Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 36 of 126
Found at i:10909512 original size:14 final size:14
Alignment explanation
Indices: 10909495--10909524 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10909485 TTTAAACTCT
*
10909495 AAAAGATAAATATA
1 AAAAGATAAACATA
10909509 AAAAGATAAACATA
1 AAAAGATAAACATA
10909523 AA
1 AA
10909525 TTAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (14 bp):
AAAAGATAAACATA
Found at i:10909548 original size:19 final size:19
Alignment explanation
Indices: 10909526--10909568 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10909516 AAACATAAAT
10909526 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
10909545 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
10909564 TAAAT
1 TAAAT
10909569 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:10909809 original size:23 final size:25
Alignment explanation
Indices: 10909772--10909820 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
10909762 TAATAGGATC
10909772 ATATCCTAAAAATATAT-ATATTTA
1 ATATCCTAAAAATATATCATATTTA
10909796 ATATCC-AAAAATATATCATATTTA
1 ATATCCTAAAAATATATCATATTTA
10909820 A
1 A
10909821 ACATTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATCCTAAAAATATATCATATTTA
Found at i:10911255 original size:37 final size:37
Alignment explanation
Indices: 10911205--10911283 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
10911195 TATGAGATAT
*
10911205 AATTAGGTCATAATGGGAAACGAATTTATTCCAAATA
1 AATTAGGTCATAATGGGAAACGAATTTATGCCAAATA
10911242 AATTAGGTCATAATGGGAAACGAATTTATGCCAAATA
1 AATTAGGTCATAATGGGAAACGAATTTATGCCAAATA
10911279 AATTA
1 AATTA
10911284 AGGATATCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.29
Consensus pattern (37 bp):
AATTAGGTCATAATGGGAAACGAATTTATGCCAAATA
Found at i:10911720 original size:18 final size:19
Alignment explanation
Indices: 10911697--10911734 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10911687 AAAATTTTAG
*
10911697 ACTAAAA-ATTATTAAAAA
1 ACTAAAAGATAATTAAAAA
10911715 ACTAAAAGATAATTAAAAA
1 ACTAAAAGATAATTAAAAA
10911734 A
1 A
10911735 ATCATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
ACTAAAAGATAATTAAAAA
Found at i:10914763 original size:2 final size:2
Alignment explanation
Indices: 10914758--10914788 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10914748 CCTTTCACAC
10914758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10914789 CGGTATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10917059 original size:28 final size:29
Alignment explanation
Indices: 10917001--10917059 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
10916991 ATTTTTTAAA
* **
10917001 TTTAAAAATTCAAAAAATTATAAAATTATT
1 TTTAAAAATT-AAAAAATCATAAAAAAATT
10917031 TTTAAAAATT-AAAAATCATAAAAAAATT
1 TTTAAAAATTAAAAAATCATAAAAAAATT
10917059 T
1 T
10917060 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 16 0.62
30 10 0.38
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
TTTAAAAATTAAAAAATCATAAAAAAATT
Found at i:10917064 original size:37 final size:35
Alignment explanation
Indices: 10916982--10917065 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 35
10916972 TCACATCAAC
* * *
10916982 ATTT-AATTCATTTTTTAAATTTAAAAATTCAAAAA
1 ATTTAAATT-ATTTTTAAAAATTAAAAATTAAAAAA
10917017 ATTATAAAATTATTTTTAAAAATTAAAAATCATAAAAAA
1 ATT-T-AAATTATTTTTAAAAATTAAAAAT--TAAAAAA
10917056 ATTTAAATTA
1 ATTTAAATTA
10917066 AAAATAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
35 3 0.07
36 1 0.02
37 23 0.56
38 5 0.12
39 9 0.22
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (35 bp):
ATTTAAATTATTTTTAAAAATTAAAAATTAAAAAA
Found at i:10927788 original size:14 final size:14
Alignment explanation
Indices: 10927771--10927812 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
10927761 TATATTAATG
10927771 AATAAATATACGAA
1 AATAAATATACGAA
*
10927785 AATAAATATAAGAAA
1 AATAAATATACG-AA
10927800 AATAAA-ATACGAA
1 AATAAATATACGAA
10927813 TCATGAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 15 0.60
15 8 0.32
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (14 bp):
AATAAATATACGAA
Found at i:10928006 original size:29 final size:30
Alignment explanation
Indices: 10927937--10928160 Score: 111
Period size: 30 Copynumber: 7.5 Consensus size: 30
10927927 GTTTGGGGTT
* * *
10927937 AAAACGTAATTTTGG-AAAGTTATAAGAGC-
1 AAAATGTAATTTTGGAAAAGTT-TAGGGGCA
* * *
10927966 AAAATTTTATTTTGGAAAAG-TTCGGGGCA
1 AAAATGTAATTTTGGAAAAGTTTAGGGGCA
* * *
10927995 AAAATGTAATTTTTGAGAAGTTTAGGGGTA
1 AAAATGTAATTTTGGAAAAGTTTAGGGGCA
* ** * *
10928025 AAAATGTGATTTTTTAGAA-TTTTGGAGGC-
1 AAAATGTAATTTTGGAAAAGTTTAGG-GGCA
* * * * *
10928054 AAAATATAATTTTTGAGAAGTTTGATGGTC-
1 AAAATGTAATTTTGGAAAAGTTT-AGGGGCA
* ** **
10928084 AAAATGTGATTTTAAAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGCA
* *
10928114 AAAATATAATTTTGGAAAAGTTTGGGGGTCA
1 AAAATGTAATTTTGGAAAAGTTTAGGGG-CA
*
10928145 AAATATG-ATTTTTGGA
1 AAA-ATGTAATTTTGGA
10928161 CAGTTCAAGG
Statistics
Matches: 147, Mismatches: 39, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
28 4 0.03
29 53 0.36
30 76 0.52
31 12 0.08
32 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGCA
Found at i:10928088 original size:59 final size:60
Alignment explanation
Indices: 10927995--10928157 Score: 179
Period size: 60 Copynumber: 2.7 Consensus size: 60
10927985 GTTCGGGGCA
* * * * *
10927995 AAAATGTAATTTTTGAGAAGTTT-AGGGGTAAAAATGTGATTTTTTAGAA-TTTTGGAGG-C
1 AAAATATAATTTTTGAGAAGTTTGA-GGGTCAAAATGTGATTTTTAAAAAGTTTAGG-GGTC
* * *
10928054 AAAATATAATTTTTGAGAAGTTTGATGGTCAAAATGTGATTTTAAAAAAGTTTAGGGGTT
1 AAAATATAATTTTTGAGAAGTTTGAGGGTCAAAATGTGATTTTTAAAAAGTTTAGGGGTC
* * * *
10928114 AAAATATAATTTTGGAAAAGTTTGGGGGTCAAAATATGATTTTT
1 AAAATATAATTTTTGAGAAGTTTGAGGGTCAAAATGTGATTTTT
10928158 GGACAGTTCA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
59 43 0.49
60 44 0.51
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.39
Consensus pattern (60 bp):
AAAATATAATTTTTGAGAAGTTTGAGGGTCAAAATGTGATTTTTAAAAAGTTTAGGGGTC
Found at i:10928148 original size:30 final size:30
Alignment explanation
Indices: 10927965--10928158 Score: 133
Period size: 30 Copynumber: 6.5 Consensus size: 30
10927955 GTTATAAGAG
* * * *
10927965 CAAAATTTTATTTTGGAAAAG-TTCGGGG-
1 CAAAATATAATTTTTGAAAAGTTTGGGGGT
* * *
10927993 CAAAAATGTAATTTTTGAGAAGTTTAGGGGT
1 C-AAAATATAATTTTTGAAAAGTTTGGGGGT
* * * * * * *
10928024 AAAAATGTGATTTTTTAGAATTTTGGAGG-
1 CAAAATATAATTTTTGAAAAGTTTGGGGGT
* **
10928053 CAAAATATAATTTTTGAGAAGTTTGATGGT
1 CAAAATATAATTTTTGAAAAGTTTGGGGGT
* * ** *
10928083 CAAAATGTGATTTTAAAAAAGTTTAGGGGT
1 CAAAATATAATTTTTGAAAAGTTTGGGGGT
* *
10928113 TAAAATATAATTTTGGAAAAGTTTGGGGGT
1 CAAAATATAATTTTTGAAAAGTTTGGGGGT
*
10928143 CAAAATATGATTTTTG
1 CAAAATATAATTTTTG
10928159 GACAGTTCAA
Statistics
Matches: 127, Mismatches: 35, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
28 1 0.01
29 38 0.30
30 88 0.69
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
CAAAATATAATTTTTGAAAAGTTTGGGGGT
Found at i:10929250 original size:18 final size:22
Alignment explanation
Indices: 10929227--10929275 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10929217 TTTTCCCTTT
10929227 TTTATT-TAT-TATTA-AA-TA
1 TTTATTATATATATTATAATTA
10929245 TTTATTATATATATTATAATTA
1 TTTATTATATATATTATAATTA
10929267 TTTATTATA
1 TTTATTATA
10929276 ACACATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.22
19 3 0.11
20 5 0.19
21 2 0.07
22 11 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATTATATATATTATAATTA
Found at i:10929929 original size:6 final size:6
Alignment explanation
Indices: 10929918--10930041 Score: 57
Period size: 6 Copynumber: 22.0 Consensus size: 6
10929908 CTTTAATATT
* * * *
10929918 TTAAAA TTAAAA -TAAAT TTAAAT TTAAAA -TAAAA TT-AAA CTCAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
* * * * * * * *
10929963 -TAAAT TTAAAT TTAAAA -TAAAT TTAAAC TTAAGA -TGAAT TTAAAT
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
* * *
10930008 TTAAAA -TAAAT TTAAAC TTAAAA -TAAAT TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
10930042 ATGGGTTCAG
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
5 30 0.33
6 60 0.67
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:10929938 original size:11 final size:11
Alignment explanation
Indices: 10929936--10930023 Score: 56
Period size: 11 Copynumber: 7.9 Consensus size: 11
10929926 AAAATAAATT
10929936 TAAATTTAAAA
1 TAAATTTAAAA
* *
10929947 TAAAATTAAAC
1 TAAATTTAAAA
*
10929958 TCAAA--TAAATT
1 T-AAATTTAAA-A
10929969 TAAATTTAAAA
1 TAAATTTAAAA
*
10929980 TAAATTTAAACT
1 TAAATTTAAA-A
* **
10929992 TAAGA-TGAATT
1 TAA-ATTTAAAA
10930003 TAAATTTAAAA
1 TAAATTTAAAA
10930014 TAAATTTAAA
1 TAAATTTAAA
10930024 CTTAAAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
10 8 0.13
11 38 0.63
12 13 0.22
13 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.36
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:10929939 original size:17 final size:17
Alignment explanation
Indices: 10929917--10930041 Score: 153
Period size: 17 Copynumber: 7.4 Consensus size: 17
10929907 ACTTTAATAT
10929917 TTTAAAATTAAAATAAA
1 TTTAAAATTAAAATAAA
*
10929934 TTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAA
* * *
10929951 ATT-AAACTCAAATAAA
1 TTTAAAATTAAAATAAA
*
10929967 TTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAA
* * *
10929984 TTTAAACTTAAGATGAA
1 TTTAAAATTAAAATAAA
*
10930001 TTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAA
*
10930018 TTTAAACTTAAAATAAA
1 TTTAAAATTAAAATAAA
10930035 TTTAAAA
1 TTTAAAA
10930042 ATGGGTTCAG
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
16 12 0.13
17 78 0.87
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (17 bp):
TTTAAAATTAAAATAAA
Found at i:10929956 original size:34 final size:34
Alignment explanation
Indices: 10929917--10930040 Score: 178
Period size: 34 Copynumber: 3.7 Consensus size: 34
10929907 ACTTTAATAT
10929917 TTTAAAATTAAAATAAATTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAATTTAAATTTAAAATAAA
* * *
10929951 ATT-AAACTCAAATAAATTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAATTTAAATTTAAAATAAA
* * *
10929984 TTTAAACTTAAGATGAATTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAATTTAAATTTAAAATAAA
*
10930018 TTTAAACTTAAAATAAATTTAAA
1 TTTAAAATTAAAATAAATTTAAA
10930041 AATGGGTTCA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 30 0.38
34 48 0.62
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (34 bp):
TTTAAAATTAAAATAAATTTAAATTTAAAATAAA
Found at i:10930638 original size:39 final size:39
Alignment explanation
Indices: 10930579--10931109 Score: 294
Period size: 39 Copynumber: 13.7 Consensus size: 39
10930569 GATGGTTGCA
* * *
10930579 ATCTGCTCCAGGCTCAGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* * * ** * * **
10930618 ATTTGCCCCAAGCTTGGGGTAAGAGATCGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* * * * * *
10930657 ATTTGCCCCAAG-TTGGGTTAAAAG-TTCG--AATGGTTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGG-TG
* *
10930693 CAATCTGCCCCAAGCTTGGGGT-AGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
** * * * * * * *
10930733 ATCTGCCTTAGGCTCGGGGTAAAAGATCGAATGGCT-GTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTG-GTTGATGGTG
* *
10930772 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* * * * ** **
10930811 ATCTACCTCAGGCTCGGGGTAAGAGATCGAATGACT-GCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGA-TGGTG
* *
10930850 ATCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* *
10930889 ATCTGCCCCATGATCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* * ** *
10930928 ATCTGCCCCAAGCTCGGGGTAAGCGATCGAATGACT-GTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGA-TGGTG
* ** *
10930967 ATCTACCTTAAGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* * * * * * *
10931006 ATCTACCCTAGGTTCGGGGTAAAAGA-TCG--AATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGG-TG
* * ** **
10931043 CAATCTGCCTCAGGCTCGGGGTAATTGATT-ACTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
* *
10931083 ATCTACCCCAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
10931110 CGAAATCTTC
Statistics
Matches: 373, Mismatches: 99, Indels: 41
0.73 0.19 0.08
Matches are distributed among these distances:
35 2 0.01
36 4 0.01
37 3 0.01
38 70 0.19
39 277 0.74
40 9 0.02
41 8 0.02
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
Found at i:10930686 original size:38 final size:39
Alignment explanation
Indices: 10930618--10930715 Score: 153
Period size: 38 Copynumber: 2.5 Consensus size: 39
10930608 GTTGATGGTG
*
10930618 ATTTGCCCCAAGCTTGGGGTAAGAGATCGAATGGTTGCA
1 ATTTGCCCCAAGCTTGGGGTAAAAGATCGAATGGTTGCA
* *
10930657 ATTTGCCCCAAG-TTGGGTTAAAAGTTCGAATGGTTGCA
1 ATTTGCCCCAAGCTTGGGGTAAAAGATCGAATGGTTGCA
*
10930695 ATCTGCCCCAAGCTTGGGGTA
1 ATTTGCCCCAAGCTTGGGGTA
10930716 GAGATTGGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
38 34 0.64
39 19 0.36
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (39 bp):
ATTTGCCCCAAGCTTGGGGTAAAAGATCGAATGGTTGCA
Found at i:10930779 original size:115 final size:116
Alignment explanation
Indices: 10930570--10930779 Score: 287
Period size: 115 Copynumber: 1.8 Consensus size: 116
10930560 GAGAGATTGG
* * * * *
10930570 ATGGTTGCAATCTGCTCCAGGCTCAGGGTAAGAGATTGGTTGATGGTGATTTGCCCCAAGCTTGG
1 ATGGTTGCAATCTGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
* * *
10930635 GGTAAGAGATCGAATGGTTGCAATTTGCCCCAAGTTGGGTTAAAAGTTCGA
66 GGTAAAAGATCGAATGGCTGCAATCTGCCCCAAGTTGGGTTAAAAGTTCGA
** ** *
10930686 ATGGTTGCAATCTGCCCCAAGCTTGGGGT-AGAGATTGGCTGATGGTGATCTGCCTTAGGCTCGG
1 ATGGTTGCAATCTGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
*
10930750 GGTAAAAGATCGAATGGCTGTAATCTGCCC
66 GGTAAAAGATCGAATGGCTGCAATCTGCCC
10930780 TAGGCTCGGG
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
115 55 0.69
116 25 0.31
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (116 bp):
ATGGTTGCAATCTGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
GGTAAAAGATCGAATGGCTGCAATCTGCCCCAAGTTGGGTTAAAAGTTCGA
