Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 309 of 410
Found at i:95822659 original size:32 final size:32
Alignment explanation
Indices: 95822557--95822659 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
95822547 AAATTATTTT
* *
95822557 AATATAATCTAATAT-AAAATATTTA-ATTTCAA
1 AATATAATTTAATATAAAAATAATTATA-TT-AA
* **
95822589 AATATAATTTAAAATAAAAA-AATTTAAATATTTT
1 AATATAATTTAATATAAAAATAA-TT--ATATTAA
95822623 AATATAATTTAATATAAAAATAATTATATTAA
1 AATATAATTTAATATAAAAATAATTATATTAA
95822655 AATAT
1 AATAT
95822660 TAATAAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
32 24 0.42
33 6 0.11
34 21 0.37
35 5 0.09
36 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (32 bp):
AATATAATTTAATATAAAAATAATTATATTAA
Found at i:95822710 original size:61 final size:58
Alignment explanation
Indices: 95822619--95822783 Score: 174
Period size: 57 Copynumber: 2.8 Consensus size: 58
95822609 AATTTAAATA
* * * *
95822619 TTTTAATATAATTTA-ATATAAAAATAATTATATTAAAATATTAATAAATTATATATTTTTAT
1 TTTTATTA-AATTTATATTTAATAATAATTATATTAAAATATTAATAAA--AT-TATTTAT-T
* *
95822681 TTTTATTAAA-TTATATTTAATAATAATTATATTAAAATA-TGATTAAATTATTTATT
1 TTTTATTAAATTTATATTTAATAATAATTATATTAAAATATTAATAAAATTATTTATT
* ** *
95822737 TTTTATTAAATTTATTTTTAATAATAATCCTATTAAAATTTTAATAA
1 TTTTATTAAATTTATATTTAATAATAATTATATTAAAATATTAATAA
95822784 CAATAATCAT
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
56 11 0.12
57 31 0.35
58 6 0.07
60 8 0.09
61 25 0.28
62 7 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (58 bp):
TTTTATTAAATTTATATTTAATAATAATTATATTAAAATATTAATAAAATTATTTATT
Found at i:95822956 original size:16 final size:16
Alignment explanation
Indices: 95822935--95823004 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
95822925 TGAATTATTG
*
95822935 ATTACATCTCTATTTC
1 ATTACATCTCTATTCC
* *
95822951 ATTACAAT-TATATTAC
1 ATTAC-ATCTCTATTCC
*
95822967 ATTACAACTCTATTCC
1 ATTACATCTCTATTCC
* * *
95822983 ATAACATTTTTATTCC
1 ATTACATCTCTATTCC
95822999 ATTACA
1 ATTACA
95823005 GTGAACCAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
15 1 0.02
16 39 0.93
17 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTACATCTCTATTCC
Found at i:95822972 original size:32 final size:32
Alignment explanation
Indices: 95822935--95823004 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
95822925 TGAATTATTG
* * *
95822935 ATTACATCTCTATTTCATTACAATTATATTAC
1 ATTACAACTCTATTCCATAACAATTATATTAC
* * *
95822967 ATTACAACTCTATTCCATAACATTTTTATTCC
1 ATTACAACTCTATTCCATAACAATTATATTAC
95822999 ATTACA
1 ATTACA
95823005 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.44
Consensus pattern (32 bp):
ATTACAACTCTATTCCATAACAATTATATTAC
Found at i:95827749 original size:15 final size:15
Alignment explanation
Indices: 95827729--95827768 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
95827719 AGGCAAAAGA
*
95827729 AAAAAAAAAACTCTG
1 AAAAAAAAAACACTG
95827744 AAAAAAAAAACACTG
1 AAAAAAAAAACACTG
95827759 AAAAAAAAAA
1 AAAAAAAAAA
95827769 TTCTTCCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.78, C:0.10, G:0.05, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAACACTG
Found at i:95828768 original size:20 final size:19
Alignment explanation
Indices: 95828732--95828780 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
95828722 AACATTGAGA
95828732 AATTATATATT-TGTGATATT
1 AATTATA-ATTATGTGAT-TT
95828752 -ATTATGAATTATGTGATTT
1 AATTAT-AATTATGTGATTT
95828771 AATTATAATT
1 AATTATAATT
95828781 TATCTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (19 bp):
AATTATAATTATGTGATTT
Found at i:95828783 original size:20 final size:20
Alignment explanation
Indices: 95828743--95828780 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95828733 ATTATATATT
95828743 TGTGATATTATTATGAATTA
1 TGTGATATTATTATGAATTA
95828763 TGTGAT-TTAATTAT-AATT
1 TGTGATATT-ATTATGAATT
95828781 TATCTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (20 bp):
TGTGATATTATTATGAATTA
Found at i:95832499 original size:26 final size:26
Alignment explanation
Indices: 95832463--95832544 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
95832453 ATACAAATTA
* *
95832463 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
95832489 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
95832515 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
95832541 ATAA
1 ATAA
95832545 GAATTTTATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTTCATG
Found at i:95836884 original size:13 final size:13
Alignment explanation
Indices: 95836862--95836895 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
95836852 AGACATGCTA
95836862 CACATACAGAAAT
1 CACATACAGAAAT
*
95836875 CACATTCAGAAAT
1 CACATACAGAAAT
95836888 CACATACA
1 CACATACA
95836896 CAGTCAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.26, G:0.06, T:0.18
Consensus pattern (13 bp):
CACATACAGAAAT
Found at i:95837446 original size:13 final size:13
Alignment explanation
Indices: 95837428--95837453 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95837418 CCAAAACCCA
95837428 CATGCTCGTGTGG
1 CATGCTCGTGTGG
95837441 CATGCTCGTGTGG
1 CATGCTCGTGTGG
95837454 GCTTACACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.38, T:0.31
Consensus pattern (13 bp):
CATGCTCGTGTGG
Found at i:95839192 original size:43 final size:43
Alignment explanation
Indices: 95838995--95839219 Score: 218
Period size: 43 Copynumber: 5.2 Consensus size: 43
95838985 CGCTATTGCT
** * *
95838995 AACGCCGCTAAAGGTCATGACTTTTAGCAACGCTTTTACCACA
1 AACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTACTAAA
* * * *
95839038 AACGCCGCTAAAGGTTATGACTTTTAGCGGCTCTTTTACCACA
1 AACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTACTAAA
* * * **
95839081 AACGTCGCTAAAGGTCATGACTTTTAGTGGCGCTTTTCCTGTA
1 AACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTACTAAA
* ** * *
95839124 AATGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCTAAA
1 AACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTACTAAA
* * * * *
95839167 AACGCCGCTAAAGATCATG-GTCTTTAGCGACACTTTTTCTAAA
1 AACGCCGCTAAAGGTCATGACT-TTTAGCGGCGCTTTTACTAAA
*
95839210 AACGCTGCTA
1 AACGCCGCTA
95839220 TATAACAGAC
Statistics
Matches: 153, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 153 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
AACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTACTAAA
Found at i:95839247 original size:43 final size:43
Alignment explanation
Indices: 95838995--95839263 Score: 182
Period size: 43 Copynumber: 6.3 Consensus size: 43
95838985 CGCTATTGCT
** * * * * *
95838995 AACGCCGCTAAAGGTCATGACTTTTAGCAACGCTTTTACCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCTAAA
*** * * * * * *
95839038 AACGCCGCTAAAGGTTATGACTTTTAGCGGCTCTTTTACCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCTAAA
* ** * * * * **
95839081 AACGTCGCTAAAGGTCATGACTTTTAGTGGCGCTTTTCCTGTA
1 AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCTAAA
* * *
95839124 AATGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCTAAA
1 AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCTAAA
* ** *
95839167 AACGCCGCTAAAGATCATGGTCTTTAGCGACACTTTTTCTAAA
1 AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCTAAA
* * * * *
95839210 AACGCTGCTATATAACA-GACCTTTAGCGATGCTTTTT-TGACA
1 AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCT-AAA
95839252 AACGCCGCTAAA
1 AACGCCGCTAAA
95839264 AAATATAAAC
Statistics
Matches: 187, Mismatches: 38, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
41 1 0.01
42 28 0.15
43 158 0.84
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
AACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCTAAA
Found at i:95845116 original size:15 final size:15
Alignment explanation
Indices: 95845093--95845143 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
95845083 ATACCCATGG
*
95845093 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
95845108 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
95845123 TCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
95845137 CCTTAAA
1 CCATAAA
95845144 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:95845524 original size:81 final size:80
Alignment explanation
Indices: 95845389--95845590 Score: 250
Period size: 81 Copynumber: 2.5 Consensus size: 80
95845379 AGGGGTTATA
* * *
95845389 TGACTTTTAGCGGC-GTTTACCAAAAGCGTCGCTAATGCTCCGACTTTTAGCGGCGTTTTA-CAA
1 TGACTTTTAGCGGCGGTTTACCAAAAGCGCCGCTATTGCT-CTACTTTTAGCGGCGTTTTAGC-A
95845452 AAAGCGCCGCTAATGCTC
64 AAAG-GCCGCTAATGCTC
*
95845470 TGACTTTTAGCGGCGGTTTACCAAAAGCGCCGCTATTGCTCTATTTTTAGCGGCGTTTTAGCAAA
1 TGACTTTTAGCGGCGGTTTACCAAAAGCGCCGCTATTGCTCTACTTTTAGCGGCGTTTTAGCAAA
* *
95845535 AGGCCGCTATTTCTC
66 AGGCCGCTAATGCTC
* * **
95845550 TG-TTTTTAGCGGCGTTTTTAGTAAAA-CGCCGCTATTGCTCT
1 TGACTTTTAGCGGCG-GTTTACCAAAAGCGCCGCTATTGCTCT
95845591 GTGTTTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
79 26 0.24
80 21 0.19
81 37 0.34
82 24 0.22
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (80 bp):
TGACTTTTAGCGGCGGTTTACCAAAAGCGCCGCTATTGCTCTACTTTTAGCGGCGTTTTAGCAAA
AGGCCGCTAATGCTC
Found at i:95845556 original size:39 final size:40
Alignment explanation
Indices: 95845393--95845598 Score: 238
Period size: 41 Copynumber: 5.1 Consensus size: 40
95845383 GTTATATGAC
* * * *
95845393 TTTTAGCGGCG-TTTACCAAAAGCGTCGCTAATGCTCCGAC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTG-T
* * *
