Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 151 of 333
Found at i:49416614 original size:52 final size:52
Alignment explanation
Indices: 49416551--49416710 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
49416541 TGGTACAAAT
*
49416551 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
49416603 TGATAACGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
49416655 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
49416707 TGAT
1 TGAT
49416711 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:49418363 original size:27 final size:27
Alignment explanation
Indices: 49418325--49418462 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
49418315 AAGCGTCCTA
49418325 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTATGCCACAATTATCTGATCTG
* * *
49418352 GTGGCTTTGCCA-TATATATCTGTTCTG
1 GTGGCTATGCCACAAT-TATCTGATCTG
*
49418379 GTGGCTATGCCACGATTATCTGATCTG
1 GTGGCTATGCCACAATTATCTGATCTG
* * *
49418406 GTGGCTCTGCCA-TATATATCTGTTCTG
1 GTGGCTATGCCACAAT-TATCTGATCTG
* * *
49418433 GTGGCTCTACCACAA-TATCTATATCTG
1 GTGGCTATGCCACAATTATCT-GATCTG
49418460 GTG
1 GTG
49418463 ACTTCGTCAC
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.10
27 81 0.87
28 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATTATCTGATCTG
Found at i:49418407 original size:54 final size:54
Alignment explanation
Indices: 49418325--49418462 Score: 215
Period size: 54 Copynumber: 2.6 Consensus size: 54
49418315 AAGCGTCCTA
*
49418325 GTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCATATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTCTG
*
49418379 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTCTG
* * *
49418433 GTGGCTCTACCACAA-TATCTATATCTGGTG
1 GTGGCTATGCCACAATTATCT-GATCTGGTG
49418463 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTCTG
Found at i:49429095 original size:27 final size:27
Alignment explanation
Indices: 49429065--49429160 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 27
49429055 GTAGGCTACT
* *
49429065 ATTACTTAAATACCCTTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
* *
49429092 ATTACTGAAATGCCCCTGTAGGATAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
*
49429119 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
*
49429146 ATTACTAAAATACCC
1 ATTACTGAAATACCC
49429161 TTGGTTTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGGGTAGA
Found at i:49429175 original size:27 final size:27
Alignment explanation
Indices: 49429145--49429401 Score: 114
Period size: 27 Copynumber: 9.6 Consensus size: 27
49429135 TGTAGGGTAG
* *
49429145 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCCTGATTTACAA
**
49429172 AATTACT-AAATACCCCTGATTTGTAA
1 AATTACTAAAATACCCCTGATTTACAA
* ** ***
49429198 AATTACCAAAATACTGCTGATTTTTGA
1 AATTACTAAAATACCCCTGATTTACAA
** * * **
49429225 AATTACCGAAAT--CCCTCAACTTGTAA
1 AATTACTAAAATACCCCT-GATTTACAA
** * * * **
49429251 AATTACCGAAATACCCTTAACTTGTAA
1 AATTACTAAAATACCCCTGATTTACAA
**
49429278 AATTACTAAAATACCCTCT-ATTTGTAA
1 AATTACTAAAATACCC-CTGATTTACAA
* **
49429305 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACTAAAATACCCCTGATTTACAA
* * **
49429332 AATTA-TCGAAATACCCTTGATTTGGAA
1 AATTACT-AAAATACCCCTGATTTACAA
* *
49429359 AATTA-TAGAAATACCCTTAATTTACAA
1 AATTACTA-AAATACCCCTGATTTACAA
49429386 AATTAC-AGAAATACCC
1 AATTACTA-AAATACCC
49429402 TTGACTTTGA
Statistics
Matches: 191, Mismatches: 30, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 40 0.21
27 145 0.76
28 4 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGATTTACAA
Found at i:49429176 original size:54 final size:53
Alignment explanation
Indices: 49429065--49429189 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 53
49429055 GTAGGCTACT
* * * * *
49429065 ATTACTTAAATACCCTTGTAGGGTAGAATTACTGAAATGCCCCTGTAGGATAGA
1 ATTAC-TAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGACAAA
* * **
49429119 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTAAAATACCCTTGGT-TTACAAA
1 ATTACT-AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT-GTAGGACAAA
49429173 ATTACTAAATACCCCTG
1 ATTACTAAATACCCCTG
49429190 ATTTGTAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
53 11 0.19
54 46 0.78
55 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
ATTACTAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGACAAA
Found at i:49429310 original size:54 final size:55
Alignment explanation
Indices: 49429145--49429410 Score: 203
Period size: 54 Copynumber: 4.9 Consensus size: 55
49429135 TGTAGGGTAG
* ** **
49429145 AATTACTAAAATACCCTTGGTTTACAAAATTACT-AAATACCC-CTGATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
* * * * ** * *
49429198 AATTACCAAAATACTGC-TGATTTTTGAAATTACCGAAAT-CCCTC-AACTTGTAA
1 AATTACCAAAATAC-CCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
* *
49429251 AATTACCGAAATACCCTTAACTTGTAAAATTACTAAAATACCCTCT-ATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
* * * * *
49429305 AATTACCAAAATACCCCTGATTTGGAAAATTA-TCGAAATACCCT-TGATTTGGAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACT-AAAATACCCTCTGATTTGTAA
* **
49429359 AATTA-TAGAAATACCCTTAATTTACAAAATTAC-AGAAATACCCT-TGACTTTG
1 AATTACCA-AAATACCCTTAATTTGTAAAATTACTA-AAATACCCTCTGA-TTTG
49429411 AAATATTGCA
Statistics
Matches: 170, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 67 0.39
54 98 0.58
55 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (55 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
Found at i:49429363 original size:81 final size:81
Alignment explanation
Indices: 49429145--49429410 Score: 224
Period size: 81 Copynumber: 3.3 Consensus size: 81
49429135 TGTAGGGTAG
* * * * * * *
49429145 AATTACTAAAATACCCTTGGTTTACAAAATTACTAAATACCCCTGATTTGTAAAATTACCAAAAT
1 AATTACCAAAATACCCCTGATTTGCAAAATTACGAAATACCCTTGATTTGTAAAATTACTAAAAT
* * *
49429210 A--CTGCTGATTTTTGA
66 ACCCT-CTAATTTATAA
* * * * * *
49429225 AATTACCGAAAT--CCCTCAACTTGTAAAATTACCGAAATACCCTTAACTTGTAAAATTACTAAA
1 AATTACCAAAATACCCCT-GATTTGCAAAATTA-CGAAATACCCTTGATTTGTAAAATTACTAAA
*
49429288 ATACCCTCT-ATTTGTAA
64 ATACCCTCTAATTTATAA
* *
49429305 AATTACCAAAATACCCCTGATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTA-TAGAA
1 AATTACCAAAATACCCCTGATTTGCAAAATTA-CGAAATACCCTTGATTTGTAAAATTACTA-AA
*
49429369 ATACCCT-TAATTTACAA
64 ATACCCTCTAATTTATAA
*
49429386 AATTA-CAGAAATACCCTTGACTTTG
1 AATTACCA-AAATACCCCTGA-TTTG
49429411 AAATATTGCA
Statistics
Matches: 150, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
78 3 0.02
79 9 0.06
80 61 0.41
81 67 0.45
82 10 0.07
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGATTTGCAAAATTACGAAATACCCTTGATTTGTAAAATTACTAAAAT
ACCCTCTAATTTATAA
Found at i:49429402 original size:27 final size:27
Alignment explanation
Indices: 49429224--49429403 Score: 163
Period size: 27 Copynumber: 6.7 Consensus size: 27
49429214 CTGATTTTTG
* * * *
49429224 AAATTACCGAAAT-CCCTCAACTTGTA
1 AAATTACAGAAATACCCTTAATTTGGA
* * *
49429250 AAATTACCGAAATACCCTTAACTTGTA
1 AAATTACAGAAATACCCTTAATTTGGA
*
49429277 AAATTACTA-AAATACCCTCT-ATTTGTA
1 AAATTAC-AGAAATACCCT-TAATTTGGA
* *
49429304 AAATTACCA-AAATACCCCTGATTTGGA
1 AAATTA-CAGAAATACCCTTAATTTGGA
*
49429331 AAATTATC-GAAATACCCTTGATTTGGA
1 AAATTA-CAGAAATACCCTTAATTTGGA
* **
49429358 AAATTATAGAAATACCCTTAATTTACA
1 AAATTACAGAAATACCCTTAATTTGGA
49429385 AAATTACAGAAATACCCTT
1 AAATTACAGAAATACCCTT
49429404 GACTTTGAAA
Statistics
Matches: 135, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.10
27 119 0.88
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTAATTTGGA
Found at i:49429460 original size:27 final size:28
Alignment explanation
Indices: 49429303--49429460 Score: 100
Period size: 27 Copynumber: 5.8 Consensus size: 28
49429293 CTCTATTTGT
* * * **
49429303 AAAATTACCAAAATACCCCT-GATTTGG
1 AAAATTATCGAAATACCCTTGGATTTAC
**
49429330 AAAATTATCGAAATACCCTT-GATTTGG
1 AAAATTATCGAAATACCCTTGGATTTAC
* *
49429357 AAAATTATAGAAATACCCTT-AATTTAC
1 AAAATTATCGAAATACCCTTGGATTTAC
49429384 AAAATTA-CAGAAATACCCTT-GACTTTGA-
1 AAAATTATC-GAAATACCCTTGGA-TTT-AC
* * *
49429412 AATATTGCAT--AAATACCATTGGCTTT-C
1 AAAATT--ATCGAAATACCCTTGGATTTAC
49429439 AAAATTATCGAAATACCCTTGG
1 AAAATTATCGAAATACCCTTGG
49429461 TTTGTAGATT
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.02
27 82 0.77
28 20 0.19
29 2 0.02
30 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (28 bp):
AAAATTATCGAAATACCCTTGGATTTAC
Found at i:49429769 original size:41 final size:41
Alignment explanation
Indices: 49429724--49429802 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
49429714 AGAGGAAGAA
*
49429724 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCATCG
1 ATTGAGGATCGCATGATTGCTTGACAACCGTGGATCCATCG
*
49429765 ATTGAGGATCGCATGATTGCTTGACGACCGTGGATCCA
1 ATTGAGGATCGCATGATTGCTTGACAACCGTGGATCCA
49429803 CTGGTGGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGATTGCTTGACAACCGTGGATCCATCG
Found at i:49443637 original size:14 final size:16
Alignment explanation
Indices: 49443618--49443650 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
49443608 ATGCCATCTT
49443618 ATTTATA-TATG-TAC
1 ATTTATATTATGTTAC
49443632 ATTTATATTATGTTAC
1 ATTTATATTATGTTAC
49443648 ATT
1 ATT
49443651 GCATGGGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTTATATTATGTTAC
Found at i:49459750 original size:13 final size:13
Alignment explanation
Indices: 49459732--49459761 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49459722 GCTCAGCAGG
49459732 GACACGCCCGTGT
1 GACACGCCCGTGT
*
49459745 GACACGGCCGTGT
1 GACACGCCCGTGT
49459758 GACA
1 GACA
49459762 TGATTACCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.13
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:49466885 original size:25 final size:25
Alignment explanation
Indices: 49466856--49466903 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49466846 TAGTTAGCTA
* *
49466856 GACTTCTTAGTTTCCTGCTTCTTGC
1 GACTTCTTAGTTTCATACTTCTTGC
49466881 GACTTCTTAGTTTCATACTTCTT
1 GACTTCTTAGTTTCATACTTCTT
49466904 AGTTTCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (25 bp):
GACTTCTTAGTTTCATACTTCTTGC
Found at i:49466902 original size:15 final size:15
Alignment explanation
Indices: 49466882--49466911 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49466872 GCTTCTTGCG
49466882 ACTTCTTAGTTTCAT
1 ACTTCTTAGTTTCAT
49466897 ACTTCTTAGTTTCAT
1 ACTTCTTAGTTTCAT
49466912 GCTTTTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (15 bp):
ACTTCTTAGTTTCAT
Found at i:49471016 original size:47 final size:47
Alignment explanation
Indices: 49470963--49471351 Score: 589
Period size: 47 Copynumber: 8.2 Consensus size: 47
49470953 AATTCTAAAT
49470963 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
49471010 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
