Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 171 of 333
Found at i:56416872 original size:24 final size:23
Alignment explanation
Indices: 56416828--56416872 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
56416818 TTGTAGCCAA
*
56416828 ACTTTTGGCTTTTCGGTATTTCG
1 ACTTTTGGCTTTTAGGTATTTCG
56416851 ACTTTCTGGCATTTTAGG-ATTT
1 ACTTT-TGGC-TTTTAGGTATTT
56416873 GCCAGTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 8 0.42
25 6 0.32
ACGTcount: A:0.13, C:0.16, G:0.20, T:0.51
Consensus pattern (23 bp):
ACTTTTGGCTTTTAGGTATTTCG
Found at i:56422227 original size:14 final size:13
Alignment explanation
Indices: 56422206--56422238 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
56422196 AAATATTTGA
56422206 CTTGTTCTTAATT
1 CTTGTTCTTAATT
56422219 CTGTGTTCTTAATT
1 CT-TGTTCTTAATT
56422233 CTTGTT
1 CTTGTT
56422239 TTGATATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:56425489 original size:39 final size:40
Alignment explanation
Indices: 56425389--56425573 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
56425379 TTGAATGATG
* * *
56425389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
56425428 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56425469 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56425508 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56425547 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56425574 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56425529 original size:79 final size:81
Alignment explanation
Indices: 56425389--56425573 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56425379 TTGAATGATG
* *
56425389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56425453 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
56425468 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
56425530 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
56425548 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56425574 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:56425595 original size:79 final size:79
Alignment explanation
Indices: 56425442--56425606 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
56425432 GGACTAAGAT
* **
56425442 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56425507 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56425521 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
56425584 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56425600 CCGAAGG
1 CCGAAGG
56425607 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56430406 original size:12 final size:12
Alignment explanation
Indices: 56430389--56430415 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56430379 ATTCCGAAGT
56430389 ATATATATATAC
1 ATATATATATAC
56430401 ATATATATATAC
1 ATATATATATAC
56430413 ATA
1 ATA
56430416 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:56430928 original size:27 final size:27
Alignment explanation
Indices: 56430897--56431074 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56430887 TAAATTGTAC
56430897 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56430924 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56430950 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56430978 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56431006 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56431033 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56431060 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56431075 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56431011 original size:82 final size:81
Alignment explanation
Indices: 56430898--56431053 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56430888 AAATTGTACA
* *
56430898 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56430962 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56430979 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56431044 TGCGAGTTGA
65 TGCGAATTGA
56431054 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56431065 original size:82 final size:81
Alignment explanation
Indices: 56430894--56431074 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56430884 GATTAAATTG
* *
56430894 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56430959 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56430975 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56431039 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56431057 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56431075 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56434538 original size:29 final size:29
Alignment explanation
Indices: 56434475--56434542 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
56434465 TAATCAACCG
56434475 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56434504 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56434533 CGCACACTTA
1 CGCACACTTA
56434543 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56434655 original size:174 final size:174
Alignment explanation
Indices: 56434364--56434691 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
56434354 AACTCAAGGT
* * *
56434364 ACTTACCTTTTTCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
56434429 GAAAATATATATTGGGTTTGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
56434494 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
56434538 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
56434603 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCTCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
56434668 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
56434692 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:56434683 original size:29 final size:30
Alignment explanation
Indices: 56434647--56434722 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 30
56434637 AATAATCAAC
56434647 CTCGCACACTTAGTGCCATGTAC-TTTAAA
1 CTCGCACACTTAGTGCCATGTACATTTAAA
56434676 CTCGCACACTTAGTG-C-TGTACAATTTAAA
1 CTCGCACACTTAGTGCCATGTAC-ATTTAAA
* *
56434705 CCCGTACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
56434723 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 34 0.83
30 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
CTCGCACACTTAGTGCCATGTACATTTAAA
Found at i:56435821 original size:13 final size:13
Alignment explanation
Indices: 56435803--56435827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56435793 AGGATGAGCA
56435803 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
56435816 TTTTTTTTCTTT
1 TTTTTTTTCTTT
56435828 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:56444037 original size:47 final size:45
Alignment explanation
Indices: 56443970--56444144 Score: 154
Period size: 47 Copynumber: 3.8 Consensus size: 45
56443960 ATTCCTTGTG
* *
56443970 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAATTATGAA
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAA-GACGAA
* * * * *
56444016 TGTCAGTATAAGACCATGTCTGGGACATGGCATCGGGACAGAGACGAC
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCCAAAGACGAA
* **
56444064 TGCCAGTGTAAGACATGTTTGGGACATGCATCGGCC-TCGACGATGA
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAAGACGA--A
* * * *
56444110 TAGCCAGTGAAAGACGTGTTTGGGACACGCATCGG
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGG
56444145 TTAAGAGTTG
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
44 5 0.05
45 3 0.03
46 17 0.16
47 57 0.54
48 19 0.18
49 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAAGACGAA
Found at i:56444134 original size:94 final size:93
Alignment explanation
Indices: 56443970--56444144 Score: 212
Period size: 94 Copynumber: 1.9 Consensus size: 93
56443960 ATTCCTTGTG
** *
56443970 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAATTATGAATGTCAGTATAAGACCATGT
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAACGATGAATGCCAGTATAAGACCATGT
*
56444035 CTGGGACATGGCATCGGGACAGAGACGAC
66 CTGGGACA-CGCATCGGGACAGAGACGAC
* ** *
56444064 TGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATG-ATAGCCAGTGA-AAGA-CG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-AAACGATGAAT-GCCAGT-ATAAGACCA
*
56444126 TGTTTGGGACACGCATCGG
63 TGTCTGGGACACGCATCGG
56444145 TTAAGAGTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
93 7 0.10
94 48 0.70
95 13 0.19
96 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (93 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAACGATGAATGCCAGTATAAGACCATGT
CTGGGACACGCATCGGGACAGAGACGAC
Found at i:56458321 original size:47 final size:46
Alignment explanation
Indices: 56458201--56458365 Score: 161
Period size: 47 Copynumber: 3.5 Consensus size: 46
56458191 ATTTCTTGTG
* * ** *
56458201 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAAATTATGAG
1 TGCCAGTGTAAGACATGTCTGGGATATGCATCGGCCAGACGATGAT
* * * * *
56458247 TGTCAGTATAATGCCATGCCTGGGATATGGCATCGGCACAGA-GACGAT
1 TGCCAGTGTAA-GACATGTCTGGGATAT-GCATCGGC-CAGACGATGAT
* *
56458295 TGCCAGTGTAAGACATGTTTGGGATATGCATCGGCCTCGACGATGAT
1 TGCCAGTGTAAGACATGTCTGGGATATGCATCGGCC-AGACGATGAT
* *
56458342 AGCCAGTGTAAGACGTGTCTGGGA
1 TGCCAGTGTAAGACATGTCTGGGA
56458366 CACGCATCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 19 0.20
47 52 0.55
48 20 0.21
49 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
TGCCAGTGTAAGACATGTCTGGGATATGCATCGGCCAGACGATGAT
Found at i:56464554 original size:18 final size:18
Alignment explanation
Indices: 56464531--56464567 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56464521 CCAGATAAGC
56464531 CTCACAACCCTTACGAAT
1 CTCACAACCCTTACGAAT