95845433 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGAC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTG-T
* *
95845474 TTTTAGCGGCGGTTTACCAAAAGCGCCGCTATTGCTCTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
* *
95845514 TTTTAGCGGCGTTTTAGCAAAAG-GCCGCTATTTCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
**
95845553 TTTTAGCGGCGTTTTTAGTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTATTGCTCTGT
95845593 GTTTTA
1 -TTTTA
95845599 CAATTTTTGC
Statistics
Matches: 148, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 25 0.17
40 57 0.39
41 66 0.45
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
Found at i:95846051 original size:40 final size:40
Alignment explanation
Indices: 95845987--95846063 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
95845977 TTTATACTAA
* * *
95845987 TTTTTTGTTTTGAATTTTTAAATTTATTTTGATAAAATGAG
1 TTTTTTGTTTTCAACTTTTAAATTTA-TTTGACAAAATGAG
*
95846028 TTTTTT-TTTTCAACTTTTGAATTTATTTGACAAAAT
1 TTTTTTGTTTTCAACTTTTAAATTTATTTGACAAAAT
95846064 TTTAAAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 10 0.31
40 16 0.50
41 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (40 bp):
TTTTTTGTTTTCAACTTTTAAATTTATTTGACAAAATGAG
Found at i:95846086 original size:2 final size:2
Alignment explanation
Indices: 95846079--95846104 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95846069 AGTAATTTTC
95846079 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
95846105 TTCTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95846594 original size:125 final size:124
Alignment explanation
Indices: 95846405--95846747 Score: 494
Period size: 125 Copynumber: 2.7 Consensus size: 124
95846395 GAACGAAGAC
* * * *
95846405 AATCTCTTTACCTTCACAATATAT-CAGAATGA-ATCATGTTCTTACCTACCCTAAAATTAAATG
1 AATCTATTTACCTTCACAATA-ATCCATAAT-ATATCATGCTCTTACCTA-CCTAAAATTAGATG
95846468 AATTGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
63 AATTGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
*
95846530 AATCTATTTACCTTCACAATAATCCATTATATATCATGCTCTTACCTATCCTAAAATTAGATGAA
1 AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTA-CCTAAAATTAGATGAA
* *
95846595 TTGATTTAGGTCAACGATTTAAAAAACCCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
65 TTGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
* * * **
95846655 AATCTATTTACCTTCACAATAATCCATAATATAACATGCTCTTATCTACCTTAAACTTAGACAAA
1 AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTACC-TAAAATTAGATGAA
95846720 TTGATTTAGGTCAA-AGATTTAGAAAAAA
65 TTGATTTAGGTCAACA-ATTTA-AAAAAA
95846748 AGGCACCATG
Statistics
Matches: 197, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
124 5 0.03
125 187 0.95
126 5 0.03
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (124 bp):
AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTACCTAAAATTAGATGAAT
TGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
Found at i:95854553 original size:21 final size:21
Alignment explanation
Indices: 95854506--95854553 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
95854496 TACTAACTTT
*
95854506 AAAAGTCAAATTACAAAGGAAC
1 AAAA-TCAAATTACAAAGAAAC
* * *
95854528 TAAATCAAGTTACAAATAAAC
1 AAAATCAAATTACAAAGAAAC
95854549 AAAAT
1 AAAAT
95854554 AAACAAAATG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.19
Consensus pattern (21 bp):
AAAATCAAATTACAAAGAAAC
Found at i:95857105 original size:6 final size:6
Alignment explanation
Indices: 95857096--95857134 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
95857086 TGGGTGCTAC
* *
95857096 TGCTGG TGCTGG TGCTGG TGCCGG TGCTGG TGCCGG TGC
1 TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGC
95857135 CGTTGAGGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.23, G:0.49, T:0.28
Consensus pattern (6 bp):
TGCTGG
Found at i:95857111 original size:18 final size:18
Alignment explanation
Indices: 95857088--95857128 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
95857078 TGAACTAGTG
*
95857088 GGTGCTACTGCTGGTGCT
1 GGTGCTACTGCCGGTGCT
**
95857106 GGTGCTGGTGCCGGTGCT
1 GGTGCTACTGCCGGTGCT
95857124 GGTGC
1 GGTGC
95857129 CGGTGCCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.22, G:0.46, T:0.29
Consensus pattern (18 bp):
GGTGCTACTGCCGGTGCT
Found at i:95857121 original size:12 final size:12
Alignment explanation
Indices: 95857096--95857134 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
95857086 TGGGTGCTAC
*
95857096 TGCTGGTGCTGG
1 TGCTGGTGCCGG
95857108 TGCTGGTGCCGG
1 TGCTGGTGCCGG
95857120 TGCTGGTGCCGG
1 TGCTGGTGCCGG
95857132 TGC
1 TGC
95857135 CGTTGAGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.49, T:0.28
Consensus pattern (12 bp):
TGCTGGTGCCGG
Found at i:95859182 original size:14 final size:14
Alignment explanation
Indices: 95859163--95859189 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95859153 TAAAATTAAG
95859163 ATAACATATATTTA
1 ATAACATATATTTA
95859177 ATAACATATATTT
1 ATAACATATATTT
95859190 TTGGGAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAACATATATTTA
Found at i:95859599 original size:33 final size:32
Alignment explanation
Indices: 95859540--95859654 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
95859530 TCAACATAAG
* * *
95859540 TGATTGGAACATCTATCAT-GGAAGCTTCATTAA
1 TGATTGGAACATCTAT--TGGGCAGCTTCATCAT
**
95859573 TGATTGGAACATCTATTGGTGCAGCTTTGTCAT
1 TGATTGGAACATCTATTGG-GCAGCTTCATCAT
* *
95859606 TTATTGCAACATCTATTAGGGCAGCTTCATCAT
1 TGATTGGAACATCTATT-GGGCAGCTTCATCAT
95859639 TGATTGGAACATCTAT
1 TGATTGGAACATCTAT
95859655 CGGGGTCGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 64 0.94
34 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (32 bp):
TGATTGGAACATCTATTGGGCAGCTTCATCAT
Found at i:95862856 original size:2 final size:2
Alignment explanation
Indices: 95862849--95862879 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95862839 TTTCCAAGGA
95862849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95862880 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95862884 original size:2 final size:2
Alignment explanation
Indices: 95862879--95862917 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
95862869 ATATATATAT
95862879 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
95862918 AAGAAGGGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95864325 original size:101 final size:101
Alignment explanation
Indices: 95864150--95864353 Score: 390
Period size: 101 Copynumber: 2.0 Consensus size: 101
95864140 CATAACTTAT
*
95864150 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTGGAGTTAAACTAGCTTCCAAAAGTAAAT
1 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
95864215 TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
66 TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
95864251 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
1 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
*
95864316 TTGCTATTAATTTAAGTGTTGATTTACAAGTAAACA
66 TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
95864352 AT
1 AT
95864354 AGCTTATAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (101 bp):
ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
Found at i:95866742 original size:21 final size:21
Alignment explanation
Indices: 95866724--95866765 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
95866714 AATTTTGATC
95866724 TTTCTAAATCACTAGTTGACT
1 TTTCTAAATCACTAGTTGACT
95866745 TTTCTAAATCACTAGTTGACT
1 TTTCTAAATCACTAGTTGACT
95866766 AAGTATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTCTAAATCACTAGTTGACT
Found at i:95867121 original size:12 final size:12
Alignment explanation
Indices: 95867104--95867129 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95867094 CGAAATAGGG
95867104 TTTTAGCGGCGT
1 TTTTAGCGGCGT
95867116 TTTTAGCGGCGT
1 TTTTAGCGGCGT
95867128 TT
1 TT
95867130 GAATAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:95867861 original size:22 final size:21
Alignment explanation
Indices: 95867836--95867886 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
95867826 CCCTAAATTA
95867836 TAAAACTTAAAACTATAAACCC
1 TAAAAC-TAAAACTATAAACCC
* * *
95867858 TAAATCTAAAACCATAAAACC
1 TAAAACTAAAACTATAAACCC
*
95867879 TTAAACTA
1 TAAAACTA
95867887 TAGACAACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAACTAAAACTATAAACCC
Found at i:95867969 original size:12 final size:12
Alignment explanation
Indices: 95867952--95867984 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
95867942 AGAATAAATA
95867952 ATATATATATGG
1 ATATATATATGG
*
95867964 ATATATATATTG
1 ATATATATATGG
95867976 ATATATATA
1 ATATATATA
95867985 GATATTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (12 bp):
ATATATATATGG
Found at i:95873390 original size:24 final size:24
Alignment explanation
Indices: 95873363--95873430 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
95873353 ATTATTATTG
*
95873363 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
95873387 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
95873411 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
95873431 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:95873651 original size:15 final size:15
Alignment explanation
Indices: 95873607--95873662 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
95873597 AATGACATGT
95873607 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
95873623 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
95873636 ATATTATTTAATTAA
1 ATATTATTTAATTAA