49471057 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
49471106 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
49471153 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
49471202 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
49471249 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
49471296 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
49471343 TGTGATAAG
1 TGTGATAAG
49471352 TCCCGAAGGG
Statistics
Matches: 312, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
47 223 0.71
49 89 0.29
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:49471147 original size:96 final size:94
Alignment explanation
Indices: 49470963--49471351 Score: 607
Period size: 96 Copynumber: 4.1 Consensus size: 94
49470953 AATTCTAAAT
49470963 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
49471028 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
49471057 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
*
49471122 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* *
49471153 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
*
49471218 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * ** *
49471249 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
* * * *
49471314 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
49471343 TGTGATAAG
1 TGTGATAAG
49471352 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
94 92 0.33
96 183 0.67
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:49471247 original size:143 final size:143
Alignment explanation
Indices: 49470963--49471351 Score: 597
Period size: 143 Copynumber: 2.7 Consensus size: 143
49470953 AATTCTAAAT
* *
49470963 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
49471028 CCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66 CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
49471092 AAAGTGTATATATA
131 AAAGTG-ATATATA
* * *
49471106 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
49471171 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
66 CCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
49471236 GAAAGTG-TATATG
130 GAAAGTGATATATA
* * * * *
49471249 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* *
49471314 CCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
66 CCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
49471352 TCCCGAAGGG
Statistics
Matches: 226, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 169 0.75
145 46 0.20
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (143 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGATATATA
Found at i:49471525 original size:37 final size:37
Alignment explanation
Indices: 49471469--49471547 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49471459 TCGAGCTCTA
* * *
49471469 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
49471506 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49471543 AAGAC
1 AAGAC
49471548 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49476655 original size:43 final size:43
Alignment explanation
Indices: 49476591--49476707 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
49476581 CTCGTTTCAG
* * * * *
49476591 GATTACCCGTCCGGGCTAAATCCTTTCTACACTGAGATTAATA
1 GATTACCCGACTGGGTTAAATCCTTTCTACACTAAGATCAATA
*
49476634 GATTATCC-ATCTGGGTTAAATCCTTTCTACACTAAGATCAATA
1 GATTACCCGA-CTGGGTTAAATCCTTTCTACACTAAGATCAATA
*
49476677 GATTACCCGACTGGGTTAAATCCTTTTTACA
1 GATTACCCGACTGGGTTAAATCCTTTCTACA
49476708 AAACATGCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (43 bp):
GATTACCCGACTGGGTTAAATCCTTTCTACACTAAGATCAATA
Found at i:49485128 original size:30 final size:30
Alignment explanation
Indices: 49485094--49485154 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49485084 TCCTTAACTC
49485094 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
49485124 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
49485154 A
1 A
49485155 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:49486937 original size:59 final size:59
Alignment explanation
Indices: 49486861--49487032 Score: 254
Period size: 59 Copynumber: 2.9 Consensus size: 59
49486851 ATTGTTGCGA
* * * *
49486861 TATTTATGGCTTTGTGCCACTACTCATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAT
1 TATTGATGGC-TTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
*
49486921 TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTATGCCAC
1 TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * * *
49486980 TACTGATGGCTTGTGCCACTATTGATGCCTTTGTGCCACTATTGATGGCTTTG
1 TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTG
49487033 AGCCGCTACT
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 93 0.91
60 9 0.09
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (59 bp):
TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
Found at i:49486949 original size:39 final size:40
Alignment explanation
Indices: 49486861--49487057 Score: 245
Period size: 39 Copynumber: 5.0 Consensus size: 40
49486851 ATTGTTGCGA
* *
49486861 TATTTATGGCTTTGTGCCACTACTCATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * *
49486901 TATTCATGGCTTTGTGCCATTATTGATGGC-TTGTGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* *
49486940 TAATGATGGCTTTGTGCCACTATTCATGGCTTTATGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * *
49486980 TACTGATGGC-TTGTGCCACTATTGATGCCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * * * *
49487019 TATTGATGGCTTTGAGCCGCTACTCATGGATTTTTGCCA
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCA
49487058 TATACTGATA
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 70 0.52
40 64 0.48
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (40 bp):
TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
Found at i:49487014 original size:79 final size:79
Alignment explanation
Indices: 49486866--49487066 Score: 269
Period size: 79 Copynumber: 2.5 Consensus size: 79
49486856 TGCGATATTT
* * * * *
49486866 ATGGCTTTGTGCCACTACTCATGGCTTTGTGCCACTATTCATGGCTTTGTGCCATTATTGATGGC
1 ATGGCTTTGTGCCACTACTCATGGCTTTATGCCACTACTGATGGCTTTGTGCCACTATTGATGCC
49486931 TTGTGCCACTAATG
66 TTGTGCCACTAATG
*
49486945 ATGGCTTTGTGCCACTATTCATGGCTTTATGCCACTACTGATGGC-TTGTGCCACTATTGATGCC
1 ATGGCTTTGTGCCACTACTCATGGCTTTATGCCACTACTGATGGCTTTGTGCCACTATTGATGCC
*
49487009 TTTGTGCCACTATTG
66 -TTGTGCCACTAATG
* * * * *
49487024 ATGGCTTTGAGCCGCTACTCATGGATTTTTGCCATATACTGAT
1 ATGGCTTTGTGCCACTACTCATGGCTTTATGCCA-CTACTGAT
49487067 ACTGGTAGCT
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 17 0.16
79 83 0.78
80 7 0.07
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (79 bp):
ATGGCTTTGTGCCACTACTCATGGCTTTATGCCACTACTGATGGCTTTGTGCCACTATTGATGCC
TTGTGCCACTAATG
Found at i:49487047 original size:20 final size:20
Alignment explanation
Indices: 49486861--49487032 Score: 240
Period size: 20 Copynumber: 8.7 Consensus size: 20
49486851 ATTGTTGCGA
*
49486861 TATTTATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49486881 TACTCATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49486901 TATTCATGGCTTTGTGCCAT
1 TATTGATGGCTTTGTGCCAC
49486921 TATTGATGGC-TTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49486940 TAATGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49486960 TATTCATGGCTTTATGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49486980 TACTGATGGC-TTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49486999 TATTGATGCCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
49487019 TATTGATGGCTTTG
1 TATTGATGGCTTTG
49487033 AGCCGCTACT
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
19 33 0.25
20 101 0.75
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCAC
Found at i:49487751 original size:24 final size:24
Alignment explanation
Indices: 49487718--49487795 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
49487708 AAGGATGTCA
49487718 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
49487742 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
49487766 GGAGAAGTTTTAGGAGCTGATCAA-
1 GGAGAAGATTTAGGAGCTGAT-AAG
49487790 GGAGAA
1 GGAGAA
49487796 AAAGTTGGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 47 0.96
25 2 0.04
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:49489053 original size:26 final size:26
Alignment explanation
Indices: 49489005--49489056 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
49488995 GTTAAACTAC
* *
49489005 TTGAATACCCCTATGTATGAAAATTA
1 TTGAATACCCCTAGGTATCAAAATTA
49489031 TTGATATACCCCTAGGTA-CAAAATTA
1 TTGA-ATACCCCTAGGTATCAAAATTA
49489057 CCATTATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (26 bp):
TTGAATACCCCTAGGTATCAAAATTA
Found at i:49489216 original size:27 final size:25
Alignment explanation
Indices: 49489177--49489282 Score: 113
Period size: 27 Copynumber: 4.0 Consensus size: 25
49489167 GGAAGCGTCC
*
49489177 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTG-TT
*
49489204 TGGTGGCTCTGCCACATACATCTGTT
1 TGGTGGCTCTGCCACAT-TATCTGTT
*
49489230 CTAGTGGCTCTGCCACAATTATCTGTTT
1 -TGGTGGCTCTGCCAC-ATTATCTG-TT
* *
49489258 TGGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTCTGCCACATTATCTGTT
49489283 CTGGCAGCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
25 2 0.03
26 12 0.18
27 50 0.74
28 4 0.06
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (25 bp):
TGGTGGCTCTGCCACATTATCTGTT
Found at i:49489261 original size:54 final size:53
Alignment explanation
Indices: 49489179--49489284 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
49489169 AAGCGTCCTG
*
49489179 GTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATACATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATTTGGTGACTCTGCCACAT-CATCTGTTCTA
* * * *
49489233 GTGGCTCTGCCACAATTATCTGTTTTGGTGACTCTGTCACATTATCTGTTCT
1 GTGGCTATGCCACAATTATCTGATTTGGTGACTCTGCCACATCATCTGTTCT
49489285 GGCAGCCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 9 0.19
54 38 0.81
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATTTGGTGACTCTGCCACATCATCTGTTCTA
Found at i:49495236 original size:24 final size:24
Alignment explanation
Indices: 49495209--49495282 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
49495199 AAGGCTGTCA
49495209 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
49495233 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
49495257 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
49495282 G
1 G
49495283 AGCAAGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:49496705 original size:27 final size:27
Alignment explanation
Indices: 49496665--49496778 Score: 151
Period size: 27 Copynumber: 4.2 Consensus size: 27
49496655 AGGAAGTGTC
* * *
49496665 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTTTGCCACATA-CATCTGTT
49496692 CTGGTGGCTTTGCCACATACATCTGTT