Found at i:10930869 original size:117 final size:117
Alignment explanation
Indices: 10930744--10931032 Score: 330
Period size: 117 Copynumber: 2.5 Consensus size: 117
10930734 TCTGCCTTAG
* * * *
10930744 GCTCGGGGTAAAAGATCGAATGGCT-GTAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATG
1 GCTCGGGGTAAGAGATCGAAT-GATGGTAATCTGCCCCAGGATCGGGGTAAGAGATTGGTTGATG
* * *
10930808 GTGATCTACCTCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTGTCC-CAA
65 GTGATCTACCCCAAGCTCGGGGTAAGAGATCGAATGACTGCAATCT-ACCTCAA
* ** * *
10930861 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGATCGGGGTAAGAGATTGGTTGATGG
1 GCTCGGGGTAAGAGATCGAATGATGGTAATCTGCCCCAGGATCGGGGTAAGAGATTGGTTGATGG
* * * *
10930926 TGATCTGCCCCAAGCTCGGGGTAAGCGATCGAATGACTGTAATCTACCTTAA
66 TGATCTACCCCAAGCTCGGGGTAAGAGATCGAATGACTGCAATCTACCTCAA
* ** * * * * *
10930978 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCTAGGTTCGGGGTAAAAGAT
1 GCTCGGGGTAAGAGATCGAATGATGGTAATCTGCCCCAGGATCGGGGTAAGAGAT
10931033 CGAATGGCTG
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
116 4 0.03
117 145 0.97
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (117 bp):
GCTCGGGGTAAGAGATCGAATGATGGTAATCTGCCCCAGGATCGGGGTAAGAGATTGGTTGATGG
TGATCTACCCCAAGCTCGGGGTAAGAGATCGAATGACTGCAATCTACCTCAA
Found at i:10931501 original size:99 final size:97
Alignment explanation
Indices: 10931377--10932144 Score: 252
Period size: 99 Copynumber: 7.8 Consensus size: 97
10931367 TGTTTTCTAA
* * *
10931377 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCATATCTTCTAAAGTACCAGG-TTCG
1 GGTACAGGGTTCGCCATTGCGGCCTCAACCTTT-CCTATCACAT-TTC-AAAGTACC-GGATTCG
10931440 CCATTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
62 CCATTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
* *
10931476 GGTACAGGGTTCGCCATTGCTGCCTCAACCTTTCCTATCACATTTCATAGTACCGGATTCGCCAT
1 GGTACAGGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACATTTCAAAGTACCGGATTCGCCAT
*** * * * * *
10931541 TGCGGTCTCAATCTTTCTCATCACATCTT-TT
66 TGCAACCTCAATCTTTCCCTTAAAATCTTCAT
** * * * * **
10931572 GAGGTATTGGGTTCGTCGTTGCGGCCTCAACCTTTTCC-ATCACATCTTTTAAGGTTTCGGATTC
1 --GGTACAGGGTTCGCCATTGCGGCCTCAACC-TTTCCTATCACA--TTTCAAAGTACCGGATTC
* * * ** * *
10931636 ACCGTTACGGCCTCAATCCTT-CCTT-CAA-CTTCAT
61 GCCATTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
** * * * * ** * **
10931670 GGTACCA-GGTTTACTATCGCGACCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCGCTG
1 GGTA-CAGGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACATTTCAAAGTACCGGATTCGCCA
* * * * * *
10931734 TTACGACCTCAATATTTCCCATCACATCTTC-T
65 TTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
* * * * * * * *
10931766 GAGGTATC-GAGTTCGTCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGTA-CTGAGTT
1 --GGTA-CAGGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACA--TTTCAAAGTACCGGA-TT
* * *** * * *
10931829 CGCCGTTACGGTCTTAACCTTTCCCTTCAAATCTTCAT
60 CGCCATTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
** *** * * * * ** ***
10931867 GGTATTGGGTTTATCGTTGCGGCCTCAACCTTTCTTATTATATTTCATGGTACCGGATTCGTTGT
1 GGTACAGGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACATTTCAAAGTACCGGATTCGCCAT
*** * * *
10931932 TGTGGCCTCAATCTTT-CCTATCACATCTT-TT
66 TGCAACCTCAATCTTTCCCT-TAAAATCTTCAT
* * * * *
10931963 GAGGTACCGGGTTCGCCATTGCAGCCTCAACCTTTTCC-GTCACATCTTTTAAGGTACCAGG-TT
1 --GGTACAGGGTTCGCCATTGCGGCCTCAACC-TTTCCTATCACA--TTTCAAAGTACC-GGATT
* * ** * * * *
10932026 CGTCGTTGCGGCCTTAACCTTTCCTTTCAAATCTTCAT
60 CGCCATTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
** *** * * ** * * *
10932064 GGTATTGGGTTCGTTGTTGCAGCCTCAACCTTTCCCATCACATTTCATGGTATCGGATTCGTCGT
1 GGTACAGGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACATTTCAAAGTACCGGATTCGCCAT
**
10932129 TGCGGCCTCAATCTTT
66 TGCAACCTCAATCTTT
10932145 TCTATCACAT
Statistics
Matches: 512, Mismatches: 124, Indels: 68
0.73 0.18 0.10
Matches are distributed among these distances:
94 31 0.06
95 8 0.02
96 37 0.07
97 108 0.21
98 106 0.21
99 111 0.22
100 105 0.21
101 6 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (97 bp):
GGTACAGGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACATTTCAAAGTACCGGATTCGCCAT
TGCAACCTCAATCTTTCCCTTAAAATCTTCAT
Found at i:10931968 original size:197 final size:196
Alignment explanation
Indices: 10931376--10932260 Score: 874
Period size: 197 Copynumber: 4.5 Consensus size: 196
10931366 TTGTTTTCTA
* * * * *
10931376 AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAAGTACCAGGTTCGC
1 AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACGA-GTTCGC
* ** * * * ** * *
10931441 CATTGCAACCTCAATCTTTCCCTTAAAATCTTCATGGTACAGGGTTCGCCATTGCTGCCTCAACC
65 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGGTTCATCGTTGCGGCCTCAACC
* * * *
10931506 TTTCCTATCACATTTCATAGTACCGGATTCGCCATTGCGGTCTCAATCTTT-CTCATCACATCTT
130 TTTCCCATCACATTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCTTTCCT-ATCACATCTT
10931570 TTG
194 TTG
** * * * *
10931573 AGGTATTGGGTTCGTCGTTGCGGCCTCAACCTTTTCCATCACATCTTTTAAGGTTTCG-GATTCA
1 AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGG-TACGAG-TTCG
* ** * *
10931637 CCGTTACGGCCTCAATCC-TT-CCTTC-AA-CTTCATGGTACCAGGTTTA-C-TATCGCGACCTC
64 CCGTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACTGGGTTCATCGT-T-GCGGCCTC
* * * * * *
10931696 AACCTTTCCCATCACATTTCATGGTATCGGATTCGCTGTTACGACCTCAATATTTCCCATCACAT
126 AACCTTTCCCATCACATTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCTTTCCTATCACAT
*
10931761 CTTCTG
191 CTTTTG
* * * *
10931767 AGGTATCGAGTTCGTCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAAGGTACTGAGTTCGC
1 AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTAC-GAGTTCGC
* * * * *
10931832 CGTTACGGTCTTAACCTTTCCCTTCAAATCTTCATGGTATTGGGTTTATCGTTGCGGCCTCAACC
65 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGGTTCATCGTTGCGGCCTCAACC
** * * ** *
10931897 TTTCTTATTATATTTCATGGTACCGGATTCGTTGTTGTGGCCTCAATCTTTCCTATCACATCTTT
130 TTTCCCATCACATTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCTTTCCTATCACATCTTT
10931962 TG
195 TG
* * * * * *
10931964 AGGTACCGGGTTCGCCATTGCAGCCTCAACCTTTTCCGTCACATCTTTTAAGGTACCAGGTTCGT
1 AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACGA-GTTCGC
* * * * * *
10932029 CGTTGCGGCCTTAACCTTTCCTTTCAAATCTTCATGGTATTGGGTTCGTTGTTGCAGCCTCAACC
65 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGGTTCATCGTTGCGGCCTCAACC
* * *
10932094 TTTCCCATCACATTTCATGGTATCGGATTCGTCGTTGCGGCCTCAATCTTTTCTATCACATCTTT
130 TTTCCCATCACATTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCTTTCCTATCACATCTTT
10932159 TG
195 TG
** * * * * * * * *
10932161 AGGTACCGAATT-ACCGTCGCGGCCTCAATCC-TTCCCTTCAAATC-TTCATGGTACCGGGGTTT
1 AGGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTTTAAGGTA-C-GAGTTC
*
10932223 GCCGTTGCGCCCTCAACCTTTCCCTTCAAATCTTCATG
63 GCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATG
10932261 TTTTTCTCAG
Statistics
Matches: 569, Mismatches: 101, Indels: 37
0.80 0.14 0.05
Matches are distributed among these distances:
192 1 0.00
193 6 0.01
194 147 0.26
195 16 0.03
196 68 0.12
197 325 0.57
198 5 0.01
199 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (196 bp):
AGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACGAGTTCGCC
GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGGTTCATCGTTGCGGCCTCAACCT
TTCCCATCACATTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCTTTCCTATCACATCTTTT
G
Found at i:10932259 original size:50 final size:49
Alignment explanation
Indices: 10931377--10932260 Score: 508
Period size: 50 Copynumber: 18.0 Consensus size: 49
10931367 TGTTTTCTAA
* *
10931377 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCTAA
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTC-AT
* * * ** * * *
10931427 AGTACCAGGTTCGCCATTGCAACCTCAATCTTTCCCTTAAAATCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * *
10931476 GGTACAGGGTTCGCCATTGCTGCCTCAACCTTT-CCTATCACAT-TTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATCTTCAT
* * * * * * * *
10931524 AGTACCGGATTCGCCATTGCGGTCTCAATCTTTCTCATCACATCTT-TT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
** * * * * *
10931572 GAGGTATTGGGTTCGTCGTTGCGGCCTCAACCTTTTCCATCACATCTTTTAA
1 --GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC-TTCAT
** * * *
10931624 GGTTTCGGATTCACCGTTACGGCCTCAATCC-TT-CCTTCA-A-CTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCAT
* ** ** * * *
10931670 GGTACCAGGTTTACTATCGCGACCTCAACCTTTCCCATCACAT-TTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * * * ** *
10931718 GGTATCGGATTCGCTGTTACGACCTCAATATTTCCCATCACATCTTC-T
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * * * * *
10931766 GAGGTATCGAGTTCGTCGTTGCGACCTCAACCTTTCCCATCACATCTTTTAA
1 --GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC-TTCAT
* * * * * *
10931818 GGTACTGAGTTCGCCGTTACGGTCTTAACCTTTCCCTTCAAATCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
** *** * * *
10931867 GGTATTGGGTTTATCGTTGCGGCCTCAACCTTT-CTTATTATAT-TTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATCTTCAT
* ** * * *
10931915 GGTACCGGATTCGTTGTTGTGGCCTCAATCTTT-CCTATCACATCTT-TT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATCTTCAT
* * * * * *
10931963 GAGGTACCGGGTTCGCCATTGCAGCCTCAACCTTTTCCGTCACATCTTTTAA
1 --GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC-TTCAT
* * * * *
10932015 GGTACCAGGTTCGTCGTTGCGGCCTTAACCTTTCCTTTCAAATCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
** ** * *
10932064 GGTATTGGGTTCGTTGTTGCAGCCTCAACCTTTCCCATCACAT-TTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * * * *
10932112 GGTATCGGATTCGTCGTTGCGGCCTCAATCTTT-TCTATCACATCTT-TT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATCTTCAT
** * * *
10932160 GAGGTACCGAATT-ACCGTCGCGGCCTCAATCC-TTCCCTTCAAATCTTCAT
1 --GGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCAT
* * *
10932210 GGTACCGGGGTTTGCCGTTGCGCCCTCAACCTTTCCCTTCAAATCTTCAT
1 GGTACC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
10932260 G
1 G
10932261 TTTTTCTCAG
Statistics
Matches: 637, Mismatches: 163, Indels: 68
0.73 0.19 0.08
Matches are distributed among these distances:
45 2 0.00
46 23 0.04
47 7 0.01
48 169 0.27
49 144 0.23
50 282 0.44
51 10 0.02
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (49 bp):
GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
Found at i:10934105 original size:12 final size:12
Alignment explanation
Indices: 10934085--10934122 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10934075 TTGTCTTGAC
*
10934085 TTTCCTTTCTTT
1 TTTCTTTTCTTT
10934097 TTTCTTTTC-TT
1 TTTCTTTTCTTT
*
10934108 TTCCTTTTCTTT
1 TTTCTTTTCTTT
10934120 TTT
1 TTT
10934123 TTCCTTGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:10934126 original size:15 final size:16
Alignment explanation
Indices: 10934096--10934128 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10934086 TTCCTTTCTT
10934096 TTTTCTTTTCTTTTCC
1 TTTTCTTTTCTTTTCC
10934112 TTTTCTTTT-TTTTCC
1 TTTTCTTTTCTTTTCC
10934127 TT
1 TT
10934129 GGGTTTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTTTTCTTTTCC
Found at i:10934215 original size:6 final size:6
Alignment explanation
Indices: 10934180--10934212 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
10934170 TTTTTATTTG
10934180 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
10934213 TTTAACACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:10936741 original size:377 final size:377
Alignment explanation
Indices: 10936047--10936801 Score: 1501
Period size: 377 Copynumber: 2.0 Consensus size: 377
10936037 TTAACCACAT
10936047 ACACACAACCACGTTGGCTTCTACCTTATCAAGGAATCCGTTTTCTTATGACCAGTTCTTTATTT
1 ACACACAACCACGTTGGCTTCTACCTTATCAAGGAATCCGTTTTCTTATGACCAGTTCTTTATTT
10936112 GGCAATAGTACATGAATCAACACCCATTTTTTCTTTCTTTTTATTTATGAAAATGCAATGCAAAC
66 GGCAATAGTACATGAATCAACACCCATTTTTTCTTTCTTTTTATTTATGAAAATGCAATGCAAAC
10936177 AGATTCAAAATAGTTTAGTACAATTAATATAAGAATAAAACTTGCAATTAAAAGCAAAGAAACAA
131 AGATTCAAAATAGTTTAGTACAATTAATATAAGAATAAAACTTGCAATTAAAAGCAAAGAAACAA
10936242 GAATATAATCGTGTCTCTTACCTTGTTCGAGTAACCACTAAAGGTTTGGTACAATCTCACTCAAT
196 GAATATAATCGTGTCTCTTACCTTGTTCGAGTAACCACTAAAGGTTTGGTACAATCTCACTCAAT
10936307 GTAGGCTTGTATAGAATTACACAAGTTAATAAAATGTGCTGCTTATGAATGCATGAATGTATAAG
261 GTAGGCTTGTATAGAATTACACAAGTTAATAAAATGTGCTGCTTATGAATGCATGAATGTATAAG
*
10936372 AAAGGTATTGACTTATAGCTCAATTCTATTAGAAAAACCTTACTAGAAATCA
326 AAAGGTATTGACTTATAACTCAATTCTATTAGAAAAACCTTACTAGAAATCA
10936424 ACACACAACCACGTTGGCTTCTACCTTATCAAGGAATCCGTTTTCTTATGACCAGTTCTTTATTT
1 ACACACAACCACGTTGGCTTCTACCTTATCAAGGAATCCGTTTTCTTATGACCAGTTCTTTATTT
10936489 GGCAATAGTACATGAATCAACACCCATTTTTTCTTTCTTTTTATTTATGAAAATGCAATGCAAAC
66 GGCAATAGTACATGAATCAACACCCATTTTTTCTTTCTTTTTATTTATGAAAATGCAATGCAAAC
10936554 AGATTCAAAATAGTTTAGTACAATTAATATAAGAATAAAACTTGCAATTAAAAGCAAAGAAACAA
131 AGATTCAAAATAGTTTAGTACAATTAATATAAGAATAAAACTTGCAATTAAAAGCAAAGAAACAA
10936619 GAATATAATCGTGTCTCTTACCTTGTTCGAGTAACCACTAAAGGTTTGGTACAATCTCACTCAAT
196 GAATATAATCGTGTCTCTTACCTTGTTCGAGTAACCACTAAAGGTTTGGTACAATCTCACTCAAT
10936684 GTAGGCTTGTATAGAATTACACAAGTTAATAAAATGTGCTGCTTATGAATGCATGAATGTATAAG
261 GTAGGCTTGTATAGAATTACACAAGTTAATAAAATGTGCTGCTTATGAATGCATGAATGTATAAG
10936749 AAAGGTATTGACTTATAACTCAATTCTATTAGAAAAACCTTACTAGAAATCA
326 AAAGGTATTGACTTATAACTCAATTCTATTAGAAAAACCTTACTAGAAATCA
10936801 A
1 A
10936802 ATTCCTTTAC
Statistics
Matches: 377, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
377 377 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (377 bp):
ACACACAACCACGTTGGCTTCTACCTTATCAAGGAATCCGTTTTCTTATGACCAGTTCTTTATTT
GGCAATAGTACATGAATCAACACCCATTTTTTCTTTCTTTTTATTTATGAAAATGCAATGCAAAC
AGATTCAAAATAGTTTAGTACAATTAATATAAGAATAAAACTTGCAATTAAAAGCAAAGAAACAA
GAATATAATCGTGTCTCTTACCTTGTTCGAGTAACCACTAAAGGTTTGGTACAATCTCACTCAAT
GTAGGCTTGTATAGAATTACACAAGTTAATAAAATGTGCTGCTTATGAATGCATGAATGTATAAG
AAAGGTATTGACTTATAACTCAATTCTATTAGAAAAACCTTACTAGAAATCA
Found at i:10938619 original size:29 final size:29
Alignment explanation
Indices: 10938587--10938799 Score: 134
Period size: 29 Copynumber: 7.3 Consensus size: 29