95873651 ATATTATTTAAT
1 ATATTATTTAAT
95873663 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:95873779 original size:9 final size:9
Alignment explanation
Indices: 95873767--95873992 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
95873757 TATTTGATAT
*
95873767 CATAATTTA
1 CATAACTTA
95873776 CATAACTTA
1 CATAACTTA
* *
95873785 TATAACATA
1 CATAACTTA
*
95873794 TATAACTTA
1 CATAACTTA
95873803 CATAACTTA
1 CATAACTTA
* *
95873812 TATAACATA
1 CATAACTTA
95873821 CATAACTTA
1 CATAACTTA
*
95873830 TATAACTTA
1 CATAACTTA
*
95873839 TATAACTTA
1 CATAACTTA
* *
95873848 GATAA-ATA
1 CATAACTTA
*
95873856 TATAACTTA
1 CATAACTTA
95873865 CATAACTTA
1 CATAACTTA
95873874 CATAATACTTA
1 CAT-A-ACTTA
* *
95873885 AATATATTTTATA
1 CATA-A--CT-TA
*
95873898 TCATAATTTA
1 -CATAACTTA
95873908 CATAACTTA
1 CATAACTTA
95873917 CATAACTTA
1 CATAACTTA
*
95873926 TATAACTTA
1 CATAACTTA
* *
95873935 GATAA-ATA
1 CATAACTTA
* *
95873943 TATAATTTA
1 CATAACTTA
*
95873952 CATAA-ATA
1 CATAACTTA
* * *
95873960 TATATCATA
1 CATAACTTA
*
95873969 TCATAAATTA
1 -CATAACTTA
95873979 CATAACTTA
1 CATAACTTA
95873988 CATAA
1 CATAA
95873993 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:95873789 original size:18 final size:18
Alignment explanation
Indices: 95873767--95873992 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
95873757 TATTTGATAT
* *
95873767 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
95873785 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
95873803 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
95873821 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
95873839 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
95873856 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
95873874 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
95873898 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
95873917 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
95873935 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
95873952 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
95873969 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
95873988 CATAA
1 CATAA
95873993 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:95873980 original size:114 final size:114
Alignment explanation
Indices: 95873795--95874016 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
95873785 TATAACATAT
* * *
95873795 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
95873860 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
95873909 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
95873972 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
95874017 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:95887431 original size:73 final size:74
Alignment explanation
Indices: 95887309--95887553 Score: 249
Period size: 73 Copynumber: 3.1 Consensus size: 74
95887299 GAGAGGTGAG
* * * * *
95887309 ATTTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGC
1 ATTTTCAATTACTGTTTGTC-AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGAC
95887374 ACGCTGAGGT
65 ACGCTGAGGT
95887384 ATTTTCAATTACTGTTTGTC-AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 ATTTTCAATTACTGTTTGTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
95887448 TGCTGAGGT
66 CGCTGAGGT
* ** * *
95887457 ATTTTCGATTTTTGTTTTTTCAATTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT
1 ATTTTCAATTACTG-TTTGTC-A---A--------AAAATCAACTCATACTGCGAGAGGTGAGTT
*
95887522 GAGCCTCAGGACACGCTGAGAT
53 GAGCCTCAGGACACGCTGAGGT
95887544 ATTTTCAATT
1 ATTTTCAATT
95887554 TTTGTTTTTC
Statistics
Matches: 142, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
73 59 0.42
74 5 0.04
75 19 0.13
79 1 0.01
87 58 0.41
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (74 bp):
ATTTTCAATTACTGTTTGTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGT
Found at i:95887532 original size:87 final size:88
Alignment explanation
Indices: 95887385--95887895 Score: 488
Period size: 87 Copynumber: 5.8 Consensus size: 88
95887375 CGCTGAGGTA
* * *
95887385 TTTTCAA-TTACTGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
1 TTTTCAATTTA-TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACA
*
95887448 TGCTGAGGTATTTTCGATTTTTGTT
65 TGCTGAGGTATTTTCAATTTTTG-T
* *
95887473 TTTTCAATTTATGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACAT
*
95887536 GCTGAGATATTTTCAATTTTTGT
66 GCTGAGGTATTTTCAATTTTTGT
* * *
95887559 TTTTCAATGTATATTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGTTC
1 TTTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-T-
* * *
95887623 ACGTGCTGAGCTATTTTCAATTTCTATTT
62 ACATGCTGAGGTATTTTCAATTT-T-TGT
*
95887652 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-AC
** ** *
95887717 ATGCCAAGGTATTTTCAAAATCTGT
64 ATGCTGAGGTATTTTCAATTTTTGT
* * * * *
95887742 TTTGCAAATTT-T-CTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCG
1 TTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-T-A
* * *
95887804 CGTGCTGAGCTATTTTCAATTTCTG-
63 CATGCTGAGGTATTTTCAATTTTTGT
* * * * * **
95887829 TTTT-AATGTCTGTTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATCA
1 TTTTCAATTTATATTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-T-A
95887891 CATGC
63 CATGC
95887896 CGAGTAAAGA
Statistics
Matches: 360, Mismatches: 47, Indels: 33
0.82 0.11 0.08
Matches are distributed among these distances:
85 4 0.01
86 24 0.07
87 107 0.30
88 72 0.20
89 43 0.12
90 7 0.02
91 25 0.07
92 56 0.16
93 22 0.06
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (88 bp):
TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACAT
GCTGAGGTATTTTCAATTTTTGT
Found at i:95887657 original size:16 final size:16
Alignment explanation
Indices: 95887636--95887669 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
95887626 TGCTGAGCTA
*
95887636 TTTTCAATTTCTATTT
1 TTTTCAATTTATATTT
95887652 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
95887668 TT
1 TT
95887670 CAAAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:95887668 original size:14 final size:16
Alignment explanation
Indices: 95887636--95887672 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
95887626 TGCTGAGCTA
*
95887636 TTTTCAATTTCTATTT
1 TTTTCAATTTCTATAT
95887652 TTTTCAA-TT-TATAT
1 TTTTCAATTTCTATAT
95887666 TTTTCAA
1 TTTTCAA
95887673 AAAATCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTCAATTTCTATAT
Found at i:95887798 original size:180 final size:175
Alignment explanation
Indices: 95887402--95887832 Score: 541
Period size: 180 Copynumber: 2.4 Consensus size: 175
95887392 TTACTGTTTG
* * * * * *
95887402 TCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG--ACATGCTGAGGTATTTTCGA
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGTCACGTGCTGAGCTATTTTCAA
* *
95887465 TTT-TTGTTTTTTCAATTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 TTTCTT-TTTTTTCAATTTATATTTTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC
** ** * *
95887529 AGGACACGCTGAGATATTTTCAATTTTTGTTTTTCAATGTATATTTT
129 AGGACACGCCAAGATATTTTCAAAATCTGTTTTGCAATGTATATTTT
95887576 TCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGTTCACGTGCTGAGCTATTTTC
1 TC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG-TCACGTGCTGAGCTATTTTC
95887641 AATTTCTATTTTTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAG
63 AATTTCT-TTTTTTTCAATTTATATTTTTC--AAAATCAACTCATATTGCGAAAGGTGAGTTGAG
* *
95887706 CCTCAGGTCACATGCCAAGGTATTTTCAAAATCTGTTTTGCAAAT-T-T-TCTTT
125 CCTCAGG--ACACGCCAAGATATTTTCAAAATCTGTTTTGC-AATGTATAT-TTT
*
95887758 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCGTGCTGAGCTATTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG-TCACGTGCTGAGCTATTTTCAA
*
95887823 TTTCTGTTTT
65 TTTCTTTTTT
95887833 AATGTCTGTT
Statistics
Matches: 225, Mismatches: 19, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
174 2 0.01
175 2 0.01
176 35 0.16
178 20 0.09
179 25 0.11
180 67 0.30
181 40 0.18
182 6 0.03
183 25 0.11
184 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (175 bp):
TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGTCACGTGCTGAGCTATTTTCAAT
TTCTTTTTTTTCAATTTATATTTTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAG
GACACGCCAAGATATTTTCAAAATCTGTTTTGCAATGTATATTTT
Found at i:95891916 original size:11 final size:11
Alignment explanation
Indices: 95891873--95891924 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
95891863 ATTCAAATAA
95891873 ATTTTA-TTTT
1 ATTTTATTTTT
* *
95891883 ATTTCTCTTTTA
1 ATTT-TATTTTT
*
95891895 ATTTAATTTTT
1 ATTTTATTTTT
95891906 ATTTTATTTTT
1 ATTTTATTTTT
*
95891917 AGTTTATT
1 ATTTTATT
95891925 ATGATGTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
10 4 0.12
11 22 0.67
12 7 0.21
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:95892571 original size:88 final size:87
Alignment explanation
Indices: 95892411--95892578 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 87
95892401 CTTGAATTGA
* * **
95892411 ATTTATTTTAATTTTGGCCCTAGGATTTAGATTTATGTTTTAATAGATTTTATTAGATTTTAGTT
1 ATTTATTTTAATTTTAGCCCTAGGATTTAGATTTATGCTTTAATAGATTCAATTAGATTTTAGTT
95892476 CAAAATTTAGGTTATGGATCAG
66 CAAAATTTAGGTTATGGATCAG
* * * *
95892498 ATTTATTTTATTTTTAGCCCTATGATTTATATTT-TGGGCTTTAATATATTCAATTAGATTTTAG
1 ATTTATTTTAATTTTAGCCCTAGGATTTAGATTTAT--GCTTTAATAGATTCAATTAGATTTTAG
* *
95892562 TTTAGAATTTAGGTTAT
64 TTCAAAATTTAGGTTAT
95892579 AAATATTCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 30 0.43