56464549 CTCACAACCCTTACGAAT
1 CTCACAACCCTTACGAAT
56464567 C
1 C
56464568 CATTTCTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.41, G:0.05, T:0.22
Consensus pattern (18 bp):
CTCACAACCCTTACGAAT
Found at i:56467549 original size:27 final size:27
Alignment explanation
Indices: 56467508--56467620 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
56467498 AGCATGGCTG
* * * *
56467508 CCAGA-ACAAATATTGTGACAAAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
56467534 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTGTGGCAGAGCCA
* *
56467561 CCAAAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
*
56467589 CCAGATA-AGATATTTGTGGTAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
56467616 CCAGA
1 CCAGA
56467621 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.68
28 19 0.25
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:56471355 original size:45 final size:45
Alignment explanation
Indices: 56471299--56471456 Score: 178
Period size: 45 Copynumber: 3.5 Consensus size: 45
56471289 TAAGAAATTC
* *
56471299 GAGCTCGTTGAGTTGGTCCGAGTTCATGATATATGTGAGAAATCT
1 GAGCTCGTTGAGTTGGTCCAAGTTCATGATATATGTGAGACATCT
* * * *
56471344 GAAG-TTGTTGAGTTGGTCTAAGTTCGTGGTATATGTGA-AGCATCT
1 G-AGCTCGTTGAGTTGGTCCAAGTTCATGATATATGTGAGA-CATCT
* ** *
56471389 GAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATGCGAG-CATCT
1 GAGCTCGTTGAGTTGGTCCAAGTTCATGATATATGTGAGACATCT
*
56471433 GAGCTCGTTGAGTTGGTCCGAGTT
1 GAGCTCGTTGAGTTGGTCCAAGTT
56471457 AATAATGGAA
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
44 31 0.33
45 61 0.65
46 2 0.02
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (45 bp):
GAGCTCGTTGAGTTGGTCCAAGTTCATGATATATGTGAGACATCT
Found at i:56473830 original size:27 final size:26
Alignment explanation
Indices: 56473774--56473830 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
56473764 CAACCTTAAC
* * *
56473774 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
56473800 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
56473827 CCTA
1 CCTA
56473831 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:56475083 original size:5 final size:5
Alignment explanation
Indices: 56475073--56475104 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
56475063 GTAGATGAAG
56475073 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
56475105 AAATGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:56475091 original size:15 final size:16
Alignment explanation
Indices: 56475049--56475104 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
56475039 TATGCGGGAA
*
56475049 AAGAAGAAGAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
56475064 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
56475080 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
56475095 AAGAAGAAAA
1 AAGAAGAAAA
56475105 AAATGAATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:56476750 original size:27 final size:27
Alignment explanation
Indices: 56476728--56476879 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
56476718 TTGGTTTACC
56476728 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
56476755 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
56476782 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
56476809 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
56476836 AAATTATCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
56476863 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
56476880 TCAATTTGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:56476887 original size:27 final size:27
Alignment explanation
Indices: 56476728--56476897 Score: 168
Period size: 27 Copynumber: 6.3 Consensus size: 27
56476718 TTGGTTTACC
*
56476728 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
* ** *
56476755 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTCAGTTTGTA
*
56476782 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
56476809 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
* * *
56476836 AAATTATCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCAGTTTGTA
* *
56476863 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAGTTTGTA
*
56476890 AAAATACC
1 AAATTACC
56476898 CCTGATTTAC
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 117 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAGTTTGTA
Found at i:56476888 original size:54 final size:54
Alignment explanation
Indices: 56476728--56476897 Score: 234
Period size: 54 Copynumber: 3.1 Consensus size: 54
56476718 TTGGTTTACC
* ** *
56476728 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCAGTTTGTA
56476782 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTC-AGTTTGTA
* * * * *
56476836 AAATTATCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCAGTTTGTA
*
56476890 AAAATACC
1 AAATTACC
56476898 CCTGATTTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
54 102 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCAGTTTGTA
Found at i:56476888 original size:81 final size:81
Alignment explanation
Indices: 56476728--56476897 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
56476718 TTGGTTTACC
* *
56476728 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
**
56476793 ATACCCCTGGTTTGTA
66 ATACCCCTAATTTGTA
* * *
56476809 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCAC-TGGTTTGTGAAATTACCG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACC-CTTGGTTTATAAAATTACCA
56476872 AAATA-CCCTCAATTTGTA
64 AAATACCCCT-AATTTGTA
*
56476890 AAAATACC
1 AAATTACC
56476898 CCTGATTTAC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
80 5 0.06
81 72 0.92
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
ATACCCCTAATTTGTA
Found at i:56476950 original size:29 final size:28
Alignment explanation
Indices: 56476909--56477039 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 28
56476899 CTGATTTACG
* *
56476909 AAATTACAAAAATACCCTTGACTTTCTAA
1 AAATTATAGAAATACCC-TGACTTTCTAA
* ** *
56476938 AAATTATAGAAATACCCCGGGTTTGT-A
1 AAATTATAGAAATACCCTGACTTTCTAA
* *
56476965 AAATTATCA-AAATACCACT-AGTTTGTGAA
1 AAATTAT-AGAAATACC-CTGACTTTCT-AA
*
56476994 AAATTTACAGAAATACCCTTGACTTTCTAA
1 AAA-TTATAGAAATACCC-TGACTTTCTAA
56477024 AAATTATAGAAATACC
1 AAATTATAGAAATACC
56477040 ATTGGTTTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
27 21 0.26
28 7 0.09
29 33 0.40
30 16 0.20
31 5 0.06
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.31
Consensus pattern (28 bp):
AAATTATAGAAATACCCTGACTTTCTAA
Found at i:56477095 original size:27 final size:27
Alignment explanation
Indices: 56477065--56477315 Score: 315
Period size: 27 Copynumber: 9.3 Consensus size: 27
56477055 TACTAAAATG
** * *
56477065 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* * * ** *
56477092 CCCT-TATTTATATAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACTATTTTA
* **
56477118 CCTTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
*
56477145 CCCTCGATTTATAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
*
56477172 CCCTCGATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
*
56477199 CCCTCGATTTATAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
*
56477226 CCCTCGATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
*
56477253 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* *
56477280 CCCTCAATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
56477307 CCCTCGATT
1 CCCTCGATT
56477316 GTGAAATTAC
Statistics
Matches: 197, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
26 20 0.10
27 177 0.90
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACTATTTTA
Found at i:56477217 original size:81 final size:81
Alignment explanation
Indices: 56477065--56477315 Score: 351
Period size: 81 Copynumber: 3.1 Consensus size: 81
56477055 TACTAAAATG
* * * * * * * *
56477065 CCCTCGATTTGTAGAATTACCATTTTACCCT-TATTTATATAATTACCGTTTCACCTTCGATTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
*
56477129 CAAAATTACCGTTTTA
66 CAAAATTACTGTTTTA
* * *
56477145 CCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
* *
56477210 TAAAATTACTATTTTA
66 CAAAATTACTGTTTTA
* *
56477226 CCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
56477291 CAAAATTACTGTTTTA
66 CAAAATTACTGTTTTA
56477307 CCCTCGATT
1 CCCTCGATT
56477316 GTGAAATTAC
Statistics
Matches: 150, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 28 0.19
81 122 0.81
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
CAAAATTACTGTTTTA
Found at i:56477554 original size:27 final size:27
Alignment explanation
Indices: 56477328--56477784 Score: 573
Period size: 27 Copynumber: 17.0 Consensus size: 27
56477318 GAAATTACTA
* *
56477328 AAATACCCCTGTAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
** * *
56477355 AAATACCCCTAGT-TTGTAAAATTACCA
1 AAATACCCCT-GTAGGGTAGAATTACCG
** *
56477382 AAATACCCCTAGT-TTGTAAAATTACCG
1 AAATACCCCT-GTAGGGTAGAATTACCG
*
56477409 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
56477436 AAATACCCCTGTAGGGTAGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
*
56477462 AGAATACCCCTGTGGGGTAGAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* *
56477490 GAATACCCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
56477517 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
56477544 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
56477571 AAATACCTCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
56477598 GAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
56477625 AAATACCCCTGTAGGGTAGAGTTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
