.17
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (27 bp):
ATTTTCTTTTAAATTTATTAATGTAAC
Found at i:4637067 original size:21 final size:23
Alignment explanation
Indices: 4637017--4637073 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
4637007 TTAAATTTTC
4637017 TTTTAAATTTATTAATGTAACATTT
1 TTTTAAATTTATTAATGTAACA--T
*
4637042 TTTTTAATTTATTAATGTAACAT
1 TTTTAAATTTATTAATGTAACAT
*
4637065 TTTGAAATT
1 TTTTAAATT
4637074 AAAATCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 8 0.28
25 21 0.72
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTTAAATTTATTAATGTAACAT
Found at i:4642317 original size:32 final size:32
Alignment explanation
Indices: 4642281--4642342 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
4642271 AAATAAACAC
4642281 ATAATTATTCATTT-AATA-TTATAATTATTTAA
1 ATAA-TATT-ATTTAAATAGTTATAATTATTTAA
4642313 ATAATATTATTTAAATAGTTATAATTATTT
1 ATAATATTATTTAAATAGTTATAATTATTT
4642343 TTCAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 4 0.14
31 8 0.29
32 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAATTATTTAA
Found at i:4642321 original size:14 final size:14
Alignment explanation
Indices: 4642281--4642329 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
4642271 AAATAAACAC
4642281 ATAATTATTCATTTAA
1 ATAA-TATT-ATTTAA
*
4642297 TATTATAATTATTTAA
1 -ATAAT-ATTATTTAA
4642313 ATAATATTATTTAA
1 ATAATATTATTTAA
4642327 ATA
1 ATA
4642330 GTTATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 7 0.24
17 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATATTATTTAA
Found at i:4647862 original size:29 final size:29
Alignment explanation
Indices: 4647820--4647886 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
4647810 TGTTTAGATG
*
4647820 TAATT-CATTACTTAAGTAACTCAATAAAA
1 TAATTACA-TACTTAAGTAACCCAATAAAA
4647849 TAATTACATACTTAAGTAACCCAATAAAA
1 TAATTACATACTTAAGTAACCCAATAAAA
4647878 TAATTACAT
1 TAATTACAT
4647887 GTAGAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (29 bp):
TAATTACATACTTAAGTAACCCAATAAAA
Found at i:4653798 original size:3 final size:3
Alignment explanation
Indices: 4653792--4653822 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4653782 GATGATGATG
4653792 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
4653823 AGGCAACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:4655833 original size:52 final size:52
Alignment explanation
Indices: 4655739--4655840 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 52
4655729 AATAATGAAA
* * ** * * *
4655739 TAATTAAATTAGATATTATAATAATAGTATAAGGTGAGATAAAAAGTAAATT
1 TAATAAAATTAAATATTATAATAATAGTATAAAATAAAATAAAAAATAAATT
*
4655791 TAATAAAATTAAATATTATAATAATATTATAAAATAAAATAAAAAATAAA
1 TAATAAAATTAAATATTATAATAATAGTATAAAATAAAATAAAAAATAAA
4655841 CTAAATGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (52 bp):
TAATAAAATTAAATATTATAATAATAGTATAAAATAAAATAAAAAATAAATT
Found at i:4658266 original size:22 final size:23
Alignment explanation
Indices: 4658241--4658286 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4658231 ATAATTGCTT
4658241 TTATAGATATATACATATA-TTA
1 TTATAGATATATACATATACTTA
* * *
4658263 TTATATATTTTTACATATACTTA
1 TTATAGATATATACATATACTTA
4658286 T
1 T
4658287 ACACATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATAGATATATACATATACTTA
Found at i:4658294 original size:22 final size:22
Alignment explanation
Indices: 4658252--4658296 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4658242 TATAGATATA
* *
4658252 TACATATATTATTATATATTTT
1 TACATATATTATTACACATTTT
4658274 TACATATACTTA-TACACATTTT
1 TACATATA-TTATTACACATTTT
4658296 T
1 T
4658297 TTGTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (22 bp):
TACATATATTATTACACATTTT
Found at i:4660438 original size:20 final size:21
Alignment explanation
Indices: 4660413--4660455 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4660403 ATTCTAGGCA
4660413 TTGTATGA-AAAAGAGCAAAT
1 TTGTATGAGAAAAGAGCAAAT
* *
4660433 TTGTATTAGAAAAGAGGAAAT
1 TTGTATGAGAAAAGAGCAAAT
4660454 TT
1 TT
4660456 AACATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (21 bp):
TTGTATGAGAAAAGAGCAAAT
Found at i:4661236 original size:22 final size:22
Alignment explanation
Indices: 4661188--4661236 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4661178 ATATCCAAAT
*
4661188 AATAATGACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
* *
4661210 TATAATAACAAAATGGTTA-CAA
1 AATAATAACAAAATAG-TAGCAA
4661232 AATAA
1 AATAA
4661237 CAGCAGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:4663872 original size:107 final size:106
Alignment explanation