88 38 0.55
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (87 bp):
ATTTATTTTAATTTTAGCCCTAGGATTTAGATTTATGCTTTAATAGATTCAATTAGATTTTAGTT
CAAAATTTAGGTTATGGATCAG
Found at i:95895584 original size:12 final size:12
Alignment explanation
Indices: 95895567--95895594 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
95895557 AACAAAACAG
95895567 GTTTTTAGCGGC
1 GTTTTTAGCGGC
95895579 GTTTTTAGCGGC
1 GTTTTTAGCGGC
95895591 GTTT
1 GTTT
95895595 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:95895646 original size:39 final size:40
Alignment explanation
Indices: 95895600--95895687 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 40
95895590 CGTTTGAATG
95895600 AAAAACGCCACTAAAGAACGAGCATTAGCAGCGC-TTTTC
1 AAAAACGCCACTAAAGAACGAGCATTAGCAGCGCTTTTTC
* ** * *
95895639 AAAAACGCCGCTAAAGATTGAGTATTAGCAGCGCTTTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCAGCGCTTTTTC
95895679 AAAAACGCC
1 AAAAACGCC
95895688 GCTATATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 30 0.70
40 13 0.30
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCAGCGCTTTTTC
Found at i:95896179 original size:49 final size:49
Alignment explanation
Indices: 95896126--95896224 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
95896116 AATTGTAAAT
95896126 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
95896175 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
95896224 G
1 G
95896225 GTTTACGATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.46
Consensus pattern (49 bp):
GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
Found at i:95896369 original size:15 final size:15
Alignment explanation
Indices: 95896347--95896387 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
95896337 AGTTTTAGGG
95896347 GGTT-GGGGTTTAAA
1 GGTTAGGGGTTTAAA
*
95896361 GTTTAGGGG-TTAAA
1 GGTTAGGGGTTTAAA
*
95896375 GGTTAAGGGTTTA
1 GGTTAGGGGTTTA
95896388 TGTTTTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (15 bp):
GGTTAGGGGTTTAAA
Found at i:95913207 original size:33 final size:33
Alignment explanation
Indices: 95913165--95913246 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
95913155 TCAACATAAG
95913165 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* *
95913198 TGATTGGAACATCTATCGGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
95913231 TGATTGGAACATCTAT
1 TGATTGGAACATCTAT
95913247 GGAGGCAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAA
Found at i:95913260 original size:33 final size:33
Alignment explanation
Indices: 95913165--95913264 Score: 132
Period size: 33 Copynumber: 3.0 Consensus size: 33
95913155 TCAACATAAG
* *
95913165 TGATTGGAACATCTAT-CAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATGGA-GGCAGCTTCATCAT
95913198 TGATTGGAACATCTATCGG-GGCAGCTTCATCAT
1 TGATTGGAACATCTAT-GGAGGCAGCTTCATCAT
**
95913231 TGATTGGAACATCTATGGAGGCAATTTCATCAT
1 TGATTGGAACATCTATGGAGGCAGCTTCATCAT
95913264 T
1 T
95913265 CTGTTCAACT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 2 0.03
33 58 0.97
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (33 bp):
TGATTGGAACATCTATGGAGGCAGCTTCATCAT
Found at i:95938832 original size:68 final size:70
Alignment explanation
Indices: 95938760--95938957 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
95938750 ACACCCTGTA
* * * *
95938760 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
95938822 ATAAAT
65 ATAAAT
*
95938828 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
95938893 ATAAAT
65 ATAAAT
*
95938899 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
95938958 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:95938871 original size:41 final size:41
Alignment explanation
Indices: 95938826--95938943 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
95938816 TGAAAGATAA
95938826 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
95938867 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
95938897 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
95938938 ATGTAG
1 ATGTAG
95938944 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:95938883 original size:71 final size:71
Alignment explanation
Indices: 95938794--95938957 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
95938784 GAGATGTATC
95938794 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
95938859 AGGACA
66 AGGACA
95938865 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
95938930 AGGACA
66 AGGACA
95938936 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
95938958 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:95944970 original size:40 final size:40
Alignment explanation
Indices: 95944911--95945118 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
95944901 CGGAATACAA
* * *
95944911 CCGGATATAACCACATGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
95944951 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
95944991 CCAGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
95945031 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTCAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
95945071 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
95945111 CCGGATAT
1 CCGGATAT
95945119 CATTCAATTG
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.01
40 133 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:95954325 original size:29 final size:29
Alignment explanation
Indices: 95954252--95954325 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
95954242 GCATTTTACC
* *
95954252 GATTTGGCTTCAGACCATGCATATGGGAT
1 GATTTGGCTTCAGGCCATGCATATCGGAT
*
95954281 GATTTGGCTTCGGGCCATGCATATCGGAT
1 GATTTGGCTTCAGGCCATGCATATCGGAT
*
95954310 GATTTGGCTCCAGGCC
1 GATTTGGCTTCAGGCC
95954326 TTGATAATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (29 bp):
GATTTGGCTTCAGGCCATGCATATCGGAT
Found at i:95963366 original size:21 final size:21
Alignment explanation
Indices: 95963340--95963379 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
95963330 CTTGCGTTTG
*
95963340 TTCATT-TTTCCCTCTATTTTC
1 TTCATTCTTTCACT-TATTTTC
95963361 TTCATTCTTTCACTTATTT
1 TTCATTCTTTCACTTATTT
95963380 CATGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (21 bp):
TTCATTCTTTCACTTATTTTC
Found at i:95972527 original size:34 final size:34
Alignment explanation
Indices: 95972450--95972546 Score: 104
Period size: 34 Copynumber: 2.9 Consensus size: 34
95972440 TTATGTTAAT
* * *
95972450 GGGCTTAGGCCCAAACTGCTACTGTTATTGAAAC
1 GGGCTCAGGCCCAAACTGCTACTGTTACTAAAAC
** * *
95972484 GGGGACAGGCTCAGACTGCTACTGTTACTAAAAC
1 GGGCTCAGGCCCAAACTGCTACTGTTACTAAAAC
* * *
95972518 GGGCTCAGGCCCATATTGCTACCGTTACT
1 GGGCTCAGGCCCAAACTGCTACTGTTACT
95972547 GAAATGGACT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (34 bp):
GGGCTCAGGCCCAAACTGCTACTGTTACTAAAAC
Found at i:95976172 original size:23 final size:23
Alignment explanation
Indices: 95976154--95976267 Score: 142
Period size: 23 Copynumber: 4.9 Consensus size: 23
95976144 TTAGCTCGTA
95976154 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
* * * *
95976177 GGAGCTTACCGTTTCAGCTTGA-A
1 AGAGCTTACTGTTTCAGC-TCATT
*
95976200 AGAGCTTACTG-TTCATCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
95976222 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
95976245 AGAGCTTACTGTTCATCAGCTCA
1 AGAGCTTACTGTT--TCAGCTCA
95976268 AGAGGAGCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
21 2 0.03
22 16 0.21
23 48 0.63
24 2 0.03
25 8 0.11
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCATT
Found at i:95976230 original size:45 final size:45
Alignment explanation
Indices: 95976146--95976261 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
95976136 TAACTGATTT
* * *
95976146 AGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGTTTC
1 AGCTCATAAGAGCTTACTG-TTCATCTCATTAGAGCTTACCGTTTC
* *
95976192 AGCTTGA-AAGAGCTTACTGTTCATCTCATTAGAGCTTACTGTTTC
1 AGC-TCATAAGAGCTTACTGTTCATCTCATTAGAGCTTACCGTTTC
*
95976237 AGCTCATTAGAGCTTACTGTTCATC
1 AGCTCATAAGAGCTTACTGTTCATC
95976262 AGCTCAAGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
44 2 0.03
45 43 0.70
46 15 0.25
47 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (45 bp):
AGCTCATAAGAGCTTACTGTTCATCTCATTAGAGCTTACCGTTTC
Found at i:95978497 original size:17 final size:19
Alignment explanation
Indices: 95978455--95978498 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
95978445 ATGAAATTTT
*
95978455 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
95978474 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
95978492 AA-TATTA
1 AATTATTA
95978499 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:95980316 original size:28 final size:28
Alignment explanation
Indices: 95980284--95980351 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
95980274 GCGTAGATCA
95980284 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
95980312 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
95980340 CG-AA-TACCCCTA
1 CGAAATTACCCCTA
95980352 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 8 0.20
27 2 0.05
28 30 0.75
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:95982754 original size:17 final size:19
Alignment explanation
Indices: 95982712--95982755 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
95982702 ATGAAATTTT
*
95982712 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
95982731 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
95982749 AA-TATTA
1 AATTATTA
