Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 143 of 182
Found at i:44246307 original size:60 final size:61
Alignment explanation
Indices: 44246169--44246307 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 61
44246159 AGCCCCTATT
* * *
44246169 TTCTTTAAAATC-CTATTTTGA-CCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAAC
1 TTCTCTAAAATCAC-ATTTTAACCCCTCAAACTTCACCAAAATTACATTTTAACCCCTAAAC
* * *
44246229 TTCTCTAAAATTATATTTTAACCCCT-AAACTTCACTAAAATTACATTTTAACCCCTAAA-
1 TTCTCTAAAATCACATTTTAACCCCTCAAACTTCACCAAAATTACATTTTAACCCCTAAAC
*
44246288 TTTTCTAAAAATCACATTTT
1 TTCTCT-AAAATCACATTTT
44246308 CGATCTCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 5 0.07
60 58 0.87
61 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (61 bp):
TTCTCTAAAATCACATTTTAACCCCTCAAACTTCACCAAAATTACATTTTAACCCCTAAAC
Found at i:44248073 original size:3 final size:3
Alignment explanation
Indices: 44248065--44248093 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44248055 GTTTTAGTTG
44248065 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44248094 AGCGGCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44250864 original size:13 final size:13
Alignment explanation
Indices: 44250846--44250872 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44250836 TTTAACATGT
44250846 TGCTGTCGAAGCA
1 TGCTGTCGAAGCA
44250859 TGCTGTCGAAGCA
1 TGCTGTCGAAGCA
44250872 T
1 T
44250873 TAGTGATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (13 bp):
TGCTGTCGAAGCA
Found at i:44253163 original size:18 final size:18
Alignment explanation
Indices: 44253124--44253179 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
44253114 AAATTACATA
*
44253124 AAAATTCAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
*
44253143 AAAATTCCAAATATTTAT
1 AAAATTCAAAATATTTAT
*
44253161 AAAAATTCTAAAT-TTTAT
1 -AAAATTCAAAATATTTAT
44253179 A
1 A
44253180 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 10 0.30
19 22 0.67
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:44253838 original size:20 final size:20
Alignment explanation
Indices: 44253815--44253879 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
44253805 AATTGGATAT
*
44253815 CAAAATCTGTAATCAAATAC
1 CAAAATCTCTAATCAAATAC
* * *
44253835 CAAAGTCTTTAA-CAGATAC
1 CAAAATCTCTAATCAAATAC
* * *
44253854 TAAAATCTCTAATCGAATAT
1 CAAAATCTCTAATCAAATAC
44253874 CAAAAT
1 CAAAAT
44253880 TTTTAAAAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (20 bp):
CAAAATCTCTAATCAAATAC
Found at i:44253885 original size:39 final size:39
Alignment explanation
Indices: 44253816--44253890 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
44253806 ATTGGATATC
* * *
44253816 AAAATCTGTAATCAAATACCAAAGTCTTTAACAGATACT
1 AAAATCTCTAATCAAATACCAAAATCTTTAAAAGATACT
* * *
44253855 AAAATCTCTAATCGAATATCAAAATTTTTAAAAGAT
1 AAAATCTCTAATCAAATACCAAAATCTTTAAAAGAT
44253891 TTTGGATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.31
Consensus pattern (39 bp):
AAAATCTCTAATCAAATACCAAAATCTTTAAAAGATACT
Found at i:44260464 original size:23 final size:24
Alignment explanation
Indices: 44260411--44260464 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
44260401 ATTAATTTAA
*
44260411 AAGTAAAAAATAAGACATATAAAT
1 AAGTAAAAAATAAGAAATATAAAT
* *
44260435 AAATAAAAAATAA-AAATATCAAT
1 AAGTAAAAAATAAGAAATATAAAT
*
44260458 GAGTAAA
1 AAGTAAA
44260465 TAAAATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (24 bp):
AAGTAAAAAATAAGAAATATAAAT
Found at i:44260536 original size:21 final size:20
Alignment explanation
Indices: 44260510--44260582 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
44260500 AAGAATAATA
44260510 AATAAATAAAATACATAAAAC
1 AATAAATAAAATA-ATAAAAC
*
44260531 AATAAATTAAATTAAATAAAAGC
1 AATAAA-TAAAAT-AATAAAA-C
* *
44260554 GA-AAATATAAATAATAAAAA
1 AATAAATA-AAATAATAAAAC
*
44260574 AATGAATAA
1 AATAAATAA
44260583 TCAATAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 17 0.41
23 3 0.07
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AATAAATAAAATAATAAAAC
Found at i:44260582 original size:72 final size:68
Alignment explanation
Indices: 44260461--44260607 Score: 161
Period size: 72 Copynumber: 2.1 Consensus size: 68
44260451 TATCAATGAG
* * * *
44260461 TAAATAAAATTAAATGAAAGCAAAAATGTAAATAGCATAAAGAATAATAAATAAATAAAATACAT
1 TAAATAAAATTAAATAAAAGCAAAAATATAAATA-CATAAAAAATAAT-AATAAAT-AAATAAAT
44260526 AAAACAA
63 -AAACAA
* * * *
44260533 TAAATTAAATTAAATAAAAGCGAAAATATAAATA-ATAAAAAAATGAATAATCAATAAATAAATT
1 TAAATAAAATTAAATAAAAGCAAAAATATAAATACAT-AAAAAAT-AATAATAAATAAATAAATA
44260597 AACAA
64 AACAA
44260602 TAAATA
1 TAAATA
44260608 TATGAAATGC
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
69 10 0.16
70 9 0.14
71 12 0.19
72 33 0.52
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (68 bp):
TAAATAAAATTAAATAAAAGCAAAAATATAAATACATAAAAAATAATAATAAATAAATAAATAAA
CAA
Found at i:44260591 original size:15 final size:15
Alignment explanation
Indices: 44260560--44260607 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
44260550 AAGCGAAAAT
* *
44260560 ATAAATAATAAAAAA
1 ATAAATAATCAATAA
*
44260575 ATGAATAATCAATAA
1 ATAAATAATCAATAA
44260590 ATAAATTAA-CAATAA
1 ATAAA-TAATCAATAA
44260605 ATA
1 ATA
44260608 TATGAAATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 25 0.89
16 3 0.11
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAATAATCAATAA
Found at i:44260818 original size:15 final size:16
Alignment explanation
Indices: 44260782--44260823 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
44260772 AAATGGTATG
44260782 AAAATAAAT-AACAAC
1 AAAATAAATAAACAAC
* *
44260797 TAGATAAATAAACAA-
1 AAAATAAATAAACAAC
44260812 AAAATAAATAAA
1 AAAATAAATAAA
44260824 AATAAAATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAATAAATAAACAAC
Found at i:44260830 original size:15 final size:15
Alignment explanation
Indices: 44260782--44260831 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
44260772 AAATGGTATG
*
44260782 AAAATAAATAACAACT
1 AAAATAAATAA-AAAT
*
44260798 -AGATAAATAAACAA-
1 AAAATAAATAAA-AAT
44260812 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
44260827 AAAAT
1 AAAAT
44260832 GCTAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:44260868 original size:13 final size:14
Alignment explanation
Indices: 44260835--44260868 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
44260825 ATAAAATGCT
44260835 AAAATAAACAAATA
1 AAAATAAACAAATA
*
44260849 AATATAAAC-AATA
1 AAAATAAACAAATA
44260862 AAAATAA
1 AAAATAA
44260869 TTGGGATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAACAAATA
Found at i:44260888 original size:102 final size:97
Alignment explanation
Indices: 44260779--44260959 Score: 238
Period size: 97 Copynumber: 1.8 Consensus size: 97
44260769 TTAAAATGGT
* *
44260779 ATGAAAATAAATAACAACTAGATAAATAAACAAAAAATAAATAAAAATAAAATG-CTAAAATAAA
1 ATGAAAATAAATAACAAATAAATAAATAAAC---AAATAAAT--AAATAAAATGTC-AAAATAAA
44260843 CAAATAAATATAAACAATAAAAATAATTGGGATTAGAC
60 CAAATAAATATAAACAATAAAAATAATTGGGATTAGAC
* * * *
44260881 ATGAAAATAAATGACAAATAAATAAATAAACAAATCAATAAATTAAATGTCAAAATAAACAAGTA
1 ATGAAAATAAATAACAAATAAATAAATAAACAAATAAATAAATAAAATGTCAAAATAAACAAATA
*
44260946 AATATAAATAATAA
66 AATATAAACAATAA
44260960 TAAAAATGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
97 35 0.49
98 1 0.01
99 7 0.10
102 28 0.39
ACGTcount: A:0.66, C:0.07, G:0.06, T:0.22
Consensus pattern (97 bp):
ATGAAAATAAATAACAAATAAATAAATAAACAAATAAATAAATAAAATGTCAAAATAAACAAATA
AATATAAACAATAAAAATAATTGGGATTAGAC
Found at i:44260915 original size:16 final size:15
Alignment explanation
Indices: 44260885--44260923 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44260875 TTAGACATGA
*
44260885 AAATAAATGACAAAT
1 AAATAAATAACAAAT
44260900 AAATAAATAAACAAAT
1 AAATAAAT-AACAAAT
*
44260916 CAATAAAT
1 AAATAAAT
44260924 TAAATGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAATAACAAAT
Found at i:44264056 original size:117 final size:118
Alignment explanation
Indices: 44263871--44264172 Score: 357
Period size: 117 Copynumber: 2.6 Consensus size: 118
44263861 TTCGATACTT
** * * * **
44263871 GGGGTAAAATGGTAATTTTTAGAAA-AATCGAGATCAAAAATGAAATTTTTGGACATCCAAGGGT
1 GGGGTAAAATGGTAATTTTT-GAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATCTGAGGGT
* * *
44263935 AAAATGGTAA-TTTTGAAAGTTTCGAGGGTCAAAAATGGAGTTTTTGGACA-TTTG
65 AAAATGGTAATTTTTGAAAGTTTCG-GGGTCAAAAATGGA-ATTTTGGAAAGTTTA
*
44263989 GGGGTAAAATGGTAA-TTTTGAAAGTTTCGAGGTCAAAAATGGAGTTTTTGGAAATCTGAGGGTA
1 GGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATCTGAGGGTA
* * * *
44264053 AAATGGTAATTTTTGAAAGTTTTGGGTTTAAAATTGGAATTTTGGAAAGTTTA
66 AAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTGGAAAGTTTA
* *
44264106 GGGGTAAAATGGTAATTTTTG-AAGTTT-TAGGGTCAAAAATGGAATTTTTGGAAGT-TCGAGGG
1 GGGGTAAAATGGTAATTTTTGAAAGTTTCGA-GGTCAAAAATGGAATTTTTGGAAATCT-GAGGG
44264168 TAAAA
64 TAAAA
44264173 ATATAATTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
116 14 0.09
117 113 0.71
118 33 0.21
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (118 bp):
GGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATCTGAGGGTA
AAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTGGAAAGTTTA
Found at i:44264158 original size:59 final size:60
Alignment explanation
Indices: 44263872--44264242 Score: 324
Period size: 59 Copynumber: 6.3 Consensus size: 60
44263862 TCGATACTTG
** ** * * * **
44263872 GGGTAAAATGGTAATTTTTAGAAAAATCGA-GATCAAAAATGAAATTTTTGGACATCCA-A
1 GGGTAAAATGGTAATTTTT-GAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGA
* * * *
44263931 GGGTAAAATGGTAA-TTTTGAAAGTTTCGAGGGTCAAAAATGGAGTTTTTGGACATTT-GG
1 GGGTAAAATGGTAATTTTTGAAAGTTT-TAGGGTCAAAAATGGAATTTTTGGAAATTTAGA
* * *
44263990 GGGTAAAATGGTAA-TTTTGAAAG-TTTCGAGGTCAAAAATGGAGTTTTTGGAAATCT-GA
1 GGGTAAAATGGTAATTTTTGAAAGTTTTAG-GGTCAAAAATGGAATTTTTGGAAATTTAGA
* *
44264048 GGGTAAAATGGTAATTTTTGAAAGTTTT-GGGTTTAAAATTGGAA-TTTTGGAAAGTTTAG-
1 GGGTAAAATGGTAATTTTTGAAAGTTTTAGGG-TCAAAAATGGAATTTTTGGAAA-TTTAGA
* *
44264107 GGGTAAAATGGTAATTTTTG-AAGTTTTAGGGTCAAAAATGGAATTTTTGG-AAGTTCGA
1 GGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGA
* * * * * *
44264165 GGGTAAAAAT-ATAATTTTTTGGAAGTTTTAGGGT-TAAAATGTAATTTTTAGAAA-TTCGA
1 GGGT-AAAATGGTAA-TTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGA
44264224 GGGTCAAAAT-GTAATTTTT
1 GGGT-AAAATGGTAATTTTT
44264243 TAGGAAGTTC
Statistics
Matches: 268, Mismatches: 28, Indels: 33
0.81 0.09 0.10
Matches are distributed among these distances:
57 9 0.03
58 90 0.34
59 151 0.56
60 18 0.07
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (60 bp):
GGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGA
Found at i:44264180 original size:117 final size:113
Alignment explanation
Indices: 44263871--44264212 Score: 334
Period size: 117 Copynumber: 2.9 Consensus size: 113
44263861 TTCGATACTT
** * * * * *
44263871 GGGGTAAAATGGTAATTTTTAGAAA-AATCGAGATCAAAAATGAAATTTTTGGACATCCAAGGGT
1 GGGGTAAAATGGTAA-TTTT-GAAAGTTTAGAGGTCAAAAATGGAATTTTTGGA-ATTCGAGGGT
* * * * *
44263935 AAAATGGTAA-TTTTGAAAGTTTCGAGGGTCAAAAATGGAGTTTTTGGACATTTG
63 AAAATGGTAATTTTTGAAAGTTT--TGGGT-TAAAATGGA-ATTTTGGAAATTTA
* * *
44263989 GGGGTAAAATGGTAATTTTGAAAGTTTCGAGGTCAAAAATGGAGTTTTTGGAAATCTGAGGGTAA
1 GGGGTAAAATGGTAATTTTGAAAGTTTAGAGGTCAAAAATGGAATTTTTGGAATTC-GAGGGTAA
44264054 AATGGTAATTTTTGAAAGTTTTGGGTTTAAAATTGGAATTTTGGAAAGTTTA
65 AATGGTAATTTTTGAAAGTTTTGGG-TTAAAA-TGGAATTTTGGAAA-TTTA
44264106 GGGGTAAAATGGTAATTTTTG-AAGTTTTAG-GGTCAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 GGGGTAAAATGGTAA-TTTTGAAAG-TTTAGAGGTCAAAAATGGAATTTTTGGAA-TTCGAGGGT
* * *
44264169 AAAAAT-ATAATTTTTTGGAAGTTTTAGGGTTAAAATGTAATTTT
63 -AAAATGGTAA-TTTTTGAAAGTTTT-GGGTTAAAATGGAATTTT
44264213 TAGAAATTCG
Statistics
Matches: 193, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
116 21 0.11
117 107 0.55
118 62 0.32
119 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (113 bp):
GGGGTAAAATGGTAATTTTGAAAGTTTAGAGGTCAAAAATGGAATTTTTGGAATTCGAGGGTAAA
ATGGTAATTTTTGAAAGTTTTGGGTTAAAATGGAATTTTGGAAATTTA
Found at i:44264274 original size:30 final size:30
Alignment explanation
Indices: 44264118--44264275 Score: 144
Period size: 30 Copynumber: 5.3 Consensus size: 30
44264108 GGTAAAATGG
** *
44264118 TAATTTTT--GAAGTTTTAGGGTCAAAAATG
1 TAATTTTTAGGAAGTTCGAGGGT-AAAAATA
*
44264147 GAATTTTT-GGAAGTTCGAGGGTAAAAATA
1 TAATTTTTAGGAAGTTCGAGGGTAAAAATA
* ** * *
44264176 TAATTTTTTGGAAGTTTTAGGGTTAAAATG
1 TAATTTTTAGGAAGTTCGAGGGTAAAAATA
* * *
44264206 TAATTTTTA-GAAATTCGAGGGTCAAAATG
1 TAATTTTTAGGAAGTTCGAGGGTAAAAATA
* *
44264235 TAATTTTTTAGGAAGTTCGGGGGTGAAAATA
1 TAA-TTTTTAGGAAGTTCGAGGGTAAAAATA
44264266 TAATTTTTAG
1 TAATTTTTAG
44264276 ATAGTTTAGG
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
29 39 0.36
30 49 0.46
31 19 0.18
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.39
Consensus pattern (30 bp):
TAATTTTTAGGAAGTTCGAGGGTAAAAATA
Found at i:44264820 original size:12 final size:12
Alignment explanation
Indices: 44264805--44264837 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
44264795 TCACACCTAC
44264805 CTTCAAAAAAAG
1 CTTCAAAAAAAG
44264817 CTTC-AAAAAAG
1 CTTCAAAAAAAG
44264828 CTCTCAAAAA
1 CT-TCAAAAA
44264838 CTCTCTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 6 0.32
13 4 0.21
ACGTcount: A:0.55, C:0.21, G:0.06, T:0.18
Consensus pattern (12 bp):
CTTCAAAAAAAG
Found at i:44266023 original size:25 final size:25
Alignment explanation
Indices: 44265992--44266048 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
44265982 TGGCAGTGGC
* *
44265992 GGTGGCAAAGTAGGTTGAAGCGGGT
1 GGTGGCAAAGCAAGTTGAAGCGGGT
* *
44266017 GGTGGCAGAGCAAGTTGAAGCTGGT
1 GGTGGCAAAGCAAGTTGAAGCGGGT
*
44266042 GATGGCA
1 GGTGGCA