56477652 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
56477679 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
56477706 AAATACGCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
56477733 AAATACCCCTATAGGGT-GAAATTACCG
1 AAATACCCCTGTAGGGTAG-AATTACCG
* * * *
56477760 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
56477785 ATTTTGCCCC
Statistics
Matches: 382, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.05
27 362 0.95
28 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:56478504 original size:27 final size:26
Alignment explanation
Indices: 56478469--56478525 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
56478459 GGTGGCTATG
*
56478469 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCTGGTGACTCTGCCACAATA
*
56478495 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGT-TCTGGTGACTCTGCCACAATA
56478522 TCTG
1 TCTG
56478526 ATAACTGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGTTCTGGTGACTCTGCCACAATA
Found at i:56478700 original size:6 final size:6
Alignment explanation
Indices: 56478685--56478775 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
56478675 ATTCTTTTAC
* * * *
56478685 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTAATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
56478734 CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
56478776 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:56478716 original size:31 final size:31
Alignment explanation
Indices: 56478662--56478733 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
56478652 TTGCATTCAC
* * *
56478662 ATTCTGATTTTTTATTCTTTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTAATACTG
56478694 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTTTGATTCTGTTACCTAATACTG
56478725 ATTCTGATT
1 ATTCTGATT
56478734 CTGTCACCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTAATACTG
Found at i:56478725 original size:25 final size:25
Alignment explanation
Indices: 56478697--56478761 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
56478687 GATACTGATT
* *
56478697 CTGATTTTGATTCTGTTACCTAATA
1 CTGATTCTGATTCTGTCACCTAATA
*
56478722 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
56478747 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
56478762 ATTCTAGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:56478757 original size:31 final size:29
Alignment explanation
Indices: 56478690--56478766 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 29
56478680 TTTACCTGAT
* *
56478690 ACTGATTCTGATTTTGATTCTGTTACCTA
1 ACTGATTCTGATTCTGATTCTGTCACCTA
56478719 A-T-A--CTGATTCTGATTCTGTCACCTA
1 ACTGATTCTGATTCTGATTCTGTCACCTA
56478744 ATTCTGATTCTGATTCTGATTCT
1 A--CTGATTCTGATTCTGATTCT
56478767 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 21 0.52
27 1 0.03
28 2 0.05
29 2 0.05
31 14 0.35
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (29 bp):
ACTGATTCTGATTCTGATTCTGTCACCTA
Found at i:56480723 original size:27 final size:27
Alignment explanation
Indices: 56480692--56480839 Score: 165
Period size: 27 Copynumber: 5.5 Consensus size: 27
56480682 TTAGTTTACC
56480692 AAATTACCAAAATACCCCTGGATTGTA
1 AAATTACCAAAATACCCCTGGATTGTA
*
56480719 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGATTGTA
* * * *
56480746 AAATTATCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTGGATTGTA
* * **
56480773 AAATTACCGAAATA-CCATCAATTTGTA
1 AAATTACCAAAATACCCCTGGA-TTGTA
*
56480800 AAATTACCAAAATACCCCT-GATTTATA
1 AAATTACCAAAATACCCCTGGA-TTGTA
*
56480827 AAATTACAAAAAT
1 AAATTACCAAAAT
56480840 TACCAAAAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 97 0.95
28 3 0.03
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGATTGTA
Found at i:56480918 original size:27 final size:27
Alignment explanation
Indices: 56480882--56481079 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
56480872 TACTAAAATG
* *
56480882 CCCTCGATTTGTAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
56480909 CCTTCTATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
56480936 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
56480963 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
56480990 CCCTTGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
56481017 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** * * **
56481044 CCCTAAATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
56481071 CCCTCGATT
1 CCCTCGATT
56481080 GTAAAATTAC
Statistics
Matches: 142, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:56481002 original size:81 final size:81
Alignment explanation
Indices: 56480882--56481079 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
56480872 TACTAAAATG
* *
56480882 CCCTCGATTTGTAGAATTACTATTTTA-CCTTCTATTTATAGAATTACCGTTTCACCCTCGATTT
1 CCCTCGATTTATAGAATTACTATTTTACCCTT-GATTTATAGAATTACCGTTTCACCCTCGATTT
56480946 ACAAAATTACCATTTTA
65 ACAAAATTACCATTTTA
* * *
56480963 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTATCGTTTTACCCTTGATTTA
1 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTCGATTTA
56481028 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
** * * * *
56481044 CCCTAAATTTACAAAATTACTGTTTTACCCTCGATT
1 CCCTCGATTTATAGAATTACTATTTTACCCTTGATT
56481080 GTAAAATTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 101 0.96
82 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.42
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:56481159 original size:27 final size:27
Alignment explanation
Indices: 56481078--56481170 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
56481068 TTACCCTCGA
**
56481078 TTGTAAAATTACTGAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** * *
56481104 AGGATAGAATTACCAAATTACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
56481132 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
56481159 TTGTAAATTTAC
1 TTGTAAAATTAC
56481171 TGAAATTGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 50 0.93
28 3 0.06
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:56483429 original size:46 final size:44
Alignment explanation
Indices: 56483286--56483429 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
56483276 CCCGCCAATA
*
56483286 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
56483333 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
56483379 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
56483425 AGTGA
1 AGTGA
56483430 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:56484828 original size:38 final size:38
Alignment explanation
Indices: 56484777--56484869 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
56484767 CTGCCCTGTA
*
56484777 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
1 CCAGCCCTACACTCCACGTGGGGAATATCTCAACCCAC
56484815 CCAGCCCTACACTCCACGTGGGGAATATCTCAACCCAC
1 CCAGCCCTACACTCCACGTGGGGAATATCTCAACCCAC
56484853 CCAGCCCTACACTCCAC
1 CCAGCCCTACACTCCAC
56484870 AGTTGCAGCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.26, C:0.44, G:0.14, T:0.16
Consensus pattern (38 bp):
CCAGCCCTACACTCCACGTGGGGAATATCTCAACCCAC
Found at i:56485737 original size:27 final size:27
Alignment explanation
Indices: 56485707--56485759 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
56485697 GGGGCAAAAT
*
56485707 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56485734 GGTAATTTTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
56485760 TAGTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56485890 original size:28 final size:27
Alignment explanation
Indices: 56485722--56485879 Score: 201
Period size: 27 Copynumber: 5.8 Consensus size: 27
56485712 TTCTACCTTA
* * **
56485722 CAGGGGTATTTCGGTAATTTTACCCTA-
1 CAGGGGTATTTTGGTAATTTT-GCAAAC
*
56485749 CAGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTGCAAAC
* *
56485776 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTGCAAAC
56485803 CAGGGGTATTTTGGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTGCAAAC
* *
56485830 TAGGGATATTTTGGGTAATTTTGCAAAC
1 CAGGGGTATTTT-GGTAATTTTGCAAAC
*
56485858 TAGGGGTATTTTGGTAATTTTG
1 CAGGGGTATTTTGGTAATTTTG
56485880 TAAATCGAGG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 88 0.76
28 26 0.22
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTGCAAAC
Found at i:56485901 original size:27 final size:27
Alignment explanation
Indices: 56485871--56485940 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
56485861 GGGTATTTTG
*
56485871 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
56485898 GTAATTCTATAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAATA
56485925 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
56485941 GGAGTACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:56485912 original size:82 final size:83
Alignment explanation
Indices: 56485762--56485917 Score: 181
Period size: 82 Copynumber: 1.9 Consensus size: 83
56485752 GGGTATTTTA
* *** * * *
56485762 GTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCA
1 GTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTAAAATAGTAATTCTACA
56485827 AACT-AGGGATATTTTGG
66 AACTGAGGGATATTTTGG
* ** * *
56485844 GTAATTTTGCAAACTAGGGGTATTTTGGTAATTTTGTAAATC-GAGGGTAAAATAGTAATTCTAT
1 GTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTAAAATAGTAATTCTAC
56485908 AAACTGAGGG
65 AAACTGAGGG
56485918 TAAAATGGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
81 1 0.02
82 55 0.92
83 4 0.07
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (83 bp):
GTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTAAAATAGTAATTCTACA
AACTGAGGGATATTTTGG