95982756 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:95984579 original size:28 final size:28
Alignment explanation
Indices: 95984547--95984633 Score: 174
Period size: 28 Copynumber: 3.1 Consensus size: 28
95984537 GCGTAGATCA
95984547 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
95984575 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
95984603 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
95984631 CGA
1 CGA
95984634 TATAACCTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:95996630 original size:50 final size:50
Alignment explanation
Indices: 95996569--95996904 Score: 295
Period size: 50 Copynumber: 6.7 Consensus size: 50
95996559 TTCGGGATAT
* * *
95996569 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTTG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAATCTGG
* * * * * * ** *
95996619 TACAC-TCAGTAGCTTCCAATTAGTACTGCACATGTGACTTAA-CCATCTGA
1 TACACAT-AGTAGCCTGCACTTAGTACTACACATGCGAC-CAATTAATCTGG
* * * * *
95996669 TACACGTAGTAACCTGCACTTAGTACCTACACATGTGATCAAAGTTAA-CGGG
1 TACACATAGTAGCCTGCACTTAGTA-CTACACATGCGA-CCAA-TTAATCTGG
* * *
95996721 TACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATTAATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAATCTGG
** * * *
95996771 TACATGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAAT-GGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTAATCTGG
* * * *
95996822 TACGCATAGTAGCCTGCA-TTAGTACTACACGTTCGACCAATGAATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAATCTGG
* *
95996871 TACACGTAGTAGCCTGCACTTAGTACTGCACATG
1 TACACATAGTAGCCTGCACTTAGTACTACACATG
95996905 TGACTCACAA
Statistics
Matches: 224, Mismatches: 50, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
48 4 0.02
49 26 0.12
50 119 0.53
51 44 0.20
52 30 0.13
53 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAATCTGG
Found at i:95996890 original size:100 final size:101
Alignment explanation
Indices: 95996663--95996907 Score: 375
Period size: 100 Copynumber: 2.4 Consensus size: 101
95996653 TGACTTAACC
* *
95996663 ATCTGATACACGTAGTAACCTGCACTTAGTACCTACACATGTGATCAAAGTTAACGGGTACGCAT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTA-CTACACATGTGATCAAAGTTAACGGGTACGCAT
* * *
95996728 AGTAGCCTGCACTTAGTACTACATATGCGACCTATTA
65 AGTAGCCTGCACTTAGTACTACACATGCGACCAATGA
* * *
95996765 ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAATGGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCATA
* *
95996830 GTAGCCTGCA-TTAGTACTACACGTTCGACCAATGA
66 GTAGCCTGCACTTAGTACTACACATGCGACCAATGA
*
95996865 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACATGTGA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA
95996908 CTCACAATAG
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
100 61 0.47
101 42 0.32
102 28 0.21
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (101 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCATA
GTAGCCTGCACTTAGTACTACACATGCGACCAATGA
Found at i:95999331 original size:33 final size:33
Alignment explanation
Indices: 95999289--95999357 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
95999279 TGTGGATATC
95999289 TATACATAGATTTAGGTTATTTCTTGTACATAG
1 TATACATAGATTTAGGTTATTTCTTGTACATAG
*
95999322 TATACATAGATTTAGGTTATTTCTTGTACATGG
1 TATACATAGATTTAGGTTATTTCTTGTACATAG
95999355 TAT
1 TAT
95999358 TTAGGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (33 bp):
TATACATAGATTTAGGTTATTTCTTGTACATAG
Found at i:96007382 original size:27 final size:27
Alignment explanation
Indices: 96007366--96007614 Score: 299
Period size: 27 Copynumber: 9.2 Consensus size: 27
96007356 CGACTTGTAA
96007366 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
96007393 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
96007420 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
96007447 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
96007474 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
96007501 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
96007528 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
96007555 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
96007582 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
96007609 AATTAC
1 AATTAC
96007615 TAAAATACCC
Statistics
Matches: 196, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.02
27 188 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:96007424 original size:54 final size:54
Alignment explanation
Indices: 96007366--96007614 Score: 390
Period size: 54 Copynumber: 4.6 Consensus size: 54
96007356 CGACTTGTAA
* *
96007366 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
96007420 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
96007474 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* *
96007528 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
96007582 AATTACCGTTTTACCTTCAATTTACAGAATTAC
1 AATTACTATTTTACCCTCGATTTACAGAATTAC
96007615 TAAAATACCC
Statistics
Matches: 177, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 177 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:96007616 original size:81 final size:80
Alignment explanation
Indices: 96007366--96007614 Score: 349
Period size: 81 Copynumber: 3.1 Consensus size: 80
96007356 CGACTTGTAA
96007366 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAGTTTACAGAATTACTGTTT
*
96007431 TACCCTCGATTTACAG
65 TACCCTCAATTTACAG
* *
96007447 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTAC-ATTTTACCCTCAG-TTTACAGAATTACTGT
* *
96007510 TTTCCCCTCAGTTTACAG
63 TTTACCCTCAATTTACAG
* * * *
96007528 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAGTTTACAGAATTACTGTTT
*
96007593 TACCTTCAATTTACAG
65 TACCCTCAATTTACAG
96007609 AATTAC
1 AATTAC
96007615 TAAAATACCC
Statistics
Matches: 148, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.02
81 142 0.96
82 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACATTTTACCCTCAGTTTACAGAATTACTGTTTT
ACCCTCAATTTACAG
Found at i:96007632 original size:27 final size:27
Alignment explanation
Indices: 96007609--96007759 Score: 212
Period size: 27 Copynumber: 5.6 Consensus size: 27
96007599 CAATTTACAG
*
96007609 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
96007636 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
96007663 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
96007690 AATTACCAAAATACCCCTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
96007717 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
96007744 AATTACCGAAATACCC
1 AATTACCAAAATACCC
96007760 CTGTAGGGTA
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:96007651 original size:81 final size:81
Alignment explanation
Indices: 96007366--96007643 Score: 333
Period size: 81 Copynumber: 3.4 Consensus size: 81
96007356 CGACTTGTAA
* * *
96007366 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACTATTTTACCCTCGGTTTATAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
96007431 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
** * * * *
96007447 AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGTT
1 AATTACTATTTTACCCTCGGTTTATAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGTT
* *
96007511 TTCCCCTCAGTTTACAG
65 TTACCCTCAATTTACAG
* * * *
96007528 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACTATTTTACCCTCGGTTTATAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
96007593 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
*** * * *
96007609 AATTACTAAAATACCCTTGGTTTATAAAATCACCA
1 AATTACTATTTTACCCTCGGTTTATAGAATTACCA
96007644 AAATACCCCT
Statistics
Matches: 165, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 163 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACTATTTTACCCTCGGTTTATAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:96007776 original size:54 final size:54
Alignment explanation
Indices: 96007609--96007762 Score: 263
Period size: 54 Copynumber: 2.9 Consensus size: 54
96007599 CAATTTACAG
*
96007609 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
96007663 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTATAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
96007717 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCCCTG
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTG
96007763 TAGGGTAGAA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:96013655 original size:5 final size:5
Alignment explanation
Indices: 96013645--96013669 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96013635 CAAATGGGCC
96013645 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
96013670 CACTATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:96016860 original size:34 final size:34
Alignment explanation
Indices: 96016810--96016938 Score: 141
Period size: 34 Copynumber: 3.8 Consensus size: 34
96016800 TAAGGCTTTT
* * *
96016810 CAGTAACAATTAGGGCCTTAGCCCATTTCAGTAA
1 CAGTAGCAATTTGGGCCTAAGCCCATTTCAGTAA
* *
96016844 CGGTAGCAATTTGGGCCTAAGCCCGTTTCAGTAA
1 CAGTAGCAATTTGGGCCTAAGCCCATTTCAGTAA
* * * * * * *
96016878 TAGTAACAGTCTGGGCCTGATCCTATTTCAGTAA
1 CAGTAGCAATTTGGGCCTAAGCCCATTTCAGTAA
*
96016912 CAGTAGCAATTTGGCCCTAAGCCCATT
1 CAGTAGCAATTTGGGCCTAAGCCCATT
96016939 AACATATTAG
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (34 bp):
CAGTAGCAATTTGGGCCTAAGCCCATTTCAGTAA
Found at i:96019493 original size:40 final size:40
Alignment explanation
Indices: 96019385--96019594 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