44266049 CTGTTGATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.46, T:0.19
Consensus pattern (25 bp):
GGTGGCAAAGCAAGTTGAAGCGGGT
Found at i:44267863 original size:206 final size:206
Alignment explanation
Indices: 44266720--44268966 Score: 3144
Period size: 206 Copynumber: 10.9 Consensus size: 206
44266710 TCTGGTTTCA
* * ** *
44266720 TTGACTTGGCCTTCTTCTTC-GTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
1 TTGATTTGGTCTTCTTC-TCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCT
* * * * * * * *
44266784 TCTTTATGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGCTAACCA
65 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * * *
44266849 CTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGGTTCGAAGATTTGCTCAC
130 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCAT
*
44266914 ATCGAGCGTGGGTT
194 ATCGAGCGTGAG-T
* * * *
44266928 TTGATTCGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACTGCATCACTTGTTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * *
44266993 CTTTGTATCTCGTCAGGGAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACAAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * * *
44267058 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGATTCGAAGATTTGCTCGTAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
44267123 CGAGCGTCGA--
196 CGAGCGT-GAGT
* * * * * * *
44267133 --G--TCGGTATACTTCTCTGTATCTCATCATGAAGATGACCGCCTCACTTATTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * *
44267194 CTCTATATCTCAGT-AGGAAGGCGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCA
66 CTCTGTATCTCA-TCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * * * **
44267258 TTTTATTGCTTCGACCTGCTTCTCACTATCTCATCAGGAAGCTGAGGTTTGAAGATTTGCTCGCA
130 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATA
44267323 TCGAGCGTCGA--
195 TCGAGCGT-GAGT
* * * **
44267334 --G--TTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGTC-TCACTTGTTTCAATCAACT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCG-CATCACTTGTTTCAATCCGCT
* * ** *
44267394 TCTCTGTATCTCATAAGGAAAATAAATTTGGTCCACTTCTCAGTATCACATCAGGAAGCTAACCA
65 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* *
44267459 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATTTGCTTATA
130 TTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATA
*
44267524 TTGAGCGTGAGT
195 TCGAGCGTGAGT
* * * *
44267536 TTAATTTGTTCTTCTCATCTCAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAATCCAC
1 TTGATTTGGTCTTCT--TCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGC
* *
44267601 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATCAAGAAGCTAACC
64 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC
*
44267666 ATTTTATTACTTCGACATGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAT
129 ATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAT
44267731 ATCGAGCGTGAGT
194 ATCGAGCGTGAGT
* * * * *
44267744 TTGATTTGGTCTTCTTCTAAGTATCACATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* *
44267809 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATCAAGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
*
44267874 TTTATTACTTCGACATGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
44267939 CGAGCGTGAGT
196 CGAGCGTGAGT
* * * * ** *
44267950 TTAATTTGGTCTTCTTCTCAGTATCTTATTAGGAAGATGATCGCATCGTTTATTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
*
44268015 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCAC-TCTCAGTATCTCATCAGAAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* *
44268079 TTTATTACTTCGACCTGCCTCTCAGTATCTCTTCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
44268144 CGAGCGTGAGT
196 CGAGCGTGAGT
* *** **
44268155 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACATAATCGTTTGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* *
44268220 CTCTGTATCTCATCAGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAACTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * *
44268285 TTTATTACTTCGACCTGCTTCTCAATATCTCATCAAGAAGCTGGGGTTCAAAGATTTTCTCATAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
44268350 CGAGCGTGAGT
196 CGAGCGTGAGT
* * ** *
44268361 TTGATTTGGTTTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCGTTTATTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* *
44268426 CTCTGTATCTCATTAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* **
44268491 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGAAAATTGGGGTTCGAAGATTTGCTCATAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
*
44268556 CGACCGTGAGT
196 CGAGCGTGAGT
* * ** *
44268567 TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCCT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
44268632 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
44268697 TTTTTTTCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
44268762 CGAGCGTGAGT
196 CGAGCGTGAGT
* * * *
44268773 TT-ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * *
44268837 CTCTGGATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCAC
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
*
44268902 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA-GAATGCTGGGGGTTCGAAGATTTGCTCAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAA-GCT-GGGGTTCGAAGATTTGCTCAT
44268966 A
194 A
44268967 GTATCTCATC
Statistics
Matches: 1845, Mismatches: 177, Indels: 36
0.90 0.09 0.02
Matches are distributed among these distances:
200 3 0.00
201 351 0.19
202 2 0.00
203 1 0.00
204 3 0.00
205 339 0.18
206 781 0.42
207 29 0.02
208 336 0.18
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (206 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
CGAGCGTGAGT
Found at i:44268223 original size:411 final size:410
Alignment explanation
Indices: 44266725--44268966 Score: 3105
Period size: 411 Copynumber: 5.5 Consensus size: 410
44266715 TTTCATTGAC
* * * ** * *
44266725 TTGGCCTTCTTCTTC-GTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTTT
1 TTGGTCTTCTTC-TCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTCT
* * * * * * *
44266789 ATGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGCTAACCACTTTA
65 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
* * *
44266854 TTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGGTTCGAAGATTTGCTCACATCGA
130 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCATATCGA
* * *
44266919 GCGTGGGTTTTGATTCGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACTGCATCACTTGTTTC
194 GCGTGAG-TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT-CATCACTTGTTTC
* * * *
44266984 AATTCGCTTCTTTGTATCTCGTCAGGGAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
257 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
* * * * *
44267049 GCTAACAATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGATTCGAAGATT
322 GCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
*
44267114 TGCTCGTATCGAGCGTCGAG-----
387 TGCTCATATCGAGCGT-GAGTTTAT
* * * * * * * *
44267134 TCGGTATACTTCTCTGTATCTCATCATGAAGATGACCGCCTCACTTATTTCAATCCGCTTCTCTA
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTCTG
* * *
44267199 TATCTCAGT-AGGAAGGCGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTTA
66 TATCTCA-TCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
* * * * **
44267263 TTGCTTCGACCTGCTTCTCACTATCTCATCAGGAAGCTGAGGTTTGAAGATTTGCTCGCATCGAG
130 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAG
* * *
44267328 CGTCGA----G--TTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGTC-TCACTTGTTTC
195 CGT-GAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGA-C-TCATCACTTGTTTC
** * * ** *
44267386 AATCAACTTCTCTGTATCTCATAAGGAAAATAAATTTGGTCCACTTCTCAGTATCACATCAGGAA
257 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
*
44267451 GCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATT
322 GCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
* *
44267516 TGCTTATATTGAGCGTGAGTTTAAT
387 TGCTCATATCGAGCGTGAGTTT-AT
* * *
44267541 TTGTTCTTCTCATCTCAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAATCCACTTCTC
1 TTGGTCTTCT--TCTCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTC
*
44267606 TGTATCTCATCAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATCA-AGAAGCTAACCATTT
64 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGA-AAGCTAACCATTT
*
44267670 TATTACTTCGACATGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCG
128 TATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCG
* * * * *
44267735 AGCGTGAGTTTGATTTGGTCTTCTTCTAAGTATCACATCAGGAAGATGACCGCCTCACTTGTTTT
193 AGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGA-CTCATCACTTGTTTC
* * *
44267800 AATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATCAAGAA
257 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
*
44267865 GCTAACCATTTTATTACTTCGACATGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
322 GCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
44267930 TGCTCATATCGAGCGTGAGTTTAAT
387 TGCTCATATCGAGCGTGAGTTT-AT
* * * *
44267955 TTGGTCTTCTTCTCAGTATCTTATTAGGAAGATGATCGCATCGTTTATTTCAATCCGCTTCTCTG
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTCTG
44268020 TATCTCATCAGGAAGACGAATTTGGTCCAC-TCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
66 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
* *
44268084 TACTTCGACCTGCCTCTCAGTATCTCTTCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
131 TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
* * **
44268149 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACATAATCGTTTGTTTCAAT
196 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGAC-TCATCACTTGTTTCAAT
* *
44268214 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAACT
260 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
* * * *
44268279 AACCATTTTATTACTTCGACCTGCTTCTCAATATCTCATCAAGAAGCTGGGGTTCAAAGATTTTC
325 AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGC
44268344 TCATATCGAGCGTGAGTTTGAT
390 TCATATCGAGCGTGAGTTT-AT
* * *
44268366 TTGGTTTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCGTTTATTTCAATCCGCTTCTCTG
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTCTG
* * *
44268431 TATCTCATTAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTAT
66 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
* ** *
44268496 TACTTCGACCTGCTTCTCAGTATCTCATCAGAAAATTGGGGTTCGAAGATTTGCTCATATCGACC
131 TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
* * **
44268561 GTGAGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAAT
196 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGA-CTCATCACTTGTTTCAAT
*
44268626 CCGCCTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
260 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
* * *
44268691 AACCATTTTTTTTCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGC
325 AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGC
44268756 TCATATCGAGCGTGAGTTTAT
390 TCATATCGAGCGTGAGTTTAT
* * * * * *
44268777 TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTG
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTCTG
* * * * *
44268842 GATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTAT
66 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
*
44268907 TGCTTCGACCTGCTTCTCAGTATCTCATCA-GAATGCTGGGGGTTCGAAGATTTGCTCATA
131 TACTTCGACCTGCTTCTCAGTATCTCATCAGGAA-GCT-GGGGTTCGAAGATTTGCTCATA
44268967 GTATCTCATC
Statistics
Matches: 1635, Mismatches: 170, Indels: 53
0.88 0.09 0.03
Matches are distributed among these distances:
401 3 0.00
402 167 0.10
403 2 0.00
404 2 0.00
407 6 0.00
408 32 0.02
409 305 0.19
410 4 0.00
411 526 0.32
412 392 0.24
413 2 0.00
414 194 0.12
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (410 bp):
TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTATTTCAATCCGCTTCTCTG
TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTCATCACTTGTTTCAATC
CGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTA
ACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCT
CATATCGAGCGTGAGTTTAT
Found at i:44268332 original size:617 final size:615
Alignment explanation
Indices: 44266725--44268966 Score: 3157
Period size: 617 Copynumber: 3.6 Consensus size: 615
44266715 TTTCATTGAC
* * ** ** * *
44266725 TTGGCCTTCTTCTTC-GTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTTT
1 TTGGTCTTCTTC-TCAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCTTCTCT
* * * * * * *
44266789 ATGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGAAAGCTAACCACTTTA
65 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
* * *
44266854 TTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGGTTCGAAGATTTGCTCACATCGA
130 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCATATCGA
* * *
44266919 GCGTGGGTTTTGATTCGGTCTTCTTCTCAGTATCTCATCA-AGAAGATGACTGCATCACTTGTTT
194 GCGTGAG-TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGA-AAGATGACCGCATCACTTGTTT
* * * * *
44266983 CAATTCGCTTCTTTGTATCTCGTCAGGGAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGA
257 CAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGA
* * * *
44267048 AGCTAACAATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGATTCGAAGAT
322 AGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGAT
* * * * * *
44267113 TTGCTCGTATCGAGCGTCGAG-TCGGTAT--ACTTC-TCT-GTATCTCATCATGAAGATGACCGC
387 TTGCTCATATCGAGCGT-GAGTTTGATTTGGTCTTCTTCTAGTATCTCATCAGGAAGATGACCGC
* *
44267173 CTCACTTATTTCAATCCGCTTCTCTATATCTCAGTAGGAAGGCGAATTTGGTCCACTTCTCAGTA
451 CTCACTTATTTCAATCCGCTTCTCTGTATCTCA-TAGGAAGACGAATTTGGTCCACTTCTCAGTA
* * * *
44267238 CCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCACTATCTCATCAGGAAGCTGA
515 TCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGG
* **
44267303 GGTTTGAAGATTTGCTCGCATCGAGCGTCGAG-----
580 GGTTCGAAGATTTGCTCATATCGAGCGT-GAGTTTAT