1 CTGGTGGCTTTGCCACATACATCTGTT
49496719 CTGGTGGCTTTGCCACATACATCTGTT
1 CTGGTGGCTTTGCCACATACATCTGTT
* *
49496746 CTGGTGGCTTTACCACA-ATTATCTGTT
1 CTGGTGGCTTTGCCACATA-CATCTGTT
49496773 CTGGTG
1 CTGGTG
49496779 ACTCTATCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTTTGCCACATACATCTGTT
Found at i:49496789 original size:27 final size:26
Alignment explanation
Indices: 49496677--49496798 Score: 100
Period size: 27 Copynumber: 4.5 Consensus size: 26
49496667 GGTGGCTATG
* * * *
49496677 CCACAATTATCTGATCTGGTGGCTTTG
1 CCAC-ATTATCTGTTCTGGTGACTCTA
* * * *
49496704 CCACATACATCTGTTCTGGTGGCTTTG
1 CCACAT-TATCTGTTCTGGTGACTCTA
* * *
49496731 CCACATACATCTGTTCTGGTGGCTTTA
1 CCACAT-TATCTGTTCTGGTGACTCTA
49496758 CCACAATTATCTGTTCTGGTGACTCTA
1 CCAC-ATTATCTGTTCTGGTGACTCTA
*
49496785 TCACATTATCTGTT
1 CCACATTATCTGTT
49496799 ATGGCAGCCA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.14
27 72 0.84
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (26 bp):
CCACATTATCTGTTCTGGTGACTCTA
Found at i:49496790 original size:54 final size:53
Alignment explanation
Indices: 49496685--49496798 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
49496675 TGCCACAATT
* * * * *
49496685 ATCTGATCTGGTGGCTTTGCCACATACATCTGTTCTGGTGGCTTTGCCACATAC
1 ATCTGTTCTGGTGGCTTTACCACATACATCTGTTCTGGTGACTCTACCACAT-C
* * *
49496739 ATCTGTTCTGGTGGCTTTACCACA-ATTATCTGTTCTGGTGACTCTATCACATT
1 ATCTGTTCTGGTGGCTTTACCACATA-CATCTGTTCTGGTGACTCTACCACATC
49496792 ATCTGTT
1 ATCTGTT
49496799 ATGGCAGCCA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 8 0.16
54 43 0.84
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (53 bp):
ATCTGTTCTGGTGGCTTTACCACATACATCTGTTCTGGTGACTCTACCACATC
Found at i:49500744 original size:16 final size:16
Alignment explanation
Indices: 49500723--49500757 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49500713 GTAGATCGGC
49500723 AAAAGCC-AAAATGTCG
1 AAAAGCCGAAAA-GTCG
49500739 AAAAGCCGAAAAGTCG
1 AAAAGCCGAAAAGTCG
49500755 AAA
1 AAA
49500758 GGATGGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.54, C:0.17, G:0.20, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:49501515 original size:20 final size:20
Alignment explanation
Indices: 49501478--49501655 Score: 180
Period size: 20 Copynumber: 8.9 Consensus size: 20
49501468 ATTACTGCGA
* *
49501478 TATTTATGGCTTTCTGCCAC
1 TATTGATGGCTTTGTGCCAC
* * * *
49501498 TACTCATGGATTTGTGCCAT
1 TATTGATGGCTTTGTGCCAC
*
49501518 TATTGATGGC-TTATGCCAC
1 TATTGATGGCTTTGTGCCAC
* * *
49501537 TATTCAAGGCTTTATGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49501557 TATTGATGGC-TTGTGCTAC
1 TATTGATGGCTTTGTGCCAC
49501576 TATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49501596 TATTGGTGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCAC
* *
49501616 TACTGAATGGCTTTGAGCCAC
1 TATTG-ATGGCTTTGTGCCAC
* *
49501637 TACTCATGGCTTTGTGCCA
1 TATTGATGGCTTTGTGCCA
49501656 TATACTGATA
Statistics
Matches: 130, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
19 32 0.25
20 82 0.63
21 16 0.12
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCAC
Found at i:49501538 original size:39 final size:39
Alignment explanation
Indices: 49501478--49501648 Score: 153
Period size: 39 Copynumber: 4.3 Consensus size: 39
49501468 ATTACTGCGA
* * * * *
49501478 TATTTATGGCTTTCTGCCACTACTCATGGATTTGTGCCAT
1 TATTGATGGC-TTATGCCACTATTCATGGCTTTGTGCCAC
* *
49501518 TATTGATGGCTTATGCCACTATTCAAGGCTTTATGCCAC
1 TATTGATGGCTTATGCCACTATTCATGGCTTTGTGCCAC
* * *
49501557 TATTGATGGCTTGTGCTACTATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTATGCCACTATTCATGGCTTTGTGCCAC
* * * ** *
49501596 TATTGGTGGCTTTGTGCCGCTACTGAATGGCTTTGAGCCAC
1 TATTGATGGC-TTATGCCACTA-TTCATGGCTTTGTGCCAC
* *
49501637 TACTCATGGCTT
1 TATTGATGGCTT
49501649 TGTGCCATAT
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 66 0.61
40 20 0.19
41 22 0.20
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (39 bp):
TATTGATGGCTTATGCCACTATTCATGGCTTTGTGCCAC
Found at i:49501558 original size:59 final size:59
Alignment explanation
Indices: 49501485--49501655 Score: 155
Period size: 59 Copynumber: 2.9 Consensus size: 59
49501475 CGATATTTAT
* * *
49501485 GGCTTTCTGCCACTACTCATGGATTTGTGCCATTATTGATGGC-TTATGCCACTATTCAA
1 GGCTTTATGCCACTACTCATGG-CTTGTGCCACTATTGATGGCTTTATGCCACTATTCAA
* * * * ***
49501544 GGCTTTATGCCACTATTGATGGCTTGTGCTACTATTGATGGCTTTGTGCCACTATTGGT
1 GGCTTTATGCCACTACTCATGGCTTGTGCCACTATTGATGGCTTTATGCCACTATTCAA
* * * * * * *
49501603 GGCTTTGTGCCGCTACTGAATGGCTTTGAGCCACTACTCATGGCTTTGTGCCA
1 GGCTTTATGCCACTACT-CATGGC-TTGTGCCACTATTGATGGCTTTATGCCA
49501656 TATACTGATA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
58 17 0.19
59 45 0.49
60 5 0.05
61 24 0.26
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (59 bp):
GGCTTTATGCCACTACTCATGGCTTGTGCCACTATTGATGGCTTTATGCCACTATTCAA
Found at i:49507090 original size:24 final size:24
Alignment explanation
Indices: 49507062--49507108 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49507052 TACCGATTCT
*
49507062 CAGCTCGT-ATGAGCTTACCAATTG
1 CAGCTCGTGA-GACCTTACCAATTG
49507086 CAGCTCGTGAGACCTTACCAATT
1 CAGCTCGTGAGACCTTACCAATT
49507109 CTCAACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (24 bp):
CAGCTCGTGAGACCTTACCAATTG
Found at i:49512758 original size:47 final size:47
Alignment explanation
Indices: 49512676--49513269 Score: 936
Period size: 47 Copynumber: 12.6 Consensus size: 47
49512666 TTAAACCCAT
*
49512676 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
49512725 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49512772 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49512819 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
49512866 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49512913 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49512960 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49513007 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49513054 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
49513103 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
49513150 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
49513197 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49513244 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49513270 TCCCGAAGGG
Statistics
Matches: 510, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 455 0.89
49 55 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49513444 original size:37 final size:37
Alignment explanation
Indices: 49513390--49513465 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
49513380 GAGTTCTAAG
* * *
49513390 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
49513427 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
49513464 GA
1 GA
49513466 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:49515366 original size:43 final size:43
Alignment explanation
Indices: 49515318--49515463 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
49515308 TTGGTTTTCA
49515318 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
49515361 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
49515404 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
49515447 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
49515464 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:49515480 original size:29 final size:29
Alignment explanation
Indices: 49515445--49515518 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
49515435 GTTGTGAGAT
* *
49515445 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
49515474 TGGCACTAAGTGTGCGAGTTTAAAGTACG
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
49515503 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49515519 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:49515842 original size:40 final size:40
Alignment explanation
Indices: 49515798--49516065 Score: 242
Period size: 40 Copynumber: 6.7 Consensus size: 40
49515788 CATTTGAATG
*
49515798 ATATCCGGGCTAAGTCCCGAAGGCAATT-GAGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAGTGA-T
* * * *
49515838 ATATCCGGGCTAAGACCCGAAGGC-ATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGC-TAGTGAT
* *
49515878 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAG-TGAT
* * * *
49515918 ATATCCGGGCTAAGACCCGAAGGC-ATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAGTGA-T
* * * *
49515958 AAATCCGGGCTAAATTCCGAAGAGC-ATTCGTGCTAGTGAG
1 ATATCCGGGCTAAGTCCCGAAG-GCAATTCGTGCTAGTGAT
* * * * *
49515998 GTATCCGGACTAAGTTCCGAAGAGC-ATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAG-GCAATTCGTGCTAGTGAT
*
49516038 ATATCCGGGCTAGGTCCCGAAGAGCAAT
1 ATATCCGGGCTAAGTCCCGAAG-GCAAT
49516066 CATGCTGGTG
Statistics
Matches: 194, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.05
40 162 0.84
41 22 0.11
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAGTGAT
Found at i:49516011 original size:120 final size:120
Alignment explanation
Indices: 49515798--49516065 Score: 276
Period size: 120 Copynumber: 2.2 Consensus size: 120
49515788 CATTTGAATG
* * *
49515798 ATATCCGGGCTAAGTCCCGAAGGCAATTGAGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGAGCGAGTGACTAAATCCGGGCTAAGACCCGAAGGCA
* * * * *
49515863 TTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGAT
66 TTCGTGCGAAGTGAGATATCCGGACTAAGACCCGAAGAGC-ATTCGTGC-AGGTGAT
* * * *
49515918 ATATCCGGGCTAAGACCCGAAGGC-ATTGGTGCGAGTTACTAAATCCGGGCTAA-ATTCCGAAGA
1 ATATCCGGGCTAAGTCCCGAAGGCAATT-GAGCGAGTGACTAAATCCGGGCTAAGA-CCCGAAG-
* * ** * *
49515981 GCATTCGTGC-TAGTGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
63 GCATTCGTGCGAAGTGAGATATCCGGACTAAGACCCGAAGAGCATTCGTGCAGGTGAT
*
49516038 ATATCCGGGCTAGGTCCCGAAGAGCAAT
1 ATATCCGGGCTAAGTCCCGAAG-GCAAT
49516066 CATGCTGGTG
Statistics
Matches: 121, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
119 4 0.03
120 98 0.81
121 17 0.14
122 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGAGCGAGTGACTAAATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAAGTGAGATATCCGGACTAAGACCCGAAGAGCATTCGTGCAGGTGAT
Found at i:49516072 original size:40 final size:40
Alignment explanation
Indices: 49515999--49516075 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
49515989 GCTAGTGAGG
* * *
49515999 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
* *
49516039 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTG
49516076 AGATGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
Found at i:49519587 original size:47 final size:47
Alignment explanation
Indices: 49519505--49520098 Score: 929
Period size: 47 Copynumber: 12.6 Consensus size: 47
49519495 TTAAACTCAT
*
49519505 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