Found at i:56487027 original size:27 final size:26
Alignment explanation
Indices: 56486997--56487458 Score: 523
Period size: 27 Copynumber: 17.2 Consensus size: 26
56486987 ATTCAGGGTG
* *
56486997 TTACAGAAATACCCCTGTAGGGCAAAA
1 TTAC-GAAATACCCCTGTAGGGTAGAA
* *
56487024 TTACTGAAATACCCCTGTAGGGCAAAA
1 TTAC-GAAATACCCCTGTAGGGTAGAA
* *
56487051 TTATCGAATTACCCCTATAGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
56487078 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
*
56487105 TTACCAGAATACCCCTGTAGGGTAGAA
1 TTACGA-AATACCCCTGTAGGGTAGAA
*
56487132 TTACCAGAATACCCCTGTAGGGTAGAA
1 TTACGA-AATACCCCTGTAGGGTAGAA
* *
56487159 TTATCGGAATACCCCTGTGGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
*
56487186 TTATCGGAATACCCCTGTAGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
*
56487213 TTACCGAAATACCCCTGTAGGGTAAAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
56487240 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
* * *
56487267 TTACTAGAATACCCTTGTAGGGCAGAA
1 TTACGA-AATACCCCTGTAGGGTAGAA
*
56487294 TTATCGAAATACCCCTGTAGGGTAGAG
1 TTA-CGAAATACCCCTGTAGGGTAGAA
56487321 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
*
56487348 TTATCGCAATACCCCTGTAGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
* *
56487375 TTACCGAAATACCCCTATTGGGTAGAA
1 TTA-CGAAATACCCCTGTAGGGTAGAA
* *
56487402 TTACTAAAATACCCCTATAGGGT-GAAA
1 TTAC-GAAATACCCCTGTAGGGTAG-AA
* * * *
56487429 TTACTGAGATA-CCTTGTGGGGTAAAA
1 TTAC-GAAATACCCCTGTAGGGTAGAA
56487455 TTAC
1 TTAC
56487459 CATTTTGCCT
Statistics
Matches: 387, Mismatches: 40, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
26 20 0.05
27 363 0.94
28 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (26 bp):
TTACGAAATACCCCTGTAGGGTAGAA
Found at i:56488185 original size:27 final size:27
Alignment explanation
Indices: 56488155--56488206 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56488145 CCACAACTAT
*
56488155 TCTGGTGGCTCT-ACAACAATATCTGTA
1 TCTGGTGACTCTGAC-ACAATATCTGTA
*
56488182 TCTGGTGACTCTGTCACAATATCTG
1 TCTGGTGACTCTGACACAATATCTG
56488207 ATAACTGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTGGTGACTCTGACACAATATCTGTA
Found at i:56488389 original size:31 final size:31
Alignment explanation
Indices: 56488351--56488410 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
56488341 ACATTCTGAT
56488351 TTTTGATTCTGTTACCTGATACAGATTCTAA
1 TTTTGATTCTGTTACCTGATACAGATTCTAA
*
56488382 TTTTGATTCTGTTACCTGATACTGATTCT
1 TTTTGATTCTGTTACCTGATACAGATTCT
56488411 GATTCTGTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACAGATTCTAA
Found at i:56488423 original size:25 final size:25
Alignment explanation
Indices: 56488385--56488442 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
56488375 ATTCTAATTT
* *
56488385 TGATTCTGTTACCTGATACTGATTC
1 TGATTCTGTCACCTAATACTGATTC
**
56488410 TGATTCTGTCACCTAATTTTGATTC
1 TGATTCTGTCACCTAATACTGATTC
*
56488435 TAATTCTG
1 TGATTCTG
56488443 ATTCTAGTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
TGATTCTGTCACCTAATACTGATTC
Found at i:56488434 original size:19 final size:19
Alignment explanation
Indices: 56488378--56488435 Score: 53
Period size: 25 Copynumber: 2.7 Consensus size: 19
56488368 GATACAGATT
*
56488378 CTAATTTTGATTCTGTTAC
1 CTAATTTTGATTCTGTCAC
56488397 CTGATACTGATTCTGATTCTGTCAC
1 CT-A-A-T--TT-TGATTCTGTCAC
56488422 CTAATTTTGATTCT
1 CTAATTTTGATTCT
56488436 AATTCTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 1 0.03
22 2 0.06
23 1 0.03
24 3 0.09
25 13 0.41
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (19 bp):
CTAATTTTGATTCTGTCAC
Found at i:56488439 original size:12 final size:12
Alignment explanation
Indices: 56488422--56488456 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
56488412 ATTCTGTCAC
*
56488422 CTAATTTTGATT
1 CTAATTCTGATT
56488434 CTAATTCTGATT
1 CTAATTCTGATT
*
56488446 CTAGTTCTGAT
1 CTAATTCTGAT
56488457 AATGTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:56500567 original size:22 final size:23
Alignment explanation
Indices: 56500521--56500670 Score: 191
Period size: 22 Copynumber: 6.6 Consensus size: 23
56500511 TGATGAACAA
* *
56500521 TAAGCTCTATTGTGCTGAAACGG
1 TAAGCTCTATCGAGCTGAAACGG
56500544 TAAGCTCTATCGAGCTG-AACGG
1 TAAGCTCTATCGAGCTGAAACGG
56500566 TAAGCTCTATCGAGCTG-AACGG
1 TAAGCTCTATCGAGCTGAAACGG
56500588 TAAGCTCTATCGAGCTG-AACGG
1 TAAGCTCTATCGAGCTGAAACGG
* * *
56500610 TAAGCTCTATTGAGCTGAAATGA
1 TAAGCTCTATCGAGCTGAAACGG
*
56500633 TAAGCTCTAAT-GAGCTGAAAACAG
1 TAAGCTCT-ATCGAGCTG-AAACGG
*
56500657 TAAGCTCTTTCGAG
1 TAAGCTCTATCGAG
56500671 ATGATATTTC
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
22 65 0.57
23 33 0.29
24 16 0.14
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (23 bp):
TAAGCTCTATCGAGCTGAAACGG
Found at i:56501768 original size:27 final size:26
Alignment explanation
Indices: 56501720--56501770 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
56501710 GTGAGGCTGC
*
56501720 CAGATATTGTGACGAAGTCACCAGGA
1 CAGATATTGTGACGAAGCCACCAGGA
* *
56501746 CAGATATATGTGGCGAGGCCACCAG
1 CAGATAT-TGTGACGAAGCCACCAG
56501771 ATTGCAGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGGA
Found at i:56509640 original size:48 final size:48
Alignment explanation
Indices: 56509586--56509740 Score: 165
Period size: 48 Copynumber: 3.3 Consensus size: 48
56509576 TAGTTCAACT
** * * *
56509586 ATGGTCTTGTACTAGCTCTCGTCTCAATGTCGATGCCATGTCTCATAC
1 ATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
* * * * *
56509634 ATGGTCTTACACTGGCTCTC--ATAATATGGCTGATG-CATGCCCCAGAC
1 ATGGTCTTACACTAGCTCTCGTCTCA-AT-GCCGATGCCATGTCCCAGAC
*
56509681 AT-GTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
56509728 ATGGTCTTACACT
1 ATGGTCTTACACT
56509741 GCATACAAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
46 23 0.27
47 28 0.33
48 34 0.40
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
Found at i:56515705 original size:42 final size:42
Alignment explanation
Indices: 56515612--56515849 Score: 180
Period size: 42 Copynumber: 5.6 Consensus size: 42
56515602 TATCACGAAT
* * * * *
56515612 ATGGTCCTACATGTAATCTCATATCGAAGCCAATAG-CCCAG-C
1 ATGGTCTTACACGAAATCTCATAACGATGCC-AT-GTCCCAGAC
* *
56515654 TATGGTCTTAGACGAAATCTCATAACGATGCCATGTCCTAGAC
1 -ATGGTCTTACACGAAATCTCATAACGATGCCATGTCCCAGAC
* * * *
56515697 ATGGTCTTACATGTAATATCATACCGATGCCAATAG-CCCAG-C
1 ATGGTCTTACACGAAATCTCATAACGATGCC-AT-GTCCCAGAC
* * * *
56515739 TATGGTGTTACACGGAATCTCATATA-GATTCCATGTCCCAAAC
1 -ATGGTCTTACACGAAATCTCATA-ACGATGCCATGTCCCAGAC
* * * * *
56515782 ATGGTCTTACACGAAATATCATATCAAAGCCATGTCCAAGAC
1 ATGGTCTTACACGAAATCTCATAACGATGCCATGTCCCAGAC
* *
56515824 ATGGTCTTACATGAAGTCTCATAACG
1 ATGGTCTTACACGAAATCTCATAACG
56515850 GTGTCGATGC
Statistics
Matches: 152, Mismatches: 34, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.01
42 92 0.61
43 57 0.38
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATAACGATGCCATGTCCCAGAC
Found at i:56515758 original size:85 final size:85
Alignment explanation
Indices: 56515612--56515880 Score: 267
Period size: 85 Copynumber: 3.1 Consensus size: 85
56515602 TATCACGAAT
* * * *
56515612 ATGGTCCTACATGTAATCTCATATCGAAGCCAATAGCCCAGCTATGGTCTTAGACGAAATCTCAT
1 ATGGTCTTACATGTAATATCATACCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAT
* *
56515677 A-ACGATGCCATGTCCTAGAC
66 ATA-GATGCCATGTCCCAAAC
* * *
56515697 ATGGTCTTACATGTAATATCATACCGATGCCAATAGCCCAGCTATGGTGTTACACGGAATCTCAT
1 ATGGTCTTACATGTAATATCATACCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAT
*
56515762 ATAGATTCCATGTCCCAAAC
66 ATAGATGCCATGTCCCAAAC
* * * * * * *
56515782 ATGGTCTTACACGAAATATCATATCAAAGCC-AT-GTCCAAGAC-ATGGTCTTACATGAAGTCTC
1 ATGGTCTTACATGTAATATCATACCGAAGCCAATAG-CCCAG-CTATGGTCTTACACGAAATCTC
*
56515844 ATAACGGTGTCGATGCCATGTCCCAAAC
64 AT-A-----TAGATGCCATGTCCCAAAC
56515872 ATGGTCTTA
1 ATGGTCTTA
56515881 TATGGGACCT
Statistics
Matches: 153, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
83 1 0.01
84 24 0.16
85 101 0.66
86 1 0.01
90 26 0.17
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (85 bp):
ATGGTCTTACATGTAATATCATACCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAT
ATAGATGCCATGTCCCAAAC
Found at i:56515988 original size:48 final size:49
Alignment explanation
Indices: 56515872--56515994 Score: 144
Period size: 48 Copynumber: 2.5 Consensus size: 49
56515862 TGTCCCAAAC
* *
56515872 ATGGTCTTATATGGGACCTCATA-TCGATACCAATGTCATATCCCAGGT
1 ATGGTCTTATATGGGATCTCATACTCGATACCAATGTCATATCCCAGAT
* * *
56515920 ATGGTCTTACATGGGGTCTCATACT-GATGCCAAT-TCCATATCCCAGAT
1 ATGGTCTTATATGGGATCTCATACTCGATACCAATGT-CATATCCCAGAT
* *
56515968 ATGGTCTTATACGAGATCTCAATACTC
1 ATGGTCTTATATGGGATCTC-ATACTC
56515995 ACATGTCGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
47 1 0.02
48 55 0.89
49 6 0.10
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (49 bp):
ATGGTCTTATATGGGATCTCATACTCGATACCAATGTCATATCCCAGAT
Found at i:56523074 original size:7 final size:7
Alignment explanation
Indices: 56523064--56523088 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56523054 TTTTCTTCAT
56523064 TTTTTTA
1 TTTTTTA
56523071 TTTTTTA
1 TTTTTTA
56523078 TTTTTTA
1 TTTTTTA
56523085 TTTT
1 TTTT
56523089 GGGTTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:56523525 original size:44 final size:44
Alignment explanation
Indices: 56523377--56524008 Score: 794
Period size: 44 Copynumber: 14.4 Consensus size: 44
56523367 CCCCGTCTAA
* * *
56523377 TACAGAGATGCCAAATCCGTTATCTACGATCTGCTCTCCGCTGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
56523421 TACAGAGA-CCCAAATCTGTTATCTTTGATCTGCTCTCCGCC-C