* * * * ** **
44267335 TTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGTC-TCACTTGTTTCAATCAACTTCTCT
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCG-CATCGTTTGTTTCAATCCGCTTCTCT
* * ** * *
44267399 GTATCTCATAAGGAAAATAAATTTGGTCCACTTCTCAGTATCACATCAGGAAGCTAACCATTTTA
65 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTA
* * *
44267464 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATTTGCTTATATTGAG
130 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAG
* * * *
44267529 CGTGAGTTTAATTTGTTCTTCTCATCTCAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTC
195 CGTGAGTTTGATTTGGTCTTCT--TCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTC
* *
44267594 AATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCAGTTCTCAGTATCTCATCAAGAA
258 AATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
* *
44267659 GCTAACCATTTTATTACTTCGACATGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
323 GCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATT
*
44267724 TGCTCATATCGAGCGTGAGTTTGATTTGGTCTTCTTCTAAGTATCACATCAGGAAGATGACCGCC
388 TGCTCATATCGAGCGTGAGTTTGATTTGGTCTTCTTCT-AGTATCTCATCAGGAAGATGACCGCC
* * * *
44267789 TCACTTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCAGTTCTCAGTAT
452 TCACTTATTTCAATCCGCTTCTCTGTATCTCAT-AGGAAGACGAATTTGGTCCACTTCTCAGTAT
* *
44267854 CTCATCAAGAAGCTAACCATTTTATTACTTCGACATGCTTCTCAGTATCTCATCAGGAAGCTGGG
516 CTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGG
44267919 GTTCGAAGATTTGCTCATATCGAGCGTGAGTTTAAT
581 GTTCGAAGATTTGCTCATATCGAGCGTGAGTTT-AT
* * *
44267955 TTGGTCTTCTTCTCAGTATCTTATTAGGAAGATGATCGCATCGTTTATTTCAATCCGCTTCTCTG
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCTTCTCTG
44268020 TATCTCATCAGGAAGACGAATTTGGTCCAC-TCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
66 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
* *
44268084 TACTTCGACCTGCCTCTCAGTATCTCTTCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
131 TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
*** **
44268149 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACATAATCGTTTGTTTCAAT
196 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAAT
* * *
44268214 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAACT
261 CCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
* * *
44268279 AACCATTTTATTACTTCGACCTGCTTCTCAATATCTCATCAAGAAGCTGGGGTTCAAAGATTTTC
326 AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGC
* * *
44268344 TCATATCGAGCGTGAGTTTGATTTGGTTTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCG
391 TCATATCGAGCGTGAGTTTGATTTGGTCTTCTTC-TAGTATCTCATCAGGAAGATGACCGCCTCA
* *
44268409 TTTATTTCAATCCGCTTCTCTGTATCTCATTAGGAAGACGAATTTGGTTCACTTCTCAGTATCTC
455 CTTATTTCAATCCGCTTCTCTGTATCTCA-TAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
* **
44268474 ATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGAAAATTGGGGTT
519 ATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTT
*
44268539 CGAAGATTTGCTCATATCGACCGTGAGTTTGAT
584 CGAAGATTTGCTCATATCGAGCGTGAGTTT-AT
* *
44268572 TTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCCTCTCTG
1 TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCTTCTCTG
* *
44268637 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTTT
66 TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
* *
44268702 TTCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
131 TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
* * * *
44268767 GTGAGTTT-ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAAT
196 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAAT
* * *
44268831 CCACTTCTCTGGATCTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCT
261 CCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
* *
44268896 AACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC-AGAATGCTGGGGGTTCGAAGATTT
326 AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAA-GCT-GGGGTTCGAAGATTT
44268960 GCTCATA
389 GCTCATA
44268967 GTATCTCATC
Statistics
Matches: 1453, Mismatches: 155, Indels: 40
0.88 0.09 0.02
Matches are distributed among these distances:
608 13 0.01
609 33 0.02
610 313 0.22
611 1 0.00
612 4 0.00
613 3 0.00
614 4 0.00
615 163 0.11
616 4 0.00
617 602 0.41
618 123 0.08
619 112 0.08
620 78 0.05
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (615 bp):
TTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCTTCTCTG
TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTAT
TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAAT
CCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGC
TCATATCGAGCGTGAGTTTGATTTGGTCTTCTTCTAGTATCTCATCAGGAAGATGACCGCCTCAC
TTATTTCAATCCGCTTCTCTGTATCTCATAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCAT
CAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCG
AAGATTTGCTCATATCGAGCGTGAGTTTAT
Found at i:44268990 original size:175 final size:174
Alignment explanation
Indices: 44268791--44269138 Score: 545
Period size: 175 Copynumber: 2.0 Consensus size: 174
44268781 TCTACTTCTC
* * *
44268791 AGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTGGATCTCATCAGGAA
1 AGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGGATCTCATCAGGAA
* *
44268856 GACGAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCT
66 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCT
*
44268921 TCTCAGTATCTCATCA-GAATGCTGGGGGTTCGAAGATTTGCTCAT
131 TCTCAGTATCTCATCAGGAA-G-TGGAGGTTCGAAGATTTGCTCAT
* * * * *
44268966 AGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGGA
1 AGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGGATCTCATCAGGAA
*
44269031 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
66 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCT
* *
44269096 TCTCAGTATCTCATCAGGAAGTTGAGGTTCGAAGATTTTCTCA
131 TCTCAGTATCTCATCAGGAAGTGGAGGTTCGAAGATTTGCTCA
44269139 CATCGAGCAT
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
174 19 0.12
175 136 0.86
176 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (174 bp):
AGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGGATCTCATCAGGAA
GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCT
TCTCAGTATCTCATCAGGAAGTGGAGGTTCGAAGATTTGCTCAT
Found at i:44269327 original size:201 final size:204
Alignment explanation
Indices: 44268966--44269958 Score: 1362
Period size: 201 Copynumber: 4.9 Consensus size: 204
44268956 ATTTGCTCAT
* * * *
44268966 AGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGGA
1 AGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
*
44269031 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
66 GACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
* * * *
44269096 TCTCAGTATCTCATCAGGAAGTTGAGGTTCGAAGATTTTCTCACATCGAGCATCGAG-TTGGTAT
131 TCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGT-GAGTTTGATAT
44269160 ACTT-TTCT-
195 ACTTCTTCTC
*
44269168 A-TATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAA
1 AGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
* * * *
44269232 GACGAATTTGGTCTACTTCTCAATACCTCATCAGGAAGGTAACTATTTTATTGCTTCGACCTGCT
66 GACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
* * ** *
44269297 TCTCAGTATCTCATCAAGAAGCTCAGGTTCGAAGATTTGCTTGCATCGAGCGTCGAG-TTGGTAT
131 TCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGT-GAGTTTGATAT
44269361 ACTTC-TCT-
195 ACTTCTTCTC
* *
44269369 -GTATCTCATC-AGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGAA
1 AGTATCTCATCAAG-AAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGA
* *
44269432 AGACGAATTTGGTCTACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGC
65 AGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
* * * * * *
44269497 TTCTTAGTATCAT-ATCAAGAAGCTGAGGTTCGAAGATTTACTCATATCGAGTGTGAGTTTGATT
130 TTCTCAGTATC-TCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTTGATA
*
44269561 TGGTCTTCTTCTC
194 T--ACTTCTTCTC
* * * **
44269574 AGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
1 AGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
* *
44269639 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCT
66 GACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
* * * *
44269704 TCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATTTGCTCATATCGAGCGTGAGTTTGATTTA
131 TCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTTGATATA
44269769 GTCTTCTTCTC
196 --CTTCTTCTC
*
44269780 AGTATCTCATCAAGAAGATGACCGCCGCCTCACTTGTTGT-AATCCACTTCTCTGTATCTCATCA
1 AGTATCTCATCAAGAAGATGA---CCGCCTCACTTGTT-TCAATCCGCTTCTCTGTATCTCATCA
* * *
44269844 GGAAGACAAATTTGGT-TCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGAC
62 GGAAGACGAATTTGGTCT-ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGAC
*
44269908 CTGCTTCTCAGTATCTCATCAGGAAGCTAGGGGTTCGAAGATTTGCTCACA
126 CTGCTTCTCAGTATCTCATCAGGAAGCT-GAGGTTCGAAGATTTGCTCACA
44269959 GTATCTCATC
Statistics
Matches: 708, Mismatches: 63, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
200 5 0.01
201 349 0.49
202 2 0.00
203 4 0.01
204 3 0.00
205 1 0.00
206 203 0.29
207 1 0.00
209 119 0.17
210 21 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (204 bp):
AGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
GACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
TCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTTGATATA
CTTCTTCTC
Found at i:44269744 original size:407 final size:405
Alignment explanation
Indices: 44268965--44269958 Score: 1351
Period size: 407 Copynumber: 2.4 Consensus size: 405
44268955 GATTTGCTCA
* *
44268965 TAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAAT-TCGCTTCTCTGTATCTCGTCAGG
1 TAGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCT-GCTTCTCTGTATCTCATCAGG
* *
44269029 GAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTG
65 AAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTG
* * *
44269094 CTTCTCAGTATCTCATCAGGAAGTTGAGGTTCGAAGATTTTCTCACATCGAGCATCGAGTTGGTA
130 CTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTACTCACATCGAGCATCGAGTTGATA
*
44269159 TACTTTTCTATATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTC
195 TACTTTTCTATATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTC
* * * *
44269224 ATCAAGAAGACGAATTTGGTCTACTTCTCAATACCTCATCAGGAAGGTAACTATTTTATTGCTTC
260 ATCAAGAAGACGAATTTGGTCCACTTCTCAATACCTCATCAGGAAGCTAACCATTTTATTACTTC
**
44269289 GACCTGCTTCTCAGTATCTCATCAAGAAGCTCAGGTTCGAAGATTTGCTTGCATCGAGCGTCGAG
325 GACCTGCTTCTCAGTATCTCATCAAGAAGCTCAGGTTCGAAGATTTGCTCACATCGAGCGT-GAG
*
44269354 -TTGGTATA-CTTC-TC
389 TTTGATATAGCTTCTTC
*
44269368 T-GTATCTCATC-AGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGA
1 TAGTATCTCATCAAG-AAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGG
* *
44269431 AAGACGAATTTGGTCTACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTG
65 AAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTG
* * * **
44269496 CTTCTTAGTATCAT-ATCAAGAAGCTGAGGTTCGAAGATTTACTCATATCGAGTGT-GAGTTTGA
130 CTTCTCAGTATC-TCATCAGGAAGCTGAGGTTCGAAGATTTACTCACATCGAGCATCGAG-TTGA
* * * * **
44269559 TTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCT
193 TAT--ACTT-TTCT-A-TATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCT
* * *
44269624 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTA
253 GTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAATACCTCATCAGGAAGCTAACCATTTTA
* ** * *
44269689 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATTTGCTCATATCGAG
318 TTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTCAGGTTCGAAGATTTGCTCACATCGAG
*
44269754 CGTGAGTTTGATTTAGTCTTCTTC
383 CGTGAGTTTGATATAG-CTTCTTC
**
44269778 TCAGTATCTCATCAAGAAGATGACCGCCGCCTCACTTGTTGT-AATCCACTTCTCTGTATCTCAT
1 T-AGTATCTCATCAAGAAGATGA---CCGCCTCACTTGTT-TCAATCTGCTTCTCTGTATCTCAT
* * *
44269842 CAGGAAGACAAATTTGGT-TCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCG
61 CAGGAAGACGAATTTGGTCT-ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCG
* *
44269906 ACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGGTTCGAAGATTTGCTCACA
125 ACCTGCTTCTCAGTATCTCATCAGGAAGCT-GAGGTTCGAAGATTTACTCACA
44269959 GTATCTCATC
Statistics
Matches: 517, Mismatches: 51, Indels: 33
0.86 0.08 0.05
Matches are distributed among these distances:
401 5 0.01
402 166 0.32
403 3 0.01
404 3 0.01
405 4 0.01
406 4 0.01
407 168 0.32
409 4 0.01
410 3 0.01
412 17 0.03
413 2 0.00
414 2 0.00
415 116 0.22
416 20 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (405 bp):
TAGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGGA
AGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
TTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTACTCACATCGAGCATCGAGTTGATAT
ACTTTTCTATATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCA
TCAAGAAGACGAATTTGGTCCACTTCTCAATACCTCATCAGGAAGCTAACCATTTTATTACTTCG
ACCTGCTTCTCAGTATCTCATCAAGAAGCTCAGGTTCGAAGATTTGCTCACATCGAGCGTGAGTT
TGATATAGCTTCTTC
Found at i:44270075 original size:175 final size:175
Alignment explanation
Indices: 44269779--44270132 Score: 471
Period size: 175 Copynumber: 2.0 Consensus size: 175
44269769 GTCTTCTTCT
*
44269779 CAGTATCTCATCAAGAAGATGACCGCCGCCTCACTTGTTGTAATCCACTTCTCTGTATCTCATCA
1 CAGTATCTCATCAAGAAGATGA-C-CCGCATCACTTGTTGTAATCCACTTCTCTGTATCTCATCA
* * *
44269844 GGAAGACAAATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACC
64 GGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCAACC
* *
44269909 TGCTTCTCAGTATCTCATCAGGAAGCT-AGGGGTTCGAAGATTTGCTCA
129 TGCTTCTCAGCATCTCATCAGAAAGCTCA--GGTTCGAAGATTTGCTCA
* * * *
44269957 CAGTATCTCATCAAGAAGATGA-CCGCATCACTTGTT-TCAATTCGCTTCTTTGTATCTCGTCAG
1 CAGTATCTCATCAAGAAGATGACCCGCATCACTTGTTGT-AATCCACTTCTCTGTATCTCATCAG
** ** * * *
44270020 GGTGATGAATTTGGTCCACTTCTCAGTATCTTATCAGGAAGCTAACCATTTTATTGCTTCAACTT
65 GAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCAACCT
* *
44270085 GCTTCTCAGCATCTCATTAGAAAGTTCAGGTTCGAAGATTTGCTCA
130 GCTTCTCAGCATCTCATCAGAAAGCTCAGGTTCGAAGATTTGCTCA
44270131 CA
1 CA
44270133 TCAAGCGTCG
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
174 21 0.14
175 111 0.72
176 1 0.01
178 22 0.14
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (175 bp):
CAGTATCTCATCAAGAAGATGACCCGCATCACTTGTTGTAATCCACTTCTCTGTATCTCATCAGG
AAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCAACCTG
CTTCTCAGCATCTCATCAGAAAGCTCAGGTTCGAAGATTTGCTCA
Found at i:44270190 original size:992 final size:988
Alignment explanation
Indices: 44267968--44270709 Score: 4266
Period size: 992 Copynumber: 2.8 Consensus size: 988
44267958 GTCTTCTTCT
* * * * ** * * * *
44267968 CAGTATCTTATTAGGAAGATGATCGCATCGTTTATTTCAATCCGCTTCTCTGTATCTCATCAGGA
1 CAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGG
* *
44268033 AGACGAATTTGGTCCAC-TCTCAGTATCTCATCAGAAAGCTAACCATTTTATTACTTCGACCTGC
66 AGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
* * * * *
44268097 CTCTCAGTATCTC-TTCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGCGT-GAGTTTGAT
131 TTCTCAGTATCTCATT-AGGAAGTTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAG-TTGGT
* * ** **
44268160 TTGGTCTTCTTCTCAGTATCTCATC-AGAAAGATGACAT-AATCGTTTGTTTCAATCCGCTTCTC
194 AT--ACTTC-TCT-A-TATCTCATCAAG-AAGATGAC-TGCCTCACTTGTTTCAATCCGCTTCTC
* * * *
44268223 TGTATCTCATCAGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAACTAACCATTTT
252 TGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTT
* * * * * **
44268288 ATTACTTCGACCTGCTTCTCAATATCTCATCAAGAAGCTGGGGTTCAAAGATTTTCTCATATCGA
317 ATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCGCATCGA
* * * * ** *
44268353 GCGT-GAGTTTGATTTGGTTTTCTTCT-TAGTATCTCATCAGGAAGATGACCGCATCGTTTATTT
382 GCGTCGA----G--TTGGTATACTTCTCT-GTATCTCATCAGAAAGATGACCGCCTCACTTGTTT
* * *
44268416 CAATCCGCTTCTCTGTATCTCATTAGGAAGACGAATTTGGT-TCACTTCTCAGTATCTCATCAGG
440 CAATCTGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCT-ACTTCTCAATATCTCATCAGG
**
44268480 AAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC-AGAAAATTGGGGTTCGAAG
504 AAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAG-AAGCTGGGGTTCGAAG
** *
44268544 ATTTGCTCATATCGACCGTGAGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGA-T
568 ATTTGCTCATATCGAGTGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT
*
44268608 CGCATCGTTTGTTTCAATCCGCCTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCA
633 -GCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCA
* * *
44268673 GTATCTCATCAGGAAGCTAACCATTTTTTTTCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGC
697 GTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGC
*
44268738 TGGGGTTCGAAGATTTGCTCATATCGAGCGTGAGTTTATTTGGTCTACTTCTCAGTATCTCATCA
762 TGGGGTTCGAAGATTTGCTCATATCGAGCGTGAGTTTATTTAGTCTACTTCTCAGTATCTCATCA
* * *
44268803 GGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTGGATCTCATCAGGAAGACGAATTTGGT
827 AGAAGATGACCGCCTCACTTGTTGTAATCCACTTCTCTGGATCTCATCAGGAAGACAAATTTGGT
44268868 TCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTC
892 TCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTC
*
44268933 ATCAGAATGCTGGGGGTTCGAAGATTTGCTCA
957 ATCAGAATGCTAGGGGTTCGAAGATTTGCTCA
*
44268965 TAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGG
1 CAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGG
44269030 AGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
66 AGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
* * *
44269095 TTCTCAGTATCTCATCAGGAAGTTGAGGTTCGAAGATTTTCTCACATCGAGCATCGAGTTGGTAT
131 TTCTCAGTATCTCATTAGGAAGTTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTTGGTAT
* *
44269160 ACTTTTCTATATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCA
196 ACTTCTCTATATCTCATCAAGAAGATGACTGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCA
* * * *
44269225 TCAAGAAGACGAATTTGGTCTACTTCTCAATACCTCATCAGGAAGGTAACTATTTTATTGCTTCG
261 TCAAGAAGACGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTTATTGCTTCG
* *
44269290 ACCTGCTTCTCAGTATCTCATCAAGAAGCTCAGGTTCGAAGATTTGCTTGCATCGAGCGTCGAGT
326 ACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCGCATCGAGCGTCGAGT
44269355 TGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGT
391 TGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGT
*
44269420 ATCTCATCAGAAAGACGAATTTGGTCTACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATT
456 ATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATT
* * *
44269485 ACTTCGACCTGCTTCTTAGTATCAT-ATCAAGAAGCTGAGGTTCGAAGATTTACTCATATCGAGT
521 ACTTCGACCTGCTTCTCAGTATC-TCATCAAGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGT
44269549 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAAT
585 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAAT
44269614 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
650 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
*
44269679 AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATTTGC
715 AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGC
*
44269744 TCATATCGAGCGTGAGTTTGATTTAGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCCGCC
780 TCATATCGAGCGTGAGTTT-ATTTAGTCTACTTCTCAGTATCTCATCAAGAAGATGA---CCGCC
*
44269809 TCACTTGTTGTAATCCACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTTCACTTCTCCGTAT
841 TCACTTGTTGTAATCCACTTCTCTGGATCTCATCAGGAAGACAAATTTGGTTCACTTCTCCGTAT
44269874 CTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAA-GCTAG
906 CTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA-GAATGCTAG
44269938 GGGTTCGAAGATTTGCTCA
970 GGGTTCGAAGATTTGCTCA
*
44269957 CAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTTTGTATCTCGTCAGGG
1 CAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGG
* * * * *
44270022 TGATGAATTTGGTCCACTTCTCAGTATCTTATCAGGAAGCTAACCATTTTATTGCTTCAACTTGC
66 AGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
* * * *
44270087 TTCTCAGCATCTCATTAGAAAGTTCAGGTTCGAAGATTTGCTCACATCAAGCGTCGAGTTGGTAT
131 TTCTCAGTATCTCATTAGGAAGTTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTTGGTAT
* * *
44270152 ACTTCTCTATATCTCATCAAGAAGTTGACTGCCTCACTTGTTTCAATCTGCTTCTTTGTATCTCA
196 ACTTCTCTATATCTCATCAAGAAGATGACTGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCA
44270217 TCAAGAAGACGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTTATTGCTTCG
261 TCAAGAAGACGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTTATTGCTTCG
* *
44270282 ACCTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCATCGAGCGTCGAGT
326 ACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCGCATCGAGCGTCGAGT
*
44270347 TGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTAT
391 TGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGT
* *
44270412 ATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACTATTTTATT
456 ATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATT
*
44270477 ACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGTG
521 ACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGTG
*
44270542 TGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATC
586 TGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATC
* * *
44270607 TGCTTCTCTGTATCTCATCAAGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTA
651 CGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTA
*
44270672 ACTATTTTATTACTTCGACCTGCTTCTCAGTATCTCAT
716 ACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCAT
44270710 AAAGAAGACG
Statistics
Matches: 1611, Mismatches: 117, Indels: 39
0.91 0.07 0.02
Matches are distributed among these distances:
988 374 0.23
989 40 0.02
990 1 0.00
991 1 0.00
992 856 0.53
993 158 0.10
994 5 0.00
995 3 0.00
996 3 0.00
997 71 0.04
998 95 0.06
999 4 0.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (988 bp):
CAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTGTATCTCGTCAGGG
AGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGC
TTCTCAGTATCTCATTAGGAAGTTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTTGGTAT
ACTTCTCTATATCTCATCAAGAAGATGACTGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCA
TCAAGAAGACGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTTATTGCTTCG
ACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCGCATCGAGCGTCGAGT
TGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGT
ATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATT
ACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGTG
TGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATC
CGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTA
ACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCT
CATATCGAGCGTGAGTTTATTTAGTCTACTTCTCAGTATCTCATCAAGAAGATGACCGCCTCACT
TGTTGTAATCCACTTCTCTGGATCTCATCAGGAAGACAAATTTGGTTCACTTCTCCGTATCTCAT
CAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGAATGCTAGGGGTTC
GAAGATTTGCTCA
Found at i:44270319 original size:201 final size:201
Alignment explanation
Indices: 44269960--44270709 Score: 1038
Period size: 201 Copynumber: 3.7 Consensus size: 201
44269950 TTGCTCACAG
* * * **
44269960 TATCTCATCAAGAAGATGACCGCATCACTTGTTTCAAT-TCGCTTCTTTGTATCTCGTCAGGGTG
1 TATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCT-GCTTCTCTGTATCTCATCAAGAAG
* * * * *
44270024 ATGAATTTGGTCCACTTCTCAGTATCTTATCAGGAAGCTAACCATTTTATTGCTTCAACTTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTT
* * * * * *
44270089 CTCAGCATCTCATTAGAAAGTTCAGGTTCGAAGATTTGCTCACATCAAGCGTCGAGTTGGTATAC
130 CTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTTGGTATAC
44270154 TTCTCTA
195 TTCTCTA
* * * *
44270161 TATCTCATCAAGAAGTTGACTGCCTCACTTGTTTCAATCTGCTTCTTTGTATCTCATCAAGAAGA
1 TATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAGA
* * *
44270226 CGAATTTGGTCCACTTCTCAGTACCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTC
*
44270291 TCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCATCGAGCGTCGAGTTGGTATACT
131 TCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTTGGTATACT
*
44270356 TCTCTG
196 TCTCTA
* * *
44270362 TATCTCATC-AGAAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTATATCTCATCAGGAAG
1 TATCTCATCAAG-AAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAG
* *
44270426 ACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACTATTTTATTACTTCGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTT
* * * * *
44270491 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGTGT-GAGTTTGATTTG
130 CTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAG-TTGGTAT-
*
44270555 GTCTTCTTCTCA
193 -ACTTC-TCT-A
* **
44270567 GTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAG
1 -TATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAG
* *
44270632 ATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACTATTTTATTACTTCGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTT
44270697 CTCAGTATCTCAT
130 CTCAGTATCTCAT
44270710 AAAGAAGACG
Statistics
Matches: 493, Mismatches: 47, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
200 5 0.01
201 347 0.70
202 1 0.00
203 4 0.01
204 3 0.01
206 132 0.27
207 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (201 bp):
TATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTC
TCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTTGGTATACT
TCTCTA
Found at i:44270724 original size:85 final size:85
Alignment explanation
Indices: 44270606--44270784 Score: 295
Period size: 85 Copynumber: 2.1 Consensus size: 85
44270596 TTGTTTCAAT
* * * * *
44270606 CTGCTTCTCTGTATCTCATCAAGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
1 CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGAAAGCT
*
44270671 AACTATTTTATTACTTCGAC
66 AACCATTTTATTACTTCGAC
44270691 CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGAAAGCT
1 CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGAAAGCT
*
44270756 AACCATTTTATTGCTTCGAC
66 AACCATTTTATTACTTCGAC
44270776 CTGCTTCTC
1 CTGCTTCTC
44270785 TCTCAGTTTC
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (85 bp):
CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGAAAGCT
AACCATTTTATTACTTCGAC
Found at i:44270959 original size:289 final size:289
Alignment explanation
Indices: 44270400--44270998 Score: 823
Period size: 289 Copynumber: 2.1 Consensus size: 289
44270390 TTGTTTCAAT
* * * *
44270400 CTGCTTCTCTA-TATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGC
1 CTGCTTCTC-AGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAATATCTCATCAGAAAGC
* *
44270464 TAACTATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTG
65 TAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTTG
* * * * * * * *
44270529 CTCATATCGAGTGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATC
130 CTC--AGCGAGTGTGAGCTCGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATAACCGCACC
* * *
44270594 GTTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAGATGAATTTGGTCCACTTCTCAGTATCT
193 ATTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCT
*
44270659 CATCAGGAAGCTAACTATTTTATTACTTCGAC
258 CATCAGGAAGCTAACCATTTTATTACTTCGAC
*
44270691 CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGAAAGCT
1 CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAATATCTCATCAGAAAGCT
* * *
44270756 AACCATTTTATTGCTTCGACCTGCTTCTCTCTCAGTTTCTCATCAGGAAG-TTGGGTTCAAAGAT
66 AACCATTTTATTACTTCGACCTG---CT-TCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGAT
* * *
44270820 TTGCTC-GC-A-T-TGAGCCTCGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATAACTGCC
127 TTGCTCAGCGAGTGTGAG-CTCGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATAACCGCA
*
44270881 CCATTTGTTTCAATCCGCTTCTTTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTAT
191 CCATTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTAT
* *
44270946 CTCATTAGGAAGCTAACCATTTTATTATTTCGAC