49519554 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49519601 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49519648 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
***
49519695 ATGTGAAAGTGTATATGCATGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49519742 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49519789 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49519836 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49519883 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
49519932 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
49519979 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
49520026 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC-ATTGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATGA
* *
49520073 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49520099 TCCCGAAGGG
Statistics
Matches: 512, Mismatches: 30, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 456 0.89
49 55 0.11
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49520273 original size:37 final size:37
Alignment explanation
Indices: 49520219--49520294 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
49520209 GAGTTCTAAG
* * * *
49520219 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATATCCGGGTAA
*
49520256 GACCCGATAACTTCGTGTGGAGATTATATCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATATCCGGGTAA
49520293 GA
1 GA
49520295 TTTCGTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATATCCGGGTAA
Found at i:49522965 original size:48 final size:50
Alignment explanation
Indices: 49522749--49523015 Score: 194
Period size: 48 Copynumber: 5.6 Consensus size: 50
49522739 TGCAATACCA
* *
49522749 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA-A-GT-T-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-ACCACAT-ATACGTGTCG
* * * *
49522796 ATGCCAAT-TCCCAGACATGGTCTTACACT-GACTATCA-AAAT-CGAGGCCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACTAG-CTACCACATATACG-TGTCG
** * *
49522845 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATATGTGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTACCACATATACGTGTCG
*
49522895 ATGCCATGTCCCAGACATGGTCTTACA-TAGAC-ACCTC-TATACGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTACCACATATACGTGTCG
* * * *
49522943 ATGCCATGTCCTAGACATGGTCTTAAACT-G--A-CACATCT-CGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTACCACATATACGT-GTCG
*
49522989 ATG-AATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
49523016 GGCTTACATC
Statistics
Matches: 182, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 15 0.08
47 28 0.15
48 39 0.21
49 38 0.21
50 34 0.19
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTACCACATATACGTGTCG
Found at i:49523132 original size:48 final size:47
Alignment explanation
Indices: 49522749--49523157 Score: 201
Period size: 46 Copynumber: 8.7 Consensus size: 47
49522739 TGCAATACCA
* *
49522749 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--TG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CAT-AATGTGCCG
* * *
49522796 ATGCCAAT-TCCCAGACATGGTCTTACACT-GACTATCAAAATCGAGGCCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACTAG-CTCTCATAAT-G-TGCCG
* **
49522845 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATATGTGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC--TCTCATA-ATGTGCCG
* * *
49522895 ATGCCATGTCCCAGACATGGTCTTACA-TAGACACCTC-TATACGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-C-TCTCATA-ATGTGCCG
* * * * *
49522943 ATGCCATGTCCTAGACATGGTCTTAAACT-G-ACACAT-CTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GT-GCCG
* * ** * **
49522989 ATG-AATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTGAGGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAATG-TGCCG
* * * *
49523035 ATG-CATGTCCCAAACAT-TTCATT-CACTAGCTCTCGTCTCAA--TGCTG
1 ATGCCATGTCCCAGACATGGTC-TTACACTAGCTCTC--AT-AATGTGCCG
* *
49523081 ATGCCAGGTCCCAGACATGGTCTTACACTTGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT-GCCG
* *
49523129 ATG-CATGTCCCAAAC-TTGTCTTACACTAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG
49523158 TACACAAATA
Statistics
Matches: 279, Mismatches: 50, Indels: 67
0.70 0.13 0.17
Matches are distributed among these distances:
44 11 0.04
45 21 0.08
46 60 0.22
47 57 0.20
48 58 0.21
49 34 0.12
50 31 0.11
51 5 0.02
52 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGCCG
Found at i:49524633 original size:21 final size:20
Alignment explanation
Indices: 49524609--49524654 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
49524599 TGTAACTTGG
* * *
49524609 TCACACAGTCGTGTGCCTCTT
1 TCACACAGCCATGTGACTC-T
49524630 TCACACAGCCATGTGACTCT
1 TCACACAGCCATGTGACTCT
49524650 TCACA
1 TCACA
49524655 TGGCCTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (20 bp):
TCACACAGCCATGTGACTCT
Found at i:49526815 original size:43 final size:44
Alignment explanation
Indices: 49526767--49526934 Score: 182
Period size: 43 Copynumber: 3.9 Consensus size: 44
49526757 GCCGAGATGA
* * *
49526767 GATTACATCTAAAACCATGTCTGGGACATTGGCATTGTAT-TGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * * *
49526810 GATTACGTGTAAGACCATGTTTTGGACATTGGCATCGT-TATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * *
49526853 GATTTCATGTAAGACCATGACTGGGACATTGGCATCG-ATATGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * * *
49526896 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
49526935 GAGATTTATG
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 8 0.08
43 94 0.92
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
Found at i:49529883 original size:47 final size:47
Alignment explanation
Indices: 49529823--49530226 Score: 639
Period size: 47 Copynumber: 8.6 Consensus size: 47
49529813 GATAATTGTG
* * * *
49529823 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49529870 ATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49529917 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCCATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49529964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49530013 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49530060 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49530107 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
49530154 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49530201 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49530227 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 289 0.86
49 45 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49529990 original size:143 final size:141
Alignment explanation
Indices: 49529823--49530226 Score: 639
Period size: 143 Copynumber: 2.9 Consensus size: 141
49529813 GATAATTGTG
* * * * *
49529823 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATATA
49529887 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
65 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
49529952 CCCATGTGATGA
130 CCCATGTGATGA
49529964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
49530029 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
49530094 GCCGATGTGATGA
129 GCCCATGTGATGA
49530107 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
49530172 GTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49530227 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 111 0.45
142 1 0.00
143 132 0.54
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
CCATGTGATGA
Found at i:49530151 original size:190 final size:188
Alignment explanation
Indices: 49529823--49530226 Score: 639
Period size: 190 Copynumber: 2.1 Consensus size: 188
49529813 GATAATTGTG
* * *
49529823 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGCATATAT
49529888 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
* * *
49529953 CCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 CCATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAACGTGATGA
* * *
49530013 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA-AGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACA-TGCATATA
*
49530077 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
65 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
* * * *
49530142 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
130 CCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
*
49530201 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49530227 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
188 55 0.28
189 1 0.01
190 142 0.72
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGCATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
CCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
Found at i:49532095 original size:40 final size:40
Alignment explanation
Indices: 49531661--49532083 Score: 600
Period size: 40 Copynumber: 10.6 Consensus size: 40
49531651 GAGTGAAATG
* *
49531661 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
*
49531701 TCCGGACTAAGT-TCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCT-CGAAGAGCATTCGTGCTAGTGATGTA
* * *
49531741 TCCGGACAAAGTTTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
* *
49531781 TCCAGACTAAGT-TCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCT-CGAAGAGCATTCGTGCTAGTGATGTA
*
49531821 TCCGGGCTAAGTCTCAAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
49531861 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
*
49531901 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
*
49531941 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
* *
49531981 TCCGGACTAAGT-TCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCT-CGAAGAGCATTCGTGCTAGTGATGTA
* * ** * * * *
49532021 TTCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
*
49532061 TCCGGGCTAGGTCTCGAAGAGCA
1 TCCGGGCTAAGTCTCGAAGAGCA
49532084 ATCATGCTGG
Statistics
Matches: 349, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 346 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:49536090 original size:47 final size:47
Alignment explanation
Indices: 49536030--49536480 Score: 715
Period size: 47 Copynumber: 9.6 Consensus size: 47
49536020 GATAATTGTG
* * * *
49536030 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49536077 ATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49536124 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49536171 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49536220 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49536267 ATGTGAAAGTTTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49536314 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49536361 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
49536408 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49536455 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49536481 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 334 0.88