10938577 ATAAAGTTTC
*
10938587 GAAAAGTTTAGGGTTAAAATGTAATTTTG
1 GAAAAGTTTAGGGTAAAAATGTAATTTTG
*
10938616 G-AAAGTTATAGGGGTAAAAATGTCATTTTG
1 GAAAAGTT-TA-GGGTAAAAATGTAATTTTG
* * *
10938646 GGAAA-TTTCGAGGTAAAAATGTGATTTT-
1 GAAAAGTTTAG-GGTAAAAATGTAATTTTG
* * *
10938674 TAGAA-TTTCGAGGGCAAAAATGTAATTTT-
1 GAAAAGTTT--AGGGTAAAAATGTAATTTTG
* * * * * * *
10938703 TAGATG-TTCGGGAGAAAAATATAATTTTT
1 GAAAAGTTTAGGG-TAAAAATGTAATTTTG
* * *
10938732 GAGAAGTTTGAGGGTCAAAATGTATTTTTG
1 GAAAAGTTT-AGGGTAAAAATGTAATTTTG
*
10938762 G-AAAGTTTAAGGGTTAAAATGTAATTTTG
1 GAAAAGTTT-AGGGTAAAAATGTAATTTTG
10938791 GAAAAGTTT
1 GAAAAGTTT
10938800 GTGGGACAAA
Statistics
Matches: 146, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
27 3 0.02
28 25 0.17
29 70 0.48
30 42 0.29
31 6 0.04
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (29 bp):
GAAAAGTTTAGGGTAAAAATGTAATTTTG
Found at i:10938787 original size:59 final size:59
Alignment explanation
Indices: 10938589--10938833 Score: 184
Period size: 59 Copynumber: 4.2 Consensus size: 59
10938579 AAAGTTTCGA
* * * *
10938589 AAAGTTTAGGGTTAAAATGTAATTTTGGA-AAGTTAT-AGGGGTAAAAATGTCATTTTGGG
1 AAAGTTTAGGGTAAAAATGTAATTTTGGAGAAGTT-TGA-GGGTCAAAATGTAATTTTTGG
* * * *
10938648 AAA-TTTCGAGGTAAAAATGTGATTTT-TAGAA-TTTCGAGGG-CAAAAATGTAATTTTTAG
1 AAAGTTTAG-GGTAAAAATGTAATTTTGGAGAAGTTT-GAGGGTC-AAAATGTAATTTTTGG
* * * * *
10938706 -ATG-TTCGGGAGAAAAATATAATTTTTGAGAAGTTTGAGGGTCAAAATGT-ATTTTTGG
1 AAAGTTTAGGG-TAAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGTAATTTTTGG
* * * * * *
10938763 AAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGTGGGACAAAATATTATTTTTGG
1 AAAGTTT-AGGGTAAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGTAATTTTTGG
*
10938823 ATAGTTTAGGG
1 AAAGTTTAGGG
10938834 ACCTTTTGGG
Statistics
Matches: 147, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
56 2 0.01
57 25 0.17
58 41 0.28
59 62 0.42
60 17 0.12
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (59 bp):
AAAGTTTAGGGTAAAAATGTAATTTTGGAGAAGTTTGAGGGTCAAAATGTAATTTTTGG
Found at i:10938819 original size:30 final size:30
Alignment explanation
Indices: 10938718--10938819 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
10938708 GTTCGGGAGA
* *
10938718 AAAATATAATTTTTGAGAAGTTTGAGGGTC
1 AAAATATAATTTTGGAAAAGTTTGAGGGTC
* * * *
10938748 AAAATGTATTTTTGG-AAAGTTTAAGGGTT
1 AAAATATAATTTTGGAAAAGTTTGAGGGTC
* * *
10938777 AAAATGTAATTTTGGAAAAGTTTGTGGGAC
1 AAAATATAATTTTGGAAAAGTTTGAGGGTC
*
10938807 AAAATATTATTTT
1 AAAATATAATTTT
10938820 TGGATAGTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 25 0.43
30 33 0.57
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (30 bp):
AAAATATAATTTTGGAAAAGTTTGAGGGTC
Found at i:10938829 original size:30 final size:29
Alignment explanation
Indices: 10938589--10938833 Score: 127
Period size: 29 Copynumber: 8.4 Consensus size: 29
10938579 AAAGTTTCGA
* *
10938589 AAAGTTT-AGGGTTAAAATGTAATTTTGG
1 AAAGTTTGAGGGTCAAAATGTATTTTTGG
* *
10938617 AAAGTTAT-AGGGGTAAAAATGTCATTTTGGG
1 AAAGTT-TGA-GGGTCAAAATGT-ATTTTTGG
* *
10938648 AAA-TTTCGA-GGTAAAAATGTGATTTTTAG
1 AAAGTTT-GAGGGTCAAAATGT-ATTTTTGG
*
10938677 -AA-TTTCGAGGG-CAAAAATGTAATTTTTAG
1 AAAGTTT-GAGGGTC-AAAATGT-ATTTTTGG
* * * *
10938706 -ATGTTCG-GGAG-AAAAATATAATTTTT-G
1 AAAGTTTGAGG-GTCAAAATGT-ATTTTTGG
10938733 AGAAGTTTGAGGGTCAAAATGTATTTTTGG
1 A-AAGTTTGAGGGTCAAAATGTATTTTTGG
* * *
10938763 AAAGTTTAAGGGTTAAAATGTAATTTTGG
1 AAAGTTTGAGGGTCAAAATGTATTTTTGG
* * *
10938792 AAAAGTTTGTGGGACAAAATATTATTTTTGG
1 -AAAGTTTGAGGGTCAAAAT-GTATTTTTGG
*
10938823 ATAGTTT-AGGG
1 AAAGTTTGAGGG
10938834 ACCTTTTGGG
Statistics
Matches: 174, Mismatches: 27, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 29 0.17
29 80 0.46
30 46 0.26
31 18 0.10
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
AAAGTTTGAGGGTCAAAATGTATTTTTGG
Found at i:10939932 original size:22 final size:22
Alignment explanation
Indices: 10939885--10939936 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
10939875 TTTTCCCTTT
10939885 TTTATT-TATTATTATTAAATA
1 TTTATTATATTATTATTAAATA
*
10939906 TTTATTATATATATTA-TAATTA
1 TTTATTATAT-TATTATTAAATA
10939928 TTTATTATA
1 TTTATTATA
10939937 ACACGTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.21
22 17 0.61
23 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATTATATTATTATTAAATA
Found at i:10940599 original size:17 final size:17
Alignment explanation
Indices: 10940577--10940672 Score: 104
Period size: 17 Copynumber: 5.6 Consensus size: 17
10940567 ACTTTGATAT
10940577 TTTAAAATTAAAATAAA
1 TTTAAAATTAAAATAAA
*
10940594 TTTAAATTTAAAAATAAA
1 TTTAAAATT-AAAATAAA
* *
10940612 TTT-AAACTCAAATAAA
1 TTTAAAATTAAAATAAA
* * *
10940628 TTTAAACTTAAGATGAA
1 TTTAAAATTAAAATAAA
*
10940645 TTTAAATTTAAAATAAA
1 TTTAAAATTAAAATAAA
*
10940662 TTTAAACTTAA
1 TTTAAAATTAA
10940673 GATTTATATA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
16 10 0.16
17 43 0.67
18 11 0.17
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TTTAAAATTAAAATAAA
Found at i:10940633 original size:6 final size:6
Alignment explanation
Indices: 10940577--10940678 Score: 54
Period size: 6 Copynumber: 17.7 Consensus size: 6
10940567 ACTTTGATAT
* * ** * *
10940577 TTTAAA ATTAAA -ATAAA TTTAAA TTTAAA AATAAA TTTAAA CTCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
10940624 --TAAA TTTAAA CTTAAGA --TGAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
10940668 CTTAAGA TTTA
1 TTTAA-A TTTA
10940679 TATAATTTGT
Statistics
Matches: 71, Mismatches: 17, Indels: 15
0.69 0.17 0.15
Matches are distributed among these distances:
4 4 0.06
5 10 0.14
6 52 0.73
7 5 0.07
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (6 bp):
TTTAAA
Found at i:10940673 original size:34 final size:33
Alignment explanation
Indices: 10940581--10940675 Score: 127
Period size: 34 Copynumber: 2.8 Consensus size: 33
10940571 TGATATTTTA
* *
10940581 AAATTAAAATAAATTTAAATTTAAAAATAAATTT
1 AAATTAAAATAAATTTAAACTT-AAGATAAATTT
* * *
10940615 AAACTCAAATAAATTTAAACTTAAGATGAATTT
1 AAATTAAAATAAATTTAAACTTAAGATAAATTT
10940648 AAATTTAAAATAAATTTAAACTTAAGAT
1 AAA-TTAAAATAAATTTAAACTTAAGAT
10940676 TTATATAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 12 0.23
34 41 0.77
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (33 bp):
AAATTAAAATAAATTTAAACTTAAGATAAATTT
Found at i:10944197 original size:40 final size:40
Alignment explanation
Indices: 10944148--10944244 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
10944138 TTGAATTGGT
10944148 AGTGACACTGTAAACACTGCAATATTATTACTAAACTGGC
1 AGTGACACTGTAAACACTGCAATATTATTACTAAACTGGC
* * **
10944188 AGTGTCACTGTAAACATTGCAATATTATTACTGGACTGGC
1 AGTGACACTGTAAACACTGCAATATTATTACTAAACTGGC
*
10944228 TGTGACACTGTAAACAC
1 AGTGACACTGTAAACAC
10944245 AACTAGGCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (40 bp):
AGTGACACTGTAAACACTGCAATATTATTACTAAACTGGC
Found at i:10956320 original size:26 final size:26
Alignment explanation
Indices: 10956271--10956320 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10956261 AATCTCAAGA
*
10956271 TTCATACCAAACACAAGTTCATTAAC
1 TTCATACCAAACACAAGTTAATTAAC
*
10956297 TTCATA-CAAACACAACTTTAATTA
1 TTCATACCAAACACAA-GTTAATTA
10956321 TGCACTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (26 bp):
TTCATACCAAACACAAGTTAATTAAC
Found at i:10956902 original size:52 final size:52
Alignment explanation
Indices: 10956758--10956983 Score: 214
Period size: 52 Copynumber: 4.4 Consensus size: 52
10956748 ATTTCACTTC
* * * * * *
10956758 ATTCATATACTCACAATGACACATAGCCACCGGACCT-TTTAATCCGTAAGGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGA-CTGTTTAATCTGTAAAGG
* * * *
10956810 ATTCGTATATTCACGATGACA--GAGTCATCAGACT-TCTTAATCTGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACTGT-TTAATCTGTAAAGG
* * * **
10956860 ATCCATATACTCACGATGATATTTAGTCATCGGACTGTTTAATCCAT-AAGTG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACTGTTTAATCTGTAAAG-G
*
10956912 ATTCATATACTCACGATGACACTTAGTCATTGGA-TCGTTTAAT-TCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACT-GTTTAATCT-GTAAAGG
10956964 ATTCATATACTCACGATGAC
1 ATTCATATACTCACGATGAC
10956984 TCATAATCAT
Statistics
Matches: 143, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
49 3 0.02
50 36 0.25
51 4 0.03
52 96 0.67
53 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACTGTTTAATCTGTAAAGG
Found at i:10970931 original size:18 final size:18
Alignment explanation
Indices: 10970910--10970959 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
10970900 AATGCTCTTC
**
10970910 CGAGCTAGTATGCTTTAA
1 CGAGCTAGTATGCTCAAA
*
10970928 CGAGCCAGTATGCTCAAA
1 CGAGCTAGTATGCTCAAA
10970946 CGAGCTAGTATGCT
1 CGAGCTAGTATGCT
10970960 AATTCTTCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (18 bp):
CGAGCTAGTATGCTCAAA
Found at i:10975660 original size:40 final size:40
Alignment explanation
Indices: 10975558--10975701 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 40
10975548 ATATATTGCG
* * * **
10975558 GTGTTTACAGTGTCACCGCCAATTCAGCTATAATGTCACA
1 GTGTTTACAGTGTCACTGTCAGTTCAGCTATAACCTCACA
* *
10975598 GTGTTTACAGTGTCACTTTCAGTTCAGTTATAACCTCACA
1 GTGTTTACAGTGTCACTGTCAGTTCAGCTATAACCTCACA
* * * *** *
10975638 GTGTTTACAGTGTTACTGTCAGTT-TGATAATATTATCGCA
1 GTGTTTACAGTGTCACTGTCAGTTCAGCT-ATAACCTCACA
*
10975678 GTTTTTACAGTGTCACTGTCAGTT
1 GTGTTTACAGTGTCACTGTCAGTT
10975702 ATAACCATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.02
40 84 0.98
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (40 bp):
GTGTTTACAGTGTCACTGTCAGTTCAGCTATAACCTCACA
Found at i:10981673 original size:26 final size:26
Alignment explanation
Indices: 10981563--10981734 Score: 161
Period size: 26 Copynumber: 6.7 Consensus size: 26
10981553 GATCTCTAGT
* *
10981563 AGCGTAAACGTATATTCATGCTGGCG
1 AGCGTAAACGTATAATCATGCTGACG
*
10981589 AGCGTAAAC-AATAATCATGCTGACG
1 AGCGTAAACGTATAATCATGCTGACG
** * *
10981614 AGCGTAATTGTAT-ATCCATGCTAACA
1 AGCGTAAACGTATAAT-CATGCTGACG
* * * * *
10981640 AGCATAAATGTATATTCATGTTGGCG
1 AGCGTAAACGTATAATCATGCTGACG
*
10981666 AGCGTAAACGCATAATCATGCTGACG
1 AGCGTAAACGTATAATCATGCTGACG
*
10981692 AGCGTAAACGTATAATCAT-TTAGACG
1 AGCGTAAACGTATAATCATGCT-GACG
* *
10981718 AGCGTAAATGTGTAATC
1 AGCGTAAACGTATAATC
10981735 TGGAAGGCGA
Statistics
Matches: 117, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
25 23 0.20
26 93 0.79
27 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (26 bp):
AGCGTAAACGTATAATCATGCTGACG
Found at i:10981728 original size:78 final size:77
Alignment explanation
Indices: 10981563--10981705 Score: 223
Period size: 77 Copynumber: 1.8 Consensus size: 77
10981553 GATCTCTAGT
* **
10981563 AGCGTAAACGTATATTCATGCTGGCGAGCGTAAACAATAATCATGCTGACGAGCGTAATTGTATA
1 AGCGTAAATGTATATTCATGCTGGCGAGCGTAAACAATAATCATGCTGACGAGCGTAAACGTATA
10981628 TCCATGCTAACA
66 TCCATGCTAACA
* * *
10981640 AGCATAAATGTATATTCATGTTGGCGAGCGTAAACGCATAATCATGCTGACGAGCGTAAACGTAT
1 AGCGTAAATGTATATTCATGCTGGCGAGCGTAAAC-AATAATCATGCTGACGAGCGTAAACGTAT
10981705 A
65 A
10981706 ATCATTTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
77 32 0.54
78 27 0.46
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (77 bp):
AGCGTAAATGTATATTCATGCTGGCGAGCGTAAACAATAATCATGCTGACGAGCGTAAACGTATA
TCCATGCTAACA
Found at i:10988784 original size:26 final size:26
Alignment explanation
Indices: 10988755--10989137 Score: 314
Period size: 26 Copynumber: 14.7 Consensus size: 26
10988745 AAAAGTATAT
* *
10988755 TCATGCTGGCGAGCGTAAATGCATAA
1 TCATGCTGACGAGCGTAAACGCATAA
* * *
10988781 TCATGCTGATGAGCGTAAATGTAT-A
1 TCATGCTGACGAGCGTAAACGCATAA
* *
10988806 TCCATGCTTACGAGCGTAAACGTAT-A
1 T-CATGCTGACGAGCGTAAACGCATAA
*
10988832 TCCATGCTGACGAGCGTAAACGTAT-A
1 T-CATGCTGACGAGCGTAAACGCATAA
* * *
10988858 TCCATGCTGGCGAGCATAAATGCATAA
1 T-CATGCTGACGAGCGTAAACGCATAA
* *
10988885 TCATGTTGACGAGCGTAAACGTAT-A
1 TCATGCTGACGAGCGTAAACGCATAA
* * * * *
10988910 TCCATGCTGACGAACATAAATGTATAT
1 T-CATGCTGACGAGCGTAAACGCATAA
* * *
10988937 TCATGCTGGCAAGTGTAAACGCATAA
1 TCATGCTGACGAGCGTAAACGCATAA
* *
10988963 TCATGCTGACGAGTGTAAACGTAT-A
1 TCATGCTGACGAGCGTAAACGCATAA
* *
10988988 TCTATGCTGACGAGCGTAAACGTATAT
1 TC-ATGCTGACGAGCGTAAACGCATAA
* * *
10989015 TCATGCTGGCGAGAGTAAATGCATAA
1 TCATGCTGACGAGCGTAAACGCATAA
*
10989041 TCATGCTGACGAGCATAAA--CATATA
1 TCATGCTGACGAGCGTAAACGCATA-A
* ** *
10989066 TCCATGCTAACGAGCGTAAACATATAT
1 T-CATGCTGACGAGCGTAAACGCATAA
* *
10989093 TCATGCTAGA-GAGCATAAACACATAA
1 TCATGCT-GACGAGCGTAAACGCATAA
*
10989119 TCATGCTGATGAGCGTAAA
1 TCATGCTGACGAGCGTAAA
10989138 TGTGTAGTCT
Statistics
Matches: 294, Mismatches: 51, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
24 4 0.01
25 11 0.04
26 269 0.91
27 7 0.02
28 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (26 bp):
TCATGCTGACGAGCGTAAACGCATAA
Found at i:10988821 original size:52 final size:52
Alignment explanation
Indices: 10988743--10989139 Score: 394
Period size: 52 Copynumber: 7.6 Consensus size: 52
10988733 CTCTAGTAGT
* * * *
10988743 GTAAAAGTATATTCATGCTGGCGAGCGTAAATGCATAATCATGCTGATGAGC
1 GTAAACGTATATCCATGCTGACGAGCGTAAATGCATAATCATGCTGACGAGC
* * * *
10988795 GTAAATGTATATCCATGCTTACGAGCGTAAACGTAT-ATCCATGCTGACGAGC
1 GTAAACGTATATCCATGCTGACGAGCGTAAATGCATAAT-CATGCTGACGAGC
* * *
10988847 GTAAACGTATATCCATGCTGGCGAGCATAAATGCATAATCATGTTGACGAGC
1 GTAAACGTATATCCATGCTGACGAGCGTAAATGCATAATCATGCTGACGAGC
* * * * * * *
10988899 GTAAACGTATATCCATGCTGACGAACATAAATGTATATTCATGCTGGCAAGT
1 GTAAACGTATATCCATGCTGACGAGCGTAAATGCATAATCATGCTGACGAGC
* * * *
10988951 GTAAACGCATAAT-CATGCTGACGAGTGTAAACGTAT-ATCTATGCTGACGAGC
1 GTAAACGTAT-ATCCATGCTGACGAGCGTAAATGCATAATC-ATGCTGACGAGC
* * *
10989003 GTAAACGTATATTCATGCTGGCGAGAGTAAATGCATAATCATGCTGACGAGC
1 GTAAACGTATATCCATGCTGACGAGCGTAAATGCATAATCATGCTGACGAGC
* * *
10989055 ATAAACATATATCCATGCTAACGAGCGTAAA--CATATATTCATGCTAGA-GAGC
1 GTAAACGTATATCCATGCTGACGAGCGTAAATGCATA-A-TCATGCT-GACGAGC
* ** *
10989107 ATAAACACATAAT-CATGCTGATGAGCGTAAATG
1 GTAAACGTAT-ATCCATGCTGACGAGCGTAAATG
10989140 TGTAGTCTAT
Statistics
Matches: 288, Mismatches: 45, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
50 4 0.01