256 CTCATCAGGAAGCTAACCATTTTATTACTTCGAC
*
44270980 TTGCTTCTCAGTATCTCAT
1 CTGCTTCTCAGTATCTCAT
44270999 CAAAAAGCTG
Statistics
Matches: 273, Mismatches: 29, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
288 4 0.01
289 147 0.54
290 2 0.01
291 80 0.29
294 20 0.07
295 20 0.07
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (289 bp):
CTGCTTCTCAGTATCTCATAAAGAAGACGAATTTAGTCCACTTCTCAATATCTCATCAGAAAGCT
AACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTTGC
TCAGCGAGTGTGAGCTCGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATAACCGCACCATT
TGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCAT
CAGGAAGCTAACCATTTTATTACTTCGAC
Found at i:44271235 original size:39 final size:39
Alignment explanation
Indices: 44271192--44271324 Score: 117
Period size: 39 Copynumber: 3.4 Consensus size: 39
44271182 TCTGCCCTAA
* *
44271192 GCTCGGAGTAAGAGATTGGTTGACGATGATCTACCCAAG
1 GCTCGGGGTAAAAGATTGGTTGACGATGATCTACCCAAG
*** * * * **
44271231 GCTCGGGGTAAAAGATTAAATGACTG-TAATTTGCCCCTG
1 GCTCGGGGTAAAAGATTGGTTGAC-GATGATCTACCCAAG
* * *
44271270 GCTCGGGGTAAGAGATTGGTTGATGATGATCTGTCCCAA-
1 GCTCGGGGTAAAAGATTGGTTGACGATGATCT-ACCCAAG
44271309 GCTCGGGGTAAAAGAT
1 GCTCGGGGTAAAAGAT
44271325 CAAATGGCTT
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
38 1 0.01
39 65 0.93
40 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (39 bp):
GCTCGGGGTAAAAGATTGGTTGACGATGATCTACCCAAG
Found at i:44271235 original size:78 final size:76
Alignment explanation
Indices: 44271119--44271363 Score: 267
Period size: 78 Copynumber: 3.1 Consensus size: 76
44271109 CCCGTGATCA
* * * * * * *
44271119 GGGTAGGAGATTGGTTAATGATGATCTGCTCCAAGCTCGGAGTAAATGGTCGAATGGTTGCAATC
1 GGGTAAGAGATTGGTTGATGATGATCTAC-CCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATC
44271184 TGCCCTAAGCTCG
65 TGCCCT-AGCTCG
* * * ** * *
44271197 GAGTAAGAGATTGGTTGACGATGATCTACCCAAGGCTCGGGGTAAAAGATTAAATGACTGTAATT
1 GGGTAAGAGATTGGTTGATGATGATCTACCCAA-GCTCGGGGTAAAAGATCAAATGGTTGCAATC
*
44271262 TGCCCCTGGCTCG
65 TG-CCCTAGCTCG
*
44271275 GGGTAAGAGATTGGTTGATGATGATCTGTCCCAAGCTCGGGGTAAAAGATCAAATGGCTT-CAAT
1 GGGTAAGAGATTGGTTGATGATGATCT-ACCCAAGCTCGGGGTAAAAGATCAAATGG-TTGCAAT
44271339 CTGCCCTTAGCTCG
64 CTGCCC-TAGCTCG
*
44271353 GGGTAAAAGAT
1 GGGTAAGAGAT
44271364 CAGAATCTTC
Statistics
Matches: 137, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
77 7 0.05
78 120 0.88
79 10 0.07
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (76 bp):
GGGTAAGAGATTGGTTGATGATGATCTACCCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATCT
GCCCTAGCTCG
Found at i:44271722 original size:50 final size:50
Alignment explanation
Indices: 44271661--44272050 Score: 178
Period size: 50 Copynumber: 7.9 Consensus size: 50
44271651 TGAATTCACT
* *
44271661 GTTGCGGCTTAAATATTTCCCTTCTTGTCTTTTGAGGTACACGATCCGCC
1 GTTGCAGCTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACGATCCGCC
* * * **
44271711 GTT--ATGACTTAAACCTTTCCCTT-TTGTATCTTTGTGGTACTGGATCCGCC
1 GTTGCA-G-CTTAAATCTTTCCCTTCTTGTCT-TTTGAGGTACACGATCCGCC
* * *
44271761 GTTGCAGCTTAAATCTTTCCTTTCTTGTCTTCTGAGGTACAC-AGTCCGCA
1 GTTGCAGCTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACGA-TCCGCC
* *** * ** *
44271811 GTTGCAACTTAGGCCTTTCCCTT-TTGTATCTTT-ACGGTACTGGATCCGTC
1 GTTGCAGCTTAAATCTTTCCCTTCTTGTCT-TTTGA-GGTACACGATCCGCC
* * * * * *
44271861 GTTGCGGGTTGAATCTTTCTCTTCTTATCTTCTGAGGTACAC-AGT-CGCC
1 GTTGCAGCTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACGA-TCCGCC
* * * * * * *
44271910 GTTAC-GACTTAGACCTTTCCCTT-TTGTATCTTTGTGGTAC-TGAATCCACC
1 GTTGCAG-CTTAAATCTTTCCCTTCTTGTCT-TTTGAGGTACACG-ATCCGCC
* * * * * ** * * *
44271960 GTTGCGGTCTTAGATCTTTCCCTTCATG--TTTTCATG-ACTGGATTCACT
1 GTTGCAG-CTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACGATCCGCC
* * * *
44272008 GTTGCGGTTTAAATCTTTCCCTTCGTGTCTTCTGAGGTACACG
1 GTTGCAGCTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACG
44272051 GTCCTACCAT
Statistics
Matches: 246, Mismatches: 70, Indels: 48
0.68 0.19 0.13
Matches are distributed among these distances:
47 17 0.07
48 19 0.08
49 51 0.21
50 128 0.52
51 28 0.11
52 3 0.01
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (50 bp):
GTTGCAGCTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACGATCCGCC
Found at i:44271771 original size:100 final size:100
Alignment explanation
Indices: 44271615--44271984 Score: 456
Period size: 100 Copynumber: 3.7 Consensus size: 100
44271605 TTCGCCATTG
*** * * *
44271615 CGACTTAAACCTTTCCCTTTAAAATCTTTGTGGTACTGAATTCACTGTTGCGGCTTAAATATTTC
1 CGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGGCTTAAATCTTTC
*
44271680 CCTTCTTGTCTTTTGAGGTACAC-GATCCGCCGTTA
66 CCTTCTTGTCTTCTGAGGTACACAG-TCCGCCGTTA
* * * *
44271715 TGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGGATCCGCCGTTGCAGCTTAAATCTTTC
1 CGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGGCTTAAATCTTTC
* * *
44271780 CTTTCTTGTCTTCTGAGGTACACAGTCCGCAGTTG
66 CCTTCTTGTCTTCTGAGGTACACAGTCCGCCGTTA
* ** ** * ** * *
44271815 CAACTTAGGCCTTTCCCTTTTGTATCTTTACGGTACTGGATCCGTCGTTGCGGGTTGAATCTTTC
1 CGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGGCTTAAATCTTTC
* *
44271880 TCTTCTTATCTTCTGAGGTACACAGT-CGCCGTTA
66 CCTTCTTGTCTTCTGAGGTACACAGTCCGCCGTTA
* *
44271914 CGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGGTCTTAGATCTTT
1 CGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGG-CTTAAATCTTT
44271979 CCCTTC
65 CCCTTC
44271985 ATGTTTTCAT
Statistics
Matches: 228, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
99 52 0.23
100 175 0.77
101 1 0.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (100 bp):
CGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGGCTTAAATCTTTC
CCTTCTTGTCTTCTGAGGTACACAGTCCGCCGTTA
Found at i:44272040 original size:147 final size:143
Alignment explanation
Indices: 44271861--44272137 Score: 351
Period size: 143 Copynumber: 1.9 Consensus size: 143
44271851 TGGATCCGTC
* * * * *
44271861 GTTGCGGGTTGAATCTTTCTCTTCTTATCTTCTGAGGTACACAGT-C-GCCGTTACGACTTAGAC
1 GTTGCGGGTTAAATCTTTCCCTTCGTATCTTCTGAGGTACACAGTCCTACCATTACGACTTAGA-
* *
44271924 CTTTCCCTTTTGTATCTTTGTGGTACTGAATCCACCGTTGCGGTCTTAGATCTTTCCCTTCATGT
65 -----CCTTTTATATCTTTGTCGTACTGAATCCACCGTTGCGGTCTTAGATCTTTCCCTTCATGT
*
44271989 TTTCATGACTGGATTCACT
125 CTTCATGACTGGATTCACT
* * *
44272008 GTTGCGGTTTAAATCTTTCCCTTCGTGTCTTCTGAGGTACACGGTCCTACCATTACGACTTAGAC
1 GTTGCGGGTTAAATCTTTCCCTTCGTATCTTCTGAGGTACACAGTCCTACCATTACGACTTAGAC
* ** *
44272073 CTTTTATATCTTTGTCGTACTGGATCCGTCGTTGCGGTCTTAGATCTTTCCTTTCATGTCTTCAT
66 CTTTTATATCTTTGTCGTACTGAATCCACCGTTGCGGTCTTAGATCTTTCCCTTCATGTCTTCAT
44272138 AGTACTGAGA
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
143 59 0.52
147 39 0.35
148 1 0.01
149 14 0.12
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (143 bp):
GTTGCGGGTTAAATCTTTCCCTTCGTATCTTCTGAGGTACACAGTCCTACCATTACGACTTAGAC
CTTTTATATCTTTGTCGTACTGAATCCACCGTTGCGGTCTTAGATCTTTCCCTTCATGTCTTCAT
GACTGGATTCACT
Found at i:44273372 original size:18 final size:18
Alignment explanation
Indices: 44273346--44273399 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
44273336 CGACCTCTCC
44273346 TTTTCTTTTTCTTTTTTA
1 TTTTCTTTTTCTTTTTTA
* * *
44273364 TTTTGTTTTTGTTTTTTTC
1 TTTTCTTTTT-CTTTTTTA
44273383 TTCTTCTTTTTTCTTTT
1 TT-TTC-TTTTTCTTTT
44273400 CTTTTGTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 6 0.21
21 5 0.18
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTTA
Found at i:44278997 original size:29 final size:28
Alignment explanation
Indices: 44278904--44279007 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 28
44278894 GGATAACCGA
* * * *
44278904 GGGTAAAATGATAATTTT-AGACTCTCAG
1 GGGTAAAATGGTAATTTTGAAAGT-TTAG
*
44278932 GGGTAAAATGGTAATTTTGAAAGTTTTG
1 GGGTAAAATGGTAATTTTGAAAGTTTAG
*
44278960 GGATCAAAATTGG-AATTTTGAAAAGTTTAG
1 GGGT-AAAA-TGGTAATTTTG-AAAGTTTAG
44278990 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
44279008 TGTAGTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
28 25 0.40
29 24 0.38
30 14 0.22
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTGAAAGTTTAG
Found at i:44279009 original size:30 final size:30
Alignment explanation
Indices: 44278930--44279135 Score: 123
Period size: 30 Copynumber: 7.0 Consensus size: 30
44278920 TTAGACTCTC
44278930 AGGGGT-AAAATGGTAA-TTTTGAAAGTTT
1 AGGGGTCAAAATGGTAATTTTTGAAAGTTT
* *
44278958 TGGGATCAAAATTGG-AA-TTTTGAAAAGTTT
1 AGGGGTCAAAA-TGGTAATTTTTG-AAAGTTT
*
44278988 AGGGGT-AAAATGGTAATTTTTG-TAGTTTT
1 AGGGGTCAAAATGGTAATTTTTGAAAG-TTT
* * *
44279017 A-GGGTTAAAATAG-AATTTTTGGAAGTTT
1 AGGGGTCAAAATGGTAATTTTTGAAAGTTT
**
44279045 -GAGGGTCAAAAT-GTAAATTTTT-AAAAATT
1 AG-GGGTCAAAATGGT-AATTTTTGAAAGTTT
* * *
44279074 CGAGGGTCAAAAT-GTAATTTTTAGGAAGTTC
1 AG-GGGTCAAAATGGTAATTTTT-GAAAGTTT
* * *
44279105 GGGGGTCAAAAT-ATAATTTTTGGACAGTTT
1 AGGGGTCAAAATGGTAATTTTT-GAAAGTTT
44279135 A
1 A
44279136 AGGACCTCCA
Statistics
Matches: 141, Mismatches: 22, Indels: 28
0.74 0.12 0.15
Matches are distributed among these distances:
28 25 0.18
29 49 0.35
30 63 0.45
31 4 0.03
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
AGGGGTCAAAATGGTAATTTTTGAAAGTTT
Found at i:44279017 original size:29 final size:30
Alignment explanation
Indices: 44278930--44279066 Score: 112
Period size: 29 Copynumber: 4.7 Consensus size: 30
44278920 TTAGACTCTC
44278930 AGGGGTAAAATGGTAA-TTTTGAAAGTTTT
1 AGGGGTAAAATGGTAATTTTTGAAAGTTTT
*
44278959 -GGGATCAAAATTGG-AA-TTTTGAAAAG-TTT
1 AGGGGT-AAAA-TGGTAATTTTTG-AAAGTTTT
*
44278988 AGGGGTAAAATGGTAATTTTTG-TAGTTTT
1 AGGGGTAAAATGGTAATTTTTGAAAGTTTT
* * * *
44279017 AGGGTTAAAATAG-AATTTTTGGAAGTTTG
1 AGGGGTAAAATGGTAATTTTTGAAAGTTTT
44279046 A-GGGTCAAAAT-GTAAATTTTT
1 AGGGGT-AAAATGGT-AATTTTT
44279067 AAAAATTCGA
Statistics
Matches: 89, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
28 21 0.24
29 45 0.51
30 23 0.26
ACGTcount: A:0.34, C:0.01, G:0.26, T:0.39
Consensus pattern (30 bp):
AGGGGTAAAATGGTAATTTTTGAAAGTTTT
Found at i:44279033 original size:28 final size:30
Alignment explanation
Indices: 44278930--44279134 Score: 104
Period size: 29 Copynumber: 7.0 Consensus size: 30
44278920 TTAGACTCTC
* * *
44278930 AGGGGTAAAATGGTAA-TTTTGAAAGTTTT
1 AGGGTTAAAATAGTAATTTTTGGAAGTTTT
* * * *
44278959 -GGGATCAAAATTGGAA-TTTTGAAAAG-TTT
1 AGGG-TTAAAATAGTAATTTTTG-GAAGTTTT
* * *
44278988 AGGGGTAAAATGGTAATTTTT-GTAGTTTT
1 AGGGTTAAAATAGTAATTTTTGGAAGTTTT
*
44279017 AGGGTTAAAATAG-AATTTTTGGAAGTTTG
1 AGGGTTAAAATAGTAATTTTTGGAAGTTTT
* ** * **
44279046 AGGGTCAAAAT-GTAAATTTTTAAAAATTCG
1 AGGGTTAAAATAGT-AATTTTTGGAAGTTTT
* **
44279076 AGGGTCAAAAT-GTAATTTTTAGGAAGTTCG
1 AGGGTTAAAATAGTAATTTTT-GGAAGTTTT
* *
44279106 GGGGTCAAAATA-TAATTTTTGGACAGTTT
1 AGGGTTAAAATAGTAATTTTTGGA-AGTTT
44279135 AAGGACCTCC
Statistics
Matches: 141, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
28 13 0.09
29 64 0.45
30 64 0.45
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
AGGGTTAAAATAGTAATTTTTGGAAGTTTT
Found at i:44279037 original size:58 final size:58
Alignment explanation
Indices: 44278930--44279066 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 58
44278920 TTAGACTCTC
*
44278930 AGGGGTAAAATGGTAA-TTTTGAAAGTTTTGGGATCAAAATTGGAATTTTGAAAAGTTT
1 AGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGATCAAAATTAGAATTTTG-AAAGTTT
* * *
44278988 AGGGGTAAAATGGTAATTTTTG-TAGTTTTAGGG-TTAAAA-TAGAATTTTTGGAAGTTT
1 AGGGGTAAAATGGTAATTTTTGAAAGTTTT-GGGATCAAAATTAGAA-TTTTGAAAGTTT
44279045 -GAGGGTCAAAAT-GTAAATTTTT
1 AG-GGGT-AAAATGGT-AATTTTT
44279067 AAAAATTCGA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
56 1 0.01
57 16 0.23
58 44 0.64
59 8 0.12
ACGTcount: A:0.34, C:0.01, G:0.26, T:0.39
Consensus pattern (58 bp):
AGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGATCAAAATTAGAATTTTGAAAGTTT
Found at i:44281168 original size:11 final size:11
Alignment explanation
Indices: 44281152--44281177 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44281142 TAGACTTTTT
44281152 AATTCAATTTA
1 AATTCAATTTA
44281163 AATTCAATTTA
1 AATTCAATTTA
44281174 AATT
1 AATT
44281178 TAAACTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCAATTTA
Found at i:44281177 original size:6 final size:6
Alignment explanation
Indices: 44281157--44281204 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
44281147 TTTTTAATTC
* *
44281157 AATTTA AA-TTC AATTTA AATTTA AACTT- AATTTA AATTTA AACTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA-TTTA
44281204 A
1 A
44281205 CAGAAAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 8 0.23
6 22 0.63
7 5 0.14
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:44281179 original size:17 final size:17
Alignment explanation
Indices: 44281157--44281201 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
44281147 TTTTTAATTC
44281157 AATTTAAA-TTCAATTTA
1 AATTTAAACTT-AATTTA
44281174 AATTTAAACTTAATTTA
1 AATTTAAACTTAATTTA
44281191 AATTTAAACTT
1 AATTTAAACTT
44281202 TAACAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTAAACTTAATTTA
Found at i:44281235 original size:17 final size:17
Alignment explanation
Indices: 44281173--44281236 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
44281163 AATTCAATTT
* *
44281173 AAATTTAAACTTAATTT
1 AAATTTAAACTTAAATA
*
44281190 AAATTTAAACTTTAACAGA
1 AAATTTAAAC-TTAA-ATA
*
44281209 AAAGTTTAAACTTAAATC
1 AAA-TTTAAACTTAAATA
44281227 AAATTTAAAC
1 AAATTTAAAC
44281237 CCAAAATGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 17 0.44
18 8 0.21
19 7 0.18
20 7 0.18
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTTAAACTTAAATA
Found at i:44287315 original size:30 final size:30
Alignment explanation
Indices: 44287279--44287372 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 30
44287269 CGAGTAATAT
* * *
44287279 CACACAACAAATATATAGCACTGACAGAGA