49 45 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49539154 original size:20 final size:19
Alignment explanation
Indices: 49539118--49539168 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
49539108 AAGGGATATT
*
49539118 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
49539137 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
49539157 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
49539169 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:49544666 original size:48 final size:48
Alignment explanation
Indices: 49544595--49544915 Score: 317
Period size: 48 Copynumber: 6.7 Consensus size: 48
49544585 AGGGTAAATT
* *
49544595 GTCGATGCCATGTCCCAGACATGGT-TATACACTGGCTCACATGTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCT-TACACTGGCTCTCATATCGAG
** ** * * *
49544643 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTTGTCTCAAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* *
49544691 GCCGATGCCTTGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTA-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCG-AG
* * * * * * *
49544739 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGAC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* * *
49544787 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-ATT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-G
* * * *
49544835 GTCGATGCCATTTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* * * *
49544883 GCCAACGCCATGTCCCACACATGGTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
49544916 AGCACACATA
Statistics
Matches: 222, Mismatches: 44, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
47 4 0.02
48 215 0.97
49 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:49544861 original size:144 final size:144
Alignment explanation
Indices: 49544601--49544927 Score: 435
Period size: 144 Copynumber: 2.3 Consensus size: 144
49544591 AATTGTCGAT
* * * * *
49544601 GCCATGTCCCAGACATGGT-TATACACTGGCTCACATGTCGAGGTCGATGCCATGTCCCAGACAT
1 GCCATGTCCCAAACATGGTCT-TACACTAGCACACATATCGACGTCGATGCCATGTCCCAGACAT
** ** *
49544665 GGTCTTACACTAACTCTTGTCTCAATGCCGATGCCTTGTCCCAGACATGGTCTTACACTGGCTCT
65 GGTCTTACACTAACTCTCATAACAATGCCGATGCCTTGTCCCAAACATGGTCTTACACTGGCTCT
*
49544730 CATAAT-GTAGCCGAC
130 CAT-ATCGTAGCCAAC
*
49544745 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGACGTTGATGCCATGTCCCAGACATG
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGACGTCGATGCCATGTCCCAGACATG
** * * *
49544810 GTCTTACACTGGCTCTCATAACATTGTCGATGCCATT-TTCCAAACATGGTCTTACACTGGCTCT
66 GTCTTACACTAACTCTCATAACAATGCCGATGCC-TTGTCCCAAACATGGTCTTACACTGGCTCT
*
49544874 CATATCGTGGCCAAC
130 CATATCGTAGCCAAC
*
49544889 GCCATGTCCCACACATGGTCTTACACTAGCACACATATC
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATC
49544928 ACCCAATGTC
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
143 2 0.01
144 156 0.97
145 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (144 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGACGTCGATGCCATGTCCCAGACATG
GTCTTACACTAACTCTCATAACAATGCCGATGCCTTGTCCCAAACATGGTCTTACACTGGCTCTC
ATATCGTAGCCAAC
Found at i:49545705 original size:31 final size:31
Alignment explanation
Indices: 49545651--49545729 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
49545641 TCAGTACAAT
* *
49545651 CTGGGCCAAAGCCCTATTCATAAATCATATCA
1 CTGGGCCGAAG-CCTTTTCATAAATCATATCA
49545683 CTGGGCCGAAGCCTTTTCATAAATCATATCA
1 CTGGGCCGAAGCCTTTTCATAAATCATATCA
49545714 CTGGGCCGAAGCCTTT
1 CTGGGCCGAAGCCTTT
49545730 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 35 0.78
32 10 0.22
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
CTGGGCCGAAGCCTTTTCATAAATCATATCA
Found at i:49546025 original size:26 final size:26
Alignment explanation
Indices: 49545951--49546122 Score: 231
Period size: 26 Copynumber: 6.7 Consensus size: 26
49545941 TTTTAATAAT
*
49545951 TGGGGCA-AAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
*
49545976 TGGGGCA-AAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
* * * *
49546001 TGAGGCATAAGCTCTTTTTGGTAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
*
49546027 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
* *
49546053 TTGGGCATAAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
*
49546079 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCGATAAAC
*
49546105 TGGGGCATAAGCCTTTTT
1 TGGGGCATAAGCCCTTTT
49546123 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 29 0.23
26 98 0.77
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
TGGGGCATAAGCCCTTTTCGATAAAC
Found at i:49546053 original size:52 final size:51
Alignment explanation
Indices: 49545953--49546122 Score: 272
Period size: 52 Copynumber: 3.3 Consensus size: 51
49545943 TTAATAATTG
49545953 GGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
* *
49546002 GAGGCATAAGCTCTTTTTGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTT
1 G-GGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAC-T
49546055 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
*
49546106 GGGGCATAAGCCTTTTT
1 -GGGCATAAGCCCTTTT
49546123 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
49 1 0.01
50 4 0.04
51 24 0.22
52 80 0.72
53 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (51 bp):
GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
Found at i:49546990 original size:27 final size:27
Alignment explanation
Indices: 49546915--49547001 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
49546905 CATTCGTCAT
* * *
49546915 TTTACCATACAGTGG-TATTACAGTCAC
1 TTTACCATACAGGGGCT-TTACGGTCTC
*
49546942 TTTACCTTACAGGGGCTTTACGGTCTC
1 TTTACCATACAGGGGCTTTACGGTCTC
* *
49546969 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCATACAGGGGCTTTACGGTCTC
49546996 TTTACC
1 TTTACC
49547002 TAATAGGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (27 bp):
TTTACCATACAGGGGCTTTACGGTCTC
Found at i:49547159 original size:27 final size:25
Alignment explanation
Indices: 49547119--49547365 Score: 108
Period size: 27 Copynumber: 9.2 Consensus size: 25
49547109 AGAAAGTCAA
49547119 GGGTATTTCT-GTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTT-TAAATCAG
*
49547146 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT--AAATCAG
* * * *
49547172 AAGGTATTTCGGTAATTTGACAAACTAG
1 -GGGTATTTTGGTAATTTTA-AATC-AG
* *
49547200 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTA-AATC-AG
*
49547227 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT--AAATCAG
** * *
49547253 AGGGTATTTCAGTAATTTTATAAACCAA
1 -GGGTATTTTGGTAA-TTT-TAAATCAG
* * *
49547281 GGGTATTTTAGCAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTA-AATC-AG
*
49547307 GGGTATTTTGGTAATTTTACTGATC-G
1 GGGTATTTTGGTAATTTTA--AATCAG
*
49547333 AGGGTATTTTGGTAATTTTGTAAATCAA
1 -GGGTATTTTGGTAA-TTT-TAAATCAG
49547361 GGGTA
1 GGGTA
49547366 AAACAGTAAT
Statistics
Matches: 172, Mismatches: 27, Indels: 42
0.71 0.11 0.17
Matches are distributed among these distances:
25 4 0.02
26 31 0.18
27 124 0.72
28 9 0.05
29 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (25 bp):
GGGTATTTTGGTAATTTTAAATCAG
Found at i:49547206 original size:54 final size:53
Alignment explanation
Indices: 49547146--49547351 Score: 227
Period size: 54 Copynumber: 3.8 Consensus size: 53
49547136 TGTAAATCAG
* * *
49547146 GGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTGACAAACTA
1 GGGTATTTTGGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACTA
* * *
49547199 GTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATCGA-AGGTATTTTGGTAATTTTACAAACT-A
** * * * *
49547254 GGGTATTTCAGTAATTTTATAAA-CCAAGGGTATTTTAGCAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAATCGAA-GGTATTTTGGTAATTTTACAAACTA
** *
49547307 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATCGAAGGTATTTTGGTAATTTT
49547352 GTAAATCAAG
Statistics
Matches: 125, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 36 0.29
54 87 0.70
55 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACTA
Found at i:49547233 original size:81 final size:81
Alignment explanation
Indices: 49547144--49547350 Score: 292
Period size: 81 Copynumber: 2.6 Consensus size: 81
49547134 TTTGTAAATC
* *
49547144 AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTGACAAA-CTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTGACAAACCAAG-GGTATTT
* *
49547208 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* * *
49547225 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTGACAAACCAAGGGTATTTT
49547290 AGCAATTTTACAAACT
66 AGCAATTTTACAAACT
** * *
49547306 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTT
49547351 TGTAAATCAA
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
80 39 0.35
81 71 0.63
82 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTGACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:49547401 original size:23 final size:25
Alignment explanation
Indices: 49547367--49547436 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 25
49547357 TCAAGGGTAA
49547367 AACA-GTAATTCTATAAATCGAGGG
1 AACAGGTAATTCTATAAATCGAGGG
49547391 -AC-GGTAATTCTATAAATCGAGGG
1 AACAGGTAATTCTATAAATCGAGGG
49547414 TAAAACAGGTAATTCTATAAATC
1 ---AACAGGTAATTCTATAAATC
49547437 AAAGGTACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
23 22 0.55
27 2 0.05
28 16 0.40
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (25 bp):
AACAGGTAATTCTATAAATCGAGGG
Found at i:49547443 original size:28 final size:28
Alignment explanation
Indices: 49547343--49547443 Score: 97
Period size: 28 Copynumber: 3.8 Consensus size: 28
49547333 AGGGTATTTT
* * *
49547343 GGTAATTTTGTAAATCAAGGGTAAAACA
1 GGTAATTCTATAAATCAAAGGTAAAACA
* *
49547371 -GTAATTCTATAAATC-GAGG---GAC-
1 GGTAATTCTATAAATCAAAGGTAAAACA
* *
49547393 GGTAATTCTATAAATCGAGGGTAAAACA
1 GGTAATTCTATAAATCAAAGGTAAAACA
49547421 GGTAATTCTATAAATCAAAGGTA
1 GGTAATTCTATAAATCAAAGGTA
49547444 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
23 17 0.30
24 2 0.04
26 2 0.04
27 15 0.26
28 21 0.37
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (28 bp):
GGTAATTCTATAAATCAAAGGTAAAACA
Found at i:49549755 original size:40 final size:40
Alignment explanation
Indices: 49549692--49549952 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
49549682 ATTCGGATTG
*
49549692 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49549731 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49549771 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49549811 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49549851 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49549891 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