Indices: 4663687--4663889 Score: 309
Period size: 107 Copynumber: 1.9 Consensus size: 106
4663677 TGGATTAAGA
* * * * *
4663687 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATCT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAAAAAACGAAACCCAGCACATTAGGGCACATCT
*
4663752 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCAAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCAAAAT
*
4663793 TTTAAAAGGATATTTGACTATTTGAT-AGAACGAAAAAAACGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGATCA-AACG-AAAAAACGAAACCCAGCACATTAGGGCACAT
*
4663857 TTTCTCGAATCTCCAAACGCAAAACATTGCCTT
64 CTTCTCGAATCTCCAAACGCAAAACATTGCCTT
4663890 TATTATTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 1 0.01
106 27 0.31
107 59 0.68
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAACGAAAAAACGAAACCCAGCACATTAGGGCACATCT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCAAAAT
Found at i:4664669 original size:46 final size:48
Alignment explanation
Indices: 4664618--4664713 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
4664608 AAAACGTATG
*
4664618 TACATATATAAGCTAGAAA-ATATTTA-AA-AAGAG-ATATAGATATATA
1 TACATA-ATAAGATAGAAAGATATTTATAATAAG-GTATATAGATATATA
* *
4664664 TACATAATAAGATATAAAGATATTTATAATAAGGTATATATATATATA
1 TACATAATAAGATAGAAAGATATTTATAATAAGGTATATAGATATATA
4664712 TA
1 TA
4664714 TGAAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
45 10 0.23
46 13 0.30
47 3 0.07
48 17 0.40
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (48 bp):
TACATAATAAGATAGAAAGATATTTATAATAAGGTATATAGATATATA
Found at i:4664684 original size:26 final size:25
Alignment explanation
Indices: 4664646--4664695 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4664636 AATATTTAAA
*
4664646 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
4664672 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
4664696 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:4664708 original size:22 final size:22
Alignment explanation
Indices: 4664657--4664713 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
4664647 AGAGATATAG
*
4664657 ATATATATACATAATAAGATAT
1 ATATATATATATAATAAGATAT
* * * *
4664679 AAAGATATTTATAATAAGGTAT
1 ATATATATATATAATAAGATAT
4664701 ATATATATATATA
1 ATATATATATATA
4664714 TGAAAATTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
ATATATATATATAATAAGATAT
Found at i:4666438 original size:44 final size:43
Alignment explanation
Indices: 4666379--4666536 Score: 124
Period size: 44 Copynumber: 3.6 Consensus size: 43
4666369 GTGGCTTAAA
* *
4666379 TCTGCTTCACTACTGCTTAGGAAGATAGGACTTGATTTCTTCTG
1 TCTGCTCCACTACTGCTTAGGAAGATAGGACTTGATATCTT-TG
* * *
4666423 TCTGCTCCACTACTGCTTAGGGAGATAAGA-TCT-ACCATCTTTG
1 TCTGCTCCACTACTGCTTAGGAAGATAGGACT-TGA-TATCTTTG
* * * * ** **
4666466 ACCCGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAA
1 -TCTGCTCCACTACTGCTTAGGAAGATAGGACTTGATATCTT-TG
*
4666510 TCTGCTTCACTACTGCTTAGGAAGATA
1 TCTGCTCCACTACTGCTTAGGAAGATA
4666537 AGATTCGCCG
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
43 31 0.34
44 59 0.66
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (43 bp):
TCTGCTCCACTACTGCTTAGGAAGATAGGACTTGATATCTTTG
Found at i:4666561 original size:87 final size:88
Alignment explanation
Indices: 4666378--4666561 Score: 210
Period size: 87 Copynumber: 2.1 Consensus size: 88
4666368 TGTGGCTTAA
* ** ***
4666378 ATCTGCTTCACTACTGCTTAGGAAGATAGGACTTGATTTCTTCTGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGACTTGATGGCTTAAATCTGCTCCACTACTGCTTAG
* *
4666443 GGAGATAAGATCTACCATCTTTG
66 GAAGATAAGATCTACCATCTTCG
* * * * *
4666466 ACCCGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAGGACTTGATGGCTTAAATCTGCTCCACTACTGCTTAG
* *
4666530 GAAGATAAGAT-TCGCCGTCTTCG
66 GAAGATAAGATCT-ACCATCTTCG
4666553 ATCTGCTCC
1 ATCTGCTCC
4666562 GCTAGTACTT
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
86 1 0.01
87 49 0.63
88 28 0.36
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (88 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAGGACTTGATGGCTTAAATCTGCTCCACTACTGCTTAG
GAAGATAAGATCTACCATCTTCG
Found at i:4666584 original size:131 final size:131
Alignment explanation
Indices: 4666339--4666608 Score: 328
Period size: 131 Copynumber: 2.1 Consensus size: 131
4666329 TTTTCTATTT
*
4666339 GCTCCACTACTGCTAAGAGAGATAAGACTTGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
1 GCTCCACTACTGCTAAGAGAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* ** * ** * *
4666404 TAGGACTTGATTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACC
66 TAAGACTTGACGTCTTCTGTCTGCTCCACTACTACTTAGAAAGACAAGATCTACCATCTTTAACC