1 CACACAACAAACATGTAGCACAGACAGAGA
* *
44287309 CACACAACAAGCATGTAGCACGGACAGAGA
1 CACACAACAAACATGTAGCACAGACAGAGA
*
44287339 CACACAAC-AACATGTAGCACAGACAAAGA
1 CACACAACAAACATGTAGCACAGACAGAGA
44287368 CACAC
1 CACAC
44287373 CGCAAGTGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 23 0.40
30 34 0.60
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (30 bp):
CACACAACAAACATGTAGCACAGACAGAGA
Found at i:44302018 original size:19 final size:19
Alignment explanation
Indices: 44301975--44302020 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44301965 TACAGAAACT
* *
44301975 TACTAACTGTCTCAACTAA
1 TACTAACTGCCTCAACCAA
*
44301994 TACTAACTGCCTTAACCAA
1 TACTAACTGCCTCAACCAA
*
44302013 TGCTAACT
1 TACTAACT
44302021 ACCTAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (19 bp):
TACTAACTGCCTCAACCAA
Found at i:44308562 original size:30 final size:30
Alignment explanation
Indices: 44308494--44308574 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
44308484 AAAATTTAAA
*
44308494 TTAATAAA-AATAAAATTATACTTTAATTTT
1 TTAA-AAATAATAAAATTATACTTTAATTCT
*
44308524 TCTAAAAATAATAAAATTTTGA-TTTAATTCT
1 T-TAAAAATAATAAAATTAT-ACTTTAATTCT
*
44308555 TTAAAAATTATAAAATTATA
1 TTAAAAATAATAAAATTATA
44308575 AACTATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 1 0.02
30 20 0.45
31 22 0.50
32 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (30 bp):
TTAAAAATAATAAAATTATACTTTAATTCT
Found at i:44313013 original size:3 final size:3
Alignment explanation
Indices: 44313005--44313033 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44312995 TTGATAATCT
44313005 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
44313034 CTTGGTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:44313652 original size:3 final size:3
Alignment explanation
Indices: 44313637--44313671 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
44313627 AAGCTGAGAA
*
44313637 TCC TCC ACC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
44313672 ATCATCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.66, G:0.00, T:0.31
Consensus pattern (3 bp):
TCC
Found at i:44319124 original size:18 final size:19
Alignment explanation
Indices: 44319101--44319142 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
44319091 TGTATAAGGA
*
44319101 TGAAATTG-AGATCAATTT
1 TGAAATTGAAGATCAAATT
*
44319119 TGAAATTGAAGCTCAAATT
1 TGAAATTGAAGATCAAATT
44319138 TGAAA
1 TGAAA
44319143 GTTATGGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (19 bp):
TGAAATTGAAGATCAAATT
Found at i:44319417 original size:21 final size:21
Alignment explanation
Indices: 44319393--44319456 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
44319383 CATATGGTAA
44319393 TTATTTTCAAATCATTAAATG
1 TTATTTTCAAATCATTAAATG
*
44319414 TTATATTGT-GAATC--TAAA--
1 TTAT-TT-TCAAATCATTAAATG
44319432 TTATTTTCAAATCATTAAATG
1 TTATTTTCAAATCATTAAATG
44319453 TTAT
1 TTAT
44319457 ATTGTGAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 4 0.12
19 4 0.12
20 4 0.12
21 8 0.24
22 6 0.18
23 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (21 bp):
TTATTTTCAAATCATTAAATG
Found at i:44319420 original size:23 final size:23
Alignment explanation
Indices: 44319394--44319459 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
44319384 ATATGGTAAT
44319394 TATTTTCAAATCATTAAATGTTA
1 TATTTTCAAATCATTAAATGTTA
* *
44319417 TATTGT-GAATC--TAAA---T-
1 TATTTTCAAATCATTAAATGTTA
44319433 TATTTTCAAATCATTAAATGTTA
1 TATTTTCAAATCATTAAATGTTA
44319456 TATT
1 TATT
44319460 GTGAATCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
16 5 0.16
17 5 0.16
19 4 0.12
20 4 0.12
22 5 0.16
23 9 0.28
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (23 bp):
TATTTTCAAATCATTAAATGTTA
Found at i:44319445 original size:39 final size:39
Alignment explanation
Indices: 44319391--44319468 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
44319381 TTCATATGGT
44319391 AATTATTTTCAAATCATTAAATGTTATATTGTGAATCTA
1 AATTATTTTCAAATCATTAAATGTTATATTGTGAATCTA
44319430 AATTATTTTCAAATCATTAAATGTTATATTGTGAATCTA
1 AATTATTTTCAAATCATTAAATGTTATATTGTGAATCTA
44319469 TGTATGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (39 bp):
AATTATTTTCAAATCATTAAATGTTATATTGTGAATCTA
Found at i:44319842 original size:70 final size:69
Alignment explanation
Indices: 44319728--44319879 Score: 187
Period size: 70 Copynumber: 2.2 Consensus size: 69
44319718 GCTCGGACGA
* * *
44319728 GTAACCTTACATGTATATACATCTTTGGCCAAGCTATTTAATGTGCCAATAAAGGCCAAGCCCAG
1 GTAACCTGACATGTACATACAGCTTTGGCCAAGCTATTTAATGTGCCAATAAAGGCCAAGCCCAG
44319793 ACAG
66 ACAG
* * * * *** *
44319797 GTAACCTGACTTGTACATTACAGCTTTGGCCAAGCTATTTGATGTGTCGATAAAGGTTTAGCCCG
1 GTAACCTGACATGTACA-TACAGCTTTGGCCAAGCTATTTAATGTGCCAATAAAGGCCAAGCCCA
*
44319862 GACGG
65 GACAG
44319867 GTAACCTGACATG
1 GTAACCTGACATG
44319880 ATTATATGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
69 14 0.20
70 55 0.80
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (69 bp):
GTAACCTGACATGTACATACAGCTTTGGCCAAGCTATTTAATGTGCCAATAAAGGCCAAGCCCAG
ACAG
Found at i:44327443 original size:30 final size:32
Alignment explanation
Indices: 44327390--44327478 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 32
44327380 ATTTTAAATT
*
44327390 AATAAAAATAAAATTATACTTTAA-CATTTATAA
1 AATAATAA-AAAATTATACTTTAATCATTTA-AA
*
44327423 AATAATAAAAAATTA-A-TTTAATCTTTTAAA
1 AATAATAAAAAATTATACTTTAATCATTTAAA
* *
44327453 AATTATAAAAATATTGATAATTTAAT
1 AATAATAAAAA-ATT-ATACTTTAAT
44327479 TTCGACCATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 17 0.35
31 9 0.19
32 8 0.17
33 8 0.17
34 6 0.12
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (32 bp):
AATAATAAAAAATTATACTTTAATCATTTAAA
Found at i:44328438 original size:26 final size:26
Alignment explanation
Indices: 44328409--44328462 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
44328399 TTGACCCACT
*
44328409 TAATTTAAAAGAGATTTAATTGTTTA
1 TAATTTAAAAAAGATTTAATTGTTTA
44328435 TAATTTAAAAAAGATTTAATTGTTTA
1 TAATTTAAAAAAGATTTAATTGTTTA
44328461 TA
1 TA
44328463 GTCTTGTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.46
Consensus pattern (26 bp):
TAATTTAAAAAAGATTTAATTGTTTA
Found at i:44331221 original size:2 final size:2
Alignment explanation
Indices: 44331214--44331244 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
44331204 TAATTTATGA
*
44331214 CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
44331245 AAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:44332902 original size:27 final size:27
Alignment explanation
Indices: 44332850--44332902 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
44332840 TCTTCTTCTT
* *
44332850 CTTCTCCTCCTTGTTCTTGTTGTTGTC
1 CTTCTCCTCCTCGTTCTTGTTATTGTC
*
44332877 CTTCTTCTCCTCGTTCTT-TGTATTGT
1 CTTCTCCTCCTCGTTCTTGT-TATTGT
44332903 AAGCAGTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.02, C:0.28, G:0.13, T:0.57
Consensus pattern (27 bp):
CTTCTCCTCCTCGTTCTTGTTATTGTC
Found at i:44345841 original size:17 final size:17
Alignment explanation
Indices: 44345819--44345854 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
44345809 TCCAAAACAC
44345819 AGGCCACTAGCCAGAGT
1 AGGCCACTAGCCAGAGT
44345836 AGGCCACTAGCCAGAGT
1 AGGCCACTAGCCAGAGT
44345853 AG
1 AG
44345855 AGAGAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.31, T:0.11
Consensus pattern (17 bp):
AGGCCACTAGCCAGAGT
Found at i:44352146 original size:72 final size:72
Alignment explanation
Indices: 44352065--44352201 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 72
44352055 TATTATTACA
* ** *
44352065 ATGACTTTATTTAAACGAGATGTTAAAATTTAAATCGTCTGATAGATTTCGAATCAATTCACTTC
1 ATGACTTTATCTAAACGAGATGACAAAATTTAAATCATCTGATAGATTTCGAATCAATTCACTTC
44352130 TATTAGG
66 TATTAGG
* *
44352137 ATGATTTTATCTAAACGAGATGACAAAATTTAAATCATTTGATAGATTTCGAATCAATTCACTTC
1 ATGACTTTATCTAAACGAGATGACAAAATTTAAATCATCTGATAGATTTCGAATCAATTCACTTC
44352202 AAATGGAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (72 bp):
ATGACTTTATCTAAACGAGATGACAAAATTTAAATCATCTGATAGATTTCGAATCAATTCACTTC
TATTAGG
Found at i:44359343 original size:4 final size:4
Alignment explanation
Indices: 44359330--44359378 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
44359320 TATTATTTAT
* *
44359330 TTAA TCAA TTAA TTGAA TTAA TTGAA TTAA TTAAA TTAA TTAA ATAA TT
1 TTAA TTAA TTAA TT-AA TTAA TT-AA TTAA TT-AA TTAA TTAA TTAA TT
44359379 TTTTTAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 26 0.68
5 12 0.32
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (4 bp):
TTAA
Found at i:44359361 original size:13 final size:12
Alignment explanation
Indices: 44359330--44359378 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
44359320 TATTATTTAT
*
44359330 TTAATCAATTAA
1 TTAATTAATTAA
44359342 TTGAATTAATTGAA
1 TT-AATTAATT-AA
44359356 TTAATTAAATTAA
1 TTAATT-AATTAA
*
44359369 TTAAATAATT
1 TTAATTAATT
44359379 TTTTTAATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 6 0.19
13 18 0.56
14 8 0.25
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (12 bp):
TTAATTAATTAA
Found at i:44359371 original size:9 final size:9
Alignment explanation
Indices: 44359336--44359378 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
44359326 TTATTTAATC
*
44359336 AATTAATTG
1 AATTAATTA
*
44359345 AATTAATTG
1 AATTAATTA
44359354 AATTAATTA
1 AATTAATTA
44359363 AATTAATTA
1 AATTAATTA
44359372 AA-TAATT
1 AATTAATT
44359379 TTTTTAATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 5 0.15
9 28 0.85
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:44360138 original size:24 final size:24
Alignment explanation
Indices: 44360104--44360151 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44360094 ATGGATGTTC
* *
44360104 AACCTTTCATCTTCATTGACCTTT
1 AACCTTCCATCTTCATTAACCTTT
*
44360128 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTTCATTAACCTTT
44360152 CATATTCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.02, T:0.46
Consensus pattern (24 bp):
AACCTTCCATCTTCATTAACCTTT
Found at i:44360144 original size:17 final size:17
Alignment explanation
Indices: 44360124--44360165 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
44360114 CTTCATTGAC
*
44360124 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
44360141 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
44360158 CTTATAAC
1 CTT-TAAC
44360166 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:44362611 original size:24 final size:24
Alignment explanation
Indices: 44362582--44362632 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
44362572 AGAAATAATC
44362582 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
44362606 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
44362630 TTT
1 TTT
44362633 GAGTCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:44362641 original size:24 final size:24
Alignment explanation
Indices: 44362582--44362644 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
44362572 AGAAATAATC
*
44362582 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATCAAACTCTGTTTATTTG
* *
44362606 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATCAAACTCTGTTTATTTG
* *
44362630 TTTGAGTCAAACTCT
1 TTTCAATCAAACTCT
44362645 TATTACTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTCAATCAAACTCTGTTTATTTG
Found at i:44365900 original size:3 final size:3
Alignment explanation
Indices: 44365892--44365934 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
44365882 ATTAAATGAT
** *
44365892 TAA TAA TAA TAA TAA TAA TTT TAA TAT TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
44365935 AAAAGAAGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:44366217 original size:29 final size:29
Alignment explanation
Indices: 44366142--44366255 Score: 140
Period size: 30 Copynumber: 3.8 Consensus size: 29
44366132 CAGAAAGTCA
*
44366142 CTAAACTATTTAAAAATTATATTTTAACCC
1 CTAAACT-TTTAAAAATTACATTTTAACCC
44366172 CTAAACTTTCTAAAAATTACATTTTAACCC
1 CTAAACTTT-TAAAAATTACATTTTAACCC
* * *
44366202 TTAAACTTTTTAAAATTACATTTT-GCCC
1 CTAAACTTTTAAAAATTACATTTTAACCC
*
44366230 CTAAACTTTCCAAAAAATTACATTTT
1 CTAAACTTT--TAAAAATTACATTTT
44366256 TATCATCGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 11 0.15
29 16 0.22
30 47 0.64
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.40
Consensus pattern (29 bp):
CTAAACTTTTAAAAATTACATTTTAACCC
Found at i:44366268 original size:59 final size:60
Alignment explanation
Indices: 44366145--44366434 Score: 213
Period size: 59 Copynumber: 4.9 Consensus size: 60
44366135 AAAGTCACTA
* * * * * **
44366145 AACTATTTAAAAATTA-TATTTTAACCCCTAAACTTTCTAAAAATTACATTTTAACCCTTA
1 AACT-TTTAAAAATTACCATTTTAACCCCTAAACTTCCAAAAAATTACATTTTTACCATCG
* * *
44366205 AACTTTTTAAAATTA-CATTTT-GCCCCTAAACTTTCCAAAAAATTACATTTTTATCATCG
1 AACTTTTAAAAATTACCATTTTAACCCCTAAAC-TTCCAAAAAATTACATTTTTACCATCG
* * * * * * *
44366264 AACTTTCAAAACTTACCATTTTAGCCTC-GAACTTCCAAAAAATTACATTTTTGCCTTCG
1 AACTTTTAAAAATTACCATTTTAACCCCTAAACTTCCAAAAAATTACATTTTTACCATCG
** * * * *
44366323 AACTTCCAAAAATTACCATTTT-ACCCCTCAAACTTCC-AAAAGTCACATTTTTGTCC-CCG
1 AACTTTTAAAAATTACCATTTTAACCCCT-AAACTTCCAAAAAATTACATTTTT-ACCATCG
* * *
44366382 -AGTGTTCAAAAATTACCATTTT-A-CCCTCGAACTTCCAAAAAAATTACATTTTT
1 AACT-TTTAAAAATTACCATTTTAACCCCT-AAACTTCC-AAAAAATTACATTTTT
44366435 GCCCCTGAGT
Statistics
Matches: 189, Mismatches: 32, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
58 26 0.14
59 124 0.66
60 35 0.19
61 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (60 bp):
AACTTTTAAAAATTACCATTTTAACCCCTAAACTTCCAAAAAATTACATTTTTACCATCG
Found at i:44366274 original size:30 final size:31
Alignment explanation
Indices: 44366233--44366522 Score: 125
Period size: 29 Copynumber: 9.7 Consensus size: 31
44366223 TTTGCCCCTA
*