49549931 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
49549953 TACTTGGTTT
Statistics
Matches: 207, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 29 0.14
40 178 0.86
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:49559395 original size:193 final size:192
Alignment explanation
Indices: 49559062--49559444 Score: 678
Period size: 193 Copynumber: 2.0 Consensus size: 192
49559052 CAAGTTGGCA
49559062 CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
1 CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
49559127 CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGACACGGGCGTGAGCCCAGGGCATCTGAAGT
66 CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGACACGGGCGTGAGCCCAGGGCATCTGAAGT
49559192 CCAAACCTATTTTATGAAAATCTTCAAAAATTAAATCGCCAACATGGGC-TAAGTCACACGGCC
131 CCAAACCTATTTTATGAAAATCTTCAAAAATTAAATCGCCAACAT-GGCTTAAG-CACACGGCC
* *
49559255 CAAGTAAAGGTGGAAAATGACTTGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
1 CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
* * *
49559320 CGTGTGTCTCAGCCATGTGGACTTCACAGCCTCAGGCACGGGCGTGAGCCCAGGGCATGTGAAGT
66 CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGACACGGGCGTGAGCCCAGGGCATCTGAAGT
* *
49559385 CCACACCTATTTTATGAAAATCTTCAAAAATTAAATCGCCCACATGGCTTAAGCACACGG
131 CCAAACCTATTTTATGAAAATCTTCAAAAATTAAATCGCCAACATGGCTTAAGCACACGG
49559445 TCGTGTGACT
Statistics
Matches: 182, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
192 10 0.05
193 172 0.95
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (192 bp):
CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGACACGGGCGTGAGCCCAGGGCATCTGAAGT
CCAAACCTATTTTATGAAAATCTTCAAAAATTAAATCGCCAACATGGCTTAAGCACACGGCC
Found at i:49564082 original size:21 final size:21
Alignment explanation
Indices: 49564058--49564127 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
49564048 TGACTTGAAC
*
49564058 TCATTGCGTTGTGGTCTGAGT
1 TCATTGTGTTGTGGTCTGAGT
* * *
49564079 TCA-TGATATATGTGACATCTGAGC
1 TCATTG-TGT-TGTG--GTCTGAGT
49564103 TCATTGTGTTGTGGTCTGAGT
1 TCATTGTGTTGTGGTCTGAGT
49564124 TCAT
1 TCAT
49564128 GATGTATGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 4 0.11
23 4 0.11
24 11 0.30
25 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.41
Consensus pattern (21 bp):
TCATTGTGTTGTGGTCTGAGT
Found at i:49564114 original size:45 final size:44
Alignment explanation
Indices: 49564043--49564140 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 44
49564033 TAAATAGGAA
49564043 ATATGTGAC-TTGAACTCATTGCGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATTGAACTCATTGCGTTGTGGTCTGAGTTCATGAT
* *
49564086 ATATGTGACATCTGAGCTCATTGTGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACAT-TGAACTCATTGCGTTGTGGTCTGAGTTCATGAT
*
49564131 GTATGTGACA
1 ATATGTGACA
49564141 CATATTTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 9 0.18
44 1 0.02
45 40 0.80
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (44 bp):
ATATGTGACATTGAACTCATTGCGTTGTGGTCTGAGTTCATGAT
Found at i:49564653 original size:36 final size:36
Alignment explanation
Indices: 49564606--49564679 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
49564596 GCATGCGAAC
49564606 TTACTAAGCTTTAATGCTTACCCCCTTCCTTTCCTT
1 TTACTAAGCTTTAATGCTTACCCCCTTCCTTTCCTT
49564642 TTACTAAGCTTTAATGCTTACCCCCTTCCTTTCCTT
1 TTACTAAGCTTTAATGCTTACCCCCTTCCTTTCCTT
49564678 TT
1 TT
49564680 CTTATAGTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.16, C:0.32, G:0.05, T:0.46
Consensus pattern (36 bp):
TTACTAAGCTTTAATGCTTACCCCCTTCCTTTCCTT
Found at i:49568405 original size:68 final size:68
Alignment explanation
Indices: 49568255--49568412 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
49568245 CTAGCCAATT
* * *
49568255 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
49568320 TTTA
65 CATA
* * *
49568324 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
49568386 CTACATA
63 C-ACATA
*
49568393 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
49568413 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:49570936 original size:21 final size:21
Alignment explanation
Indices: 49570897--49570937 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49570887 GGTACAATGG
*
49570897 ATATTGTTTTCTTATGTTAAA
1 ATATTGTTTTATTATGTTAAA
49570918 ATATGTGTTTTATTA-GTTAA
1 ATAT-TGTTTTATTATGTTAA
49570938 TAAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (21 bp):
ATATTGTTTTATTATGTTAAA
Found at i:49576284 original size:21 final size:22
Alignment explanation
Indices: 49576258--49576298 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49576248 TACTAGATAC
49576258 AGGGGC-ACATGCCCGTGTGGG
1 AGGGGCAACATGCCCGTGTGGG
49576279 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACATGCCCGTGTG
49576299 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (22 bp):
AGGGGCAACATGCCCGTGTGGG
Found at i:49577599 original size:46 final size:45
Alignment explanation
Indices: 49577513--49577671 Score: 164
Period size: 46 Copynumber: 3.5 Consensus size: 45
49577503 GCCGATTCCG
* *
49577513 TGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCCGATACA
1 TGTCCCAGACATGGTCTTACATTGACTACGTCTCG-AGCCGATACA
*
49577558 TGTCCCAGACAT-GTCTTACATTGACTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACATTGAC-TACGTCTCGA-GCCGATACA
* * *
49577604 TGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGGTCTTACA-TTG-ACTACGTCTCGA-GCCGAT-ACA
*
49577651 TGTCCTAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
49577672 CTGGCTCTCA
Statistics
Matches: 99, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 48 0.48
47 16 0.16
48 10 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
TGTCCCAGACATGGTCTTACATTGACTACGTCTCGAGCCGATACA
Found at i:49585669 original size:19 final size:20
Alignment explanation
Indices: 49585645--49585685 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49585635 ATGTTATTTG
49585645 ATATATGCA-TAATTTATAT
1 ATATATGCAGTAATTTATAT
* *
49585664 ATATATGGAGTATTTTATAT
1 ATATATGCAGTAATTTATAT
49585684 AT
1 AT
49585686 GCAAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (20 bp):
ATATATGCAGTAATTTATAT
Found at i:49585778 original size:17 final size:18
Alignment explanation
Indices: 49585756--49585790 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49585746 TGACATTGAA
49585756 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
49585773 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
49585791 CTTCTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:49586919 original size:29 final size:28
Alignment explanation
Indices: 49586862--49586958 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 28
49586852 TACCTGTATC
*
49586862 TGGCCCATTAAGCCC-AATCA-TATTCATA
1 TGGCCCATTAGGCCCAAATCACT-TT-ATA
49586890 TGGCCCATTAGGCCCAAATCACTTGTATA
1 TGGCCCATTAGGCCCAAATCACTT-TATA
49586919 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCAC-TTTATA
*
49586948 TGGCCCGTTAG
1 TGGCCCATTAG
49586959 ACCTAGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
28 14 0.22
29 45 0.71
30 4 0.06
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACTTTATA
Found at i:49595346 original size:18 final size:17
Alignment explanation
Indices: 49595327--49595392 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 17
49595317 CTACCCCTTT
*
49595327 TTCCTCACATGCATCTTT
1 TTCCTCAC-TGCATCTTC
49595345 TTCCTC-CTCGACATCTTC
1 TTCCTCACT-G-CATCTTC
*
49595363 TTCCTCACCTACATCTTC
1 TTCCTCA-CTGCATCTTC
49595381 TTCCTCATCTGC
1 TTCCTCA-CTGC
49595393 GCCTCTATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.03
17 2 0.05
18 35 0.88
20 2 0.05
ACGTcount: A:0.14, C:0.41, G:0.05, T:0.41
Consensus pattern (17 bp):
TTCCTCACTGCATCTTC
Found at i:49601225 original size:27 final size:27
Alignment explanation
Indices: 49601195--49601248 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49601185 TCATACAACC
* *
49601195 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
49601222 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
49601249 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:49601580 original size:30 final size:30
Alignment explanation
Indices: 49601546--49601602 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
49601536 AAAATCATAT
*
49601546 TTTGTAAAAATTACAATTTTGCCCCTAAAC
1 TTTGTAAAAATTACAATTTTACCCCTAAAC
* *
49601576 TTTGTCAAAATTACATTTTTACCCCTA
1 TTTGTAAAAATTACAATTTTACCCCTA
49601603 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTGTAAAAATTACAATTTTACCCCTAAAC
Found at i:49607051 original size:27 final size:27
Alignment explanation
Indices: 49607019--49607072 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49607009 TTATACAACC
* *
49607019 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
49607046 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
49607073 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:49607404 original size:30 final size:30
Alignment explanation
Indices: 49607370--49607426 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49607360 AAAATCATAT
49607370 TTTGTAAAAATTACAATTTTGCCCCTAAAC
1 TTTGTAAAAATTACAATTTTGCCCCTAAAC
* *
49607400 TTTGTCAAAATTACATTTTTGCCCCTA
1 TTTGTAAAAATTACAATTTTGCCCCTA
49607427 GGCTAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTGTAAAAATTACAATTTTGCCCCTAAAC
Found at i:49612445 original size:51 final size:50
Alignment explanation
Indices: 49612366--49612513 Score: 165
Period size: 51 Copynumber: 3.0 Consensus size: 50
49612356 CACACTTGTA
* * * * *
49612366 GACAAGGTTATCTGGCACGCATAGTAGCCTGCACTTAGTACTACACACAT
1 GACAAAGTTATCCGGTACGAATAGTAGCCTGCACTTAGTACTACACACAC
* * **
49612416 GATCAAAGTTATCGGGTACGAATAATAGCCTGCACTTAGTACTACACATGC
1 GA-CAAAGTTATCCGGTACGAATAGTAGCCTGCACTTAGTACTACACACAC
* *
49612467 GACCAA-TTATCCGGTAC-ACGTAGTAGCCTGCACTTAGTACTACACAC
1 GACAAAGTTATCCGGTACGA-ATAGTAGCCTGCACTTAGTACTACACAC
49612514 GTGACCTCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.42
50 5 0.06
51 42 0.51
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (50 bp):
GACAAAGTTATCCGGTACGAATAGTAGCCTGCACTTAGTACTACACACAC
Found at i:49612483 original size:49 final size:51
Alignment explanation
Indices: 49612385--49612513 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 51
49612375 ATCTGGCACG
* * *
49612385 CATAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTATCGGGTACGA
1 CATAATAGCCTGCACTTAGTACTACACACACGATCAAAGTTATCCGGTAC-A
** *
49612437 -ATAATAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACA
1 CATAATAGCCTGCACTTAGTACTACACACACGATCAAAGTTATCCGGTACA
* *
49612485 CGTAGTAGCCTGCACTTAGTACTACACAC
1 CATAATAGCCTGCACTTAGTACTACACAC
49612514 GTGACCTCAG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.52
50 3 0.04
51 28 0.42
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