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
56523463 TACAGAGACGCCAAATCTGTTACCTTTGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
56523507 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
56523551 TACAGAGATGCCAAATC----ATCTTCAATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
56523591 TATAGAGA-GCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
56523634 TACAGAGATGTCAAATCTGTTATCTTCGATCTGCTCTCTGTCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
56523678 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
56523722 TACAGAGACGCCAAATCTGCTATCTACGATCTGCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
56523766 TACAGAGACGCCAAATCTGCTATCTTCGATCTTCTCTCTGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
56523810 TACAGAGACGCTAAATCTGCTGTCTGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGATGCCAAA-------TCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * *
56523861 TACAAAGATGCCAAATCTGTTATCTTTGATCTGCTCCCCACTG-
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * *
56523904 TACAGAGACGCCAAATCTATTATCTTTGATCTGCTCCCCGCCAC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
56523948 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
56523992 TACAGAAATGCCAAATC
1 TACAGAGATGCCAAATC
56524009 ATCTTGGATT
Statistics
Matches: 520, Mismatches: 53, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
39 8 0.02
40 29 0.06
42 9 0.02
43 124 0.24
44 313 0.60
51 37 0.07
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:56523841 original size:51 final size:51
Alignment explanation
Indices: 56523781--56523879 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
56523771 AGACGCCAAA
* ** * *
56523781 TCTGCTATCTTCGATCTTCTCTCTGCCGCTACAGAGACGCTAAATCTGCTG
1 TCTGCTATCTTCGATCTGCTCTCCACCGCTACAAAGACGCCAAATCTGCTG
* *
56523832 TCTGTTATCTTCGATCTGCTCTCCACCGCTACAAAGATGCCAAATCTG
1 TCTGCTATCTTCGATCTGCTCTCCACCGCTACAAAGACGCCAAATCTG
56523880 TTATCTTTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.32
Consensus pattern (51 bp):
TCTGCTATCTTCGATCTGCTCTCCACCGCTACAAAGACGCCAAATCTGCTG
Found at i:56524061 original size:87 final size:87
Alignment explanation
Indices: 56523970--56524192 Score: 333
Period size: 87 Copynumber: 2.6 Consensus size: 87
56523960 AAATATGTTA
* * *
56523970 TCTTCGATCTGCTCTCCGCC-GCTACAGAAATGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTC-CCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
56524034 ACGTGAAAGCCAAATCAGTTATG
65 ACGTGAAAGCCAAATCAGCTATG
*
56524057 TCTTCGATCTGC-CCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTTAACGTAAAC
1 TCTTCGATCTGCTCCC-GCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
56524121 ACGTGAAAGCCAAATTAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
* *
56524144 TCTTCGATCTACTCCCCGCCTGATATAGAGATGCCAAATCATCTTGGAT
1 TCTTCGATCTGCT-CCCGCCTGATACAGAGATGCCAAATCATCTTGGAT
56524193 ATCTTCAGCT
Statistics
Matches: 124, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
85 2 0.02
86 4 0.03
87 84 0.68
88 31 0.25
89 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:56524400 original size:61 final size:64
Alignment explanation
Indices: 56524288--56524412 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
56524278 TCATGTATCC
56524288 ATGCTTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
56524352 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTG
56524413 TTATTATATG
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 31 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.34
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:56528178 original size:19 final size:19
Alignment explanation
Indices: 56528154--56528201 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
56528144 GGGAAAATCT
56528154 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
56528173 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
56528192 AATGCAAATG
1 AATGCAAATG
56528202 CATGGGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:56528214 original size:24 final size:24
Alignment explanation
Indices: 56528164--56528217 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
56528154 AATGCAAATG
*
56528164 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
56528188 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
56528212 ATGCAA
1 ATGCAA
56528218 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:56530232 original size:6 final size:7
Alignment explanation
Indices: 56530217--56530242 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56530207 CGCTTTGAAA
56530217 TTTTATT
1 TTTTATT
56530224 TTTTATT
1 TTTTATT
56530231 TTTTATT
1 TTTTATT
56530238 TTTTA
1 TTTTA
56530243 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:56530342 original size:19 final size:19
Alignment explanation
Indices: 56530318--56530355 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
56530308 GAAATAAGTA
56530318 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
56530337 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
56530356 GCAATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:56531260 original size:19 final size:20
Alignment explanation
Indices: 56531227--56531266 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
56531217 GTATATATAT
56531227 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
56531246 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
56531266 A
1 A
56531267 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:56533689 original size:23 final size:20
Alignment explanation
Indices: 56533663--56533710 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
56533653 ACAAAAAGTC
56533663 TAGGGTTTTTCCATGATAATTTT
1 TAGGGTTTTTCC-T-A-AATTTT
* *
56533686 TAGGTTTTTTTCTAAATTTT
1 TAGGGTTTTTCCTAAATTTT
56533706 TAGGG
1 TAGGG
56533711 AAGAATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 10 0.45
21 1 0.05
22 1 0.05
23 10 0.45
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.54
Consensus pattern (20 bp):
TAGGGTTTTTCCTAAATTTT
Found at i:56542207 original size:34 final size:34
Alignment explanation
Indices: 56542164--56542233 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
56542154 TCTCCTAAGT
56542164 ATAAAACATGAAATTAAGGCATTAGGAGCATCGA
1 ATAAAACATGAAATTAAGGCATTAGGAGCATCGA
56542198 ATAAAACATGAAATTAAGGCATTAGGAGCATCGA
1 ATAAAACATGAAATTAAGGCATTAGGAGCATCGA
56542232 AT
1 AT
56542234 TCACCAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (34 bp):
ATAAAACATGAAATTAAGGCATTAGGAGCATCGA
Found at i:56546754 original size:16 final size:16
Alignment explanation
Indices: 56546733--56546765 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56546723 TTCTAAGAAG
56546733 TTTGCTAAGTGAGCAT
1 TTTGCTAAGTGAGCAT
56546749 TTTGCTAAGTGAGCAT
1 TTTGCTAAGTGAGCAT
56546765 T
1 T
56546766 GGGATCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (16 bp):
TTTGCTAAGTGAGCAT
Found at i:56548045 original size:31 final size:31
Alignment explanation
Indices: 56548009--56548069 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
56547999 TTTTTAGCCT
56548009 TTAGTGGAGCTTTT-AAGCGCCGCAAAAACTG
1 TTAGTGGAG-TTTTCAAGCGCCGCAAAAACTG
*
56548040 TTAGTGGTGTTTTCCCAAGCGCCGCAAAAA
1 TTAGTGGAGTTTT--CAAGCGCCGCAAAAA
56548070 ATGCCGCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
33 14 0.54
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (31 bp):
TTAGTGGAGTTTTCAAGCGCCGCAAAAACTG
Found at i:56548150 original size:45 final size:43
Alignment explanation
Indices: 56548096--56548205 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 43
56548086 TGCCGCCAAA
56548096 TTTT-GCGGCGTTTATCTGAAAAAAACGCCAC-AAAAGATCAAGAC
1 TTTTAGCGGCG-TT-TCTGAAAAAAACGCCACTAAAAG-TCAAGAC
* * * * * *
56548140 TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGGC
1 TTTTAGCGGCGTTTCTGAAAAAAACGCCACTAAAAGTCAAGAC
56548183 TTTTAGCGGCGTTTCTGAAAAAA
1 TTTTAGCGGCGTTTCTGAAAAAA
56548206 GCAGCGTTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 39 0.70
44 11 0.20
45 6 0.11
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
TTTTAGCGGCGTTTCTGAAAAAAACGCCACTAAAAGTCAAGAC
Found at i:56548195 original size:43 final size:43
Alignment explanation
Indices: 56548137--56548239 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
56548127 AAAAGATCAA
* * *
56548137 GACTTTTAGCGGCGTTTGTGAGAAAAGC-GCCGCTAAAAGTCAT
1 GACTTTTAGCGGCGTTTCTGAAAAAAGCAG-CGCTAAAAGCCAT
* *
56548180 GGCTTTTAGCGGCGTTTCTGAAAAAAGCAGCGTTAAAAGCCAT
1 GACTTTTAGCGGCGTTTCTGAAAAAAGCAGCGCTAAAAGCCAT
*
56548223 GACTTTTAGCAGCGTTT
1 GACTTTTAGCGGCGTTT
56548240 AGCGGTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 51 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
GACTTTTAGCGGCGTTTCTGAAAAAAGCAGCGCTAAAAGCCAT
Found at i:56552028 original size:93 final size:93
Alignment explanation
Indices: 56551869--56552041 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
56551859 CGGATATTTG
* *
56551869 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
56551934 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* * * * *
56551962 GGCATCTGAGCTCGTTGAGTTGAG-TCTGAGTTCACTTCTGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGA
56552026 GTTGAGTCTGAGTTCG
65 GTTGAGTCTGAGTTCG
56552042 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCTGAGTTCGTGAGATGTAACTA
Found at i:56552036 original size:46 final size:46
Alignment explanation
Indices: 56551874--56552048 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
56551864 ATTTGGGCAT
* *
56551874 CCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAACGC
* * * *