51 7 0.02
52 266 0.92
53 11 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (52 bp):
GTAAACGTATATCCATGCTGACGAGCGTAAATGCATAATCATGCTGACGAGC
Found at i:10988878 original size:78 final size:78
Alignment explanation
Indices: 10988743--10989137 Score: 479
Period size: 78 Copynumber: 5.1 Consensus size: 78
10988733 CTCTAGTAGT
* * * * * * ** * *
10988743 GTAAAAGTATATTCATGCTGGCGAGCGTAAATGCATAATCATGCTGATGAGCGTAAATGTAT-AT
1 GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAGCATAAATGCATAAT
*
10988807 CCATGCTTACGAGC
66 -CATGCTGACGAGC
*
10988821 GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATCCATGCTGGCGAGCATAAATGCATAAT
1 GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAGCATAAATGCATAAT
*
10988886 CATGTTGACGAGC
66 CATGCTGACGAGC
* * * * ** *
10988899 GTAAACGTATATCCATGCTGACGAACATAAATGTATATTCATGCTGGCAAGTGTAAACGCATAAT
1 GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAGCATAAATGCATAAT
*
10988964 CATGCTGACGAGT
66 CATGCTGACGAGC
*
10988977 GTAAACGTATATCTATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAG-AGTAAATGCATAA
1 GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAGCA-TAAATGCATAA
10989041 TCATGCTGACGAGC
65 TCATGCTGACGAGC
* * * * * * **
10989055 ATAAACATATATCCATGCTAACGAGCGTAAACATATATTCATGCTAGAGAGCATAAACACATAAT
1 GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAGCATAAATGCATAAT
*
10989120 CATGCTGATGAGC
66 CATGCTGACGAGC
10989133 GTAAA
1 GTAAA
10989138 TGTGTAGTCT
Statistics
Matches: 272, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
78 269 0.99
79 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (78 bp):
GTAAACGTATATCCATGCTGACGAGCGTAAACGTATATTCATGCTGGCGAGCATAAATGCATAAT
CATGCTGACGAGC
Found at i:10993743 original size:12 final size:12
Alignment explanation
Indices: 10993726--10993750 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10993716 CAAGTTCACA
10993726 AAATAAAATAAT
1 AAATAAAATAAT
10993738 AAATAAAATAAT
1 AAATAAAATAAT
10993750 A
1 A
10993751 TAAATAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAAATAAT
Found at i:10993747 original size:17 final size:18
Alignment explanation
Indices: 10993725--10993758 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10993715 TCAAGTTCAC
10993725 AAAATAAAAT-AATAAAT
1 AAAATAAAATAAATAAAT
*
10993742 AAAATAATATAAATAAA
1 AAAATAAAATAAATAAA
10993759 ACATATATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAAAATAAATAAAT
Found at i:10996511 original size:39 final size:39
Alignment explanation
Indices: 10996452--10996640 Score: 166
Period size: 39 Copynumber: 4.8 Consensus size: 39
10996442 TTCTGAAATG
* * *
10996452 ATATGCTAAACTGGGAGTGACACTGGAAACACTGTAACA
1 ATATACTAAACTGGCAGTGACACTGTAAACACTGTAACA
* * *
10996491 A-ATTACTAAAGTGGCAGTGACACTGTAAACTCTGTAACG
1 ATA-TACTAAACTGGCAGTGACACTGTAAACACTGTAACA
* **
10996530 ATATACTAAACTGGCAGTGACACTGTAAACACTGCAATG
1 ATATACTAAACTGGCAGTGACACTGTAAACACTGTAACA
* * * * *
10996569 CTATATTGAA-TGGGCAGTGATACTGTAAACACTGTAACT
1 ATATACTAAACT-GGCAGTGACACTGTAAACACTGTAACA
* ** * * *
10996608 TTATACCGAAGTAGTAGTGACACTGTAAACACT
1 ATATACTAAACTGGCAGTGACACTGTAAACACT
10996641 ACTAAACTAT
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 2 0.02
39 119 0.97
40 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (39 bp):
ATATACTAAACTGGCAGTGACACTGTAAACACTGTAACA
Found at i:11004692 original size:18 final size:17
Alignment explanation
Indices: 11004656--11004694 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11004646 TTCTTTTTCC
11004656 TTCTCTTCTTTTGCTTA
1 TTCTCTTCTTTTGCTTA
* *
11004673 TTCTTTTCTTTTCTCTTA
1 TTCTCTTCTTTT-GCTTA
11004691 TTCT
1 TTCT
11004695 ACTTTAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (17 bp):
TTCTCTTCTTTTGCTTA
Found at i:11015293 original size:39 final size:40
Alignment explanation
Indices: 11015235--11015346 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 40
11015225 TTTCTTAAAT
* * *
11015235 GATATATTGAACTGGCAGTGACACTGTAAACACTT-TAAC
1 GATATATTGAACTAGCAGTGACACTATAAACACTTGCAAC
*
11015274 GATTTATTGAACTAGCAGTGACACTATAAACA-TTGCAAC
1 GATATATTGAACTAGCAGTGACACTATAAACACTTGCAAC
* *
11015313 GATATACTAAACTAGCAGTGACACTATAAACACT
1 GATATATTGAACTAGCAGTGACACTATAAACACT
11015347 ACAATGCTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
38 2 0.03
39 61 0.95
40 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (40 bp):
GATATATTGAACTAGCAGTGACACTATAAACACTTGCAAC
Found at i:11015358 original size:39 final size:39
Alignment explanation
Indices: 11015235--11015359 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
11015225 TTTCTTAAAT
* * * * **
11015235 GATATATTGAACTGGCAGTGACACTGTAAACACTTTAAC
1 GATATACTAAACTAGCAGTGACACTATAAACACTACAAC
* * * * *
11015274 GATTTATTGAACTAGCAGTGACACTATAAACATTGCAAC
1 GATATACTAAACTAGCAGTGACACTATAAACACTACAAC
*
11015313 GATATACTAAACTAGCAGTGACACTATAAACACTACAAT
1 GATATACTAAACTAGCAGTGACACTATAAACACTACAAC
*
11015352 GCTATACT
1 GATATACT
11015360 GAATGGGCGG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (39 bp):
GATATACTAAACTAGCAGTGACACTATAAACACTACAAC
Found at i:11034077 original size:27 final size:29
Alignment explanation
Indices: 11034047--11034113 Score: 66
Period size: 33 Copynumber: 2.2 Consensus size: 29
11034037 AAGTTTTTAT
11034047 TTTATTAATTTT-ATTTTGACTAAA-TTA
1 TTTATTAATTTTCATTTTGACTAAACTTA
*
11034074 TTTAAAGTTTTTATTTTCATTTTGACTAAACTTA
1 TTT--A---TTAATTTTCATTTTGACTAAACTTA
11034108 TTTATT
1 TTTATT
11034114 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
27 3 0.09
29 3 0.09
32 8 0.25
33 12 0.38
34 6 0.19
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTATTAATTTTCATTTTGACTAAACTTA
Found at i:11039456 original size:39 final size:39
Alignment explanation
Indices: 11039381--11039664 Score: 224
Period size: 39 Copynumber: 7.3 Consensus size: 39
11039371 CAGTGGTCAT
* * *
11039381 AGTGTCACTGCCAGA-TCAGTGTAGTATC-CTAATGTTTAC
1 AGTGTCACTGCCA-ATTCAGTATAGTGTCGC-AGTGTTTAC
* * *
11039420 ATTGTCACTGCCTATTCAGTACAGTGTCGCAGTGTTTAC
1 AGTGTCACTGCCAATTCAGTATAGTGTCGCAGTGTTTAC
* * *
11039459 AGTGTCACTACCCATT---T-TAGTGTAC-CATTGTAGTATATAT
1 AGTGTCACTGCCAATTCAGTATAGTGT-CGCA--GT-GT-T-TAC
* * ** * * *
11039499 AGTGTTACTACCAATTTTGTATAGTATCACAGTGTTTAT
1 AGTGTCACTGCCAATTCAGTATAGTGTCGCAGTGTTTAC
*
11039538 AGTGTCACTGCCAATTCAATATAGTGTCGCAGTGTTTAC
1 AGTGTCACTGCCAATTCAGTATAGTGTCGCAGTGTTTAC
* *
11039577 AGTGTCACTGCCAATTCAGTATAGTGTCGAAGTGTTTAT
1 AGTGTCACTGCCAATTCAGTATAGTGTCGCAGTGTTTAC
* * * *
11039616 AGTGTCACTGTCAATTCAATATAGCT-ACACAGTGTTTAC
1 AGTGTCACTGCCAATTCAGTATAG-TGTCGCAGTGTTTAC
11039655 AGTGTCACTG
1 AGTGTCACTG
11039665 TCAGCTCAGT
Statistics
Matches: 200, Mismatches: 31, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
35 7 0.04
36 2 0.01
37 2 0.01
38 3 0.01
39 154 0.77
40 19 0.09
41 2 0.01
42 2 0.01
43 2 0.01
44 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (39 bp):
AGTGTCACTGCCAATTCAGTATAGTGTCGCAGTGTTTAC
Found at i:11039701 original size:78 final size:78
Alignment explanation
Indices: 11039521--11039681 Score: 209
Period size: 78 Copynumber: 2.1 Consensus size: 78
11039511 AATTTTGTAT
* * *
11039521 AGTATC-ACAGTGTTTATAGTGTCACTGCCAATTCAATATAGTGTCGCAGTGTTTACAGTGTCAC
1 AGTATCGA-AGTGTTTATAGTGTCACTGTCAATTCAATATAGTGACACAGTGTTTACAGTGTCAC
* *
11039585 TGCCAATTCAGTAT
65 TGCCAACTCAGTAC
*
11039599 AGTGTCGAAGTGTTTATAGTGTCACTGTCAATTCAATATAGCT-ACACAGTGTTTACAGTGTCAC
1 AGTATCGAAGTGTTTATAGTGTCACTGTCAATTCAATATAG-TGACACAGTGTTTACAGTGTCAC
* *
11039663 TGTCAGCTCAGTAC
65 TGCCAACTCAGTAC
*
11039677 GGTAT
1 AGTAT
11039682 TATGGTGTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
78 69 0.97
79 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (78 bp):
AGTATCGAAGTGTTTATAGTGTCACTGTCAATTCAATATAGTGACACAGTGTTTACAGTGTCACT
GCCAACTCAGTAC
Found at i:11042797 original size:21 final size:21
Alignment explanation
Indices: 11042758--11042797 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11042748 CTTAACACTT
** *
11042758 TATTATTAATGTCACAAAAAA
1 TATTATTAATGAAAAAAAAAA
11042779 TATTATTAATGAAAAAAAA
1 TATTATTAATGAAAAAAAA
11042798 CCTTATTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTATTAATGAAAAAAAAAA
Found at i:11045425 original size:21 final size:21
Alignment explanation
Indices: 11045386--11045425 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11045376 CTTAACACTT
** *
11045386 TATTATTAATGTCACAAAAAA
1 TATTATTAATGAAAAAAAAAA
11045407 TATTATTAATGAAAAAAAA
1 TATTATTAATGAAAAAAAA
11045426 CCTTATTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTATTAATGAAAAAAAAAA
Found at i:11048242 original size:22 final size:22
Alignment explanation
Indices: 11048201--11048243 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11048191 ATTTAAAACT
** *
11048201 TTATTATTAATGTCACAAAAAA
1 TTATTATTAATGAAAAAAAAAA
11048223 TTATTATTAATGAAAAAAAAA
1 TTATTATTAATGAAAAAAAAA
11048244 CCTTATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (22 bp):
TTATTATTAATGAAAAAAAAAA
Found at i:11051022 original size:19 final size:21
Alignment explanation
Indices: 11050985--11051025 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11050975 TTTAAAACTT
11050985 TATTATTAATGTCACAAAAAAA
1 TATTATTAATG-CACAAAAAAA
11051007 TATTATTAATG-A-AAAAAAA
1 TATTATTAATGCACAAAAAAA
11051026 CCTTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
22 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
TATTATTAATGCACAAAAAAA
Found at i:11053860 original size:22 final size:22
Alignment explanation
Indices: 11053813--11053853 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11053803 TTAAAACTTT
11053813 TTATTAATGTCACAAAAAAATA
1 TTATTAATGTCACAAAAAAATA
*
11053835 TTATTAATGT-ATAAAAAAA
1 TTATTAATGTCACAAAAAAA
11053854 ACCTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
TTATTAATGTCACAAAAAAATA
Found at i:11056482 original size:19 final size:21
Alignment explanation
Indices: 11056445--11056484 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
11056435 TTTAAAACTT
11056445 TATTATTAATGTCACAAAAAAA
1 TATTATTAATG-CACAAAAAAA
11056467 TATTATTAATG-A-AAAAAA
1 TATTATTAATGCACAAAAAA
11056485 CCTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
22 11 0.61
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTATTAATGCACAAAAAAA
Found at i:11059307 original size:21 final size:21
Alignment explanation
Indices: 11059268--11059307 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11059258 TTTAAAACTT
** *
11059268 TATTATTAATGTCACAAAAAA
1 TATTATTAATGAAAAAAAAAA
11059289 TATTATTAATGAAAAAAAA
1 TATTATTAATGAAAAAAAA
11059308 CCTTATATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTATTAATGAAAAAAAAAA
Found at i:11060873 original size:43 final size:43
Alignment explanation
Indices: 11060812--11060898 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
11060802 TTTCATTAGA
11060812 GCGGCTAAAATGCAATGTAGGGTATAGTACAGACGATTTTGTT
1 GCGGCTAAAATGCAATGTAGGGTATAGTACAGACGATTTTGTT
11060855 GCGGCTAAAATGCAATGTAGGGTATAGTACAGACGATTTTGTT
1 GCGGCTAAAATGCAATGTAGGGTATAGTACAGACGATTTTGTT
11060898 G
1 G
11060899 TACTTTTACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (43 bp):
GCGGCTAAAATGCAATGTAGGGTATAGTACAGACGATTTTGTT
Found at i:11064559 original size:59 final size:58
Alignment explanation
Indices: 11064389--11064754 Score: 278
Period size: 59 Copynumber: 6.3 Consensus size: 58
11064379 ACTCGAAGGC
* * * *
11064389 AAAATGGTAA-TTTTGGAC-TCTCGGGGGCAAAATGGTAATTTTGGGAAAG-TTGGGGTTA
1 AAAATGG-AATTTTTGGACAT-TCGGGGGTAAAATGGTAATTTT-TGAAAGTTTCGGGTCA
* * * **
11064447 AAAAT-GACA-TTTTGGACATTCGAGAGTAAAGTGGTAATTTTTAGAAA-AATCGGGATCA
1 AAAATGGA-ATTTTTGGACATTCGGGGGTAAAATGGTAATTTTT-GAAAGTTTCGGG-TCA
** * *
11064505 AAAATAAAATTTTTGGACATCCGTGGGTAAAATGGTAATTTTTGAAAGTTTCGGGTCA
1 AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTCGGGTCA
* * * * *
11064563 AAAATGGAATTTTTAGAAATTTGGGGGTAAAAT-GTAA-TTTTGGAAGTTTGAGGGT-A
1 AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTGAAAGTTT-CGGGTCA
* * * * *
11064619 AAAATGGAATTTTT-GAAAGTTTGGAGTTAAAAAT-GTAATTTTTGGAAGTTTCAGGGTCA
1 AAAATGGAATTTTTGGACA-TTCGGGGGT-AAAATGGTAATTTTTGAAAGTTTC-GGGTCA
11064678 AAAATGGAATTTTTGGA-AGTTCGGGGGTAAAAATGG-AATTTTT-AGAAGTTTCGGGTTCA
1 AAAATGGAATTTTTGGACA-TTCGGGGGT-AAAATGGTAATTTTTGA-AAGTTTCGGG-TCA
11064737 AAATAT--AATTTTTGGACA
1 AAA-ATGGAATTTTTGGACA
11064755 GTTTAGGGAC
Statistics
Matches: 257, Mismatches: 31, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
55 4 0.02
56 34 0.13
57 53 0.21
58 76 0.30
59 85 0.33
60 5 0.02
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (58 bp):
AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTCGGGTCA
Found at i:11064739 original size:29 final size:29
Alignment explanation
Indices: 11064529--11064758 Score: 222
Period size: 29 Copynumber: 7.9 Consensus size: 29
11064519 GGACATCCGT
*
11064529 GGGT-AAAATGGTAATTTTTGAAAGTTTC-
1 GGGTAAAAATGG-AATTTTTGGAAGTTTCG
* * *
11064557 GGGTCAAAAATGGAATTTTTAGAAATTTGG
1 GGGT-AAAAATGGAATTTTTGGAAGTTTCG
*
11064587 GGGT-AAAATGTAA-TTTTGGAAGTTT-G
1 GGGTAAAAATGGAATTTTTGGAAGTTTCG
*
11064613 AGGGTAAAAATGGAATTTTTGAAAGTTT-G
1 -GGGTAAAAATGGAATTTTTGGAAGTTTCG
* * *
11064642 GAGTTAAAAATGTAATTTTTGGAAGTTTCA
1 G-GGTAAAAATGGAATTTTTGGAAGTTTCG
11064672 GGGTCAAAAATGGAATTTTTGGAAG-TTCGG
1 GGGT-AAAAATGGAATTTTTGGAAGTTTC-G
*
11064702 GGGTAAAAATGGAATTTTTAGAAGTTTCG
1 GGGTAAAAATGGAATTTTTGGAAGTTTCG
* * **
11064731 GGTTCAAAATATAATTTTTGGACAGTTT
1 GGGTAAAAATGGAATTTTTGGA-AGTTT
11064759 AGGGACCTCA
Statistics
Matches: 168, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 14 0.08
28 21 0.12
29 89 0.53
30 43 0.26
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTCG
Found at i:11065892 original size:18 final size:18
Alignment explanation
Indices: 11065869--11065903 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11065859 TTTAATAAAT
11065869 TTATTA-TATGTTATTATA
1 TTATTATTAT-TTATTATA
11065887 TTATTATTATTTATTAT
1 TTATTATTATTTATTAT
11065904 TAAAAACAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTATTATTATTTATTATA
Found at i:11065905 original size:10 final size:9
Alignment explanation
Indices: 11065857--11065903 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