*
4666469 C
131 A
* * *
4666470 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
1 GCTCCACTACTGCTAAGAGAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* * * * * * *
4666535 TAAGA-TTCGCCGTCTTC-GATCTGCTCCGCTAGTACTTAGAAAGGCAAGATTTGCTATCTTTAA
66 TAAGACTT-GACGTCTTCTG-TCTGCTCCACTACTACTTAGAAAGACAAGATCTACCATCTTTAA
4666598 CCA
129 CCA
4666601 GCTCCACT
1 GCTCCACT
4666609 GCAACCGATG
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
130 3 0.03
131 114 0.97
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
GCTCCACTACTGCTAAGAGAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
TAAGACTTGACGTCTTCTGTCTGCTCCACTACTACTTAGAAAGACAAGATCTACCATCTTTAACC
A
Found at i:4666677 original size:56 final size:55
Alignment explanation
Indices: 4666586--4666703 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 55
4666576 AGGCAAGATT
*
4666586 TGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGGGTC
1 TGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTT-GATC
*
4666643 TGCTTCTTTAACCAGCTCCGCTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATC
1 TGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATC
4666698 TGCTTC
1 TGCTTC
4666704 GCTGTTAACG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 9 0.15
56 46 0.78
57 4 0.07
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (55 bp):
TGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATC
Found at i:4666906 original size:89 final size:88
Alignment explanation
Indices: 4666641--4667050 Score: 494
Period size: 89 Copynumber: 4.7 Consensus size: 88
4666631 TGTTTTTGGG
*
4666641 TCTGCT-TCTTTAACCAGCTCCGCTGCAACCGATGGAGGCAAGGCTTTGT-TTTT-GATCTGCTT
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGG-TTTGTGTTTTCGATCTGCTT
* * * *
4666703 CGCTGTTAACGTAGGAATA-CAAGA
65 CGCCGTCAATGTACGAA-AGCAAGA
* *
4666727 TCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTC
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTGTGTTTTCGATCTGCTTC
* * * *
4666791 GCTGTTAATGTAGGAAGGCAAGA
66 GCCGTCAATGTACGAAAGCAAGA
* * * * *
4666814 TCTGTTGTCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAAGTTTGTGTCTTTCGATCTGCT
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTTGTGT-TTTCGATCTGCT
*
4666878 TCGCCGTCAATGCACGAAAGCAAGA
64 TCGCCGTCAATGTACGAAAGCAAGA
* * * **
4666903 TCTGTTATCTTCAACCAGCTCCACTACAATTGA-GAGAGGCAAGGTTTGTGTCTTTCGATCTGCT
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTTGTGT-TTTCGATCTGCT
* *
4666967 GCGCCGTCAATGTACGAAGGCAAGA
64 TCGCCGTCAATGTACGAAAGCAAGA
4666992 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTT-TGTTTTCGATCT
1 TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTGTGTTTTCGATCT
4667051 TCACTAATTT
Statistics
Matches: 287, Mismatches: 29, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
85 1 0.00
86 13 0.05
87 112 0.39
88 6 0.02
89 154 0.54
90 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (88 bp):
TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTGTGTTTTCGATCTGCTTC
GCCGTCAATGTACGAAAGCAAGA
Found at i:4668287 original size:6 final size:6
Alignment explanation
Indices: 4668286--4668310 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4668276 ACTTTTCATT
4668286 TTTTCA TTTTCA TTTTCA TTTTCA T
1 TTTTCA TTTTCA TTTTCA TTTTCA T
4668311 CTTTTTTTTT
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:4668747 original size:12 final size:12
Alignment explanation
Indices: 4668732--4668764 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4668722 TCTTTTTGTT
4668732 TTTTTATTTTGA
1 TTTTTATTTTGA
4668744 TTTTTATTTTGA
1 TTTTTATTTTGA
4668756 TTTTT-TTTT
1 TTTTTATTTT
4668765 ATCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:4672938 original size:107 final size:106
Alignment explanation
Indices: 4672753--4672955 Score: 309
Period size: 107 Copynumber: 1.9 Consensus size: 106
4672743 TGGATTAAGA
* * * * *
4672753 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAAAAAACGAAACCCAGCACATTAGGGCACATTT
*
4672818 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCAAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCAAAAT
* *
4672859 TTTAAAAGGATATTTGACTATTTGAT-AGAACGAAAAAAACGAAATCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGATCA-AACG-AAAAAACGAAACCCAGCACATTAGGGCACAT
4672923 TTTCTCGAATCTCCAAACGCAAAACATTGCCTT
64 TTTCTCGAATCTCCAAACGCAAAACATTGCCTT
4672956 TATTATTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 1 0.01
106 27 0.31
107 59 0.68
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAACGAAAAAACGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCAAAAT
Found at i:4673506 original size:12 final size:12
Alignment explanation
Indices: 4673491--4673522 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4673481 TAATGAAAAT
4673491 ATAAATAAAGAA
1 ATAAATAAAGAA
4673503 ATAAATAAAGAA
1 ATAAATAAAGAA
*
4673515 ATGAATAA
1 ATAAATAA
4673523 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:4673753 original size:26 final size:25
Alignment explanation
Indices: 4673715--4673764 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4673705 AATATTTAAA
*
4673715 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
4673741 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
4673765 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:4673756 original size:46 final size:48
Alignment explanation
Indices: 4673687--4673781 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
4673677 AAAACGTATG
*
4673687 TACATATATAAGCTAGAAAATATTTA-AA-AAGAG-ATATAGATATATA
1 TACATATATAAGATAGAAAATATTTATAATAAG-GTATATAGATATATA
* *
4673733 TACATA-ATAAGATATAAAGATATTTATAATAAGGTATATATATATATA
1 TACATATATAAGATAGAAA-ATATTTATAATAAGGTATATAGATATATA
4673781 T
1 T
4673782 GAAAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 10 0.24
46 13 0.31
47 3 0.07
48 16 0.38
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (48 bp):
TACATATATAAGATAGAAAATATTTATAATAAGGTATATAGATATATA
Found at i:4673777 original size:22 final size:22
Alignment explanation
Indices: 4673726--4673778 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4673716 AGAGATATAG
4673726 ATATATATACATAATAAGATAT
1 ATATATATACATAATAAGATAT
* * ** *
4673748 AAAGATATTTATAATAAGGTAT
1 ATATATATACATAATAAGATAT
4673770 ATATATATA
1 ATATATATA
4673779 TATGAAAATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
ATATATATACATAATAAGATAT
Found at i:4675415 original size:10 final size:10
Alignment explanation
Indices: 4675400--4675426 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4675390 ATGTAGGTTT
4675400 AAGTGCAGTG
1 AAGTGCAGTG
4675410 AAGTGCAGTG
1 AAGTGCAGTG
4675420 AAGTGCA
1 AAGTGCA
4675427 TTATCCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.11, G:0.37, T:0.19
Consensus pattern (10 bp):
AAGTGCAGTG
Found at i:4675695 original size:29 final size:29
Alignment explanation
Indices: 4675626--4675696 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
4675616 TAATTATAAA
* *
4675626 TAAATTTACATATAATAACATTAAAAATT
1 TAAATCTACATAAAATAACATTAAAAATT
* * *
4675655 AAAATC-ATATAAAATAAACATT-TAAATT
1 TAAATCTACATAAAAT-AACATTAAAAATT
4675683 TAAATCTACATAAA
1 TAAATCTACATAAA
4675697 GAAACAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TAAATCTACATAAAATAACATTAAAAATT
Found at i:4676584 original size:30 final size:31
Alignment explanation
Indices: 4676543--4676623 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
4676533 TATTTAATAG
*
4676543 TTAATATTTTTATAATTTTTAAAGAA-TAAAA
1 TTAA-ATTTTTATTATTTTTAAAGAACTAAAA
*
4676574 TTAAATTTTTATTATTTTT-GAGAACTAAAA
1 TTAAATTTTTATTATTTTTAAAGAACTAAAA
* *
4676604 -TATATTTTTATTATTATTAA
1 TTAAATTTTTATTATTTTTAA
4676624 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 20 0.47
30 19 0.44
31 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (31 bp):
TTAAATTTTTATTATTTTTAAAGAACTAAAA
Found at i:4679109 original size:36 final size:36
Alignment explanation
Indices: 4679062--4679130 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
4679052 GTAGGTGTTG
4679062 ATAACATAAATCAAAGAGAATCTAGAGAGGATGTAA
1 ATAACATAAATCAAAGAGAATCTAGAGAGGATGTAA
*
4679098 ATAACATAAATCAAATAGAATCTAGAGAGGATG
1 ATAACATAAATCAAAGAGAATCTAGAGAGGATG
4679131 GATTAATCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.52, C:0.09, G:0.19, T:0.20
Consensus pattern (36 bp):
ATAACATAAATCAAAGAGAATCTAGAGAGGATGTAA
Found at i:4682091 original size:21 final size:21
Alignment explanation
Indices: 4682050--4682091 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4682040 TAACAGTAAT
* *
4682050 AGTAATATTAATTATTGTAAC
1 AGTAATATTAATTACTATAAC
*
4682071 AGTAATATTAGTTACTATAAC
1 AGTAATATTAATTACTATAAC
4682092 GGTGATGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
AGTAATATTAATTACTATAAC
Found at i:4683420 original size:17 final size:17
Alignment explanation
Indices: 4683368--4683420 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
4683358 TATGGAAACA
* *
4683368 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
4683385 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
4683404 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
4683421 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:4683439 original size:22 final size:22