CATAATAGCCTGCACTTAGTACTACACACACGATCAAAGTTATCCGGTACA
Found at i:49612796 original size:27 final size:27
Alignment explanation
Indices: 49612766--49612822 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
49612756 TCATACAACC
* *
49612766 CATGTAATAGTAATTTA-ACATTCAATT
1 CATGTAACAATAATTTACA-ATTCAATT
*
49612793 CATGTAACAATAATTTTCAATTCAATT
1 CATGTAACAATAATTTACAATTCAATT
49612820 CAT
1 CAT
49612823 CAACGGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (27 bp):
CATGTAACAATAATTTACAATTCAATT
Found at i:49613207 original size:46 final size:47
Alignment explanation
Indices: 49613100--49613319 Score: 218
Period size: 46 Copynumber: 4.7 Consensus size: 47
49613090 CGGCCACATT
*
49613100 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATC-GCCTTGAG
* *
49613148 ATGAGGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATC-GCCTTGAG
* * *
49613194 ATGTA-AGCCAGTGTAAGA-CATGTCTAGGACATA-CATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGCCT-TGAG
* * * * *
49613240 ATGATAGTCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGCCTTGAG
* * * *
49613287 AT-ACGAACCAGTATAAGACCGTGTCTAGGACAT
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACAT
49613320 GGAATAGGCA
Statistics
Matches: 143, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 61 0.43
47 55 0.38
48 23 0.16
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGCCTTGAG
Found at i:49613271 original size:93 final size:94
Alignment explanation
Indices: 49613105--49613319 Score: 255
Period size: 93 Copynumber: 2.3 Consensus size: 94
49613095 ACATTATGAG
* * * *
49613105 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATCGAGATGAAGGCTAATGTAAGACATG
*
49613170 TCTGGGACAT-GCATCAGCCTTGAGAT-GTA
66 TCTGGGACATGGCATC-GACTTGAGATAG-A
*
49613199 AGCCAGTGTAAGA-CATGTCTAGGACATA-CATCGGC-TACGAGATGATAGTC-AATGTAAGACC
1 AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCAT-CGAGATGA-AGGCTAATGTAAGA-C
49613260 ATGTCTGGGACATGGCATCGACTTGAGATACGA
63 ATGTCTGGGACATGGCATCGACTTGAGATA-GA
* *
49613293 A-CCAGTATAAGACCGTGTCTAGGACAT
1 AGCCAGTGTAAGACCATGTCTAGGACAT
49613320 GGAATAGGCA
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
91 1 0.01
92 22 0.21
93 49 0.46
94 33 0.31
95 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATCGAGATGAAGGCTAATGTAAGACATG
TCTGGGACATGGCATCGACTTGAGATAGA
Found at i:49613304 original size:47 final size:45
Alignment explanation
Indices: 49613067--49613320 Score: 219
Period size: 47 Copynumber: 5.5 Consensus size: 45
49613057 TGAGCTAGTA
* *** *
49613067 TAAGA-CATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGCATCGGCTTGA-GATGA-AGCCAGTG
* *
49613113 TAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGAGGGCTAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGGC-TTGAGATGA-AGCCAGTG
*
49613161 TAAGA-CATGTCTGGGACATGCATCAGCCTTGAGATGTAAGCCAGTG
1 TAAGACCATGTCTGGGACATGCATC-GGCTTGAGATG-AAGCCAGTG
* * * * *
49613207 TAAGA-CATGTCTAGGACATACATCGGCTACGAGATGATAGTCAATG
1 TAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGA-AGCCAGTG
* *
49613253 TAAGACCATGTCTGGGACATGGCATCGACTTGAGATACGAA-CCAGTA
1 TAAGACCATGTCTGGGACAT-GCATCGGCTTGAGAT--GAAGCCAGTG
* *
49613300 TAAGACCGTGTCTAGGACATG
1 TAAGACCATGTCTGGGACATG
49613321 GAATAGGCAC
Statistics
Matches: 172, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
45 4 0.02
46 64 0.37
47 69 0.40
48 32 0.19
49 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
TAAGACCATGTCTGGGACATGCATCGGCTTGAGATGAAGCCAGTG
Found at i:49613319 original size:140 final size:140
Alignment explanation
Indices: 49613067--49613320 Score: 316
Period size: 140 Copynumber: 1.8 Consensus size: 140
49613057 TGAGCTAGTA
* * * * *
49613067 TAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTAGGACATACATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTGGGACA
* ** * * *
49613132 TAGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATG
66 TAGCATCGACATTGAGATGAGAACCAGTATAAGACATGTCTAGGACATGCATCAGCCTTGAGATG
49613197 TAAGCCAGTG
131 TAAGCCAGTG
* * *
49613207 TAAGACATGTCTAGGACATACATCGGCTACGA-GATGATAGTCAATGTAAGACCATGTCTGGGAC
1 TAAGACATGTCTAGGACATACATCGGCCAC-ATGATGAGAGCCAATGTAAGACCATGTCTGGGAC
* *
49613271 ATGGCATCGAC-TTGAGAT-ACGAACCAGTATAAGACCGTGTCTAGGACATG
65 ATAGCATCGACATTGAGATGA-GAACCAGTATAAGA-CATGTCTAGGACATG
49613321 GAATAGGCAC
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.18
140 76 0.80
141 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (140 bp):
TAAGACATGTCTAGGACATACATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTGGGACA
TAGCATCGACATTGAGATGAGAACCAGTATAAGACATGTCTAGGACATGCATCAGCCTTGAGATG
TAAGCCAGTG
Found at i:49617138 original size:39 final size:39
Alignment explanation
Indices: 49617082--49617264 Score: 296
Period size: 39 Copynumber: 4.7 Consensus size: 39
49617072 CATGGTATTT
*
49617082 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGTTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
49617121 GGAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
49617160 GAAATATATCCGGACATGAAGTCTGCAGGCTATATGCTAG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCT-G
*
49617200 G-AATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
49617238 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
49617265 AGCCACGTGT
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.02
39 128 0.97
40 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:49617211 original size:78 final size:78
Alignment explanation
Indices: 49617082--49617264 Score: 330
Period size: 78 Copynumber: 2.3 Consensus size: 78
49617072 CATGGTATTT
* *
49617082 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGTTGGGAATATATCCGGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
49617147 AGGCTATATGCTG
66 AGGCTATATGCTG
*
49617160 GAAATATATCCGGACATGAAGTCTGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
49617225 AGGCTATATGCTG
66 AGGCTATATGCTG
*
49617238 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
49617265 AGCCACGTGT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 100 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (78 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
AGGCTATATGCTG
Found at i:49627022 original size:96 final size:96
Alignment explanation
Indices: 49626952--49627155 Score: 304
Period size: 96 Copynumber: 2.1 Consensus size: 96
49626942 GATAATTGTG
49626952 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
** *
49627015 ATGTGATAAGGCCGAATGGCCAATATGATGA
66 ATGTGATAAGGAAGAATGGACAATATGATGA
49627046 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*** * * * *
49627111 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGAAGAATGGACAATATGATGA
49627142 ATGTGAAAGTGTAT
1 ATGTGAAAGTGTAT
49627156 GTGATGAATG
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
94 5 0.05
95 2 0.02
96 97 0.93
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGAAGAATGGACAATATGATGA
Found at i:49627152 original size:47 final size:47
Alignment explanation
Indices: 49626952--49627155 Score: 336
Period size: 47 Copynumber: 4.3 Consensus size: 47
49626942 GATAATTGTG
* *
49626952 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
49626999 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATATGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49627046 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49627095 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49627142 ATGTGAAAGTGTAT
1 ATGTGAAAGTGTAT
49627156 GTGATGAATG
Statistics
Matches: 146, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
47 102 0.70
49 44 0.30
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49627162 original size:68 final size:68
Alignment explanation
Indices: 49627086--49627223 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
49627076 CTAATGGCCG
49627086 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
49627151 TGT
66 TGT
* *
49627154 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
49627219 TGT
66 TGT
49627222 AT
1 AT
49627224 ATATGTGACA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (68 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGT
Found at i:49627187 original size:25 final size:21
Alignment explanation
Indices: 49627133--49627176 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
49627123 CTAATAGCCG
49627133 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
49627154 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
49627175 AT
1 AT
49627177 ATATGTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (21 bp):
ATGTGATGAATGTGAAAGTGT
Found at i:49627209 original size:47 final size:48
Alignment explanation
Indices: 49627154--49627279 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 48
49627144 GTGAAAGTGT
* * *
49627154 ATGTGATGAATGTGAAAGTGTATATATGTGATGAG-GCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATCAGAGCCGAATGGCCA
*
49627201 ATGTGATGAATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATCAGAGCCGAATGGCCA
* * *
49627248 ACGTGATGGATGTGAAAGTGTATAAATGTGAT
1 ATGTGATGAATGTGAAAGTGTATATATGTGAT
49627280 AAGTCCCGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
46 2 0.03
47 68 0.97
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (48 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATCAGAGCCGAATGGCCA
Found at i:49627254 original size:115 final size:116
Alignment explanation
Indices: 49627040--49627270 Score: 358
Period size: 115 Copynumber: 2.0 Consensus size: 116
49627030 ATGGCCAATA
49627040 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
49627105 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATG
65 GTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATG
*
49627157 TGATGAATGTGAAAGTG-TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
49627221 TATATATGTGAC-AGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
66 TATATATGTGACAAG-GCCGAATAGCCAACGTGATGAATGTGAAAGTGTAT
49627271 AAATGTGATA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 2 0.02
115 86 0.82
117 17 0.16
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (116 bp):
TGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATG
Found at i:49629649 original size:78 final size:78
Alignment explanation
Indices: 49629454--49629636 Score: 339
Period size: 78 Copynumber: 2.3 Consensus size: 78
49629444 CATGGTATTT
* *
49629454 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGTTGGGAATATATCCGGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
49629519 AGGCTATATGCTG
66 AGGCTATATGCTG
49629532 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
49629597 AGGCTATATGCTG
66 AGGCTATATGCTG
*
49629610 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
49629637 AGCCACGTGC
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (78 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