96019375 CGGGATTTAA
* * * * *
96019385 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
96019425 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96019465 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96019505 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96019545 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96019585 CCGGATATAT
1 CCGGATATAT
96019595 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:96027627 original size:40 final size:40
Alignment explanation
Indices: 96027519--96027728 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
96027509 CGGGATTTAA
* * * * *
96027519 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
96027559 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96027599 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96027639 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96027679 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
96027719 CCGGATATAT
1 CCGGATATAT
96027729 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:96036060 original size:19 final size:19
Alignment explanation
Indices: 96036029--96036084 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
96036019 CATCTATCAG
96036029 GGAAGCTTCATCAATGATT
1 GGAAGCTTCATCAATGATT
96036048 GGAA-CTTCTATC-A-G---
1 GGAAGCTTC-ATCAATGATT
96036062 GGAAGCTTCATCAATGATT
1 GGAAGCTTCATCAATGATT
96036081 GGAA
1 GGAA
96036085 CATCTATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
16 1 0.03
17 1 0.03
18 5 0.17
19 11 0.37
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (19 bp):
GGAAGCTTCATCAATGATT
Found at i:96036340 original size:33 final size:33
Alignment explanation
Indices: 96035951--96036338 Score: 524
Period size: 33 Copynumber: 11.8 Consensus size: 33
96035941 AAGTGATTCA
96035951 AACATCTATCAGGGCAGCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
** * *
96035984 AACATCTATTGGGGCAGTTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
*
96036017 AACATCTATCAGGGAAGCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* *
96036050 AACTTCTATCAGGGAAGCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * *
96036083 AACATCTATCGGGGCAACTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* *
96036116 AACATCTATCAGGGCAGTTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
** *
96036149 AACATCTATCAGGGCAGCTTCGCCAATGGTTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * *
96036182 AACATCTATTAGGGTAGCTTCATCAATGATTAG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * * *
96036215 AACATCTATCGGGGCAGTTTCACCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
*
96036248 AACATCTATCAGGGCATCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * * *
96036281 AACATCTATCGGGGCAACTTCATCATTAATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
*
96036314 AACATCTATCAGGGTAGCTTCATCA
1 AACATCTATCAGGGCAGCTTCATCA
96036339 TTTTGTTTGA
Statistics
Matches: 307, Mismatches: 48, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 307 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (33 bp):
AACATCTATCAGGGCAGCTTCATCAATGATTGG
Found at i:96039584 original size:13 final size:13
Alignment explanation
Indices: 96039566--96039590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96039556 GGGTACGTAA
96039566 TAGATATATGTAT
1 TAGATATATGTAT
96039579 TAGATATATGTA
1 TAGATATATGTA
96039591 CTTTATGAAA
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TAGATATATGTAT
Found at i:96044053 original size:20 final size:21
Alignment explanation
Indices: 96044028--96044067 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
96044018 TCTTGAAAAC
*
96044028 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
96044048 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
96044068 TCGTTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:96045297 original size:49 final size:48
Alignment explanation
Indices: 96045172--96045353 Score: 163
Period size: 47 Copynumber: 3.8 Consensus size: 48
96045162 AGGGTGTAAT
* * *
96045172 GCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCTATCAAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG
* *
96045220 TC-GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAAG
* * * * **
96045268 GCTGACGCCATGTCCCAAACATGGTCTTACATTGGCTC-TCACATCTCTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCA-ATC-AAG
* * * *
96045317 TACCGATGCCATGTCCCAGACATGGTCATACATTGAC
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGAC
96045354 AGATCTCGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 3 0.03
47 33 0.30
48 10 0.09
49 33 0.30
50 30 0.28
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG
Found at i:96045422 original size:46 final size:47
Alignment explanation
Indices: 96045364--96045534 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 47
96045354 AGATCTCGTA
*
96045364 GCCGATTCATGT-CCATGACATGTCTTACACTGGCT-TACATCTTGAG
1 GCCGATGCATGTCCCATGACATGTCTTACACTGGCTCT-CATCTTGAG
* * * ** *
96045410 GCCGATGCATGTCCCAT-ACATGTCTTACAGTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCATGACATGTCTTACACTGGCTCTCATCTTGAG
* * * ** *
96045456 GCCGATGCCACGTCCTA-GACATGGTCTTACATTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCATGACAT-GTCTTACACTGGCTCTCATCTTGAG
96045504 GCCGATGCATGTCCCA-GACATGTCTTACACT
1 GCCGATGCATGTCCCATGACATGTCTTACACT
96045535 AGCACACAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 48 0.48
47 28 0.28
48 23 0.23
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (47 bp):
GCCGATGCATGTCCCATGACATGTCTTACACTGGCTCTCATCTTGAG
Found at i:96062884 original size:17 final size:17
Alignment explanation
Indices: 96062862--96062901 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
96062852 TTTTGAAAAG
96062862 GAAAACAAATGAATCTT
1 GAAAACAAATGAATCTT
* *
96062879 GAAAACGAATGAGTCTT
1 GAAAACAAATGAATCTT
*
96062896 AAAAAC
1 GAAAAC
96062902 TTAATAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (17 bp):
GAAAACAAATGAATCTT
Found at i:96075438 original size:44 final size:42
Alignment explanation
Indices: 96075388--96075508 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
96075378 ATAGGATTTA
*
96075388 CGATATGTGATTGCGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTGATT-CGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * * *
96075431 CATATATGTGATTCGTGTAAGACCCTATCTGGAATAGTGGCAT
1 C-GATATGTGATTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
96075474 CGATATGTAATTACATGTAAGACCACGTCTGGGAC
1 CGATATGTGATT-CGTGTAAGACCATGTCTGGGAC
96075509 GTTAGCATTG
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
42 9 0.15
43 43 0.69
44 10 0.16
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
CGATATGTGATTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:96081010 original size:142 final size:144
Alignment explanation
Indices: 96080747--96081058 Score: 322
Period size: 142 Copynumber: 2.2 Consensus size: 144
96080737 GATATGTGTG
* * * *
96080747 CTAGTGTAA-AACATGTCTGAGACAT-GCATC-A-GCCACAT-TATGAGAGCCAGTGTAAGACAT
1 CTAGTGTAAGACCATGTCTGAGACATGGCATCGACACCA-ATAGATGAAAGCCAGTGTAAGACAT
* * * * * * * * *
96080807 GTCTAGGACACGCATCGGCCTCGAAATATACAAGCTCGTGTAAGACCTGTCTGTGATATGGCGTT
65 GCCTAGGACACACATCGGCCTCGAAATATACAAACTAGTGTAAAACCTATCTGGGACATGGCATT
*
96080872 -AGCTTGTTATGTG-T-
130 GA-CTT-TGATGTGCTA
* *
96080886 C-AGTGTAAGACC-TGTCTGGGACATGGCATCGACACCAATAGATGAAAGCCAGTGTAAGACCTG
1 CTAGTGTAAGACCATGTCTGAGACATGGCATCGACACCAATAGATGAAAGCCAGTGTAAGACATG
* * *
96080949 CCTGGGACACTACATCGGCCTCGATATATA-AAATTAAGTGTAAAACCTATCTGGGACATGGCAT
66 CCTAGGACAC-ACATCGGCCTCGAAATATACAAACT-AGTGTAAAACCTATCTGGGACATGGCAT
96081013 TGACTTTGATGTGCTA
129 TGACTTTGATGTGCTA
96081029 GCTAGTGTAAGACCATGTCTGAGACATGGC
1 -CTAGTGTAAGACCATGTCTGAGACATGGC
96081059 GCCGGTATCT
Statistics
Matches: 140, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
138 18 0.13
139 8 0.06
140 3 0.02
141 40 0.29
142 44 0.31
143 1 0.01
144 1 0.01
145 11 0.08
146 14 0.10
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (144 bp):
CTAGTGTAAGACCATGTCTGAGACATGGCATCGACACCAATAGATGAAAGCCAGTGTAAGACATG
CCTAGGACACACATCGGCCTCGAAATATACAAACTAGTGTAAAACCTATCTGGGACATGGCATTG
ACTTTGATGTGCTA
Found at i:96082153 original size:33 final size:33
Alignment explanation
Indices: 96082110--96082181 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
96082100 ATATTGCTTA
*
96082110 TTATTTTCATACGGTCTTACTAAGCTATAAAGT
1 TTATTCTCATACGGTCTTACTAAGCTATAAAGT
96082143 TTATTCTCATACGGTCTTACTAAGCTATAAAGT
1 TTATTCTCATACGGTCTTACTAAGCTATAAAGT
96082176 TTATTC
1 TTATTC
96082182 CCTTCCTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (33 bp):
TTATTCTCATACGGTCTTACTAAGCTATAAAGT
Found at i:96083906 original size:29 final size:29
Alignment explanation
Indices: 96083864--96083996 Score: 146
Period size: 29 Copynumber: 4.6 Consensus size: 29
96083854 ATATGATTTA
*
96083864 GGCCTAATGGGCCATATGAAGGTGAATTG
1 GGCCTAGTGGGCCATATGAAGGTGAATTG
96083893 GGCCTAGTGGGCCATATGAAGGTGAATTG
1 GGCCTAGTGGGCCATATGAAGGTGAATTG
** ** *
96083922 GGCCTAGTGGGCCATAAAAACATGAACTG
1 GGCCTAGTGGGCCATATGAAGGTGAATTG
* *
96083951 GGCC-AGATGGGCCATTTGAA--TAAGATTG
1 GGCCTAG-TGGGCCATATGAAGGTGA-ATTG
*
96083979 GGCCTAGTGGGCTATATG
1 GGCCTAGTGGGCCATATG
96083997 CATGTATGTA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.02
28 18 0.20
29 68 0.77
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (29 bp):
GGCCTAGTGGGCCATATGAAGGTGAATTG
Found at i:96088000 original size:24 final size:24
Alignment explanation