44366233 AACTTTCCAAAAAATTA-CATTTTTATCATCG
1 AACTTT-CAAAAAATTACCATTTTTACCATCG
*
44366264 AACTTTC-AAAACTTACCA-TTTTAGCC-TCG
1 AACTTTCAAAAAATTACCATTTTTA-CCATCG
* * *
44366293 AACTTCCAAAAAATTA-CATTTTTGCCTTCG
1 AACTTTCAAAAAATTACCATTTTTACCATCG
* * *
44366323 AAC-TTCCAAAAATTACCA-TTTTACCCCTCA
1 AACTTTCAAAAAATTACCATTTTTA-CCATCG
* * * * *
44366353 AAC-TTCCAAAAGTCA-CATTTTTGTCC-CCG
1 AACTTTCAAAAAATTACCATTTTT-ACCATCG
* *
44366382 -AGTGTTC-AAAAATTACCA-TTTTACCCTCG
1 AACT-TTCAAAAAATTACCATTTTTACCATCG
* * *
44366411 AACTTCCAAAAAAATTA-CATTTTTGCC-CCTG
1 AACTTTC-AAAAAATTACCATTTTTACCATC-G
* **
44366442 -AGTGTTC-AAAAATTACCATTTTTACCCCCG
1 AACT-TTCAAAAAATTACCATTTTTACCATCG
* * * * *
44366472 AACTTT-TAAAAATTACC-GTTTTGCCTTCA
1 AACTTTCAAAAAATTACCATTTTTACCATCG
*
44366501 AACTTTC-AAAAATCACCATTTT
1 AACTTTCAAAAAATTACCATTTT
44366523 ACCCCCGAGC
Statistics
Matches: 199, Mismatches: 35, Indels: 51
0.70 0.12 0.18
Matches are distributed among these distances:
28 3 0.02
29 86 0.43
30 83 0.42
31 27 0.14
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (31 bp):
AACTTTCAAAAAATTACCATTTTTACCATCG
Found at i:44366512 original size:59 final size:58
Alignment explanation
Indices: 44366183--44366541 Score: 285
Period size: 59 Copynumber: 6.1 Consensus size: 58
44366173 TAAACTTTCT
** * ** * **
44366183 AAAAATTACATTTTAACCCTTAAACTTTTTAAAATTA-CATTTTGCCCCTAAACTTTCCA
1 AAAAATTACATTTT-TGCCTCAAACTTTCAAAAATTACCATTTTACCCCCGAAC-TTCCA
* * * * * *
44366242 AAAAATTACATTTTTATCATCGAACTTTCAAAACTTACCATTTTAGCCTCGAACTTCCA
1 AAAAATTACATTTTT-GCCTCAAACTTTCAAAAATTACCATTTTACCCCCGAACTTCCA
* * *
44366301 AAAAATTACATTTTTGCCTTCGAACTTCCAAAAATTACCATTTTACCCCTCAAACTTCC-
1 AAAAATTACATTTTTGCC-TCAAACTTTCAAAAATTACCATTTTACCCC-CGAACTTCCA
* * ** * *
44366360 AAAAGTCACATTTTTGTCC-CCGAGTGTTCAAAAATTACCATTTTACCCTCGAACTTCCAA
1 AAAAATTACATTTTTG-CCTCAAACT-TTCAAAAATTACCATTTTACCCCCGAACTTCC-A
* ** * **
44366420 AAAAATTACATTTTTGCCCCTGAGTGTTCAAAAATTACCATTTTTACCCCCGAACTT-TT
1 AAAAATTACATTTTTGCCTCAAACT-TTCAAAAATTACCA-TTTTACCCCCGAACTTCCA
** * * *
44366479 AAAAATTACCGTTTTGCCTTCAAACTTTCAAAAATCACCATTTTACCCCCGAGCATCCA
1 AAAAATTACATTTTTGCC-TCAAACTTTCAAAAATTACCATTTTACCCCCGAACTTCCA
44366538 AAAA
1 AAAA
44366542 TCGTATTTTT
Statistics
Matches: 243, Mismatches: 45, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
58 26 0.11
59 144 0.59
60 58 0.24
61 15 0.06
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.34
Consensus pattern (58 bp):
AAAAATTACATTTTTGCCTCAAACTTTCAAAAATTACCATTTTACCCCCGAACTTCCA
Found at i:44368882 original size:9 final size:9
Alignment explanation
Indices: 44368868--44368901 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
44368858 TTATTTAATC
*
44368868 AATTAATTG
1 AATTAATTA
44368877 AATTAATTA
1 AATTAATTA
44368886 AATTAATTA
1 AATTAATTA
44368895 AA-TAATT
1 AATTAATT
44368902 TTTTAATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 5 0.21
9 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:44375421 original size:62 final size:63
Alignment explanation
Indices: 44375331--44375460 Score: 165
Period size: 62 Copynumber: 2.1 Consensus size: 63
44375321 CGAGGTTGGT
* * * * *
44375331 TTCAGTTCGCATTTGGTAACTCACGATGACACGGAGTCATTGGACCTT-TAATCCGTAATAGGA
1 TTCATTTCGCATTTGATAACTCACGATGACACAGAGTCATCGGACCTTATAATCCG-AAAAGGA
* * *
44375394 TTCATTTCTCATTTGAT-ACTCACGATGACACATAGTCATCGGGCCTTATAATCCGAAAAGGA
1 TTCATTTCGCATTTGATAACTCACGATGACACAGAGTCATCGGACCTTATAATCCGAAAAGGA
44375456 TTCAT
1 TTCAT
44375461 ATGCTCACGA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
62 37 0.64
63 21 0.36
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (63 bp):
TTCATTTCGCATTTGATAACTCACGATGACACAGAGTCATCGGACCTTATAATCCGAAAAGGA
Found at i:44375497 original size:52 final size:52
Alignment explanation
Indices: 44375409--44375595 Score: 284
Period size: 52 Copynumber: 3.6 Consensus size: 52
44375399 TTCTCATTTG
* * *
44375409 ATACTCACGATGACACATAGTCATCGGGCCTTATAATCCGAAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
44375461 ATGCTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
** * *
44375513 ATACTCACGATGACACATAGTCATCAAACCTCATAATTCTTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
44375565 ATACTCACGATGACACATAGTTATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
44375596 TTTGCATTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:44384558 original size:69 final size:69
Alignment explanation
Indices: 44384422--44384553 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 69
44384412 TCTGAATAAA
* * ** *
44384422 AAAAGATAAAATTACGTCGTTTGAATAAATATTTACCTTTTCTAAAATTAAAAGTCAAATCATTA
1 AAAAGATAAAATTACATCGTTTGAATAAATATTTACCTTATCTAAAATTAAAAGAAAAAACATTA
44384487 AATT
66 AATT
* *
44384491 AAAAGATAAAATTATATCGTTTTAATAAATATTTACC-TAT-T-AAATTAAAAGAAAAAACTATT
1 AAAAGATAAAATTACATCGTTTGAATAAATATTTACCTTATCTAAAATTAAAAGAAAAAAC-ATT
44384553 A
65 A
44384554 TAAATATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 14 0.25
67 5 0.09
68 2 0.04
69 34 0.62
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (69 bp):
AAAAGATAAAATTACATCGTTTGAATAAATATTTACCTTATCTAAAATTAAAAGAAAAAACATTA
AATT
Found at i:44386942 original size:59 final size:57
Alignment explanation
Indices: 44386817--44387007 Score: 190
Period size: 59 Copynumber: 3.2 Consensus size: 57
44386807 AAAAAAAAAT
* ** **
44386817 GGTGTTGGCCATTGCAT-GCCGACACCCCTTTGAATTTGATAAAAAAATCAAATTTTTG
1 GGTGTTGGTCA-TGCATGGCCGACACCCCTTTTTATCAGATAAAAAAATCAAA-TTTTG
* *
44386875 GGTATTGGTCATGCAATGGCCGACACCTCCTTTTTGTCAGATAAAAAAATTTCAAA-TTT-
1 GGTGTTGGTCATGC-ATGGCCGACACC-CCTTTTTATCAGATAAAAAAA--TCAAATTTTG
* **
44386934 GGTGTTGGTCATTGCATGGCCGTCACCCCTTTTTATTTGAATAAAAAAATCAAATTTTTG
1 GGTGTTGGTCA-TGCATGGCCGACACCCCTTTTTATCAG-ATAAAAAAATCAAA-TTTTG
44386994 GGTGTTGGTCATGC
1 GGTGTTGGTCATGC
44387008 CCTTTTTGTC
Statistics
Matches: 111, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
57 8 0.07
58 20 0.18
59 45 0.41
60 33 0.30
62 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (57 bp):
GGTGTTGGTCATGCATGGCCGACACCCCTTTTTATCAGATAAAAAAATCAAATTTTG
Found at i:44387420 original size:14 final size:14
Alignment explanation
Indices: 44387403--44387429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44387393 ATTTCGAATT
44387403 TCGAATTATTCGAA
1 TCGAATTATTCGAA
44387417 TCGAATTATTCGA
1 TCGAATTATTCGA
44387430 GTTAAACGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
TCGAATTATTCGAA
Found at i:44387780 original size:58 final size:58
Alignment explanation
Indices: 44387666--44387785 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 58
44387656 ACCCATCAAC
* *
44387666 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTATTCAAAAATACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTCAAAAACACTCAT
* *
44387724 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCT-AAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTCAAA-AACACTCAT
44387782 AAAC
1 AAAC
44387786 AACTCTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTCAAAAACACTCAT
Found at i:44392282 original size:72 final size:72
Alignment explanation
Indices: 44392176--44392697 Score: 338
Period size: 81 Copynumber: 6.5 Consensus size: 72
44392166 ATTATTTAAA
* * * *
44392176 TAAA-AAAGATTATTATTATATTTCAATTTATATCAAATATTGTGTTCATTTGACAAT-C-AAAT
1 TAAATAAA-ATTATTATTATATTACAATTTTTATCAAATAATGT-TTGATTTGACAATACTAAAT
**
44392238 TTTCATATT
64 TTAAATATT
*
44392247 TAAATTACAATTATTATTATATTACAATTTTTATCAAATAATGTTTGATTTGATAATACATTATT
1 TAAA-TAAAATTATTATTATATTACAATTTTTATCAAATAATGTTTGATTTG-----ACA--A--
44392312 TACTAAATTTAAATATT
56 TACTAAATTTAAATATT
*
44392329 TAAATAAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTTGACAATACATTATT
1 TAAATAAAATTATTATTATATTACAATTTTTATCAAATAATGT-TTGATTTG-----ACA--A--
44392394 TACTAAATTTAAATATT
56 TACTAAATTTAAATATT
** *
44392411 TTGATAAAAATTATTATTATA-TACAA-TTTTATCAAATAATGTATTGATTTGATAATATATTAT
1 TAAAT-AAAATTATTATTATATTACAATTTTTATCAAATAATGT-TTGATTTG-----ACA--A-
44392474 TTACTAAATTTAAATATT
56 -TACTAAATTTAAATATT
** *
44392492 TTGATAAAAATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTAT
1 TAAAT-AAAATTATTATTATATTACAATTTTTATCAAATAATGT-TTGATTTG-----ACA--A-
44392557 TTACTAAATTTAAATATTT
56 -TACTAAATTTAAATA-TT
44392576 TGATAA-AAAATTATTTATTATA-TACAATTTTTATCAAATAATGTATTGATTTGACAATACATT
1 T-A-AATAAAATTA-TTATTATATTACAATTTTTATCAAATAATGT-TTGATTTGAC---A-A-T
44392639 ACTTACTAATTTTAAATATT
57 AC-TA--AA-TTTAAATATT
44392659 TAAATAAAAATTATTATTATATTACAATTTTTATCAAAT
1 TAAAT-AAAATTATTATTATATTACAATTTTTATCAAAT
44392698 TTTAAATTTA
Statistics
Matches: 396, Mismatches: 24, Indels: 50
0.84 0.05 0.11
Matches are distributed among these distances:
71 11 0.03
72 32 0.08
73 2 0.01
76 3 0.01
78 1 0.00
79 2 0.01
80 5 0.01
81 117 0.30
82 73 0.18
83 94 0.24
84 47 0.12
85 8 0.02
86 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (72 bp):
TAAATAAAATTATTATTATATTACAATTTTTATCAAATAATGTTTGATTTGACAATACTAAATTT
AAATATT
Found at i:44392527 original size:164 final size:166
Alignment explanation
Indices: 44392255--44392697 Score: 768
Period size: 164 Copynumber: 2.7 Consensus size: 166
44392245 TTTAAATTAC
44392255 AATTATTATTATATTACAATTTTTATCAAATAATGT-TTGATTTGATAATACATTATTTACTAAA
1 AATTATTATTATA-TACAATTTTTATCAAATAATGTATTGATTTGATAATACATTATTTACTAAA
44392319 TTTAAATATTTAAAT-AAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTTGAC
65 TTTAAATATTTAAATAAAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTTGAC
44392383 AATACATTATTTACTAAATTTAAATATTTTGAT-AAA
130 AATACATTATTTACTAAATTTAAATATTTTGATAAAA
*
44392419 AATTATTATTATATACAA-TTTTATCAAATAATGTATTGATTTGATAATATATTATTTACTAAAT
1 AATTATTATTATATACAATTTTTATCAAATAATGTATTGATTTGATAATACATTATTTACTAAAT
** *
44392483 TTAAATATTTTGATAAAAATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACA
66 TTAAATATTTAAATAAAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTTGACA
44392548 ATACATTATTTACTAAATTTAAATATTTTGATAAAA
131 ATACATTATTTACTAAATTTAAATATTTTGATAAAA
* * *
44392584 AATTATTTATTATATACAATTTTTATCAAATAATGTATTGATTTGACAATACATTACTTACTAAT
1 AATTA-TTATTATATACAATTTTTATCAAATAATGTATTGATTTGATAATACATTATTTACTAAA
*
44392649 TTTAAATATTTAAATAAAAATTATTATTATATTACAATTTTTATCAAAT
65 TTTAAATATTTAAATAAAAATTATTATTATATTATAATTTTTATCAAAT
44392698 TTTAAATTTA
Statistics
Matches: 263, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
162 16 0.06
163 45 0.17
164 94 0.36
165 8 0.03
166 13 0.05
167 87 0.33
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (166 bp):
AATTATTATTATATACAATTTTTATCAAATAATGTATTGATTTGATAATACATTATTTACTAAAT
TTAAATATTTAAATAAAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTTGACA
ATACATTATTTACTAAATTTAAATATTTTGATAAAA
Found at i:44392571 original size:83 final size:83
Alignment explanation
Indices: 44392255--44392697 Score: 725
Period size: 81 Copynumber: 5.4 Consensus size: 83
44392245 TTTAAATTAC
*
44392255 AATTATTATTATATTACAATTTTTATCAAATAATGT-TTGATTTGATAATACATTATTTACTAAA
1 AATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAAA
**
44392319 TTTAAATATTTAAAT-AA
66 TTTAAATATTTTGATAAA
*
44392336 AATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAAA
1 AATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAAA
44392401 TTTAAATATTTTGATAAA
66 TTTAAATATTTTGATAAA
* *
44392419 AATTATTATTATA-TACAA-TTTTATCAAATAATGTATTGATTTGATAATATATTATTTACTAAA
1 AATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAAA
44392482 TTTAAATATTTTGATAAA
66 TTTAAATATTTTGATAAA
* *
44392500 AATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACTAAA
1 AATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAAA
44392565 TTTAAATATTTTGATAAAA
66 TTTAAATATTTTGAT-AAA
*
44392584 AATTATTTATTATA-TACAATTTTTATCAAATAATGTATTGATTTGACAATACATTACTTACTAA
1 AATTA-TTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAA
* **
44392648 TTTTAAATATTTAAATAAA
65 ATTTAAATATTTTGATAAA
44392667 AATTATTATTATATTACAATTTTTATCAAAT
1 AATTATTATTATATTACAATTTTTATCAAAT
44392698 TTTAAATTTA
Statistics
Matches: 338, Mismatches: 17, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
81 109 0.32
82 56 0.17
83 97 0.29
84 68 0.20
85 8 0.02
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (83 bp):
AATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTACTAAA
TTTAAATATTTTGATAAA
Found at i:44394240 original size:19 final size:19
Alignment explanation
Indices: 44394196--44394232 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44394186 ATACATTTTA
*
44394196 ATAAAAAAATTTAGAATAT
1 ATAAAAAAATTTAAAATAT
44394215 ATAAAAAAA-TTAAAATAT
1 ATAAAAAAATTTAAAATAT
44394233 TCTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAAAATTTAAAATAT
Found at i:44394453 original size:7 final size:8
Alignment explanation
Indices: 44394434--44394459 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
44394424 TTATTAATTT
44394434 TTTTTGAA
1 TTTTTGAA
44394442 TTTTTGAA
1 TTTTTGAA
44394450 TTTTTGAA
1 TTTTTGAA
44394458 TT
1 TT
44394460 CTTTATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTTTGAA
Found at i:44394929 original size:35 final size:35
Alignment explanation
Indices: 44394875--44394968 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 35
44394865 ACATGTAAAG
* *
44394875 CTCGCAACTTTGATAAGCTCGCTTCCTTGAATGAA
1 CTCGCAACTTTGATGAGCTCGCATCCTTGAATGAA
* * *
44394910 CTTGCAACTTTGATGAGCTCGCATCCTTGAGTGAG
1 CTCGCAACTTTGATGAGCTCGCATCCTTGAATGAA
44394945 CTCGCAACTTTGAATGAGCTCGCA
1 CTCGCAACTTTG-ATGAGCTCGCA
44394969 GATGTAGAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 41 0.79
36 11 0.21
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (35 bp):
CTCGCAACTTTGATGAGCTCGCATCCTTGAATGAA
Found at i:44394946 original size:18 final size:18
Alignment explanation
Indices: 44394873--44394968 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
44394863 TCACATGTAA
* *
44394873 AGCTCGCAACTTTG-ATA