11065847 TTCGTATTTT
*
11065857 TATTTAATA
1 TATTTATTA
*
11065866 AATTTATTA
1 TATTTATTA
11065875 TATGTTATTA
1 TAT-TTATTA
11065885 TA-TTATTA
1 TATTTATTA
11065893 TTATTTATTA
1 -TATTTATTA
11065903 T
1 T
11065904 TAAAAACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 6 0.19
9 12 0.38
10 14 0.44
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TATTTATTA
Found at i:11066622 original size:13 final size:13
Alignment explanation
Indices: 11066604--11066628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11066594 ATTTGAGCTT
11066604 TTGTAATTGGACA
1 TTGTAATTGGACA
11066617 TTGTAATTGGAC
1 TTGTAATTGGAC
11066629 TTTATATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (13 bp):
TTGTAATTGGACA
Found at i:11066661 original size:6 final size:6
Alignment explanation
Indices: 11066652--11066734 Score: 86
Period size: 6 Copynumber: 14.5 Consensus size: 6
11066642 TTTTAATATT
**
11066652 AATTTA AATTTA AA-TTA AATTTA AATTTA AATTTA AA-GCA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
11066698 AATTTA AA-AT- AATTTA AATTT- AATAATA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AAT-TTA AATTTA AAT
11066735 CTATTTAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 2 0.03
5 13 0.21
6 45 0.71
7 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:11066664 original size:11 final size:11
Alignment explanation
Indices: 11066650--11066732 Score: 78
Period size: 11 Copynumber: 7.4 Consensus size: 11
11066640 GTTTTTAATA
11066650 TTAATTTAAAT
1 TTAATTTAAAT
*
11066661 TTAAATTAAAT
1 TTAATTTAAAT
11066672 TTAAATTTAAAT
1 TT-AATTTAAAT
***
11066684 TTAAAGCAAAT
1 TTAATTTAAAT
11066695 TTAAATTTAAA-
1 TT-AATTTAAAT
*
11066706 ATAATTTAAAT
1 TTAATTTAAAT
*
11066717 TTAATAATAAAT
1 TTAAT-TTAAAT
11066729 TTAA
1 TTAA
11066733 ATCTATTTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
10 8 0.14
11 25 0.44
12 24 0.42
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:11066672 original size:17 final size:17
Alignment explanation
Indices: 11066656--11066734 Score: 99
Period size: 17 Copynumber: 4.6 Consensus size: 17
11066646 AATATTAATT
*
11066656 TAAATTTAAA-TTAAATT
1 TAAATTTAAATTTAAA-A
*
11066673 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
*
11066690 CAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
11066707 T-AATTTAAATTTAATAA
1 TAAATTTAAATTTAA-AA
11066724 TAAATTTAAAT
1 TAAATTTAAAT
11066735 CTATTTAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
16 13 0.24
17 28 0.51
18 14 0.25
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:11066682 original size:23 final size:23
Alignment explanation
Indices: 11066652--11066734 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
11066642 TTTTAATATT
11066652 AATTTAAATTTAAATTAAATTTA
1 AATTTAAATTTAAATTAAATTTA
**
11066675 AATTTAAATTTAAAGCAAATTTA
1 AATTTAAATTTAAATTAAATTTA
* *
11066698 AATTTAAA-ATAATTTAAATTT-
1 AATTTAAATTTAAATTAAATTTA
*
11066719 AATAATAAATTTAAAT
1 AAT-TTAAATTTAAAT
11066735 CTATTTAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 3 0.06
22 13 0.27
23 33 0.67
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (23 bp):
AATTTAAATTTAAATTAAATTTA
Found at i:11069993 original size:16 final size:17
Alignment explanation
Indices: 11069962--11069994 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11069952 AAAACCTTAT
*
11069962 TTTCATATTTTTTTACA
1 TTTCATATTTTATTACA
11069979 TTTCA-ATTTTATTACA
1 TTTCATATTTTATTACA
11069995 AATTTTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTCATATTTTATTACA
Found at i:11071190 original size:22 final size:22
Alignment explanation
Indices: 11071149--11071191 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11071139 ATTTTAAACT
** *
11071149 TTATTATTAATGTCACAAAAAA
1 TTATTATTAATGGAAAAAAAAA
11071171 TTATTATTAATGGAAAAAAAA
1 TTATTATTAATGGAAAAAAAA
11071192 TCTTATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (22 bp):
TTATTATTAATGGAAAAAAAAA
Found at i:11073035 original size:17 final size:16
Alignment explanation
Indices: 11073008--11073082 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 16
11072998 AAATCTTTAT
*
11073008 TTTAAATTTATTCTAAG
1 TTTAAA-TTATTCTAAA
*
11073025 TTTAGAATTATTTTAAA
1 TTTA-AATTATTCTAAA
*
11073042 TTTAAATT-TAT-TAAG
1 TTTAAATTAT-TCTAAA
*
11073057 TTTAAATTTATTTTAAA
1 TTTAAA-TTATTCTAAA
11073074 TTTTAAATT
1 -TTTAAATT
11073083 TGAAATATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
15 10 0.21
16 8 0.17
17 22 0.46
18 8 0.17
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (16 bp):
TTTAAATTATTCTAAA
Found at i:11073068 original size:32 final size:35
Alignment explanation
Indices: 11073006--11073083 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 35
11072996 CCAAATCTTT
11073006 ATTTTAAATTTATTCTAAGTTTAGAATTATTTTAA
1 ATTTTAAATTTATTCTAAGTTTAGAATTATTTTAA
11073041 A-TTTAAATTTA-T-TAAGTTTA-AATTTATTTTAA
1 ATTTTAAATTTATTCTAAGTTTAGAA-TTATTTTAA
11073073 ATTTTAAATTT
1 ATTTTAAATTT
11073084 GAAATATTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
31 2 0.05
32 18 0.44
33 10 0.24
34 10 0.24
35 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (35 bp):
ATTTTAAATTTATTCTAAGTTTAGAATTATTTTAA
Found at i:11075104 original size:30 final size:30
Alignment explanation
Indices: 11075049--11075522 Score: 372
Period size: 30 Copynumber: 16.1 Consensus size: 30
11075039 CCATGAAGGT
* * *
11075049 CCCT-AAACTATCC-AAAATCATATTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
* *
11075077 CCCTTAAACTTTCCAAAAATTACATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
*
11075107 CCCTTAAACTTTTCCAAAAATTACATTTTAA
1 CCCTCAAAC-TTTCCAAAAATTACATTTTAA
*
11075138 CCCTCAAACTTTAC-AAAATTACATTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
** * * * *
11075167 CCCTTGAATTTTCTAAAAATTATATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
*
11075197 CCCTCAAACTTTCCAAAAAATACATTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
* * *
11075227 CCCACAAACATTCCAAAAATTACATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
*
11075257 CCC-CAAACTTTCTAAAAATTACATTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
** *
11075286 -CCTTGAACTTTCTAAAAATTACATTTT-A
1 CCCTCAAACTTTCCAAAAATTACATTTTAA
* * *
11075314 CCCTCAAAC-CTCTAAAAATTCCATTTTTAA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTAA
* **
11075344 CCC-CGATTTTTCCAAAAAATTACCATTTTAA
1 CCCTCAAACTTTCC-AAAAATTA-CATTTTAA
* *
11075375 CCC-CAAAC-ATCCAAAAACTT-CATTATTGA
1 CCCTCAAACTTTCCAAAAA-TTACATT-TTAA
**
11075404 CCCT-AATTTTTCCAAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATTA-CATTTTAA
* * *
11075433 CCCCCAAAC-TTCTAAAAATTCCATTTTTAA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTAA
** ** *
11075463 -CCTTGATTTTTCCAAAAATTACCATTTTAC
1 CCCTCAAACTTTCCAAAAATTA-CATTTTAA
*
11075493 CCCT-AAAC-TT-CAAAAATTCCATTTTTAA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTAA
11075521 CC
1 CC
11075523 TCGAAGTGTC
Statistics
Matches: 356, Mismatches: 66, Indels: 48
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.01
28 40 0.11
29 127 0.36
30 130 0.37
31 55 0.15
32 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATTACATTTTAA
Found at i:11075200 original size:59 final size:59
Alignment explanation
Indices: 11075070--11075522 Score: 366
Period size: 59 Copynumber: 7.6 Consensus size: 59
11075060 CCAAAATCAT
* * * *
11075070 ATTTTAACCCTTAAACTTTCCAAAAATTACATTTTGACCCTTAAACTTTTCCAAAAATTAC
1 ATTTT-ACCCTCAAACTTTACAAAAATTACATTTTAACCCTTGAA-TTTTCCAAAAATTAC
* *
11075131 ATTTTAACCCTCAAACTTTAC-AAAATTACATTTTAACCCTTGAATTTTCTAAAAATTAT
1 ATTTT-ACCCTCAAACTTTACAAAAATTACATTTTAACCCTTGAATTTTCCAAAAATTAC
* * *** **
11075190 ATTTTGACCCTCAAACTTTCCAAAAAATACATTTTAACCCACAAACATTCCAAAAATTAC
1 ATTTT-ACCCTCAAACTTTACAAAAATTACATTTTAACCCTTGAATTTTCCAAAAATTAC
* *
11075250 ATTTTGACCC-CAAACTTT-CTAAAAATTACATTTTAA-CCTTGAACTTTCTAAAAATTAC
1 ATTTT-ACCCTCAAACTTTAC-AAAAATTACATTTTAACCCTTGAATTTTCCAAAAATTAC
* * * *
11075308 ATTTTACCCTCAAAC-CT-CTAAAAATTCCATTTTTAACCC-CGATTTTTCCAAAAAATTACC
1 ATTTTACCCTCAAACTTTAC-AAAAATTACA-TTTTAACCCTTGAATTTTCC-AAAAATTA-C
* * *
11075368 ATTTTAACCC-CAAAC-ATCCAAAAACTT-CATTATTGACCC-T-AATTTTTCCAAAAATTACC
1 ATTTT-ACCCTCAAACTTTACAAAAA-TTACATT-TTAACCCTTGAA-TTTTCCAAAAATTA-C
* * *
11075427 ATTTTACCCCCAAAC-TT-CTAAAAATTCCATTTTTAA-CCTTGATTTTTCCAAAAATTACC
1 ATTTTACCCTCAAACTTTAC-AAAAATTACA-TTTTAACCCTTGAATTTTCCAAAAATTA-C
*
11075486 ATTTTACCC-CTAAAC-TT-CAAAAATTCCATTTTTAACC
1 ATTTTACCCTC-AAACTTTACAAAAATTACA-TTTTAACC
11075523 TCGAAGTGTC
Statistics
Matches: 337, Mismatches: 35, Indels: 42
0.81 0.08 0.10
Matches are distributed among these distances:
57 16 0.05
58 67 0.20
59 133 0.39
60 95 0.28
61 26 0.08
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
ATTTTACCCTCAAACTTTACAAAAATTACATTTTAACCCTTGAATTTTCCAAAAATTAC
Found at i:11075331 original size:29 final size:29
Alignment explanation
Indices: 11075070--11075548 Score: 300
Period size: 29 Copynumber: 16.2 Consensus size: 29
11075060 CCAAAATCAT
* *
11075070 ATTTTAACCCTTAAACTTTCCAAAAATTAC
1 ATTTTAACCCTCAAAC-TTCTAAAAATTAC
* * *
11075100 ATTTTGACCCTTAAACTTTTCCAAAAATTAC
1 ATTTTAACCCTCAAAC--TTCTAAAAATTAC
11075131 ATTTTAACCCTCAAACTT-TACAAAATTAC
1 ATTTTAACCCTCAAACTTCTA-AAAATTAC
* ** *
11075160 ATTTTAACCCTTGAATTTTCTAAAAATTAT
1 ATTTTAACCC-TCAAACTTCTAAAAATTAC
* * *
11075190 ATTTTGACCCTCAAACTTTCCAAAAAATAC
1 ATTTTAACCCTCAAAC-TTCTAAAAATTAC
* *
11075220 ATTTTAACCCACAAACATTCCAAAAATTAC
1 ATTTTAACCCTCAAAC-TTCTAAAAATTAC
*
11075250 ATTTTGACCC-CAAACTTTCTAAAAATTAC
1 ATTTTAACCCTCAAAC-TTCTAAAAATTAC
**
11075279 ATTTTAA-CCTTGAACTTTCTAAAAATTAC
1 ATTTTAACCCTCAAAC-TTCTAAAAATTAC
* *
11075308 ATTTT-ACCCTCAAACCTCTAAAAATTCC
1 ATTTTAACCCTCAAACTTCTAAAAATTAC
*** *
11075336 ATTTTTAACCC-CGATTTTTCCAAAAAATTACC
1 A-TTTTAACCCTC-AAACTT-CTAAAAATTA-C
* *
11075368 ATTTTAACCC-CAAACATCCAAAAACTT-C
1 ATTTTAACCCTCAAACTTCTAAAAA-TTAC
* ** *
11075396 ATTATTGACCCT-AATTTTTCCAAAAATTACC
1 ATT-TTAACCCTCAA-ACTTCTAAAAATTA-C
* *
11075427 ATTTT-ACCCCCAAACTTCTAAAAATTCC
1 ATTTTAACCCTCAAACTTCTAAAAATTAC
* * *** *
11075455 ATTTTTAACCTTGATTTTTCCAAAAATTACC
1 A-TTTTAACCCTCAAACTTCTAAAAATTA-C
* *
11075486 ATTTTACCCCT-AAACTTC-AAAAATTCC
1 ATTTTAACCCTCAAACTTCTAAAAATTAC
* *
11075513 ATTTTTAA-CCTCGAAGTGTCT-AAAATTACC
1 A-TTTTAACCCTCAAACT-TCTAAAAATTA-C
11075543 ATTTTA
1 ATTTTA
11075549 CCCCCGGGTA
Statistics
Matches: 355, Mismatches: 67, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
27 5 0.01
28 37 0.10
29 130 0.37
30 127 0.36
31 54 0.15
32 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (29 bp):
ATTTTAACCCTCAAACTTCTAAAAATTAC
Found at i:11075451 original size:119 final size:116
Alignment explanation
Indices: 11075294--11075508 Score: 333
Period size: 119 Copynumber: 1.8 Consensus size: 116
11075284 AACCTTGAAC
* *
11075294 TTTCTAAAAATTACATTTTACCCTCAAACCTCTAAAAATTCCATTTTTAACCCCGATTTTTCCAA
1 TTTCCAAAAATTACATTTTACCCCCAAACCTCTAAAAATTCCATTTTTAACCCCGATTTTTCC-A
11075359 AAAATTACCATTTTAACCCC-AAACATCCAAAAACTTCATTATTGACCCTAATT
65 AAAATTACCATTTT-ACCCCTAAAC-TCCAAAAACTTCATTATTGACCCTAATT
* **
11075412 TTTCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATTCCATTTTTAACCTTGATTTTTCCA
1 TTTCCAAAAATTA-CATTTTACCCCCAAACCTCTAAAAATTCCATTTTTAACCCCGATTTTTCCA
*
11075477 AAAATTACCATTTTACCCCTAAACTTCAAAAA
65 AAAATTACCATTTTACCCCTAAACTCCAAAAA
11075509 TTCCATTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
117 12 0.13
118 31 0.35
119 46 0.52
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.35
Consensus pattern (116 bp):
TTTCCAAAAATTACATTTTACCCCCAAACCTCTAAAAATTCCATTTTTAACCCCGATTTTTCCAA
AAATTACCATTTTACCCCTAAACTCCAAAAACTTCATTATTGACCCTAATT
Found at i:11087627 original size:98 final size:98
Alignment explanation
Indices: 11087448--11087871 Score: 505
Period size: 98 Copynumber: 4.3 Consensus size: 98
11087438 CGCGAAACAC
* * ** *
11087448 GAAGGGAGAGATTTAAGTCGCAACGGTAAATCTAGTACCACGAAGATATGGAGGGGAAA-GTTTA
1 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGA-GGGAAAGGTTTA
* *
11087512 AGTCGCAA-CAGCAAACCTTATACCTCA-AAGACAT
65 AGTCGCAATGA-CGAACCTTATACCTCAGAAG-CAT
* * *
11087546 GAAGAGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAA
1 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAA
* *
11087611 TTCGCAATGACGAACCTTATACCTTAG-AGACAT
66 GTCGCAATGACGAACCTTATACCTCAGAAG-CAT
* * *
11087644 GAAGGGAAAGATTTAAGCCGCAGCGGTGAATCCAGTACCACAAAGATATGGAGGGAAAGGTTTAA
1 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAA
*
11087709 GTCGCAATGGCGAACCTTATACCTCAGAAGCAT
66 GTCGCAATGACGAACCTTATACCTCAGAAGCAT
* * * ***
11087742 GAAGGGAAAGATTTAAGTCGCAATGGCGAATCCAGTACCACGAAGACACAAAAGGGAAAGGTTTA
1 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATA-TGGAGGGAAAGGTTTA
* * ** *
11087807 AGTCACAACGGTGAACCTTATTCCTCAGAAGCATT
65 AGTCGCAATGACGAACCTTATACCTCAGAAGCA-T
* *
11087842 GAAGGGAAAGATTTAAGTCGTAACGGCGAA
1 GAAGGGAAAGATTTAAGCCGCAACGGCGAA
11087872 CCTTATACCT
Statistics
Matches: 286, Mismatches: 34, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
97 6 0.02
98 206 0.72
99 45 0.16
100 29 0.10
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (98 bp):
GAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAA
GTCGCAATGACGAACCTTATACCTCAGAAGCAT
Found at i:11087907 original size:100 final size:100
Alignment explanation
Indices: 11087843--11088720 Score: 1212
Period size: 100 Copynumber: 8.8 Consensus size: 100
11087833 AGAAGCATTG
* *
11087843 AAGGGAAAGATTTAAGTCGTAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
** * *
11087908 GCCATAACGATGAATCCAGTATCGCGAAGACACAA
66 GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
* *
11087943 AAGGGAAAGGTTTAAGTCACAACGGTGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
*
11088008 GCCGCAACGGCGAATCCAGTACCGCGAAGACACAA
66 GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
* * *
11088043 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAGCATTGACGGGAAATATTTAA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
*
11088108 GCCGCAACGACGAATCCAGTACTGCGAAGACACAA
66 GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