Indices: 96087953--96088000 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
96087943 CGGCAAAAAT
* * *
96087953 CGAAATGCTGAAAAGTAGATATGC
1 CGAAAAGCCGAAAAGTAGAAATGC
*
96087977 CGAAAAGCCGAAAAGTCGAAATGC
1 CGAAAAGCCGAAAAGTAGAAATGC
96088001 TAAAAAGTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (24 bp):
CGAAAAGCCGAAAAGTAGAAATGC
Found at i:96090248 original size:93 final size:93
Alignment explanation
Indices: 96090136--96090307 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96090126 CGCCCATAAG
* *
96090136 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96090201 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
96090229 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96090294 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
96090308 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96090304 original size:46 final size:46
Alignment explanation
Indices: 96090129--96090304 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96090119 TGTAACCCGC
* * *
96090129 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
96090175 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96090225 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96090268 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96090305 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96097825 original size:93 final size:93
Alignment explanation
Indices: 96097713--96097884 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96097703 CGCCCATAAG
* *
96097713 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96097778 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
96097806 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96097871 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
96097885 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96097881 original size:46 final size:46
Alignment explanation
Indices: 96097706--96097881 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
96097696 TGTAACCCGC
* * *
96097706 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
96097752 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96097802 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96097845 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96097882 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96107313 original size:52 final size:52
Alignment explanation
Indices: 96107210--96107313 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
96107200 AGAACTCAGT
* *
96107210 CACATGTATTGCATCCATTATAAACTTAGACCAACTCAATGAGCTTGGATGC
1 CACATGTATTGCATCCATTATAAACTTAGACCAACTCAACGAGCTTAGATGC
* * *
96107262 CACATGTATTGCATCCATTATGAACTTGGATCAACTCAACGAG-TTCAGATGC
1 CACATGTATTGCATCCATTATAAACTTAGACCAACTCAACGAGCTT-AGATGC
96107314 TCGCATCCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.04
52 44 0.96
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (52 bp):
CACATGTATTGCATCCATTATAAACTTAGACCAACTCAACGAGCTTAGATGC
Found at i:96109376 original size:29 final size:29
Alignment explanation
Indices: 96109352--96109445 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
96109342 TCGCACACCC
*
96109352 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
96109381 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
96109410 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
96109439 AGTGCCA
1 AGTGCCA
96109446 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:96109377 original size:58 final size:58
Alignment explanation
Indices: 96109314--96109445 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
96109304 GATTTAAGCC
* * * *
96109314 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
96109372 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
96109430 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
96109446 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:96109933 original size:2 final size:2
Alignment explanation
Indices: 96109926--96109956 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96109916 TAATGGCCGA
96109926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96109957 CAATGTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96111623 original size:21 final size:21
Alignment explanation
Indices: 96111597--96111644 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
96111587 TATGCCCTAA
96111597 TTGATTTGGGAAAGATTTCAT
1 TTGATTTGGGAAAGATTTCAT
96111618 TTGATTTGGGAAAGATTTCAT
1 TTGATTTGGGAAAGATTTCAT
96111639 TTGATT
1 TTGATT
96111645 AAGTTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (21 bp):
TTGATTTGGGAAAGATTTCAT
Found at i:96115095 original size:29 final size:28
Alignment explanation
Indices: 96115061--96115164 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
96115051 TACTCGATCA
* *
96115061 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * * *
96115090 CGCACACATATTGCCATACAATTTGAGCT
1 CGCACACTTAGTGCCATA-TATTTAAGCT
*
96115119 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCCATATATTT-AAGCT
*
96115148 TGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
96115165 TCTCGTCACT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.06
29 58 0.94
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:96115855 original size:2 final size:2
Alignment explanation
Indices: 96115848--96115873 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96115838 ATGTGCAAAC
96115848 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
96115874 GTACAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96117726 original size:29 final size:28
Alignment explanation
Indices: 96117692--96117795 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
96117682 TACTCGATCA
* *
96117692 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * *
96117721 CGCACACATAGTGCCATACAATTTGAGCT
1 CGCACACTTAGTGCCATA-TATTTAAGCT
*
96117750 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCCATATATTT-AAGCT
*
96117779 TGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
96117796 TCTCGTCACC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 4 0.06
29 60 0.94
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:96119139 original size:15 final size:16
Alignment explanation
Indices: 96119104--96119140 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
96119094 TTTCTCTTCC
96119104 TACATC-TTTAATTTT
1 TACATCATTTAATTTT
96119119 TA-ATCATTT-ATTTT
1 TACATCATTTAATTTT
96119133 TACATCAT
1 TACATCAT
96119141 GCATTAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (16 bp):
TACATCATTTAATTTT
Found at i:96125722 original size:2 final size:2
Alignment explanation
Indices: 96125715--96125739 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96125705 TCAATCGGAG
96125715 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
96125740 GAGTTCGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96125859 original size:29 final size:28
Alignment explanation
Indices: 96125773--96125876 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
96125763 TACTCGATCA
* *
96125773 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * * *
96125802 CACACACATAGTGCCATACAATTTGAGCT
1 CGCACACTTAGTGCCATA-TATTTAAGCT
*
96125831 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCCATATATTT-AAGCT
*
96125860 TGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
96125877 TCTCGTCACC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.06
29 58 0.94
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:96127207 original size:15 final size:16
Alignment explanation
Indices: 96127172--96127208 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
96127162 TTTCTCTTCC
96127172 TACATC-TTTAATTTT
1 TACATCATTTAATTTT
96127187 TA-ATCATTT-ATTTT
1 TACATCATTTAATTTT
96127201 TACATCAT
1 TACATCAT
96127209 GCATTAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (16 bp):
TACATCATTTAATTTT
Found at i:96132344 original size:35 final size:36
Alignment explanation
Indices: 96132274--96132433 Score: 189
Period size: 35 Copynumber: 4.5 Consensus size: 36
96132264 TTGAGCTAGA
* * * *
96132274 TGAACCTTGTATAATCGGTCATATGTGATGGTATAT
1 TGAACTTTGTATATTCGGCCATATGTGATGATATAT
*
96132310 TGAA-TTTGAATATTCGGCCATATGTGATGATATAT
1 TGAACTTTGTATATTCGGCCATATGTGATGATATAT
** * *
96132345 TGAA-TTTGTATATTCGGTTATATGTGAGGATAAAT
1 TGAACTTTGTATATTCGGCCATATGTGATGATATAT
* * *
96132380 TGAATTTTGTATAATCAGCCATATGTGATGATATAT
1 TGAACTTTGTATATTCGGCCATATGTGATGATATAT
*
96132416 TGAACCTTGTATATTCGG
1 TGAACTTTGTATATTCGG
96132434 TCTTATAGGT
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 60 0.58
36 43 0.42
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (36 bp):
TGAACTTTGTATATTCGGCCATATGTGATGATATAT
Found at i:96154577 original size:6 final size:6
Alignment explanation
Indices: 96154566--96154611 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
96154556 GATTTTAGAA
*
96154566 TTTTAT TTTTAT TTTTAT TTTTAT TTTTTT ATTTTATT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTA-T TTTTAT TT
96154612 CGGTTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 26 0.72
7 9 0.25
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:96162937 original size:78 final size:81
Alignment explanation
Indices: 96162818--96162999 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 81
96162808 TACTCGTTCA
* *
96162818 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
96162881 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
* **