56551920 CCAAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC---GC
* * *
56551965 ATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
* *
56552013 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
56552049 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 26 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
Found at i:56556734 original size:47 final size:47
Alignment explanation
Indices: 56556665--56557168 Score: 911
Period size: 47 Copynumber: 10.7 Consensus size: 47
56556655 ATGATAGTAT
56556665 GGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56556711 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56556758 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56556805 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56556852 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56556899 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56556946 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56556993 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56557040 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56557087 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
56557136 GGCCTAATGGCCAATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
56557169 CCCGAAGGGC
Statistics
Matches: 446, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
46 11 0.02
47 391 0.88
49 40 0.09
50 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:56557342 original size:37 final size:37
Alignment explanation
Indices: 56557286--56557364 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56557276 CCGAGCTCTA
* * *
56557286 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56557323 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56557360 AAGAC
1 AAGAC
56557365 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56559242 original size:29 final size:29
Alignment explanation
Indices: 56559207--56559280 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56559197 GTTGTGAGAT
* *
56559207 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56559236 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56559265 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56559281 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56559713 original size:40 final size:40
Alignment explanation
Indices: 56559590--56559945 Score: 369
Period size: 40 Copynumber: 8.9 Consensus size: 40
56559580 TCGAATGATG
** *
56559590 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
56559630 TCCAGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
56559670 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
56559710 TCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
56559750 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
56559790 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
56559830 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
56559870 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
56559910 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
56559946 CGTGTATTCG
Statistics
Matches: 268, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.00
40 249 0.93
41 18 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:56563406 original size:47 final size:47
Alignment explanation
Indices: 56563337--56563881 Score: 1015
Period size: 47 Copynumber: 11.7 Consensus size: 47
56563327 AAATGATAGT
56563337 ATGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56563383 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
56563430 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* *
56563477 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56563524 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56563571 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56563618 A-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56563664 ATGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
56563710 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56563757 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
56563804 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
56563851 AGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGCCTAATGGCCGATGTGATGAATGTGAAA
56563882 TGATAGGGCC
Statistics
Matches: 489, Mismatches: 7, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
46 102 0.21
47 387 0.79
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
Found at i:56563544 original size:22 final size:23
Alignment explanation
Indices: 56563516--56563596 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
56563506 AAGTTTATAT
56563516 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
56563538 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
56563563 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
56563585 ATGTGATGAATG
1 ATGTGATGAATG
56563597 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:56563911 original size:34 final size:36
Alignment explanation
Indices: 56563846--56563913 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
56563836 TGTATATATG
*
56563846 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
56563882 TGATAGGGCCTAATGG-CAAT-TGATGAATGTGA
1 TGATAAGGCCTAATGGCCAATGTGATGAATGTGA
56563914 TAAGTCCCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.40
35 3 0.10
36 15 0.50
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.26
Consensus pattern (36 bp):
TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:56564092 original size:37 final size:37
Alignment explanation
Indices: 56564036--56564114 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56564026 CCGAGCTCTA
* * *
56564036 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56564073 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56564110 AAGAC
1 AAGAC
56564115 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56565980 original size:31 final size:31
Alignment explanation
Indices: 56565942--56566018 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
56565932 TCAGAACTAG
*
56565942 AATCAGAATCAGAATCAGA-ATCAGGTGACAA
1 AATCAGAATCAGAATCA-ATATCAGGTAACAA
* * *
56565973 AATCAGAATCAAAATCAATATTAGGTAACAG
1 AATCAGAATCAGAATCAATATCAGGTAACAA
*
56566004 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
56566019 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAATATCAGGTAACAA
Found at i:56565983 original size:6 final size:6
Alignment explanation
Indices: 56565931--56565965 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
56565921 AAGAAACATT
56565931 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG
56565966 GTGACAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:56566185 original size:27 final size:26
Alignment explanation
Indices: 56566137--56566196 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
56566127 GTGAGGCTGC
*
56566137 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
56566164 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
56566190 CATATAT
1 CAGATAT
56566197 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:56566506 original size:27 final size:27
Alignment explanation
Indices: 56566470--56566574 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
56566460 GGGTAAAATG
* *
56566470 GTAATT-TACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
56566496 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
56566523 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
56566550 GTATTTCTACCCTACAAGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
56566575 TGGTAATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 6 0.09
27 64 0.91
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:56566596 original size:27 final size:26
Alignment explanation
Indices: 56566566--56566744 Score: 110
Period size: 27 Copynumber: 6.7 Consensus size: 26
56566556 CTACCCTACA
**
56566566 AGGGTATTTTGGTAATTTTGTAAATC
1 AGGGTATTTTGGTAATTTTACAAATC
**** * **
56566592 GAGGGTAAAACGGTAATTCTGTAAATC
1 -AGGGTATTTTGGTAATTTTACAAATC
* *
56566619 AGGGGTACTTTGGTAATTTTACAAGTC
1 A-GGGTATTTTGGTAATTTTACAAATC
*** **
56566646 AAGGGTATTTCAATAATTTTACAGGTC
1 -AGGGTATTTTGGTAATTTTACAAATC
** *
56566673 GAGGGTATTTCAGTAATTTCACAAATC
1 -AGGGTATTTTGGTAATTTTACAAATC
56566700 AGGGGTATTTTGGTAATTTTACAAA-C
1 A-GGGTATTTTGGTAATTTTACAAATC
56566726 TAGGGGTA-TTTGGTAATTT
1 -A-GGGTATTTTGGTAATTT
56566745 GGTAAACTAA
Statistics
Matches: 122, Mismatches: 26, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
26 14 0.11
27 107 0.88
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAATC
Found at i:56566663 original size:81 final size:81
Alignment explanation
Indices: 56566564--56566723 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 81
56566554 TTCTACCCTA
*** ** * **
56566564 CAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTGTAAATCAGGGGTACT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGGGGTACT
56566628 TTGGTAATTTTACAAGT
65 TTGGTAATTTTACAAGT
** *** *
56566645 CAAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTT
56566710 TGGTAATTTTACAA
66 TGGTAATTTTACAA
56566724 ACTAGGGGTA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (81 bp):
CAAGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTT
TGGTAATTTTACAAGT
Found at i:56568709 original size:6 final size:6
Alignment explanation
Indices: 56568691--56568774 Score: 57
Period size: 6 Copynumber: 13.7 Consensus size: 6
56568681 AAGAAACATT
* * *
56568691 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
56568740 ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCA
56568775 AAATGCGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 50 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:56568768 original size:31 final size:31
Alignment explanation
Indices: 56568675--56568774 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
56568665 TAACCCATTA
* * *
56568675 CAGAATAAGAAACATTATC-AG-AACTAGAAT
1 CAGAATCAGAATCAGTATCAAGTAAC-AGAAT
* * * * *
56568705 CAGAATCAGAATCAGAATTAGGTGACAAAAT
1 CAGAATCAGAATCAGTATCAAGTAACAGAAT
56568736 CAGAATCAGAATCAGTATCAAGTAACAGAAT
1 CAGAATCAGAATCAGTATCAAGTAACAGAAT
*
56568767 CAAAATCA
1 CAGAATCA
56568775 AAATGCGAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
30 14 0.26
31 38 0.70
32 2 0.04
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAAGTAACAGAAT
Found at i:56568774 original size:19 final size:19
Alignment explanation
Indices: 56568700--56568775 Score: 52
Period size: 19 Copynumber: 4.1 Consensus size: 19
56568690 TATCAGAACT
*
56568700 AGAATCAGAATCAGAATC-
1 AGAATCAGAATCAAAATCA
* *
56568718 AGAATTAG-GTGACAAAATC-
1 AGAATCAGAAT--CAAAATCA
**
56568737 AGAATCAGAATCAGTATCA
1 AGAATCAGAATCAAAATCA
56568756 AGTAA-CAGAATCAAAATCA
1 AG-AATCAGAATCAAAATCA
56568775 A
1 A
56568776 AATGCGAATG
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
17 1 0.02
18 12 0.27
19 28 0.64
20 3 0.07
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (19 bp):
AGAATCAGAATCAAAATCA
Found at i:56568945 original size:27 final size:26
Alignment explanation
Indices: 56568897--56568956 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
56568887 GTGAGGCTGC
*
56568897 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* *
56568924 CAGATATTGTGACTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
56568950 CATATAT
1 CAGATAT
56568957 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:56569256 original size:27 final size:27
Alignment explanation
Indices: 56569226--56569369 Score: 166
Period size: 27 Copynumber: 5.3 Consensus size: 27
56569216 GGGGTAAAAT
* **
56569226 GGTAATTTTACCCCACAAGGGTATCAC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
56569253 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
56569280 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
56569307 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
56569334 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
56569361 GGTAATTTT
1 GGTAATTTT
56569370 GTAAATCGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 96 0.93
28 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:56569434 original size:81 final size:80
Alignment explanation
Indices: 56569348--56569536 Score: 184
Period size: 81 Copynumber: 2.3 Consensus size: 80
56569338 TTTCTACCCT
**
56569348 ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAAC-GATAA-TTCTGTAAATCAGGGGTA
1 ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTTC-ACAAATCAGGGGTA
56569411 CTTTGGTAATTTTACAA
64 CTTTGGTAATTTTACAA
* *** ** ** *** *
56569428 GTCAAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTAT
1 -ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTAC
56569493 TTTGGTAATTTTACAA
65 TTTGGTAATTTTACAA
* *
56569509 ACTAGGGGTATTTTGGTAATTTGGTAAA
1 AC-AAGGGTATTTTGGTAATTTTGTAAA
56569537 CTAAAGTATT
Statistics
Matches: 81, Mismatches: 24, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
80 1 0.01
81 76 0.94
82 4 0.05
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (80 bp):
ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACT
TTGGTAATTTTACAA
Found at i:56569436 original size:27 final size:26
Alignment explanation
Indices: 56569406--56569530 Score: 99
Period size: 27 Copynumber: 4.6 Consensus size: 26
56569396 TGTAAATCAG
56569406 GGGTACTTTGGTAATTTTACAAGTCAA
1 GGGTA-TTTGGTAATTTTACAAGTCAA
** * *
56569433 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTT-GGTAATTTTACAAGTCAA
* * * *
56569460 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTT-GGTAATTTTACAAGTCAA
* *
56569487 GGGTATTTTGGTAATTTTACAA-ACTAG
1 GGGTA-TTTGGTAATTTTACAAGTC-AA
56569514 GGGTATTTTGGTAATTT
1 GGGTA-TTTGGTAATTT
56569531 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.05
27 75 0.91
28 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTACAAGTCAA
Found at i:56575666 original size:15 final size:15
Alignment explanation
Indices: 56575646--56575701 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
56575636 GTATCTTGGG
56575646 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56575661 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
56575676 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
56575691 TTTCTTTATTC
1 TTTCTTTATTC
56575702 GTTTTTCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56575678 original size:30 final size:30
Alignment explanation
Indices: 56575642--56575701 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
56575632 TATCGTATCT
*
56575642 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGGATTTCTTTATTC
56575672 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
56575702 GTTTTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:56577786 original size:30 final size:30
Alignment explanation
Indices: 56577728--56577787 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56577718 TTCCCGAGCC
*
56577728 TAGGGGCAAAAGTGTAATTATGCTAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
* *
56577758 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
56577788 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCCAAAGTT
Found at i:56578266 original size:46 final size:46
Alignment explanation
Indices: 56578210--56578379 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
56578200 TGGTTGAGCA
56578210 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATG
*
56578256 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGTGAA-T--G
* * *
56578301 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATG
*
56578349 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAC
56578380 TTAGGGGCGG
Statistics
Matches: 106, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 4 0.04
43 7 0.07
45 5 0.05
46 53 0.50
47 28 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATG
Found at i:56578366 original size:93 final size:93
Alignment explanation
Indices: 56578207--56578377 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56578197 GGATGGTTGA
* * *
56578207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCGTTGAGT
56578272 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56578300 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAA-CTCGTTGAG
56578364 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
56578378 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56578950 original size:13 final size:13
Alignment explanation
Indices: 56578911--56578940 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
56578901 ATTTAAATTA
56578911 TATTTGATGTTTT
1 TATTTGATGTTTT
56578924 TATTTGATGTTTT
1 TATTTGATGTTTT
56578937 TATT
1 TATT
56578941 CTTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (13 bp):
TATTTGATGTTTT
Found at i:56581330 original size:37 final size:37
Alignment explanation
Indices: 56581280--56581385 Score: 194
Period size: 37 Copynumber: 2.9 Consensus size: 37
56581270 GCTCGAATAG
*
56581280 TCTCCACACGTAGTTATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
56581317 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
56581354 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
56581386 ATATATTTCC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:56581584 original size:48 final size:48
Alignment explanation
Indices: 56581526--56581949 Score: 767
Period size: 48 Copynumber: 8.8 Consensus size: 48
56581516 ATATACACAC
* * *
56581526 ATCTCCTACATATTTCACACTAGCCATTCCGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56581574 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56581622 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56581670 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56581718 ATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56581766 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56581814 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56581862 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56581910 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
56581950 GCACATATAT
Statistics
Matches: 365, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 365 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56585756 original size:188 final size:187
Alignment explanation
Indices: 56585394--56585761 Score: 440
Period size: 188 Copynumber: 2.0 Consensus size: 187
56585384 AAGGCTATAA
* * * **
56585394 AACGACGTAGTTTCTGCAATCTATTAATAGATTTTTGTGGCGTTTCTAGCGAAAACGCCGGTATT
1 AACGACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGCGAAAACGCCGGTAAA
* * * *
56585459 TCACATATTTTGTGGCGTTTATAAAAGCGCCACTAATAAAAGGCTATAAAACGATGACGTTTTGA
66 TCACACATTTTGCGGCGTTTATAAAAGCGCCACTAATAAAAGGATATAAAACGATCACGTTTTGA
*
56585524 AATCTCTTTAGATGTTTTGTGACATTTTTCCAAGAAGTGCCACTAATAACTTGGTAAT
131 AATCTCTTTAGATGTTTTGTGA-ATTTTTCCAAGAAGCGCCACTAATAACTTGGTAAT
* * * *
56585582 AACGACGCCGTTT-TGCAATCTACTAATAGATGTTTGTGGTGTTTTCTAGTGAAAACGTCGGTAA
1 AACGACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCG-TTTCTAGCGAAAACGCCGGTAA
* * *
56585646 ATCACACCTTTTGCGGCGTTTATAGAAGCGCCACTAATAAGAAGGATAT-AAAGGA-CACCGTTT
65 ATCACACATTTTGCGGCGTTTATAAAAGCGCCACTAATAA-AAGGATATAAAACGATCA-CGTTT
* * ***
56585709 T-ACATTCTCTTAATAGATGTTTTGTG-GTTTTTTTTAGAAGCGCCACTAATAAC
128 TGA-AATCTCTT--TAGATGTTTTGTGAATTTTTCCAAGAAGCGCCACTAATAAC
56585762 AAAGCTTCAA