**
11088143 AAGGGAAAGGTTTAAGTCGCAACGGTAAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
**
11088208 GCCGCAACGATAAATCCAGTACCGCGAAGACACAA
66 GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
* * *
11088243 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTTAAAAACATTGAAAGGAAAGATTTAA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
*
11088308 GCCGTAACGACGAATCCAGTACCGCGAAGACACAA
66 GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
* * *
11088343 AAGGGAAAGGTTTAAGTCGCAATGGCAAACCTTATACCTCAGAAGCATTGAAGGGAAAGATTTAA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
** *
11088408 GCCGCAACGGTGAATCCAGTACCGCGAAGACATAA
66 GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
*
11088443 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAG-AGTTGAAGGGAAAGATTTA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCA-TTGAAGGGAAAGATTTA
** * * * *
11088507 AGCTACAAC-AGCAAATCCAGTAGCAC-AAGGACAC-G
65 AGCCGCAACGA-CGAATCCAGTACCGCGAA-GACACAA
* * * * *
11088542 AAGGGAAAGGTGTAAGTCGCAATGGCGAACCTAATACCTC-AGAGACA-TAAAGGGAAAGATTTA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAG-CATTGAAGGGAAAGATTTA
* * *
11088605 AGTCGTAACGACGAATCCAGTATCGCGAAGACACAA
65 AGCCGCAACGACGAATCCAGTACCGCGAAGACACAA
* * ** ** * *
11088641 AAGGGAAAGGTTTAAGTCGTAATGGAAAACCTTATACCTCGGAAGCA-TGAAAGGAAAAAATTTA
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTG-AAGGGAAAGATTTA
11088705 AGCCGCAACGACGAAT
65 AGCCGCAACGACGAAT
11088721 TTATTACATG
Statistics
Matches: 689, Mismatches: 79, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
98 39 0.06
99 81 0.12
100 569 0.83
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (100 bp):
AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAA
GCCGCAACGACGAATCCAGTACCGCGAAGACACAA
Found at i:11088063 original size:300 final size:298
Alignment explanation
Indices: 11087743--11088714 Score: 1221
Period size: 300 Copynumber: 3.2 Consensus size: 298
11087733 CAGAAGCATG
* * *** *
11087743 AAGGGAAAGATTTAAGTCGCAATGGCGAATCC-AGTACCAC-GAAGACACAAAAGGGAAAGGTTT
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTA-TACCTCAGAAG-CATTGAAGGGAAAGATTT
* * ** * *
11087806 AAGTCACAACGGTGAA-CCTTATTCCTCAGAAG-CATTGAAGGGAAAGATTTAAGTCGTAACGGC
63 AAGCCGCAACGGTGAATCC--ATTCCTC-GAAGACATAAAAGGGAAAGGTTTAAGTCGCAACGGC
* *
11087869 GAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAAGCCATAACGATGAATCCAGTATCGCG
125 GAACCTTATACCTCAAAAGCATTGAAGGGAAAGATTTAAGCCACAACGATGAATCCAGTACCGCG
* *
11087934 AAGACACAAAAGGGAAAGGTTTAAGTCACAACGGTGAACCTTATACCTCAAAAGCATTGAAGGGA
190 AAGACACAAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGA
* *
11087999 AAGATTTAAGCCGCAACGGCGAATCCAGTACCGCGAAGACACAA
255 AAGATTTAAGCCGTAACGACGAATCCAGTACCGCGAAGACACAA
* * *
11088043 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAGCATTGACGGGAAATATTTAA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACC-TATACCTCAGAAGCATTGAAGGGAAAGATTTAA
** * * * **
11088108 GCCGCAACGACGAATCCAGTACTGCGAAGACACAAAAGGGAAAGGTTTAAGTCGCAACGGTAAAC
65 GCCGCAACGGTGAATCCATTCCT-CGAAGACATAAAAGGGAAAGGTTTAAGTCGCAACGGCGAAC
* *
11088173 CTTATACCTCAAAAGCATTGAAGGGAAAGATTTAAGCCGCAACGATAAATCCAGTACCGCGAAGA
129 CTTATACCTCAAAAGCATTGAAGGGAAAGATTTAAGCCACAACGATGAATCCAGTACCGCGAAGA
* * *
11088238 CACAAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTTAAAAACATTGAAAGGAAAGA
194 CACAAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGA
11088303 TTTAAGCCGTAACGACGAATCCAGTACCGCGAAGACACAA
259 TTTAAGCCGTAACGACGAATCCAGTACCGCGAAGACACAA
*
11088343 AAGGGAAAGGTTTAAGTCGCAATGGCAAACCTTATACCTCAGAAGCATTGAAGGGAAAGATTTAA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACC-TATACCTCAGAAGCATTGAAGGGAAAGATTTAA
* *
11088408 GCCGCAACGGTGAATCCAGTACCGCGAAGACATAAAAGGGAAAGGTTTAAGTCGCAACGGCGAAC
65 GCCGCAACGGTGAATCCA-TTCCTCGAAGACATAAAAGGGAAAGGTTTAAGTCGCAACGGCGAAC
* * * *
11088473 CTTATACCTCAGAAG-AGTTGAAGGGAAAGATTTAAGCTACAAC-A-GCAAATCCAGTAGCAC-A
129 CTTATACCTCAAAAGCA-TTGAAGGGAAAGATTTAAGCCACAACGATG--AATCCAGTACCGCGA
* * * * * *
11088534 AGGACAC-GAAGGGAAAGGTGTAAGTCGCAATGGCGAACCTAATACCTC-AGAGACA-TAAAGGG
191 A-GACACAAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAG-CATTGAAGGG
* *
11088596 AAAGATTTAAGTCGTAACGACGAATCCAGTATCGCGAAGACACAA
254 AAAGATTTAAGCCGTAACGACGAATCCAGTACCGCGAAGACACAA
* ** * * *
11088641 AAGGGAAAGGTTTAAGTCGTAATGGAAAACCTTATACCTCGGAAGCA-TGAAAGGAAAAAATTTA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACC-TATACCTCAGAAGCATTG-AAGGGAAAGATTTA
11088705 AGCCGCAACG
64 AGCCGCAACG
11088715 ACGAATTTAT
Statistics
Matches: 591, Mismatches: 68, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
297 2 0.00
298 116 0.20
299 52 0.09
300 413 0.70
301 8 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (298 bp):
AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTATACCTCAGAAGCATTGAAGGGAAAGATTTAAG
CCGCAACGGTGAATCCATTCCTCGAAGACATAAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCT
TATACCTCAAAAGCATTGAAGGGAAAGATTTAAGCCACAACGATGAATCCAGTACCGCGAAGACA
CAAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAAAAGCATTGAAGGGAAAGATT
TAAGCCGTAACGACGAATCCAGTACCGCGAAGACACAA
Found at i:11089179 original size:17 final size:16
Alignment explanation
Indices: 11089152--11089223 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
11089142 AAATCTTTAT
*
11089152 TTTAAATTTATTCTAAG
1 TTTAAA-TTATTCTAAA
*
11089169 TTTAGAATTATTTTAAA
1 TTTA-AATTATTCTAAA
*
11089186 TTTAAATT-TAT-TAAG
1 TTTAAATTAT-TCTAAA
*
11089201 TTTAAATTTATTTTAAA
1 TTTAAA-TTATTCTAAA
11089218 TTTAAA
1 TTTAAA
11089224 ATTTGAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
15 10 0.22
16 8 0.17
17 26 0.57
18 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (16 bp):
TTTAAATTATTCTAAA
Found at i:11089212 original size:32 final size:34
Alignment explanation
Indices: 11089152--11089223 Score: 114
Period size: 32 Copynumber: 2.2 Consensus size: 34
11089142 AAATCTTTAT
11089152 TTTAAATTTATTCTAAGTTTAGAATTATTTTAAA
1 TTTAAATTTATTCTAAGTTTAGAATTATTTTAAA
11089186 TTTAAATTTA-T-TAAGTTTA-AATTTATTTTAAA
1 TTTAAATTTATTCTAAGTTTAGAA-TTATTTTAAA
11089218 TTTAAA
1 TTTAAA
11089224 ATTTGAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 2 0.05
32 24 0.65
33 1 0.03
34 10 0.27
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTCTAAGTTTAGAATTATTTTAAA
Found at i:11094327 original size:16 final size:16
Alignment explanation
Indices: 11094306--11094340 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11094296 AAAAACATGG
11094306 AAACCAATATTATTTT
1 AAACCAATATTATTTT
11094322 AAACCAATATTATTTT
1 AAACCAATATTATTTT
11094338 AAA
1 AAA
11094341 TTTTAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (16 bp):
AAACCAATATTATTTT
Found at i:11094392 original size:22 final size:20
Alignment explanation
Indices: 11094377--11094421 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
11094367 TTATGTTGTT
11094377 TTTAATGAAAATTTATTTTA
1 TTTAATGAAAATTTATTTTA
*
11094397 TTTAATTAAAATAATTATTTTA
1 TTTAATGAAAAT--TTATTTTA
11094419 TTT
1 TTT
11094422 TATTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
22 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAATGAAAATTTATTTTA
Found at i:11098596 original size:23 final size:23
Alignment explanation
Indices: 11098554--11098597 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11098544 ATTTAAATTT
** *
11098554 TTATTATTAATGTCACAAAAAAA
1 TTATTATTAATGGAAAAAAAAAA
11098577 TTATTATTAATGGAAAAAAAA
1 TTATTATTAATGGAAAAAAAA
11098598 TCTTATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
TTATTATTAATGGAAAAAAAAAA
Found at i:11098682 original size:2 final size:2
Alignment explanation
Indices: 11098675--11098707 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11098665 ACTCAAAGTT
11098675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11098708 TCTCATACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11103564 original size:6 final size:6
Alignment explanation
Indices: 11103555--11103588 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11103545 TAACAACTCC
*
11103555 AACAAA AACACA AACACA AACACA AACACA AACA
1 AACACA AACACA AACACA AACACA AACACA AACA
11103589 TAATCAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (6 bp):
AACACA
Found at i:11106928 original size:24 final size:24
Alignment explanation
Indices: 11106893--11106958 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
11106883 CCAGACAAAA
* * * *
11106893 TTAGCTCATACGAGCCTAGATAGG
1 TTAGCTCTTACGAGCCCAAATAAG
11106917 TTAGCTCTTACGAGCCCAAATAAG
1 TTAGCTCTTACGAGCCCAAATAAG
11106941 TTAGCTCATT-CGAGCCCA
1 TTAGCTC-TTACGAGCCCA
11106959 GACAGAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 35 0.95
25 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAAATAAG
Found at i:11110644 original size:13 final size:14
Alignment explanation
Indices: 11110618--11110649 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11110608 CCTTCTTTTA
11110618 TATT-TATTATTAT
1 TATTATATTATTAT
11110631 TATTATATTA-TAT
1 TATTATATTATTAT
11110644 TATTAT
1 TATTAT
11110650 TAATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:11110646 original size:16 final size:17
Alignment explanation
Indices: 11110615--11110655 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
11110605 TTTCCTTCTT
11110615 TTATATTTATTATTATTA
1 TTATA-TTATTATTATTA
11110633 TTATATTA-TATTATTA
1 TTATATTATTATTATTA
11110649 TTA-ATTA
1 TTATATTA
11110656 AAATATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 3 0.13
18 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:11110661 original size:23 final size:23
Alignment explanation
Indices: 11110615--11110661 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
11110605 TTTCCTTCTT
**
11110615 TTATATTTATTATTATTATTATA
1 TTATATTTATTATTATTAAAATA
11110638 TTATA-TTATTATTAATTAAAATA
1 TTATATTTATTATT-ATTAAAATA
11110661 T
1 T
11110662 CTTTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATATTTATTATTATTAAAATA
Found at i:11112117 original size:509 final size:509
Alignment explanation
Indices: 11111160--11112684 Score: 2592
Period size: 509 Copynumber: 3.0 Consensus size: 509
11111150 ATGAGGTCTT
*
11111160 GATACCTCATTTTCTAAAACCACTTGACTTTTGAA-TGAAACCTCTTACTAACTTTTAATTCAAT
1 GATACCTCATTTTCTAAAACCACTTGACTTTTGAACT-AAACCACTTACTAACTTTTAATTCAAT
* * *
11111224 AATTAAAATTTGTCAATTCAAAATTCCATATTAAATTATTATTGACTTATTTAATTTAAACACTC
65 AATTAAAATTCGTCAATTCAAAATTCCATATAAAATTATTATTGACTTATTTAATTTCAACACTC
* * * * * *
11111289 ATTATAAAAATTTTCTCATCGAGTTTTATGGTTCCCAAAATCACTGTTTTCGACACCATTGAAAA
130 ATTATAAAATTTTTCTCGTCGAGTTTTGTGGTTCCCAAAACCACTGCTTTCGACACCTTTGAAAA
* * *
11111354 ACGAGCTGTTACAAAACCCACATGTGACGTGTCATTATACACCACAAACTCCTTACTCGACAACG
195 ACGAGCTGTTACAAAACCCACATGTGACGCGTCATTATACACCACAAACTCCTTACCCGACAGCG
* * *
11111419 ACTGTACCAATACAGAAGCTTGTGTCAAAATAGTCTTGAGCTTCTCAAAGCTCGTTTGATGGTCC
260 ACTGTACCAATACAGAAGCTTGTGTCAAAACACTCTTGAGCTTCTCAAAGCTCATTTGATGGTCC
* * * *
11111484 TCGGACCACTTGAATAGAACATTCTTATGCAGAAGCTTAGTCAAGGGTGATTCTATCAGTGAGGA
325 TCGGACTACTTGAATAGAACGTTCTTACGCAG-AGCTTAGTCAAGGGTGATTCTATCAGTGAGAA
* *
11111549 CCCCTCGAAAAACCTACGATAATAACCCGCTAAGTCGAGGAAACTCCGAAGTTTAGTAACATTCC
389 CCCCTCGAAAAACCTACGGTAATAACCCGCTAAATCGAGGAAACTCCGAAGTTTAGTAACATTCC
*
11111614 TCAGTGGGTTCCACTCAACCACGACTTTGATCTTCTTCGAATCAACACGA-ATTTC
454 TCGGTGGGTTCCACTCAACCACGACTTTGATCTTCTTCGAATCAACACGAGATTTC
11111669 GATACCTCATTTTCTAAAACCACTTGACTTTTGAACTAAACCACTTACTAACTTTTAATTCAATA
1 GATACCTCATTTTCTAAAACCACTTGACTTTTGAACTAAACCACTTACTAACTTTTAATTCAATA
**
11111734 ATTAAAATTCGTCAATTCAAAATTGAATATAAAATTATTATTGACTTATTTAATTTCAACACTCA
66 ATTAAAATTCGTCAATTCAAAATTCCATATAAAATTATTATTGACTTATTTAATTTCAACACTCA
* *
11111799 TTGTAAAATTTTTCTCGTCGAGTTTTGTGGTTCTCAAAACCACTGCTTTCGACACCTTTGAAAAA
131 TTATAAAATTTTTCTCGTCGAGTTTTGTGGTTCCCAAAACCACTGCTTTCGACACCTTTGAAAAA
* * * *
11111864 TGAGCTGTTACAAAACCCACACGTGACACGTCATTATACACCACAAACTCATTACCCGACAGCGA
196 CGAGCTGTTACAAAACCCACATGTGACGCGTCATTATACACCACAAACTCCTTACCCGACAGCGA
11111929 CTGTACCAATACAGAAGCTTGTGTCAAAACACTCTTGAGCTTCTCAAAGCTCATTTGATGGTCCT
261 CTGTACCAATACAGAAGCTTGTGTCAAAACACTCTTGAGCTTCTCAAAGCTCATTTGATGGTCCT
*
11111994 CGGACTACTTGAATAGAACGTTCTTACGCCAGAGCTTAGTCAAGGGTGACTCTATCAGTGAGAAC
326 CGGACTACTTGAATAGAACGTTCTTACG-CAGAGCTTAGTCAAGGGTGATTCTATCAGTGAGAAC
11112059 CCCTCGAAAAACCTACGGTAATAACCCGCTAAATCGAGGAAACTCCGAAGTTTAGTAACATTCCT
390 CCCTCGAAAAACCTACGGTAATAACCCGCTAAATCGAGGAAACTCCGAAGTTTAGTAACATTCCT
*
11112124 CGGTGGGTTCCACTCAACCACGACTTTGATCTTCTTCGAATCAACA-TAGATTTC
455 CGGTGGGTTCCACTCAACCACGACTTTGATCTTCTTCGAATCAACACGAGATTTC
*
11112178 GATACCTTATTTTCTAAAACCACTTGACTTTTGAACTAAACCACTTACTAACTTTTAATTCAATA
1 GATACCTCATTTTCTAAAACCACTTGACTTTTGAACTAAACCACTTACTAACTTTTAATTCAATA
11112243 ATTAAAATTCGTCAATTCAAAATTCCATATAAAATTATTATTGACTTATTTAATTTCAACACTCA
66 ATTAAAATTCGTCAATTCAAAATTCCATATAAAATTATTATTGACTTATTTAATTTCAACACTCA
11112308 TTATAAAATTTTTCTCGTCGAGTTTTGTGGTTCCCAAAACCACTGCTTTCGACACCTTTGAAAAA
131 TTATAAAATTTTTCTCGTCGAGTTTTGTGGTTCCCAAAACCACTGCTTTCGACACCTTTGAAAAA
* *
11112373 CGAGCTGTTACAAAACCCACATGTGACGCGTCATTATACACCATAAACTCCTTACCTGACAGCGA
196 CGAGCTGTTACAAAACCCACATGTGACGCGTCATTATACACCACAAACTCCTTACCCGACAGCGA
*
11112438 CTGTACCAATACAGAAGCTTGTGTCAAAACACTCTTGAGCTTCTCAAAGCTCATTTGGTGGTCCT
261 CTGTACCAATACAGAAGCTTGTGTCAAAACACTCTTGAGCTTCTCAAAGCTCATTTGATGGTCCT
* *
11112503 TGGACTACTTGAATAGAATGTTCTTACGCAGGAGCTTAGTCAAGGGTGATTCTATCAGTGAGAAC
326 CGGACTACTTGAATAGAACGTTCTTACGCA-GAGCTTAGTCAAGGGTGATTCTATCAGTGAGAAC
* *
11112568 CCCTCAAAAAACCTACGGTAATAACTCGCTAAATCGAGGAAACTCCGAAGTTTAGTAACATTCCT
390 CCCTCGAAAAACCTACGGTAATAACCCGCTAAATCGAGGAAACTCCGAAGTTTAGTAACATTCCT
*
11112633 CGGTGGGTTCCACTCAACCACGAATTTGATCTTCTTC-AGATCAACACG-GATT
455 CGGTGGGTTCCACTCAACCACGACTTTGATCTTCTTCGA-ATCAACACGAGATT
11112685 CCTTCAGTAG
Statistics
Matches: 958, Mismatches: 52, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
508 4 0.00
509 950 0.99
510 4 0.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (509 bp):
GATACCTCATTTTCTAAAACCACTTGACTTTTGAACTAAACCACTTACTAACTTTTAATTCAATA
ATTAAAATTCGTCAATTCAAAATTCCATATAAAATTATTATTGACTTATTTAATTTCAACACTCA