Alignment explanation
Indices: 4683392--4683436 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4683382 ATGCAATCTT
*
4683392 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTCAGA
*
4683414 AGATATGATTTTGTAATCTCAGA
1 AGATATGA-TATGTAATCTCAGA
4683437 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTCAGA
Found at i:4683446 original size:22 final size:23
Alignment explanation
Indices: 4683402--4683446 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4683392 AGATATGATA
* *
4683402 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTCAGAAGATATAATTT
*
4683425 TGTAATCTCAG-AGATTTAATTT
1 TGTAATCTCAGAAGATATAATTT
4683447 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAATCTCAGAAGATATAATTT
Found at i:4683869 original size:3 final size:3
Alignment explanation
Indices: 4683861--4683900 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
4683851 ATTAATTTTG
4683861 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
4683901 ACCTACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4683897 original size:21 final size:20
Alignment explanation
Indices: 4683861--4683901 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
4683851 ATTAATTTTG
4683861 TTATTATTATTATTATTATA
1 TTATTATTATTATTATTATA
4683881 TTATATATTATTATTATTATA
1 TTAT-TATTATTATTATTATA
4683902 CCTACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTATTATTATA
Found at i:4683989 original size:29 final size:31
Alignment explanation
Indices: 4683928--4683990 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
4683918 CATATGCATG
* *
4683928 TTAATATATATACATATATATTTTAAACGTT
1 TTAATATATATACATATATATTATAAACATT
*
4683959 TTAATATATATACATAT-TA-TATAAATATT
1 TTAATATATATACATATATATTATAAACATT
4683988 TTA
1 TTA
4683991 TTATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 2 0.07
31 17 0.59
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAACATT
Found at i:4690381 original size:44 final size:44
Alignment explanation
Indices: 4690333--4690647 Score: 156
Period size: 44 Copynumber: 7.2 Consensus size: 44
4690323 AGACACCAAC
*
4690333 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAACAGCAGAT
* **** * * * * * * *
4690377 CTTGCCTTCCTGCACCGACAACGAAGTAGGTTGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCTAAAAACAGC-AGAT
* *
4690421 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGCTAAAAAGAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAACAGCAGAT
* ** * * * * * * *
4690465 CTTGCCTTCCTGCATCGACAGCGAAGCA-GATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-AAAAACAGCAGAT
* *
4690509 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAACAGCAGAT
* **** * * * * * * *
4690553 CTTGCCTTCCTGCACCGACAGCGAAGTA-GATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-AAAAACAGCAGAT
* * *
4690597 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAACAGCAGAT
4690641 CTTGCCT
1 CTTGCCT
4690648 TCCTACACCG
Statistics
Matches: 180, Mismatches: 79, Indels: 24
0.64 0.28 0.08
Matches are distributed among these distances:
43 45 0.25
44 89 0.49
45 46 0.26
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAACAGCAGAT
Found at i:4690718 original size:88 final size:88
Alignment explanation
Indices: 4690275--4690685 Score: 651
Period size: 88 Copynumber: 4.7 Consensus size: 88
4690265 AGCAGATCAG
* * * *
4690275 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCAAAGACACCAACCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
4690340 CCCTGGGTTGCAGCGGAGCAGGC
66 CCCTGGGTTGCAGTGGAGCAGGC
* * * * *
4690363 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGTAGGTTGAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
4690428 CCCTGGGTTGCAGTGGAGCAGGC
66 CCCTGGGTTGCAGTGGAGCAGGC
* *
4690451 TAAAAAGAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
4690516 CCCTAGGTTGCAGCGGAGCAGGC
66 CCCTGGGTTGCAGTGGAGCAGGC
*
4690539 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
4690604 CCCTGGGTTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGTGGAGCAGGC
* * *
4690627 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
4690686 CTATCTCCCT
Statistics
Matches: 296, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 296 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGTGGAGCAGGC
Found at i:4690792 original size:44 final size:44
Alignment explanation
Indices: 4690685--4691008 Score: 394
Period size: 44 Copynumber: 7.5 Consensus size: 44
4690675 TGACCCCAGC
*