96162897 CATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
96162960 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
96162976 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
96163000 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.54
79 27 0.30
80 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:96162999 original size:40 final size:40
Alignment explanation
Indices: 96162816--96162999 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
96162806 GCTACTCGTT
*
96162816 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
96162856 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
96162896 C-CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
96162934 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
96162975 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96163000 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 25 0.20
39 19 0.15
40 68 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:96171111 original size:39 final size:39
Alignment explanation
Indices: 96170939--96171115 Score: 215
Period size: 40 Copynumber: 4.6 Consensus size: 39
96170929 GCTACTCGTT
* *
96170939 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
96170979 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
96171019 C---TGCCTTC-GG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
96171053 CAAATGCCTTC-GGATCTTAGTCCGGATTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAAC-TCGCA
96171093 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
96171116 CCGGACTCAT
Statistics
Matches: 121, Mismatches: 8, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
34 14 0.12
35 10 0.08
36 2 0.02
37 16 0.13
39 31 0.26
40 47 0.39
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:96179537 original size:76 final size:81
Alignment explanation
Indices: 96179426--96179605 Score: 239
Period size: 76 Copynumber: 2.3 Consensus size: 81
96179416 TACTCGTTCA
* *
96179426 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
96179489 ATTTA-TAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
96179504 -ATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
96179566 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
96179582 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
96179606 CATCATTCGA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
75 3 0.03
76 45 0.51
77 15 0.17
78 5 0.06
79 10 0.11
80 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:96179605 original size:40 final size:40
Alignment explanation
Indices: 96179424--96179605 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
96179414 GCTACTCGTT
*
96179424 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
96179464 CAAATGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
96179503 C--ATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
96179540 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
96179581 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96179606 CATCATTCGA
Statistics
Matches: 125, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
36 13 0.10
37 21 0.17
38 2 0.02
39 18 0.14
40 58 0.46
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:96185120 original size:27 final size:27
Alignment explanation
Indices: 96184999--96185125 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
96184989 AATACTTTAG
* *
96184999 TTTACTAAAATTACTGAAAT-ACCCCCA
1 TTTA-TAAAATTACTGAAATAACCTCGA
* * * *
96185026 GTTGTAAAATTAC-CAAAGTACACC-CAA
1 TTTATAAAATTACTGAAA-TA-ACCTCGA
*
96185053 TTTATAAAATTACCGAAAT-ACCATCGA
1 TTTATAAAATTACTGAAATAACC-TCGA
**
96185080 -TCGTAAAATTACTGAAATAACCTCGA
1 TTTATAAAATTACTGAAATAACCTCGA
96185106 TTTATAAAATTACTGAAATA
1 TTTATAAAATTACTGAAATA
96185126 CCCTTGTAGG
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
25 6 0.08
26 29 0.37
27 38 0.48
28 6 0.08
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (27 bp):
TTTATAAAATTACTGAAATAACCTCGA
Found at i:96185143 original size:27 final size:27
Alignment explanation
Indices: 96185113--96185227 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 27
96185103 CGATTTATAA
*
96185113 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
96185140 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
96185167 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
96185194 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
96185221 AATTACC
1 AATTACC
96185228 ATTTTTCCCC
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:96185705 original size:27 final size:27
Alignment explanation
Indices: 96185667--96185733 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
96185657 ACCTGATTAT
* *
96185667 GGCTGTGTGCCAAACGTATTTGCTTAA
1 GGCTATGTGCCAAACGTATTTGCCTAA
96185694 GGCTATGTGCCAAACGTATTTGCCTAA
1 GGCTATGTGCCAAACGTATTTGCCTAA
96185721 GGCTATGTGCCAA
1 GGCTATGTGCCAA
96185734 TATATGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
GGCTATGTGCCAAACGTATTTGCCTAA
Found at i:96185906 original size:27 final size:26
Alignment explanation
Indices: 96185866--96185973 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 26
96185856 TTCTGTTAAA
* * *
96185866 GTGGCTTTGTCACATTATCAGTTTCTG
1 GTGGCTATGCCACAATATC-GTTTCTG
96185893 GTGGCTATGCCACAAATATC-TATTCTG
1 GTGGCTATGCCAC-AATATCGT-TTCTG
* * *
96185920 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATC-GTTTCTG
* * *
96185947 GTGACTCTGTCACAATATC-TGTTCTG
1 GTGGCTATGCCACAATATCGT-TTCTG
96185973 G
1 G
96185974 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
25 1 0.02
26 12 0.18
27 47 0.71
28 6 0.09
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCGTTTCTG
Found at i:96186152 original size:25 final size:25
Alignment explanation
Indices: 96186094--96186180 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
96186084 CATTCACATC
* * *
96186094 CTGATTCTAATTTTGTTACCTGATA
1 CTGATTCTGATTTTGTCACCTGATT
*
96186119 CTGATTCTGATTTTGTCACCTAATT
1 CTGATTCTGATTTTGTCACCTGATT
* **
96186144 CTGATTCTGATTCTACCACCTGATT
1 CTGATTCTGATTTTGTCACCTGATT
*
96186169 CTAATTCTGATT
1 CTGATTCTGATT
96186181 CTCATTTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTTTGTCACCTGATT
Found at i:96186180 original size:12 final size:12
Alignment explanation
Indices: 96186141--96186203 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
96186131 TTGTCACCTA
*
96186141 ATTCTGATTCTG
1 ATTCTAATTCTG
*
96186153 ATTCTACCA-CCTG
1 ATTCTA--ATTCTG
96186166 ATTCTAATTCTG
1 ATTCTAATTCTG
* *
96186178 ATTCTCATTTTG
1 ATTCTAATTCTG
*
96186190 ATTCTAGTTCTG
1 ATTCTAATTCTG
96186202 AT
1 AT
96186204 AATGTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
11 1 0.03
12 29 0.73
13 9 0.22
14 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.48
Consensus pattern (12 bp):
ATTCTAATTCTG
Found at i:96188271 original size:26 final size:26
Alignment explanation
Indices: 96188180--96188302 Score: 108
Period size: 27 Copynumber: 4.7 Consensus size: 26
96188170 TTTAGTTTAC
** * *
96188180 TAAAATTACTAAAATACC-CCAGTTG
1 TAAAATTACCGAAATACCTCGATTTG
* * *
96188205 TAAAATTACC-AAAGTGCCACCGATTTA
1 TAAAATTACCGAAA-TACC-TCGATTTG
96188232 TAAAATTACCGAAATACCGTCGA-TTG
1 TAAAATTACCGAAATACC-TCGATTTG
*
96188258 TAAAATTACTGAAATAGCCTCGATTTG
1 TAAAATTACCGAAATA-CCTCGATTTG
*
96188285 TAAAATTACCAAAATACC
1 TAAAATTACCGAAATACC
96188303 CTTGTAGGGT
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
24 3 0.04
25 12 0.15
26 23 0.29
27 39 0.49
28 3 0.04
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (26 bp):
TAAAATTACCGAAATACCTCGATTTG
Found at i:96188374 original size:26 final size:27
Alignment explanation
Indices: 96188298--96188399 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
96188288 AATTACCAAA
* *
96188298 ATACCCTTGTAGGGTAGAATTATTGAA
1 ATACCCTTGTAGGGTAGAATTATCGAG
*
96188325 ATACCCTTGTAGGGTAGAAATATCGAG
1 ATACCCTTGTAGGGTAGAATTATCGAG
*
96188352 ATACCCCTGT-GGGTAGAATTATCGAG
1 ATACCCTTGTAGGGTAGAATTATCGAG
*
96188378 ATACCCTTGTGGGGTAGAATTA
1 ATACCCTTGTAGGGTAGAATTA
96188400 CCATTTTGCC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 24 0.35
27 44 0.65
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (27 bp):
ATACCCTTGTAGGGTAGAATTATCGAG
Found at i:96188822 original size:22 final size:22
Alignment explanation
Indices: 96188789--96188864 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
96188779 GCCAATTATT
*
96188789 CTGATTATGGCTTTGTGCCAAC
1 CTGAATATGGCTTTGTGCCAAC
96188811 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-ATATGGCTTTGTGCCAAC
* *
96188833 CTGATTATGGCTGTGTGCCAAC
1 CTGAATATGGCTTTGTGCCAAC
*
96188855 CTGATTATGG
1 CTGAATATGG
96188865 ATGTATTTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 1 0.02
22 47 0.96
23 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (22 bp):
CTGAATATGGCTTTGTGCCAAC
Found at i:96189053 original size:27 final size:26
Alignment explanation
Indices: 96189023--96189131 Score: 87
Period size: 27 Copynumber: 4.1 Consensus size: 26
96189013 ATTCTGTTAA
* *
96189023 GTGGCTTTGCCACATTATCAGTTTCTG
1 GTGGCTATGCCACAATATC-GTTTCTG
96189050 GTGGCTATGCCACAAATATC-TATTCTG
1 GTGGCTATGCCAC-AATATCGT-TTCTG
* * *
96189077 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATC-GTTTCTG
* * *
96189104 GTGACTCTGTCACAATATC-TGTTCTG
1 GTGGCTATGCCACAATATCGT-TTCTG
96189130 GT
1 GT
96189132 AGCCATGCTG
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
25 1 0.01
26 13 0.19
27 48 0.71
28 6 0.09
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCGTTTCTG
Done.