TTATAAAATTTTTCTCGTCGAGTTTTGTGGTTCCCAAAACCACTGCTTTCGACACCTTTGAAAAA
CGAGCTGTTACAAAACCCACATGTGACGCGTCATTATACACCACAAACTCCTTACCCGACAGCGA
CTGTACCAATACAGAAGCTTGTGTCAAAACACTCTTGAGCTTCTCAAAGCTCATTTGATGGTCCT
CGGACTACTTGAATAGAACGTTCTTACGCAGAGCTTAGTCAAGGGTGATTCTATCAGTGAGAACC
CCTCGAAAAACCTACGGTAATAACCCGCTAAATCGAGGAAACTCCGAAGTTTAGTAACATTCCTC
GGTGGGTTCCACTCAACCACGACTTTGATCTTCTTCGAATCAACACGAGATTTC
Found at i:11113990 original size:21 final size:21
Alignment explanation
Indices: 11113945--11114019 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
11113935 CAATGCAGAT
* *
11113945 TTCTATCGATACAAGTGATAG
1 TTCTACCGATACAAGTGATAC
11113966 TTCTACCGATACAAGTG-TCAC
1 TTCTACCGATACAAGTGAT-AC
* * * * *
11113987 TTCTACAGAAATAAGTCATGC
1 TTCTACCGATACAAGTGATAC
*
11114008 TTCTACCTATAC
1 TTCTACCGATAC
11114020 TAAAAACTCC
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (21 bp):
TTCTACCGATACAAGTGATAC
Found at i:11121401 original size:22 final size:22
Alignment explanation
Indices: 11121354--11121401 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11121344 TTTTTTATTT
* ** *
11121354 AAAAATTTATTATTAATGTCAC
1 AAAAAATTATTATTAATGGAAA
11121376 AAAAAATTATTATTAATGGAAA
1 AAAAAATTATTATTAATGGAAA
11121398 AAAA
1 AAAA
11121402 CTTTAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
AAAAAATTATTATTAATGGAAA
Found at i:11123838 original size:40 final size:40
Alignment explanation
Indices: 11123739--11123925 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
11123729 GAAATAAGTG
* * * *
11123739 ACTGAATTGGCAGTGATACTATAAACACTGCAATATTATT
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
*
11123779 ACTG-ACTGGCAGTGACACTGTAAACACTGCAATATTACC
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
*
11123818 ACTGAACTGGCAGTGACACTGTAAACACTTG-GATATTACT
1 ACTGAACTGGCAGTGACACTGTAAACAC-TGCAATATTACT
* **
11123858 ACTGAACTGGCAGTGACACTG-AAACACTGAAATATTTTTT
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATA-TTACT
* *
11123898 ACTGAACTAGTCA-TGACAGTGTAAACAC
1 ACTGAACT-GGCAGTGACACTGTAAACAC
11123926 AACTAGACTA
Statistics
Matches: 129, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.02
39 43 0.33
40 73 0.57
41 11 0.09
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (40 bp):
ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
Found at i:11123925 original size:80 final size:79
Alignment explanation
Indices: 11123739--11123893 Score: 224
Period size: 79 Copynumber: 2.0 Consensus size: 79
11123729 GAAATAAGTG
* * * * *
11123739 ACTGAATTGGCAGTGATACTATAAACAC-TGCAATATTATTACTGACTGGCAGTGACACTGTAAA
1 ACTGAACTGGCAGTGACACTGTAAACACTTG-GATATTACTACTGACTGGCAGTGACACTGTAAA
*
11123803 CACTGCAATATTACC
65 CACTGAAATATTACC
11123818 ACTGAACTGGCAGTGACACTGTAAACACTTGGATATTACTACTGAACTGGCAGTGACACTG-AAA
1 ACTGAACTGGCAGTGACACTGTAAACACTTGGATATTACTACTG-ACTGGCAGTGACACTGTAAA
11123882 CACTGAAATATT
65 CACTGAAATATT
11123894 TTTTACTGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
79 50 0.74
80 18 0.26
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (79 bp):
ACTGAACTGGCAGTGACACTGTAAACACTTGGATATTACTACTGACTGGCAGTGACACTGTAAAC
ACTGAAATATTACC
Found at i:11126146 original size:22 final size:22
Alignment explanation
Indices: 11126106--11126147 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11126096 TATTAAACTG
** *
11126106 TATTATTAATATCACAAAAAAT
1 TATTATTAATAGAAAAAAAAAT
11126128 TATTATTAATAGAAAAAAAA
1 TATTATTAATAGAAAAAAAA
11126148 TCTTATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
TATTATTAATAGAAAAAAAAAT
Found at i:11128089 original size:29 final size:29
Alignment explanation
Indices: 11127998--11128413 Score: 288
Period size: 29 Copynumber: 14.4 Consensus size: 29
11127988 AAAATTTTCT
* * *
11127998 AAAATTATATTTTAACCCCCAAAACTTTTCCA
1 AAAATTACATTTT-ACCCCC-GAACTTCT-CA
* *
11128030 AAAA-TATATATTTACCCTCGAACTTC-CA
1 AAAATTACAT-TTTACCCCCGAACTTCTCA
11128058 AAAATTACATTTTACCCCCGAACTTCTCA
1 AAAATTACATTTTACCCCCGAACTTCTCA
*
11128087 AAAATTACATCTTACCCCCGAACTTCTCA
1 AAAATTACATTTTACCCCCGAACTTCTCA
*
11128116 AAAATTACATCTTTACCCCTGAACTTC-CA
1 AAAATTACAT-TTTACCCCCGAACTTCTCA
*
11128145 AAAATTACATTTTTA-CCCCAAACTTCTCA
1 AAAATTACA-TTTTACCCCCGAACTTCTCA
* *
11128174 AAAATCATATTTTA--CCCGAAACTTCTCA
1 AAAATTACATTTTACCCCCG-AACTTCTCA
* *
11128202 AAAA-TACATTTTA-CCCCAAACTTCTTA
1 AAAATTACATTTTACCCCCGAACTTCTCA
* ** *
11128229 AATATTACATTTTTACCCCTAAATTTC-CA
1 AAAATTACA-TTTTACCCCCGAACTTCTCA
* * * *
11128258 AGAATTACATTTGACTCTCCAAACTTC-CA
1 AAAATTACATTTTAC-CCCCGAACTTCTCA
* *
11128287 AAAATCACATTTTTACCCTCGAACTT-TCA
1 AAAATTACA-TTTTACCCCCGAACTTCTCA
* * ** *
11128316 AAAATCACATTTT-TCCTTGAACCTTC-CC
1 AAAATTACATTTTACCCCCGAA-CTTCTCA
*** * *
11128344 AAAATTACATTTTTACCCTTAAAGTT-TCT
1 AAAATTACA-TTTTACCCCCGAACTTCTCA
* *
11128373 AAAATTACGTTTTAACCCCGAAC-TCTCTA
1 AAAATTACATTTTACCCCCGAACTTCTC-A
*
11128402 AAACTT-CATTTT
1 AAAATTACATTTT
11128414 CGACCCCTTT
Statistics
Matches: 313, Mismatches: 50, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
27 28 0.09
28 92 0.29
29 136 0.43
30 40 0.13
31 10 0.03
32 7 0.02
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTACCCCCGAACTTCTCA
Found at i:11133091 original size:15 final size:15
Alignment explanation
Indices: 11133066--11133103 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11133056 CTTGAAACCC
11133066 AAGGCAAAAAAAGAA-A
1 AAGG-AAAAAAA-AAGA
11133082 AAGGAAAAAAAAAGA
1 AAGGAAAAAAAAAGA
11133097 AAGGAAA
1 AAGGAAA
11133104 GTCAAGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 15 0.71
16 4 0.19
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGGAAAAAAAAAGA
Found at i:11133994 original size:18 final size:18
Alignment explanation
Indices: 11133973--11134085 Score: 105
Period size: 18 Copynumber: 6.7 Consensus size: 18
11133963 AAAAAACATT
11133973 AAGAAAAAGAAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
*
11133991 AAGAAAAAAAAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
* * *
11134009 AAGAAGAA-AAAGCAAAG
1 AAGAAAAAGAAAGAAAAA
*
11134026 AA-AAAAAGAAA-AAAAC
1 AAGAAAAAGAAAGAAAAA
*
11134042 AAGAAAAA-CAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
*
11134059 CA-AAAAAG--AGAAAAA
1 AAGAAAAAGAAAGAAAAA
*
11134074 AAGGAAAAGAAA
1 AAGAAAAAGAAA
11134086 AGGAGAGGTC
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
15 8 0.11
16 21 0.28
17 22 0.29
18 25 0.33
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAGAAAAA
Found at i:11133995 original size:8 final size:8
Alignment explanation
Indices: 11133977--11134081 Score: 81
Period size: 8 Copynumber: 12.5 Consensus size: 8
11133967 AACATTAAGA
11133977 AAAAGAAAG
1 AAAA-AAAG
11133986 AAAAAAAG
1 AAAAAAAG
11133994 AAAAAAAAAG
1 --AAAAAAAG
11134004 AAAAAAAG
1 AAAAAAAG
11134012 AAGAAAAAG
1 AA-AAAAAG
11134021 CAAAGAAAA-
1 -AAA-AAAAG
*
11134030 AAAGAAA-
1 AAAAAAAG
*
11134037 AAAACAAG
1 AAAAAAAG
11134045 AAAAACAAG
1 AAAAA-AAG
*
11134054 AAAAACA-
1 AAAAAAAG
*
11134061 AAAAAGAG
1 AAAAAAAG
11134069 AAAAAAAGG
1 AAAAAAA-G
11134078 AAAA
1 AAAA
11134082 GAAAAGGAGA
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
7 14 0.17
8 28 0.35
9 24 0.30
10 14 0.17
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:11133998 original size:9 final size:9
Alignment explanation
Indices: 11133973--11134087 Score: 83
Period size: 9 Copynumber: 12.3 Consensus size: 9
11133963 AAAAAACATT
11133973 AAGAAAAAGA
1 AAGAAAAA-A
11133983 AAG-AAAAA
1 AAGAAAAAA
11133991 AAGAAAAAAA
1 AAG-AAAAAA
11134001 AAGAAAAAAA
1 AAG-AAAAAA
11134011 GAAGAAAAAGCA
1 -AAGAAAAA--A
11134023 AAG-AAAAA
1 AAGAAAAAA
11134031 AAG-AAAAA
1 AAGAAAAAA
* *
11134039 AACAAGAAA
1 AAGAAAAAA
* *
11134048 AACAAGAAA
1 AAGAAAAAA
*
11134057 AACAAAAAA
1 AAGAAAAAA
*
11134066 GAGAAAAAA
1 AAGAAAAAA
*
11134075 AGGAAAAGAA
1 AAGAAAA-AA
11134085 AAG
1 AAG
11134088 GAGAGGTCTA
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
8 15 0.17
9 37 0.41
10 31 0.34
11 6 0.07
12 1 0.01
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:11134001 original size:22 final size:22
Alignment explanation
Indices: 11133976--11134087 Score: 89
Period size: 20 Copynumber: 5.3 Consensus size: 22
11133966 AAACATTAAG
11133976 AAAAAGAAAGAAAAAAAG---A
1 AAAAAGAAAGAAAAAAAGAAAA
*
11133995 AAAAA-AAAGAAAAAAAG-AAG
1 AAAAAGAAAGAAAAAAAGAAAA
11134015 AAAAAGCAAAGAAAAAAAGAAAA
1 AAAAAG-AAAGAAAAAAAGAAAA
*
11134038 AAACAAG--A-AAAACAAGAAAA
1 AAA-AAGAAAGAAAAAAAGAAAA
11134058 ACAAAA-AAGAGAAAAAAAGGAAAA
1 A-AAAAGAA-AGAAAAAAA-GAAAA
*
11134082 GAAAAG
1 AAAAAG
11134088 GAGAGGTCTA
Statistics
Matches: 75, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
18 12 0.16
19 5 0.07
20 19 0.25
21 3 0.04
22 13 0.17
23 15 0.20
24 8 0.11
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAGAAAAAAAGAAAA
Found at i:11134016 original size:33 final size:32
Alignment explanation
Indices: 11133948--11134086 Score: 110
Period size: 30 Copynumber: 4.4 Consensus size: 32
11133938 CGGATTCAAT
* ** *
11133948 GAAGAAAG-AAAAAAGAAAAAACATTAAGAAA
1 GAAGAAAGAAAAAAAGAAAAAAAAGAAAAAAA
11133979 -AAGAAAGAAAAAAAGAAAAAAAAAGAAAAAAA
1 GAAGAAAGAAAAAAAG-AAAAAAAAGAAAAAAA
**
11134011 GAAGAAA-AAGCAAAG-AAAAAAAGAAAAAAA
1 GAAGAAAGAAAAAAAGAAAAAAAAGAAAAAAA
* *
11134041 CAAGAAA-AACAAGAAAAACAAAAAAGAGAAAAAAA
1 GAAGAAAGAA-AA-AAAGA-AAAAAA-AGAAAAAAA
*
11134076 GGA-AAAGAAAA
1 GAAGAAAGAAAA
11134087 GGAGAGGTCT
Statistics
Matches: 87, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
30 30 0.34
31 7 0.08
32 21 0.24
33 6 0.07
34 11 0.13
35 12 0.14
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.01
Consensus pattern (32 bp):
GAAGAAAGAAAAAAAGAAAAAAAAGAAAAAAA
Found at i:11135094 original size:50 final size:50
Alignment explanation
Indices: 11135019--11135417 Score: 378
Period size: 50 Copynumber: 8.1 Consensus size: 50
11135009 AGAAAAACAT
* *
11135019 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGCACCTTA
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * *
11135069 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACAGTGAACCCGGTACCAT-
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * * *
11135118 GAAGATTTGAAGGG-AAGGATTGAGGCCACGACGGTGAATCCGATACCTCA
1 GAAGATTTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * *
11135168 AAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTCA
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * ** * ** *
11135218 GAAGATGTGATGGGAAAGGTTGAGACCGCAATAGCGAATCCAATACCAT-
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * *
11135267 GAA-ATGT-AATGGGAAAGGTTGAGGCCGCAATGACGAACTCGGTACCAT-
1 GAAGATTTGAA-GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * *
11135315 GAAGATTTTAAGGGAAAGGTTGAGGCCGCAATGGTGAACCTGGTACCTTA
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
* * * * * **
11135365 AAATATATGAAGGGAAAGGTTGAGGCCACAACGACGAACCCCATACCTTA
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
11135415 GAA
1 GAA
11135418 AATAAGATGG
Statistics
Matches: 285, Mismatches: 57, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.00
48 42 0.15
49 75 0.26
50 163 0.57
51 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (50 bp):
GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA
Found at i:11135187 original size:99 final size:99
Alignment explanation
Indices: 11135016--11135396 Score: 400
Period size: 99 Copynumber: 3.9 Consensus size: 99
11135006 TTGAGAAAAA
* ** * *
11135016 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGCACCTTAGAAGATGTGAAG
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTCAAAAGATGTGAAG
11135081 GGAAAGGTTGAGGCCGCAACAGTGAACCCGGTAC
66 GGAAAGGTTGAGGCCGCAACAGTGAACCCGGTAC
* * * * *
11135115 CATGAAGATTTGAAGGG-AAGGATTGAGGCCACGACGGTGAATCCGATACCTCAAAAGATTTGAA
1 CATGAAGATTTGAAGGGAAAGG-TTGAGGCCGCAATGGCGAATCCGATACCTCAAAAGATGTGAA
*
11135179 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
65 GGGAAAGGTTGAGGCCGCAACAGTGAACCCGGTAC
* * * * * *
11135214 C-TCAGAAGATGTGATGGGAAAGGTTGAGACCGCAATAGCGAATCCAATA-C-CATGAA-ATGT-
1 CAT--GAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTCA-AAAGATGTG
* * *
11135274 AATGGGAAAGGTTGAGGCCGCAA-TGACGAACTCGGTAC
63 AA-GGGAAAGGTTGAGGCCGCAACAG-TGAACCCGGTAC
* * * * * *
11135312 CATGAAGATTTTAAGGGAAAGGTTGAGGCCGCAATGGTGAA-CCTGGTACCTTAAAATATATGAA
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAATCC-GATACCTCAAAAGATGTGAA
*
11135376 GGGAAAGGTTGAGGCCACAAC
65 GGGAAAGGTTGAGGCCGCAAC
11135397 GACGAACCCC
Statistics
Matches: 231, Mismatches: 37, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
96 2 0.01
97 37 0.16
98 44 0.19
99 111 0.48
100 33 0.14
101 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.18
Consensus pattern (99 bp):
CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTCAAAAGATGTGAAG
GGAAAGGTTGAGGCCGCAACAGTGAACCCGGTAC
Found at i:11135295 original size:48 final size:49
Alignment explanation
Indices: 11135218--11135347 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 49
11135208 CGGTACCTCA
* *
11135218 GAAGATGTGATGGGAAAGGTTGAGACCGCAAT-AGCGAA-TCCAATACCAT
1 GAAGATGTAATGGGAAAGGTTGAGGCCGCAATGA-CGAACT-CAATACCAT
**
11135267 GAA-ATGTAATGGGAAAGGTTGAGGCCGCAATGACGAACTCGGTACCAT
1 GAAGATGTAATGGGAAAGGTTGAGGCCGCAATGACGAACTCAATACCAT
*
11135315 GAAGATTTTAA-GGGAAAGGTTGAGGCCGCAATG
1 GAAGA-TGTAATGGGAAAGGTTGAGGCCGCAATG
11135348 GTGAACCTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
48 40 0.56
49 28 0.39
50 4 0.06
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.19
Consensus pattern (49 bp):
GAAGATGTAATGGGAAAGGTTGAGGCCGCAATGACGAACTCAATACCAT
Found at i:11135378 original size:197 final size:199
Alignment explanation
Indices: 11135019--11135397 Score: 491
Period size: 197 Copynumber: 1.9 Consensus size: 199
11135009 AGAAAAACAT
* * * ** *
11135019 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGCACCTTAGAAGATGTGAAGGGA
1 GAAGATGTGAAGGGAAAGGTTGAGACCGCAATAGCGAACCCAACACCATAGAAGATGTGAAGGGA
* *
11135084 AAGGTTGAGGCCGCAACAGTGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAGGCCACGA
66 AAGGTTGAGGCCGCAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAGGCCACAA
* *
11135149 CGGTGAATCCGATACCTCAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
131 CGGTGAATCCGATACCTCAAAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTAC
11135214 CTCA
196 CTCA
* * *
11135218 GAAGATGTGATGGGAAAGGTTGAGACCGCAATAGCGAATCCAATACCAT-GAA-ATGT-AATGGG
1 GAAGATGTGAAGGGAAAGGTTGAGACCGCAATAGCGAACCCAACACCATAGAAGATGTGAA-GGG
* * * *
11135280 AAAGGTTGAGGCCGCAA-TGACGAACTCGGTACCATGAAGATTTTAAGGGAAAGG-TTGAGGCCG
65 AAAGGTTGAGGCCGCAACAG-CGAACCCGGTACCATGAAGATTTGAAGGG-AAGGATTGAGGCCA
* * * *
11135343 CAATGGTGAA-CCTGGTACCTTAAAATATATGAAGGGAAAGGTTGAGGCCACAACG
128 CAACGGTGAATCC-GATACCTCAAAAGATATGAAGGGAAAGGTTGAGGCCACAACG
11135398 ACGAACCCCA
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
196 5 0.03
197 103 0.66
198 7 0.05
199 40 0.26
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (199 bp):
GAAGATGTGAAGGGAAAGGTTGAGACCGCAATAGCGAACCCAACACCATAGAAGATGTGAAGGGA
AAGGTTGAGGCCGCAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAGGCCACAA
CGGTGAATCCGATACCTCAAAAGATATGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTAC
CTCA
Found at i:11135430 original size:99 final size:98
Alignment explanation
Indices: 11135031--11135454 Score: 306
Period size: 99 Copynumber: 4.3 Consensus size: 98
11135021 AGATTTGAAG
* ** * *
11135031 GGAAAGGTTGAGGCCGCAATGGCGAACCCGGCACCTTAGAAGATGTGAAGGGAAAGGTTGAGGCC
1 GGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTTAAAAGATATGAAGGGAAAGGTTGAGGCC
* * ** *
11135096 GCAAC-AGTGAACCCGGTACCATGAAGATTTGAA
66 GCAACGA-CGAACCCGGTACCATGAAAATAAGAT
* * * * * * *
11135129 GGGAAGGATTGAGGCCACGACGGTGAATCCGATACCTCAAAAGATTTGAAGGGAAAGGTTGAGGC
1 GGAAAGG-TTGAGGCCGCAATGGCGAATCCGATACCTTAAAAGATATGAAGGGAAAGGTTGAGGC
** * **
11135194 CGCAACGGTGAACCCGGTACC-TCAGAAGATGTGAT
65 CGCAACGACGAACCCGGTACCAT--GAAAATAAGAT
* * * * * *
11135229 GGGAAAGGTTGAGACCGCAATAGCGAATCCAATACCATGAAATG-TA--ATGGGAAAGGTTGAGG
1 -GGAAAGGTTGAGGCCGCAATGGCGAATCCGATACC-TTAAAAGATATGAAGGGAAAGGTTGAGG
* * *
11135291 CCGCAATGACGAACTCGGTACCATGAAGATTTTAAG--
64 CCGCAACGACGAACCCGGTACCATGAA-A--ATAAGAT
* * *
11135327 GGAAAGGTTGAGGCCGCAATGGTGAA-CCTGGTACCTTAAAATATATGAAGGGAAAGGTTGAGGC
1 GGAAAGGTTGAGGCCGCAATGGCGAATCC-GATACCTTAAAAGATATGAAGGGAAAGGTTGAGGC
* ** *
11135391 CACAACGACGAACCCCATACCTTAGAAAATAAGAT
65 CGCAACGACGAACCCGGTACCAT-GAAAATAAGAT
* ** *
11135426 GGAAAAGATTGAACCCACAATGGCGAATC
1 GG-AAAGGTTGAGGCCGCAATGGCGAATC
11135455 TTATACCATA
Statistics
Matches: 252, Mismatches: 55, Indels: 35
0.74 0.16 0.10
Matches are distributed among these distances:
96 6 0.02
97 36 0.14
98 40 0.16
99 103 0.41
100 55 0.22
101 12 0.05
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.17
Consensus pattern (98 bp):
GGAAAGGTTGAGGCCGCAATGGCGAATCCGATACCTTAAAAGATATGAAGGGAAAGGTTGAGGCC
GCAACGACGAACCCGGTACCATGAAAATAAGAT
Found at i:11135454 original size:197 final size:197
Alignment explanation
Indices: 11135080--11135463 Score: 470
Period size: 197 Copynumber: 1.9 Consensus size: 197
11135070 AAGATGTGAA
*
11135080 GGGAAAGGTTGAGGCCGCAACAGTGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAGGCC
1 GGGAAAGGTTGAGGCCGCAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAGGCC
* * * ** *
11135145 ACGACGGTGAATCCGATACCTCAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
66 ACAACGGTGAATCCGATACCTCAAAAGATATGAAGGGAAAGGTTGAGGCCACAACGACGAACCCC
* * ** * * *
11135210 GTACCTCAGAAGATGTGATGGGAAAGGTTGAGACCGCAATAGCGAATCCAATACCATGAAATGTA
131 ATACCTCAGAAAATAAGATGGAAAAGATTGAGACCACAATAGCGAATCCAATACCATGAAATGTA
11135275 AT
196 AT
* * *
11135277 GGGAAAGGTTGAGGCCGCAA-TGACGAACTCGGTACCATGAAGATTTTAAGGGAAAGG-TTGAGG
1 GGGAAAGGTTGAGGCCGCAACAG-CGAACCCGGTACCATGAAGATTTGAAGGG-AAGGATTGAGG
* * * * *
11135340 CCGCAATGGTGAA-CCTGGTACCTTAAAATATATGAAGGGAAAGGTTGAGGCCACAACGACGAAC
64 CCACAACGGTGAATCC-GATACCTCAAAAGATATGAAGGGAAAGGTTGAGGCCACAACGACGAAC
* * **
11135404 CCCATACCTTAGAAAATAAGATGGAAAAGATTGA-ACCCACAATGGCGAATCTTATACCAT
128 CCCATACCTCAGAAAATAAGATGGAAAAGATTGAGA-CCACAATAGCGAATCCAATACCAT
11135464 AAAGTCGAAG
Statistics
Matches: 157, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
196 4 0.03
197 149 0.95
198 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (197 bp):
GGGAAAGGTTGAGGCCGCAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAGGCC
ACAACGGTGAATCCGATACCTCAAAAGATATGAAGGGAAAGGTTGAGGCCACAACGACGAACCCC
ATACCTCAGAAAATAAGATGGAAAAGATTGAGACCACAATAGCGAATCCAATACCATGAAATGTA
AT
Found at i:11135710 original size:41 final size:41
Alignment explanation
Indices: 11135653--11135747 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
11135643 TATCATTATT
* * *
11135653 CAGTCTTTTGCCCTTAATCAAGAAGGACAGATTGAAGATTC
1 CAGTCTTTTACCCTTAATCAAAAAGGACAGAATGAAGATTC
*
11135694 CAGTCTTTTACCCTTAATCAAAAAGGGCAGAATGAAGATTC
1 CAGTCTTTTACCCTTAATCAAAAAGGACAGAATGAAGATTC
11135735 C-GATCTTTTACCC
1 CAG-TCTTTTACCC
11135748 CGAGCCTGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.02
41 48 0.98
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (41 bp):
CAGTCTTTTACCCTTAATCAAAAAGGACAGAATGAAGATTC
Found at i:11136073 original size:39 final size:39
Alignment explanation
Indices: 11135735--11136111 Score: 160
Period size: 39 Copynumber: 9.7 Consensus size: 39
11135725 ATGAAGATTC
* * *
11135735 CGATCTTTTACCCCGAGCCTGGGGCAAATTGTAG-C-GT
1 CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
* **
11135772 CTAATCTTTTACCCCGAGCCTAAGGCAGA-T-CA-CCATTAAT
1 C-GATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCA-T--T
* * * * *
11135812 CAATCTCTTACCCCGA-CTTGGGGCAGATTGTAGTCATT
1 CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
* * * * * * **
11135850 TGATCTTTTACCCTGAGCTTGGGG-AAAAT-CACCTTCAAC
1 CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGC--CATT
* * * * * *
11135889 CAATCTCTTACCCGGA-CCTGGGGTAGATTGCAGTCATC
1 CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
* * * *
11135927 CGATCTTTTA-GCCGACGCTTGGGG-AAAAT-CA-CCA-T
1 CGATCTTTTACCCCGA-GCCTGGGGCAGATTGCAGCCATT
* *
11135962 CAGCCAATCTTTTACCCCAAGCCTAGGGCAGA-T-CA-CCA-T
1 C-G---ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
* * *
11136001 CAGCCAATCTCTTACCCCGAGCCTAGGGAAGATTGCAGCCATT
1 C-G---ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
11136044 CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
1 CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
* * *
11136083 TGATCTTTTACCCTGAGCCTGGGGTAGAT
1 CGATCTTTTACCCCGAGCCTGGGGCAGAT
11136112 CAGCATCAGC
Statistics
Matches: 258, Mismatches: 56, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
35 1 0.00
36 5 0.02
37 8 0.03
38 67 0.26
39 155 0.60
40 12 0.05
41 4 0.02
42 4 0.02
43 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (39 bp):
CGATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATT
Found at i:11136091 original size:117 final size:117
Alignment explanation
Indices: 11135814--11136161 Score: 341
Period size: 117 Copynumber: 3.0 Consensus size: 117
11135804 CCATTAATCA
* * * * *
11135814 ATCTCTTACCCCGA-CTTGGGGCAGATTGTAGTCATTTGATCTTTTACCCTGAGCTTGGGGAAAA
1 ATCTTTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTGATCTTTTACCCTGAGCCTGGGGAAGA
* * * * * *
11135878 TCACCTTCAACCAATCTCTTACCCGGA-CCTGGGGTAGATTGCAGTCATCCG
66 TCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAAGATTGCAGCCATCCG
* * * ** ** *
11135929 ATCTTTTA-GCCGACGCTTGGGG-AAAAT-CA-CCATCAGCCAATCTTTTACCCCAAGCCTAGGG
1 ATCTTTTACCCCGA-GCTTGGGGCAGATTGCAGCCATTTG---ATCTTTTACCCTGAGCCTGGGG
* *
11135990 CAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAAGATTGCAGCCATTCG
62 AAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAAGATTGCAGCCATCCG
* *
11136046 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATTTGATCTTTTACCCTGAGCCTGGGGTAGA
1 ATCTTTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTGATCTTTTACCCTGAGCCTGGGGAAGA
* * * ** *
11136111 TCAGCATCAGCTAATCTCTTACCTCGAG-CTAGAGGCGGATTGCAACCATCC
66 TCACCATCAGCCAATCTCTTACCCCGAGCCTAG-GGAAGATTGCAGCCATCC
11136162 AATATCTTAC
Statistics
Matches: 184, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
113 4 0.02
114 5 0.03
115 10 0.05
116 55 0.30
117 96 0.52
118 7 0.04
119 2 0.01
120 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (117 bp):
ATCTTTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTGATCTTTTACCCTGAGCCTGGGGAAGA
TCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAAGATTGCAGCCATCCG
Found at i:11136133 original size:78 final size:78
Alignment explanation
Indices: 11135737--11136139 Score: 297
Period size: 77 Copynumber: 5.2 Consensus size: 78
11135727 GAAGATTCCG
* * * * * ** *
11135737 ATCTTTTACCCCGAGCCTGGGGCAAATTGTAG-CGTCTAATCTTTTACCCCGAGCCTAAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCCTGGGGAAGA
* **
11135801 TCACCATTAATCA
66 TCACCATCAGCCA
* * * * * * *
11135814 ATCTCTTACCCCGA-CTTGGGGCAGATTGTAGTCATTTGATCTTTTACCCTGAGCTTGGGGAAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCCTGGGGAAGA
* *
11135878 TCACCTTCAACCA
66 TCACCATCAGCCA
* * * * * * *
11135891 ATCTCTTACCCGGA-CCTGGGGTAGATTGCAGTCATCCGATCTTTTA-GCCGACGCTTGGGGAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGA-GCCTGGGGAAG
11135954 ATCACCATCAGCCA
65 ATCACCATCAGCCA
* * * * * *
11135968 ATCTTTTACCCCAAGCCTAGGGCAGA-T-CA-CCATCAGCCAATCTCTTACCCCGAGCCTAGGGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTG---ATCTTTTACCCCGAGCCTGGGGA
11136030 AGATTGCAGCCATTC-G---
63 AGA-T-CA-CCA-TCAGCCA
* * * *
11136046 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATTTGATCTTTTACCCTGAGCCTGGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCCTGGGGAAGA
* *
11136111 TCAGCATCAGCTA
66 TCACCATCAGCCA
*
11136124 ATCTCTTACCTCGAGC
1 ATCTCTTACCCCGAGC
11136140 TAGAGGCGGA
Statistics
Matches: 260, Mismatches: 48, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
74 2 0.01
75 8 0.03
76 22 0.08
77 122 0.47
78 85 0.33
79 6 0.02
80 4 0.02
81 9 0.03
82 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCCTGGGGAAGA
TCACCATCAGCCA
Found at i:11138366 original size:29 final size:29
Alignment explanation
Indices: 11138282--11138643 Score: 304
Period size: 29 Copynumber: 12.4 Consensus size: 29
11138272 AAAAGATCCT
* *
11138282 TAAACTTCTCCAAAATTACATTTTAACCCC
1 TAAACTTC-CAAAAATTACATTTTTACCCC
11138312 TAAAACTTTTCC-AAAATTACATTTTTACCCC
1 T-AAAC--TTCCAAAAATTACATTTTTACCCC
*
11138343 TAAACTTCCAAAAATCACATTTTTA-CCC
1 TAAACTTCCAAAAATTACATTTTTACCCC
*
11138371 TCGAACTTCTCAAAAATTACA-TTTTACCCC
1 T-AAACTTC-CAAAAATTACATTTTTACCCC
*
11138401 CAAACTTCCAAAAATTACATTTTTACCTCC
1 TAAACTTCCAAAAATTACATTTTTACC-CC
* * *
11138431 -GAACTTCCAAATATCACATTTTTACCCC
1 TAAACTTCCAAAAATTACATTTTTACCCC
* *
11138459 -AAACTTCTCAAAAATCACA-TTTTA-CCT
1 TAAACTTC-CAAAAATTACATTTTTACCCC
11138486 TAAACTTCTCAAAAATTACATTTTTA-CCC
1 TAAACTTC-CAAAAATTACATTTTTACCCC
*
11138515 TCGAACTTCCAAAAA-T-CATATTTTACCTCC
1 T-AAACTTCCAAAAATTACAT-TTTTACC-CC
*
11138545 -GAACTTCCAAAAATTACATTTTTACCCC
1 TAAACTTCCAAAAATTACATTTTTACCCC
** ** *
11138573 CGAACATT-CAAAAAACACATTTTT-GCCC
1 TAAAC-TTCCAAAAATTACATTTTTACCCC
* *
11138601 TGAACCTTTCC-AAAATTACATTTTTA-CCT
1 T-AAAC-TTCCAAAAATTACATTTTTACCCC
11138630 TAAACTTTCCAAAA
1 TAAAC-TTCCAAAA
11138644 TTATGTTTTA
Statistics
Matches: 282, Mismatches: 26, Indels: 49
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.02
28 82 0.29
29 134 0.48
30 34 0.12
31 23 0.08
32 1 0.00
33 3 0.01
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAACTTCCAAAAATTACATTTTTACCCC
Found at i:11138412 original size:58 final size:58
Alignment explanation
Indices: 11138315--11138628 Score: 367
Period size: 57 Copynumber: 5.4 Consensus size: 58
11138305 TAACCCCTAA
* * *
11138315 AACTTTTCCAAAATTACATTTTTACCCCTAAACTTCCAAAAATCACATTTTTACCCTCG
1 AACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTA-CCTCG
*
11138374 AACTTCTCAAAAATTACA-TTTTACCCCCAAACTTCCAAAAATTACATTTTTACCTCCG
1 AACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTACCT-CG
* * **
11138432 AACTTC-CAAATATCACATTTTTA-CCCCAAACTTCTCAAAAATCACA-TTTTACCTTA
1 AACTTCTCAAAAATTACATTTTTACCCCCAAACTTC-CAAAAATCACATTTTTACCTCG
* * *
11138488 AACTTCTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATCATA-TTTTACCTCCG
1 AACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTACCT-CG
* * *
11138546 AACTTC-CAAAAATTACATTTTTACCCCCGAACATT-CAAAAAACACATTTTTGCC-CTG
1 AACTTCTCAAAAATTACATTTTTACCCCCAAAC-TTCCAAAAATCACATTTTTACCTC-G
*
11138603 AACCTT-TCCAAAATTACATTTTTACC
1 AA-CTTCTCAAAAATTACATTTTTACC
11138629 TTAAACTTTC
Statistics
Matches: 223, Mismatches: 21, Indels: 23
0.84 0.08 0.09
Matches are distributed among these distances:
56 7 0.03
57 101 0.45
58 99 0.44
59 16 0.07
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (58 bp):
AACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTACCTCG
Found at i:11138636 original size:86 final size:83
Alignment explanation
Indices: 11138283--11138646 Score: 358
Period size: 86 Copynumber: 4.2 Consensus size: 83
11138273 AAAGATCCTT
* * * *
11138283 AAACTTCTCCAAAATTACATTTTAACCCCTAAAACTTTTCCAAAATTACATTTTTACCCCTAAAC
1 AAACTTCTCAAAAATTACATTTT-ACCCC-CAAAC--TTCAAAAATTACATTTTTA-CCCTGAAC
11138348 TTCCAAAAATCACATTTTTACCCTC
61 TTCC-AAAATCACATTTTTA-CCTC
* *
11138373 GAACTTCTCAAAAATTACATTTTACCCCCAAACTTCCAAAAATTACATTTTTACCTCCGAACTTC
1 AAACTTCTCAAAAATTACATTTTACCCCCAAACTT-CAAAAATTACATTTTTACC-CTGAACTTC
*
11138438 CAAATATCACATTTTTACCCC
64 CAAA-ATCACATTTTTACCTC
* **
11138459 AAACTTCTCAAAAATCACATTTTA-CCTTAAACTTCTCAAAAATTACATTTTTACCCTCGAACTT
1 AAACTTCTCAAAAATTACATTTTACCCCCAAAC-T-TCAAAAATTACATTTTTACCCT-GAACTT
*
11138523 CCAAAAATCATA-TTTTACCTCC
63 CC-AAAATCACATTTTTACCT-C
* * ** *
11138545 GAACTTC-CAAAAATTACATTTTTACCCCCGAACATTCAAAAAACACATTTTTGCCCTGAACCTT
1 AAACTTCTCAAAAATTACA-TTTTACCCCCAAAC-TTCAAAAATTACATTTTTACCCTGAA-C-T
* *
11138609 TCCAAAATTACATTTTTACCTT
62 TCCAAAATCACATTTTTACCTC
*
11138631 AAACTT-TCCAAAATTA
1 AAACTTCTCAAAAATTA
11138647 TGTTTTAACT
Statistics
Matches: 232, Mismatches: 28, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
85 27 0.12
86 117 0.50
87 58 0.25
88 4 0.02
89 5 0.02
90 21 0.09
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.34
Consensus pattern (83 bp):
AAACTTCTCAAAAATTACATTTTACCCCCAAACTTCAAAAATTACATTTTTACCCTGAACTTCCA
AAATCACATTTTTACCTC
Done.