4690685 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTATGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4690729 -CTATCTCCCTGGACAGTAGTAGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4690772 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4690816 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
4690854 CTTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
4690898 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * * * *
4690942 CCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
4690986 CCTATCTCCCTGGGCAGCAGTGG
1 CCTATCTCCCTGGTCAGCAGTGG
4691009 GGTAGGTGAA
Statistics
Matches: 241, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
38 31 0.13
39 2 0.01
40 1 0.00
42 1 0.00
43 42 0.17
44 163 0.68
45 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:4690860 original size:38 final size:38
Alignment explanation
Indices: 4690811--4690933 Score: 138
Period size: 38 Copynumber: 3.1 Consensus size: 38
4690801 TTGAAGATTG
* *
4690811 AGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAA
1 AGAATCCTATCTCCCTGGACAGCAGTGGAATAGATTAA
* *
4690849 AGAATCTTATCTCCCTGGACAGCAGTGGAATAGGTTAAA
1 AGAATCCTATCTCCCTGGACAGCAGTGGAATAGATT-AA
* *
4690888 GATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGA
1 -A----GAATCCTATCTCCCTGGACAGCAGTGGAATAGATTAA
4690931 AGA
1 AGA
4690934 TTGTAGGTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
38 34 0.48
39 2 0.03
40 1 0.01
42 1 0.01
43 1 0.01
44 32 0.45
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (38 bp):
AGAATCCTATCTCCCTGGACAGCAGTGGAATAGATTAA
Found at i:4690920 original size:126 final size:129
Alignment explanation
Indices: 4690685--4691006 Score: 418
Period size: 126 Copynumber: 2.5 Consensus size: 129
4690675 TGACCCCAGC
* *
4690685 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTATGAATCTATCTCCCTGGACAGTAGTA
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGA-TAT-AATCTATCTCCCTGGACAGCAGTA
* *
4690750 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTG-AGA
64 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAG-
4690814 AT
128 AT
* * * *
4690816 TCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGA-AT-CT-TATCTCCCTGGACAGCAGTGGA
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATATAATCTATCTCCCTGGACAGCAGTAGA
*
4690878 ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAGGT
66 ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAGAT
* * * * * * *
4690942 CCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGGGCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGAT-AT-AA-TCTATCTCCCTGGACAGCAGT
4691007 GGGGTAGGTG
Statistics
Matches: 165, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
126 108 0.65
127 3 0.02
128 1 0.01
129 2 0.01
131 33 0.20
132 18 0.11
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (129 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATATAATCTATCTCCCTGGACAGCAGTAGA
ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAGAT
Found at i:4690968 original size:170 final size:169
Alignment explanation
Indices: 4690687--4691008 Score: 484
Period size: 170 Copynumber: 1.9 Consensus size: 169
4690677 ACCCCAGCCC
* *
4690687 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTATGAATCTATCTCCCTGGACAGTAGTAGA
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTATGAATCTATCTCCCTGGACAGCAGTAGA
* * ** * **
4690752 ATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAATT
66 ATAGATTAAAGATTGTGAATCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGAGAACC
4690817 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAATCT
131 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAATCT
* * *
4690856 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTATGAAT-CTATCTCCCTGGACAGCAGTAG
* * *
4690921 AATAGATTGAAGATTGT-AGGTCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGTGAA
65 AATAGATTAAAGATTGTGA-ATCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGAGAA
4690985 CCCTATCTCCCTGGGCAGCAGTGG
129 CCCTATCTCCCTGGGCAGCAGTGG
4691009 GGTAGGTGAA
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
169 41 0.30
170 95 0.70
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (169 bp):
TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTATGAATCTATCTCCCTGGACAGCAGTAGA
ATAGATTAAAGATTGTGAATCCTATCTCCCTAGTCAACAGTGGAATAGGTTGAAGATCGAGAACC
CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAATCT
Found at i:4691270 original size:50 final size:50
Alignment explanation
Indices: 4691211--4691342 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 50
4691201 GGCATTACAG
* * * *
4691211 TGGAGCAGATTGAAGCCGCAACGGTGAATCTTACTGCCCTGGCGGTGTAA
1 TGGAACAGATTGAAACCACAACGGCGAATCTTACTGCCCTGGCGGTGTAA
* *