AGGCTATATGCTG
Found at i:49629651 original size:39 final size:39
Alignment explanation
Indices: 49629454--49629636 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
49629444 CATGGTATTT
*
49629454 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGTTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
49629493 GGAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
49629532 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * *
49629571 GGAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
49629610 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
49629637 AGCCACGTGC
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 132 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:49634285 original size:39 final size:39
Alignment explanation
Indices: 49634241--49634361 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
49634231 AATTATGTTA
* *
49634241 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
49634280 CCAGCATGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
49634319 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGCATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
49634358 CCAG
1 CCAG
49634362 TGTCTTGCTT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
Found at i:49636346 original size:40 final size:40
Alignment explanation
Indices: 49636256--49636473 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
49636246 TGGATGATAA
* *
49636256 CCGGGCTAAGTCCCGAAGGCATTTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTA-TAT
** * * *
49636297 CCGAACTAAGTCCCGAAAGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
49636337 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
49636377 CCGGGCTAAGTCCCGAAGGAAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
49636417 CCGGGCTATGTCCTGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49636456 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49636474 TACTTGGCTT
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
38 14 0.09
39 15 0.10
40 104 0.69
41 18 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49642204 original size:38 final size:38
Alignment explanation
Indices: 49642153--49642228 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
49642143 CTCTCAAAGC
*
49642153 AAACAAAGATTTTCTGCTTAGTGCATCTGTGACCACAT
1 AAACAAAGATTTTCTGCTTAGTGCATCTATGACCACAT
*
49642191 AAACAAGGATTTTCTGCTTAGTGCATCTATGACCACAT
1 AAACAAAGATTTTCTGCTTAGTGCATCTATGACCACAT
49642229 TCACCTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (38 bp):
AAACAAAGATTTTCTGCTTAGTGCATCTATGACCACAT
Found at i:49644548 original size:42 final size:43
Alignment explanation
Indices: 49644444--49644561 Score: 159
Period size: 42 Copynumber: 2.7 Consensus size: 43
49644434 TGAGATATCA
* *
49644444 TGTAAGACCGTGTTTGGGACATAGGCCTCGATTTGAGATTTACG
1 TGTAAGACCATGTTTGGGACATAGGCATCGATTT-AGATTTACG
49644488 TGTAAGACCATGTTTGGGACATAGGCATCGTATTT-GATTT-CG
1 TGTAAGACCATGTTTGGGACATAGGCATCG-ATTTAGATTTACG
* * *
49644530 TGTAAGACCCTGTCTGGGACAAAGGCATCGAT
1 TGTAAGACCATGTTTGGGACATAGGCATCGAT
49644562 ACTGAATTAC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
41 2 0.03
42 29 0.43
43 5 0.07
44 28 0.41
45 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATAGGCATCGATTTAGATTTACG
Found at i:49655449 original size:43 final size:43
Alignment explanation
Indices: 49655359--49655501 Score: 173
Period size: 43 Copynumber: 3.3 Consensus size: 43
49655349 TTGAATTTGA
* *
49655359 GGCACTAAGTGTGCGATA-AATGAAATAG-TTGCGGCTAATTAATT
1 GGCACTAAGTGTGCGATACAAT--TATAGCCT-CGGCTAATTAATT
*
49655403 GGCACTAAATGTGCGATACAATTATAGCCTCGGCTAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATT
* * * *
49655446 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAAGTAATC
1 GGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATT
*
49655489 GGCAGTAAGTGTG
1 GGCACTAAGTGTG
49655502 TGAGTTCGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
43 67 0.76
44 18 0.20
45 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATT
Found at i:49658466 original size:20 final size:21
Alignment explanation
Indices: 49658449--49658501 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
49658439 TTTTATAATT
49658449 AAATCA-TAAAAATTATAAAG
1 AAATCATTAAAAATTATAAAG
* *
49658469 AAATCATTAAAACTTTTTAAA-
1 AAATCATTAAAA-ATTATAAAG
49658490 AAATCATTAAAA
1 AAATCATTAAAA
49658502 GTTTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 17 0.59
22 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATCATTAAAAATTATAAAG
Found at i:49658511 original size:21 final size:21
Alignment explanation
Indices: 49658469--49658511 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49658459 AATTATAAAG
**
49658469 AAATCATTAAAACTTTTTAAA
1 AAATCATTAAAACTTTAAAAA
*
49658490 AAATCATTAAAAGTTTAAAAA
1 AAATCATTAAAACTTTAAAAA
49658511 A
1 A
49658512 TATAAAAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATCATTAAAACTTTAAAAA
Found at i:49658517 original size:17 final size:17
Alignment explanation
Indices: 49658484--49658535 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
49658474 ATTAAAACTT
49658484 TTTAAAAAATCATTAAAAG
1 TTTAAAAAAT-A-TAAAAG
49658503 TTTAAAAAATATAAAAG
1 TTTAAAAAATATAAAAG
**
49658520 TGCAAAAAATATAAAA
1 TTTAAAAAATATAAAA
49658536 AATTATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 20 0.65
18 1 0.03
19 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (17 bp):
TTTAAAAAATATAAAAG
Found at i:49658595 original size:32 final size:32
Alignment explanation
Indices: 49658538--49658599 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
49658528 ATATAAAAAA
* * * *
49658538 TTATTAAAATTATTATAAATGAAAAAAATATT
1 TTATAAAAACTATTAAAAATAAAAAAAATATT
49658570 TTATAAAAACTATTAAAAATAAAAAAAATA
1 TTATAAAAACTATTAAAAATAAAAAAAATA
49658600 AAAAAATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (32 bp):
TTATAAAAACTATTAAAAATAAAAAAAATATT
Found at i:49658628 original size:43 final size:45
Alignment explanation
Indices: 49658569--49658682 Score: 128
Period size: 43 Copynumber: 2.6 Consensus size: 45
49658559 AAAAAAATAT
* * *
49658569 TTTATAAAAACTATTAAAAATAAAAAA-A-ATAAAAAAATTGAAA
1 TTTATTAAAATTATTAAAAATAAAAAATATATAAAAAAATAGAAA
* *
49658612 TTTATTAAAATTATT-AAAATAAAAAATATATAGAAATATAGAAA
1 TTTATTAAAATTATTAAAAATAAAAAATATATAAAAAAATAGAAA
49658656 -TTATTAAAATTTTATTAAAAAATAAAA
1 TTTATTAAAA--TTATT-AAAAATAAAA
49658683 TAGTACAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 11 0.18
43 23 0.38
44 12 0.20
45 5 0.08
47 9 0.15
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (45 bp):
TTTATTAAAATTATTAAAAATAAAAAATATATAAAAAAATAGAAA
Found at i:49658665 original size:17 final size:15
Alignment explanation
Indices: 49658618--49658665 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
49658608 GAAATTTATT
49658618 AAAATTATTAAAATA
1 AAAATTATTAAAATA
*
49658633 AAAAATATATAGAAATA
1 AAAATTAT-TA-AAATA
49658650 TAGAAATTATTAAAAT
1 -A-AAATTATTAAAAT
49658666 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 7 0.26
16 2 0.07
17 9 0.33
18 3 0.11
19 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (15 bp):
AAAATTATTAAAATA
Found at i:49659058 original size:30 final size:31
Alignment explanation
Indices: 49659018--49659076 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
49659008 TATAAGTTTT
* *
49659018 AAAGGATCAAATTA-ATTTTTTATCATTTTAA
1 AAAGGATCAAAATACA-ATTTTATCATTTTAA
49659049 AAAGG-TCAAAATACAATTTTATCATTTT
1 AAAGGATCAAAATACAATTTTATCATTTT
49659077 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
AAAGGATCAAAATACAATTTTATCATTTTAA
Found at i:49659355 original size:28 final size:28
Alignment explanation
Indices: 49659313--49659384 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
49659303 GATTTTTTAA
* * *
49659313 AAATATTGTTAATAAATTTCTATA-TTTT
1 AAATATTTTTCATAAATTT-TACACTTTT
*
49659341 AAATATTTTTCATAACTTTTACACTTTT
1 AAATATTTTTCATAAATTTTACACTTTT
49659369 -AATA-TTTTCATAAATT
1 AAATATTTTTCATAAATT
49659385 ATATAATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 11 0.29
27 7 0.18
28 20 0.53
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (28 bp):
AAATATTTTTCATAAATTTTACACTTTT
Found at i:49659405 original size:19 final size:20
Alignment explanation
Indices: 49659368--49659412 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
49659358 TTTACACTTT
49659368 TAATATTTTCATAAATTATA
1 TAATATTTTCATAAATTATA
* *
49659388 TAATGTTTT-ATAATTTATA
1 TAATATTTTCATAAATTATA
49659407 TAATAT
1 TAATAT
49659413 ATATTTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATATTTTCATAAATTATA
Found at i:49659491 original size:25 final size:26
Alignment explanation
Indices: 49659470--49659534 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
49659460 GAATTATATT
*
49659470 TTTTATAATTTTTTTCATTTATAATAA
1 TTTTATAATTTTTTCCATTTAT-ATAA
* * *
49659497 TTTTAT-ATATTTTCCATTTTTATGA
1 TTTTATAATTTTTTCCATTTATATAA
49659522 TTTTATAATTTTT
1 TTTTATAATTTTT
49659535 ATGATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 9 0.28
26 17 0.53
27 6 0.19
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTATAATTTTTTCCATTTATATAA
Found at i:49659532 original size:17 final size:17
Alignment explanation
Indices: 49659470--49659543 Score: 71
Period size: 17 Copynumber: 4.3 Consensus size: 17
49659460 GAATTATATT
* *
49659470 TTTTATAATTTTTTTCA
1 TTTTATAATTTTTATGA
49659487 TTTATAATAATTTTATAT-A
1 TTT-T-ATAATTTT-TATGA
**
49659506 TTTT-CCATTTTTATGA
1 TTTTATAATTTTTATGA
49659522 TTTTATAATTTTTATGA
1 TTTTATAATTTTTATGA
49659539 TTTTA
1 TTTTA
49659544 ATCATAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
17 18 0.38
18 2 0.04
19 12 0.26
20 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTATAATTTTTATGA
Found at i:49659542 original size:25 final size:24
Alignment explanation
Indices: 49659470--49659543 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 24
49659460 GAATTATATT
*
49659470 TTTTATAATTTTTTTCATTTATAATAA
1 TTTTATAATTTTTAT-ATTT-T-ATAA
* *
49659497 TTTTATATATTTTCCAT-TTTTATGA
1 TTTTATA-ATTTT-TATATTTTATAA
49659522 TTTTATAATTTTTATGATTTTA
1 TTTTATAATTTTTAT-ATTTTA
49659544 ATCATAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
23 2 0.05
24 5 0.13
25 15 0.38
26 1 0.03
27 10 0.26
28 5 0.13
29 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTTATAATTTTTATATTTTATAA
Found at i:49659579 original size:30 final size:30
Alignment explanation
Indices: 49659543--49659601 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
49659533 TTATGATTTT
49659543 AATCATAAAATACTAGATTTCGCTATATGA
1 AATCATAAAATACTAGATTTCGCTATATGA
49659573 AATCATAAAATACTAGATTTCGCTATATG
1 AATCATAAAATACTAGATTTCGCTATATG
49659602 GCACAATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (30 bp):
AATCATAAAATACTAGATTTCGCTATATGA
Done.