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
187 27 0.18
188 105 0.69
189 7 0.05
190 13 0.09
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (187 bp):
AACGACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGCGAAAACGCCGGTAAA
TCACACATTTTGCGGCGTTTATAAAAGCGCCACTAATAAAAGGATATAAAACGATCACGTTTTGA
AATCTCTTTAGATGTTTTGTGAATTTTTCCAAGAAGCGCCACTAATAACTTGGTAAT
Found at i:56585866 original size:3 final size:3
Alignment explanation
Indices: 56585860--56585891 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
56585850 TTTTTTCCTT
*
56585860 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56585892 TACTATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:56586277 original size:21 final size:21
Alignment explanation
Indices: 56586253--56586305 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
56586243 GTTTAAGGTT
*
56586253 TTATGGTTTTGGATTTAGGGC
1 TTATGGTTTTAGATTTAGGGC
* *
56586274 TTATGGTTTAAGATTTAGGGT
1 TTATGGTTTTAGATTTAGGGC
*
56586295 TTATAGTTTTA
1 TTATGGTTTTA
56586306 AGACGCTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (21 bp):
TTATGGTTTTAGATTTAGGGC
Found at i:56586421 original size:32 final size:30
Alignment explanation
Indices: 56586347--56586423 Score: 75
Period size: 32 Copynumber: 2.5 Consensus size: 30
56586337 AGGTTTACAA
56586347 TTTTATGATTTAGGAATCTATATTTAAGGG
1 TTTTATGATTTAGGAATCTATATTTAAGGG
* * * * *
56586377 TTTAAGGGTTTAGTACTGTCTATAGTTT-AGGG
1 TTTTATGATTTAGGA--ATCTATA-TTTAAGGG
56586409 TTTTATGATTTAGGA
1 TTTTATGATTTAGGA
56586424 TTCAAGGTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
30 11 0.31
32 21 0.60
33 3 0.09
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (30 bp):
TTTTATGATTTAGGAATCTATATTTAAGGG
Found at i:56586469 original size:21 final size:21
Alignment explanation
Indices: 56586402--56586469 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
56586392 CTGTCTATAG
* *
56586402 TTTAGGGTTTTATGATTTAGGA
1 TTTAAGGTTTAAT-ATTTAGGA
* *
56586424 TTCAAGGTTTAATATTTAGGG
1 TTTAAGGTTTAATATTTAGGA
*
56586445 TTTAAGGTTT-ATAGTTTATGA
1 TTTAAGGTTTAATA-TTTAGGA
56586466 TTTA
1 TTTA
56586470 CAACTATAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.08
21 25 0.66
22 10 0.26
ACGTcount: A:0.26, C:0.01, G:0.22, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAATATTTAGGA
Found at i:56587413 original size:40 final size:40
Alignment explanation
Indices: 56587350--56587433 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
56587340 CTATAGGTCA
* * * *
56587350 ATCTTTAGCGGCGCTTCCTTAAAAATGTCGCTAATGCTCG
1 ATCTTTAGCGGCGCTTCCATAAAAACGCCGCTAATACTCG
**
56587390 ATCTTTAGCGGCGCTTTGATAAAAACGCCGCTAATACTCG
1 ATCTTTAGCGGCGCTTCCATAAAAACGCCGCTAATACTCG
56587430 ATCT
1 ATCT
56587434 ATTCGATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (40 bp):
ATCTTTAGCGGCGCTTCCATAAAAACGCCGCTAATACTCG
Found at i:56587419 original size:148 final size:148
Alignment explanation
Indices: 56587150--56587424 Score: 327
Period size: 148 Copynumber: 1.9 Consensus size: 148
56587140 CAAACGTCGT
* * * * *
56587150 CGTTCTGTTTAATCTTTTAGCGGCGTTTTTAAGAAAGCGCCGCTATAGATCGACCTATAGGGGCG
1 CGTTCTCTTTAATCTTTTAGCGGCATTTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCG
** * * * * * * ** *** *
56587215 CTTTGTTAAAAATGTTGTTAATGTTGGATCTATTGCGGTGTTTTTCGGGTAGCGCCGCTAATGCC
66 CTTCCTTAAAAATGTCGCTAATGCTCGATCTATTGCGGCGCTTTGAGAAAAACGCCGCTAATGCC
56587280 ACTGAAGCTGAGAAAAAA
131 ACTGAAGCTGAGAAAAAA
* * *
56587298 CGTTCTCTTTAATCTTTTAGCGGCATTTTTAAAAAAGCGCCGCTATAGGTCAATCTTTAGCGGCG
1 CGTTCTCTTTAATCTTTTAGCGGCATTTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCG
*
56587363 CTTCCTTAAAAATGTCGCTAATGCTCGATCT-TTAGCGGCGCTTTGATAAAAACGCCGCTAAT
66 CTTCCTTAAAAATGTCGCTAATGCTCGATCTATT-GCGGCGCTTTGAGAAAAACGCCGCTAAT
56587425 ACTCGATCTA
Statistics
Matches: 103, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
147 2 0.02
148 101 0.98
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (148 bp):
CGTTCTCTTTAATCTTTTAGCGGCATTTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCG
CTTCCTTAAAAATGTCGCTAATGCTCGATCTATTGCGGCGCTTTGAGAAAAACGCCGCTAATGCC
ACTGAAGCTGAGAAAAAA
Found at i:56589676 original size:19 final size:20
Alignment explanation
Indices: 56589636--56589676 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56589626 AATAGGGATC
* *
56589636 ACACGCCCGTGTGGCTTAGG
1 ACACACCCGTGTGGCGTAGG
56589656 ACACACCCGTGTGG-GTAGG
1 ACACACCCGTGTGGCGTAGG
56589675 AC
1 AC
56589677 GTATGGTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (20 bp):
ACACACCCGTGTGGCGTAGG
Found at i:56595310 original size:50 final size:47
Alignment explanation
Indices: 56595249--56595478 Score: 203
Period size: 50 Copynumber: 4.7 Consensus size: 47
56595239 ACATCAAAGT
*
56595249 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATACTGAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CAT-CTGAGAC
* * * *
56595299 TGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTGTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTG-AGA--C
* * * * *
56595349 CGATACCATGTCCCAGACATGGCCTTACACAAGCTTTCAAGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-A-TCT-GAGAC
* * * * * * *
56595399 CAATGCCATGTCCCAGACATGGTTTTACACTGGGTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTGAGAC
56595447 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
56595479 ACACATATCA
Statistics
Matches: 147, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
46 10 0.07
47 17 0.12
48 14 0.10
49 2 0.01
50 98 0.67
51 1 0.01
52 4 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTGAGAC
Found at i:56595405 original size:100 final size:97
Alignment explanation
Indices: 56595249--56595474 Score: 253
Period size: 100 Copynumber: 2.3 Consensus size: 97
56595239 ACATCAAAGT
* * **
56595249 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATACTGAGACTGATGCCATGTCCCA
1 CGAT-CCATGTCCCAGACATGGTCTTACACAAGCTCTCACATACTGAGACCAATGCCATGTCCCA
*
56595314 AACATGGTCTTACACTGGCTCTCAT-CTGTCGATGC
65 AACATGGTCTTACACTGGCTCTCATAATGT-G--GC
* * *
56595349 CGATACCATGTCCCAGACATGGCCTTACACAAGCTTTCA-AGT-CTCGAGGCCAATGCCATGTCC
1 CGAT-CCATGTCCCAGACATGGTCTTACACAAGCTCTCACA-TACT-GAGACCAATGCCATGTCC
* * *
56595412 CAGACATGGTTTTACACTGGGTCTCATAATGTGGC
63 CAAACATGGTCTTACACTGGCTCTCATAATGTGGC
*
56595447 CGATGCATGTCCCAGACAT-GTCTTACAC
1 CGATCCATGTCCCAGACATGGTCTTACAC
56595475 TAGCACACAT
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
96 8 0.07
97 14 0.13
98 6 0.06
99 3 0.03
100 75 0.69
101 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (97 bp):
CGATCCATGTCCCAGACATGGTCTTACACAAGCTCTCACATACTGAGACCAATGCCATGTCCCAA
ACATGGTCTTACACTGGCTCTCATAATGTGGC
Found at i:56600653 original size:43 final size:43
Alignment explanation
Indices: 56600581--56600685 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
56600571 TATATGAGAC
* * * * *
56600581 ATGTGATTACGTGAAAGGCCACGTTTGGGACGTTGGCATCGAT
1 ATGTGATTACGTGTAAGACAACGTCTGGGACGTTGGCATCAAT
*
56600624 ATGTGATTACGTGTAAGACAACGTCTGGGATGTTGGCATCAAT
1 ATGTGATTACGTGTAAGACAACGTCTGGGACGTTGGCATCAAT
* * *
56600667 ATGTGTTTAAGAGTAAGAC
1 ATGTGATTACGTGTAAGAC
56600686 CCTGTGCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACAACGTCTGGGACGTTGGCATCAAT
Found at i:56607644 original size:22 final size:23
Alignment explanation
Indices: 56607567--56607678 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 23
56607557 AGACATGGCG
*
56607567 AGTAAGCTCT-TCATGAGTTGATAAC
1 AGTAAGCTCTAT--TGAGCTGA-AAC
56607592 AGTAAGCTCTATTGAGCTGAAAAC
1 AGTAAGCTCTATTGAGCTG-AAAC
* *
56607616 AGTAAGCTCTATTGTGCTG-AAT
1 AGTAAGCTCTATTGAGCTGAAAC
56607638 AGTAAGCTCT-TTCGAGCTGAAAC
1 AGTAAGCTCTATT-GAGCTGAAAC
56607661 AGTAAGCTC-ATATGAGCT
1 AGTAAGCTCTAT-TGAGCT
56607679 ATGGTGAGTC
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.03
22 17 0.22
23 17 0.22
24 28 0.37
25 11 0.14
26 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:56611750 original size:28 final size:28
Alignment explanation
Indices: 56611710--56611767 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
56611700 TATATCAGAG
56611710 TTGTTCTCGGTATTAACTCAATACCCAA
1 TTGTTCTCGGTATTAACTCAATACCCAA
56611738 TTGTTCTCGGTATTAACTCAATACCCAA
1 TTGTTCTCGGTATTAACTCAATACCCAA
56611766 TT
1 TT
56611768 TGACTTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (28 bp):
TTGTTCTCGGTATTAACTCAATACCCAA
Found at i:56615074 original size:23 final size:24
Alignment explanation
Indices: 56615044--56615098 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
56615034 CTGATAACAG
56615044 TAAGCTCTATTAAGCT-AAAACGA
1 TAAGCTCTATTAAGCTGAAAACGA
* * *
56615067 TAAGCTCTATTGAGCTGAAAATGG
1 TAAGCTCTATTAAGCTGAAAACGA
56615091 TAAGCTCT
1 TAAGCTCT
56615099 TCCGAGCTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
TAAGCTCTATTAAGCTGAAAACGA
Found at i:56617975 original size:27 final size:27
Alignment explanation
Indices: 56617937--56618018 Score: 164
Period size: 27 Copynumber: 3.0 Consensus size: 27
56617927 TTCTCATTAG
56617937 CTTAAATTTAAAACTCTCACCGTTGAA
1 CTTAAATTTAAAACTCTCACCGTTGAA
56617964 CTTAAATTTAAAACTCTCACCGTTGAA
1 CTTAAATTTAAAACTCTCACCGTTGAA
56617991 CTTAAATTTAAAACTCTCACCGTTGAA
1 CTTAAATTTAAAACTCTCACCGTTGAA
56618018 C
1 C
56618019 CATTCGAAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (27 bp):
CTTAAATTTAAAACTCTCACCGTTGAA
Found at i:56621154 original size:2 final size:2
Alignment explanation
Indices: 56621147--56621176 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56621137 CCAGAGATAA
56621147 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
56621177 TCATGAGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.