4691261 TGGAACAGATTGAAACTACGACGGCGAATCTTACTGCCCTGGCGGTGTAA
1 TGGAACAGATTGAAACCACAACGGCGAATCTTACTGCCCTGGCGGTGTAA
* *
4691311 TGGAACAGATTGAAACTACGACGGCGAATCTT
1 TGGAACAGATTGAAACCACAACGGCGAATCTT
4691343 GTTTCCCTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
TGGAACAGATTGAAACCACAACGGCGAATCTTACTGCCCTGGCGGTGTAA
Found at i:4691351 original size:50 final size:50
Alignment explanation
Indices: 4691231--4691342 Score: 215
Period size: 50 Copynumber: 2.2 Consensus size: 50
4691221 TGAAGCCGCA
*
4691231 ACGGTGAATCTTACTGCCCTGGCGGTGTAATGGAACAGATTGAAACTACG
1 ACGGCGAATCTTACTGCCCTGGCGGTGTAATGGAACAGATTGAAACTACG
4691281 ACGGCGAATCTTACTGCCCTGGCGGTGTAATGGAACAGATTGAAACTACG
1 ACGGCGAATCTTACTGCCCTGGCGGTGTAATGGAACAGATTGAAACTACG
4691331 ACGGCGAATCTT
1 ACGGCGAATCTT
4691343 GTTTCCCTGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ACGGCGAATCTTACTGCCCTGGCGGTGTAATGGAACAGATTGAAACTACG
Found at i:4691930 original size:19 final size:19
Alignment explanation
Indices: 4691906--4692020 Score: 149
Period size: 19 Copynumber: 5.8 Consensus size: 19
4691896 AATCTTCGAG
4691906 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4691925 GATATGCAATGTTAGATAT
1 GATATGCAATCTTAGATAT
4691944 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
4691965 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* * *
4691986 GATATGTATTCTTAGATGT
1 GATATGCAATCTTAGATAT
*
4692005 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
4692021 AGATATGATT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 49 0.56
21 39 0.44
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4691952 original size:21 final size:21
Alignment explanation
Indices: 4691907--4691990 Score: 145
Period size: 21 Copynumber: 4.1 Consensus size: 21
4691897 ATCTTCGAGG
4691907 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
4691926 ATATGCAATGTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4691947 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4691968 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4691989 AT
1 AT
4691991 GTATTCTTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 18 0.30
21 43 0.70
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:4691959 original size:40 final size:38
Alignment explanation
Indices: 4691906--4692027 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 38
4691896 AATCTTCGAG
*
4691906 GATATGCAATCTTAGATATGATATGCAATGTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
4691944 GATATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
* * * *
4691986 GATATGTATTCTTAGATGTGATATGTAATCTTAGA-A-
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
4692022 GATATG
1 GATATG
4692028 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.08
37 1 0.01
38 15 0.20
40 35 0.47
42 18 0.24
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:4692043 original size:61 final size:60
Alignment explanation
Indices: 4691907--4692020 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 60
4691897 ATCTTCGAGG
*
4691907 ATATGCAATCTTAGATATGATATGCAATGTTAGATATGATATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGA-ATATGCAATCTTAGATATGAT
* * * *
4691968 ATATGCAATCTTAGATATGATATGTATTCTTAGATGTG-ATATGTAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAATATGCAATCTTAGA
4692021 AGATATGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 14 0.29
61 34 0.71
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (60 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAATATGCAATCTTAGATATGAT
Found at i:4692056 original size:21 final size:23
Alignment explanation
Indices: 4692009--4692057 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4691999 AGATGTGATA
*
4692009 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATGAATT
*
4692032 TGTAATCTTAG-AGAT-TTAATT
1 TGTAATCTTAGAAGATATGAATT
4692053 TGTAA
1 TGTAA
4692058 ATACCCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATGAATT
Found at i:4692486 original size:3 final size:3
Alignment explanation
Indices: 4692478--4692517 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
4692468 ATTAATTTTG
4692478 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
4692518 ACCTACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4692514 original size:21 final size:20
Alignment explanation
Indices: 4692478--4692518 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
4692468 ATTAATTTTG
4692478 TTATTATTATTATTATTATA
1 TTATTATTATTATTATTATA
4692498 TTATATATTATTATTATTATA
1 TTAT-TATTATTATTATTATA
4692519 CCTACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTATTATTATA
Found at i:4692606 original size:29 final size:31
Alignment explanation
Indices: 4692545--4692607 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
4692535 CATATGCATG
* *
4692545 TTAATATATATACATATATATTTTAAACGTT
1 TTAATATATATACATATATATTATAAACATT
*
4692576 TTAATATATATACATAT-TA-TATAAATATT
1 TTAATATATATACATATATATTATAAACATT
4692605 TTA
1 TTA
4692608 TTATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 2 0.07
31 17 0.59
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAACATT
Found at i:4695473 original size:21 final size:20
Alignment explanation
Indices: 4695449--4695487 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4695439 TTTGGTCTCT
*
4695449 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
4695470 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
4695488 AATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:4698105 original size:13 final size:13
Alignment explanation
Indices: 4698087--4698123 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4698077 TTGAATGTTT
4698087 ATTAAAATATGTA
1 ATTAAAATATGTA
4698100 ATTAAAATATGTA
1 ATTAAAATATGTA
*
4698113 ACTAAAA-ATGT
1 ATTAAAATATGT
4698124 TTCCATGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (13 bp):
ATTAAAATATGTA
Found at i:4698579 original size:18 final size:18
Alignment explanation
Indices: 4698539--4698580 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4698529 ATGTCTGTTC
4698539 TAAATTTATAATTTATAT
1 TAAATTTATAATTTATAT
* *
4698557 AAAATTTAT-ATTTCTGAT
1 TAAATTTATAATTTAT-AT
4698575 TAAATT
1 TAAATT
4698581 ATTAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TAAATTTATAATTTATAT
Found at i:4698879 original size:36 final size:35
Alignment explanation
Indices: 4698825--4699210 Score: 201
Period size: 36 Copynumber: 10.7 Consensus size: 35
4698815 AACTTACATA
* *
4698825 AATTAAATATCTTGCATAACTTACATAAATTAAGTT
1 AATTAAATAACTTACATAACTTACATAAATTAA-TT
* *
4698861 AATTAAATAACTTACATAAATTA-AGTAAATTAAAT
1 AATTAAATAACTTACATAACTTACA-TAAATTAATT
* * *
4698896 AACTTACATAACTTACATAAATTA-AGTAATTTACA-T
1 AA-TTAAATAACTTACATAACTTACA-TAAATTA-ATT
* * * * * * *
4698932 AACTTACATAAATTAAATATCTTGCATAACTTACATA
1 AA-TTAAATAACTTACATAACTTACATAAATTA-ATT
* *
4698969 AATTAAGTTAA-TTAAATAACTTACATAAATTAAGTT
1 AATTAA-ATAACTTACATAACTTACATAAATTAA-TT
*
4699005 AATTAAATAACTTACATAACTTACATAAATTAAGT
1 AATTAAATAACTTACATAACTTACATAAATTAATT
* * * ** *
4699040 AATTTACATAACTTACATAAATTAAATATCTTGCA-T
1 AA-TTAAATAACTTACATAACTTACATAAATT-AATT
* * * * *
4699076 AACTTACATAAATTA-AGTTAA-TTAAATAACTTACATA
1 AA-TTAAATAACTTACA--TAACTTACATAAATTA-ATT
* * * * * * *
4699113 AATTAAGTAAATTAAATATCTTGCATAATTTACATA
1 AATTAAATAACTTACATAACTTACATAAATTA-ATT
* *
4699149 AATTAAATATCTTACATAACTTACATAAATTAAAT
1 AATTAAATAACTTACATAACTTACATAAATTAATT
* * * *
4699184 ATCTTACATTACTTACATAGCTTACAT
1 A-ATTAAATAACTTACATAACTTACAT
4699211 TACTTACATG
Statistics
Matches: 280, Mismatches: 53, Indels: 34
0.76 0.14 0.09
Matches are distributed among these distances:
35 16 0.06
36 250 0.89
37 14 0.05
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (35 bp):
AATTAAATAACTTACATAACTTACATAAATTAATT
Found at i:4698909 original size:63 final size:63
Alignment explanation
Indices: 4698823--4699181 Score: 445
Period size: 63 Copynumber: 6.0 Consensus size: 63
4698813 GTAACTTACA
*
4698823 TAAATTAAATATCTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
1 TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
* *
4698886 TAAATTAAATAACTTACATAACTTACATAAATTAAG-TAATTTACATAACTTACATAAA-T---
1 TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTAA-TTAAATAACTTACATAAATTAAG
4698945 TAAA-T--AT--CTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
1 TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
* * *
4699003 TTAATTAAATAACTTACATAACTTACATAAATTAAG-TAATTTACATAACTTACATAAA-T---
1 TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTAA-TTAAATAACTTACATAAATTAAG
4699062 TAAA-T--AT--CTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
1 TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
* * * * *
4699120 TAAATTAAATATCTTGCATAATTTACATAAATTAA-ATATCTTACATAACTTACATAAATTAA
1 TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTA-ATTAAATAACTTACATAAATTAA
4699182 ATATCTTACA
Statistics
Matches: 258, Mismatches: 15, Indels: 46
0.81 0.05 0.14
Matches are distributed among these distances:
54 80 0.31
55 8 0.03
56 4 0.02
58 9 0.03
59 9 0.03
61 4 0.02
62 10 0.04
63 134 0.52
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (63 bp):
TAAATTAAATAACTTGCATAACTTACATAAATTAAGTTAATTAAATAACTTACATAAATTAAG
Done.