1 AGCTCGCAACCTTGAATG
**
44394890 AGCTCGCTTCCTTGAATG
1 AGCTCGCAACCTTGAATG
* * *
44394908 AACTTGCAACTTTG-ATG
1 AGCTCGCAACCTTGAATG
* *
44394925 AGCTCGCATCCTTGAGTG
1 AGCTCGCAACCTTGAATG
*
44394943 AGCTCGCAACTTTGAATG
1 AGCTCGCAACCTTGAATG
44394961 AGCTCGCA
1 AGCTCGCA
44394969 GATGTAGAGC
Statistics
Matches: 60, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
17 24 0.40
18 36 0.60
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (18 bp):
AGCTCGCAACCTTGAATG
Found at i:44401462 original size:23 final size:23
Alignment explanation
Indices: 44401435--44401481 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
44401425 AATTGAGCTT
44401435 GGTTTGGTCGATGTTTCCTATTG
1 GGTTTGGTCGATGTTTCCTATTG
44401458 GGTTTGGTCGATGTTTCCTATTG
1 GGTTTGGTCGATGTTTCCTATTG
44401481 G
1 G
44401482 CTGATCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.13, G:0.32, T:0.47
Consensus pattern (23 bp):
GGTTTGGTCGATGTTTCCTATTG
Found at i:44406282 original size:44 final size:44
Alignment explanation
Indices: 44406232--44406321 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
44406222 TCTTGCAATC
44406232 ATAACCCGATCAAAGATAATTTAGCTTATGAAATAATGCCATGT
1 ATAACCCGATCAAAGATAATTTAGCTTATGAAATAATGCCATGT
*
44406276 ATAACCCGATCAAAGATAATTTAGCTTATGAAATAATGTCATGT
1 ATAACCCGATCAAAGATAATTTAGCTTATGAAATAATGCCATGT
44406320 AT
1 AT
44406322 TACTATAATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (44 bp):
ATAACCCGATCAAAGATAATTTAGCTTATGAAATAATGCCATGT
Found at i:44411487 original size:13 final size:13
Alignment explanation
Indices: 44411469--44411493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44411459 TACAAATGAA
44411469 AACTCACTGATTG
1 AACTCACTGATTG
44411482 AACTCACTGATT
1 AACTCACTGATT
44411494 ATCCAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (13 bp):
AACTCACTGATTG
Found at i:44412202 original size:20 final size:21
Alignment explanation
Indices: 44412168--44412219 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
44412158 TTCTAAATAT
44412168 TATAA-CAAAATCAGCTATGA
1 TATAATCAAAATCAGCTATGA
* *
44412188 TATAATTAAAA-CAGCTCTGA
1 TATAATCAAAATCAGCTATGA
44412208 TATAATCAAAAT
1 TATAATCAAAAT
44412220 ATATAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (21 bp):
TATAATCAAAATCAGCTATGA
Found at i:44416814 original size:24 final size:24
Alignment explanation
Indices: 44416786--44416832 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
44416776 TTTATGTTAT
* * *
44416786 TTTTTATTTTTTTATATTTTTTTG
1 TTTTTATATGTTTATAATTTTTTG
44416810 TTTTTATATGTTTATAATTTTTT
1 TTTTTATATGTTTATAATTTTTT
44416833 AATTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTATATGTTTATAATTTTTTG
Found at i:44418940 original size:18 final size:18
Alignment explanation
Indices: 44418917--44418953 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44418907 GCTAAAATTT
44418917 ATTTTAATATTT-TTATGC
1 ATTTTAAT-TTTATTATGC
44418935 ATTTTAATTTTATTATGC
1 ATTTTAATTTTATTATGC
44418953 A
1 A
44418954 CACTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTAATTTTATTATGC
Found at i:44419390 original size:25 final size:25
Alignment explanation
Indices: 44419355--44419430 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
44419345 TATTTATTAT
*
44419355 TAATTAATATTATAATATAATAATA
1 TAATTATTATTATAATATAATAATA
* *
44419380 TAATTATTATT-TAAT-TAGTATTA
1 TAATTATTATTATAATATAATAATA
*
44419403 T-ATTATTATTATAACATATATATATA
1 TAATTATTATTATAATATA-ATA-ATA
44419429 TA
1 TA
44419431 TATATGTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 9 0.22
23 10 0.25
24 6 0.15
25 12 0.30
26 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (25 bp):
TAATTATTATTATAATATAATAATA
Found at i:44419413 original size:11 final size:11
Alignment explanation
Indices: 44419344--44419415 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
44419334 CTTGATTTTT
44419344 TTAT-TTATTA
1 TTATATTATTA
*
44419354 TTA-ATTAATA
1 TTATATTATTA
*
44419364 TTATAATATAATA
1 TTAT-AT-TATTA
*
44419377 ATATAATTATTA
1 TTAT-ATTATTA
*
44419389 TT-TAATTAGTA
1 TTAT-ATTATTA
44419400 TTATATTATTA
1 TTATATTATTA
44419411 TTATA
1 TTATA
44419416 ACATATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
10 11 0.22
11 21 0.41
12 8 0.16
13 11 0.22
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TTATATTATTA
Found at i:44429612 original size:29 final size:30
Alignment explanation
Indices: 44429565--44429777 Score: 127
Period size: 29 Copynumber: 7.2 Consensus size: 30
44429555 TAAACGATAA
* * *
44429565 TTTTGGGCACTTCGGGGGC-AAAATGGTAGT
1 TTTTGGACACTTCGAGGGCAAAAAT-GTAAT
44429595 TTTTGGACAC-TCGAGGGCAAAAATGTAAT
1 TTTTGGACACTTCGAGGGCAAAAATGTAAT
* ** *
44429624 TTTTGGACA-TTCGGGGGGTAACATGGTAAT
1 TTTTGGACACTTCGAGGGCAAAAAT-GTAAT
** * * * *
44429654 TTTCAGAAAGTTCGAGGTCAAAAATATAAT
1 TTTTGGACACTTCGAGGGCAAAAATGTAAT
* * **
44429684 TTTT-GAAAGTTCGAGGATAAAAATAG-AAT
1 TTTTGGACACTTCGAGGGCAAAAAT-GTAAT
* *
44429713 TTTTAGACA-TTCGAGGG-TAAAATAGTAAT
1 TTTTGGACACTTCGAGGGCAAAAAT-GTAAT
* ** *
44429742 TTTTAGA-AAATCGAGGCCAAAAATGTAAT
1 TTTTGGACACTTCGAGGGCAAAAATGTAAT
44429771 TTTTGGA
1 TTTTGGA
44429778 AAGTTTAAGG
Statistics
Matches: 147, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
28 8 0.05
29 89 0.61
30 40 0.27
31 10 0.07
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.31
Consensus pattern (30 bp):
TTTTGGACACTTCGAGGGCAAAAATGTAAT
Found at i:44429650 original size:59 final size:60
Alignment explanation
Indices: 44429561--44429688 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 60
44429551 AGAGTAAACG
* * ** *
44429561 ATAA-TTTTGGGCACTTCGGGGGCAAAATGGTAGTTTTTGGACA-CTCGAGGGCAAAAAT
1 ATAATTTTTGGACACTTCGGGGGCAAAATGGTAATTTTCAGAAAGCTCGAGGGCAAAAAT
* * * * *
44429619 GTAATTTTTGGACA-TTCGGGGGGTAACATGGTAATTTTCAGAAAGTTCGAGGTCAAAAAT
1 ATAATTTTTGGACACTTC-GGGGGCAAAATGGTAATTTTCAGAAAGCTCGAGGGCAAAAAT
44429679 ATAATTTTTG
1 ATAATTTTTG
44429689 AAAGTTCGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
58 6 0.11
59 28 0.50
60 22 0.39
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (60 bp):
ATAATTTTTGGACACTTCGGGGGCAAAATGGTAATTTTCAGAAAGCTCGAGGGCAAAAAT
Found at i:44429688 original size:89 final size:88
Alignment explanation
Indices: 44429594--44429780 Score: 218
Period size: 89 Copynumber: 2.1 Consensus size: 88
44429584 AAAATGGTAG
* * * * * *
44429594 TTTTTGGACA-CTCGAGGGCAAAAAT-GTAATTTTTGGACATTCGGGGGGTAACATGGTAATTTT
1 TTTTTGGAAAGCTCGAGGACAAAAATAG-AATTTTTAGACATTC-GAGGGTAAAATAGTAATTTT
* *
44429657 CAGAAAGTTCGAGGTCAAAAATATAA
64 CAGAAA-ATCGAGGCCAAAAATATAA
* * *
44429683 TTTTT-GAAAGTTCGAGGATAAAAATAGAATTTTTAGACATTCGAGGGTAAAATAGTAATTTTTA
1 TTTTTGGAAAGCTCGAGGACAAAAATAGAATTTTTAGACATTCGAGGGTAAAATAGTAATTTTCA
*
44429747 GAAAATCGAGGCCAAAAATGTAA
66 GAAAATCGAGGCCAAAAATATAA
44429770 TTTTTGGAAAG
1 TTTTTGGAAAG
44429781 TTTAAGGGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
87 21 0.25
88 30 0.36
89 31 0.37
90 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (88 bp):
TTTTTGGAAAGCTCGAGGACAAAAATAGAATTTTTAGACATTCGAGGGTAAAATAGTAATTTTCA
GAAAATCGAGGCCAAAAATATAA
Found at i:44429779 original size:29 final size:30
Alignment explanation
Indices: 44429605--44429779 Score: 146
Period size: 29 Copynumber: 6.0 Consensus size: 30
44429595 TTTTGGACAC
* *
44429605 TCGAGGGCAAAAAT-GTAATTTTTGGACAT
1 TCGAGGGCAAAAATAGTAATTTTTAGAAAT
* ** * * *
44429634 TCGGGGGGTAACATGGTAATTTTCAGAAAGT
1 TCGAGGGCAAAAATAGTAATTTTTAGAAA-T
*
44429665 TCGAGGTCAAAAATA-TAATTTTT-GAAAGT
1 TCGAGGGCAAAAATAGTAATTTTTAGAAA-T
** *
44429694 TCGAGGATAAAAATAG-AATTTTTAGACAT
1 TCGAGGGCAAAAATAGTAATTTTTAGAAAT
* *
44429723 TCGAGGG-TAAAATAGTAATTTTTAGAAAA
1 TCGAGGGCAAAAATAGTAATTTTTAGAAAT
* *
44429752 TCGAGGCCAAAAAT-GTAATTTTTGGAAA
1 TCGAGGGCAAAAATAGTAATTTTTAGAAA
44429780 GTTTAAGGGT
Statistics
Matches: 116, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
28 7 0.06
29 73 0.63
30 26 0.22
31 10 0.09
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (30 bp):
TCGAGGGCAAAAATAGTAATTTTTAGAAAT
Found at i:44429803 original size:88 final size:89
Alignment explanation
Indices: 44429613--44429804 Score: 228
Period size: 88 Copynumber: 2.2 Consensus size: 89
44429603 ACTCGAGGGC
* * * * * *
44429613 AAAAATGTAATTTTTGGACATTCGGGGGGTAACATGGTAATTTTCAGAAAGTTCGAGGTCAAAAA
1 AAAAATGTAATTTTTAGACATTCGGAGGGTAAAATAGTAATTTTCAGAAAGATCGAGGCCAAAAA
*
44429678 TATAATTTTTGAAAGTTCGAGGAT
66 TATAATTTTTGAAAGTTCAAGGAT
*
44429702 AAAAATAG-AATTTTTAGACATTC-GAGGGTAAAATAGTAATTTTTAGAAA-ATCGAGGCCAAAA
1 AAAAAT-GTAATTTTTAGACATTCGGAGGGTAAAATAGTAATTTTCAGAAAGATCGAGGCCAAAA
* * *
44429764 ATGTAATTTTTGGAAAGTTTAAGGGT
65 ATATAATTTTT-GAAAGTTCAAGGAT
* *
44429790 CAAAATGTGATTTTT
1 AAAAATGTAATTTTT
44429805 GGAAAGTTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
87 22 0.25
88 44 0.51
89 20 0.23
90 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (89 bp):
AAAAATGTAATTTTTAGACATTCGGAGGGTAAAATAGTAATTTTCAGAAAGATCGAGGCCAAAAA
TATAATTTTTGAAAGTTCAAGGAT
Found at i:44429854 original size:29 final size:29
Alignment explanation
Indices: 44429761--44429862 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 29
44429751 ATCGAGGCCA
44429761 AAAATGTAATTTTTGGAAAGTTTAAGGGTC
1 AAAATGTAATTTTTGGAAAGTTT-AGGGTC
* *
44429791 AAAATGTGATTTTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAAGTTTA-GGGTC
**
44429821 AAAATGTAATTTTTAAAAAGTTT-GGGATC
1 AAAATGTAATTTTTGGAAAGTTTAGGG-TC
*
44429850 AAAATATAATTTT
1 AAAATGTAATTTT
44429863 GGGGCAGTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.05
29 14 0.22
30 46 0.73
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGTC
Found at i:44431079 original size:16 final size:16
Alignment explanation
Indices: 44431058--44431091 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
44431048 GGATATTGAC
44431058 TTTGAACGCTCAAAAA
1 TTTGAACGCTCAAAAA
*
44431074 TTTGAATGCTCAAAAA
1 TTTGAACGCTCAAAAA
44431090 TT
1 TT
44431092 AGTTTCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (16 bp):
TTTGAACGCTCAAAAA
Found at i:44432275 original size:39 final size:39
Alignment explanation
Indices: 44432208--44432455 Score: 148
Period size: 39 Copynumber: 6.4 Consensus size: 39
44432198 TCTGCCCAAA
* * * * * *
44432208 CTCGGGGTAGGAGATTGGGTGATGATGATTTGCCTTAGG
1 CTCGGGGTAAGAGATCGGCTGATAATGATCTGCCTCAGG
*
44432247 CTCGGGGTAAGAGATCGGCTGATAATGATCTACCTCAGG
1 CTCGGGGTAAGAGATCGGCTGATAATGATCTGCCTCAGG
* * * * ** * *
44432286 TTTGAGGTAAGAGACCGAATGGT--TGCAATCTGCCCCAGG
1 CTCGGGGTAAGAGATCGGCTGATAATG--ATCTGCCTCAGG
*
44432325 CTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGG
1 CTCGGGGTAAGAGATCGGCTGATAATGATCTGCCTCAGG
*** * ** *
44432364 CT-TAAGTAAGAGACCGAATGGT--TGCAATCTGTCC-CAGG
1 CTCGGGGTAAGAGATCGGCTGATAATG--ATCTG-CCTCAGG
* * * * **
44432402 CTCAGGGTAGGAGATTGGCTAATGGTGATCTGCCTCAGG
1 CTCGGGGTAAGAGATCGGCTGATAATGATCTGCCTCAGG
44432441 CTCGGGGTAAGAGAT
1 CTCGGGGTAAGAGAT
44432456 TGAATGGTTT
Statistics
Matches: 153, Mismatches: 45, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
36 2 0.01
37 2 0.01
38 25 0.16
39 120 0.78
41 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (39 bp):
CTCGGGGTAAGAGATCGGCTGATAATGATCTGCCTCAGG
Found at i:44432410 original size:77 final size:77
Alignment explanation
Indices: 44432244--44432496 Score: 335
Period size: 77 Copynumber: 3.2 Consensus size: 77
44432234 GATTTGCCTT
* * *
44432244 AGGCTCGGGGTAAGAGATCGGCTGATAATGATCTACCTCAGGTTTGAGGTAAGAGACCGAATGGT
1 AGGCTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGGCTT-AGGTAAGAGACCGAATGGT
44432309 TGCAATCTGCCCC
65 TGCAATCTGCCCC
*
44432322 AGGCTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGGCTTAAGTAAGAGACCGAATGGTT
1 AGGCTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGGCTTAGGTAAGAGACCGAATGGTT
*
44432387 GCAATCTGTCCC
66 GCAATCTGCCCC
* * * ** ** **
44432399 AGGCTCAGGGTAGGAGATTGGCTAATGGTGATCTGCCTCAGGCTCGGGGTAAGAGATTGAATGGT
1 AGGCTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGGCT-TAGGTAAGAGACCGAATGG-
*
44432464 TTGCAGTCTGCCCC
64 TTGCAATCTGCCCC
*
44432478 AAGCTCGGGGTAAGAGATT
1 AGGCTCGGGGTAAGAGATT
44432497 AGTTGATGGT
Statistics
Matches: 153, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
77 69 0.45
78 56 0.37
79 28 0.18
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (77 bp):
AGGCTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGGCTTAGGTAAGAGACCGAATGGTT
GCAATCTGCCCC
Found at i:44432456 original size:39 final size:39
Alignment explanation
Indices: 44432208--44432496 Score: 141
Period size: 39 Copynumber: 7.4 Consensus size: 39
44432198 TCTGCCCAAA
* * * * * *
44432208 CTCGGGGTAGGAGATTGGGTGATGATGATTTGCCTTAGG
1 CTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCTCAGG
* * ** *
44432247 CTCGGGGTAAGAGATCGGCTGATAATGATCTACCTCAGG
1 CTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCTCAGG
* * * * * *
44432286 TTTGAGGTAAGAGA---CCGAATGGTTGCAATCTGCCCCAGG
1 CTCGGGGTAAGAGATTGGCTAATGG-TG--ATCTGCCTCAGG
* **
44432325 CTCGGGGTAAGAGATTGGCTGATAATGATCTGCCTCAGG
1 CTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCTCAGG
*** * *
44432364 CT-TAAGTAAGAGA---CCGAATGGTTGCAATCTGTCC-CAGG
1 CTCGGGGTAAGAGATTGGCTAATGG-TG--ATCTG-CCTCAGG
* *
44432402 CTCAGGGTAGGAGATTGGCTAATGGTGATCTGCCTCAGG
1 CTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCTCAGG
* *
44432441 CTCGGGGTAAGAGATT-G--AATGGTTTGCAGTCTGCCCCAAG
1 CTCGGGGTAAGAGATTGGCTAATGG--TG-A-TCTGCCTCAGG
44432481 CTCGGGGTAAGAGATT
1 CTCGGGGTAAGAGATT
44432497 AGTTGATGGT
Statistics
Matches: 187, Mismatches: 44, Indels: 37
0.70 0.16 0.14
Matches are distributed among these distances:
35 3 0.02
36 10 0.05
37 2 0.01
38 24 0.13
39 110 0.59
40 25 0.13
41 4 0.02
42 9 0.05
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (39 bp):
CTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCTCAGG
Found at i:44432822 original size:49 final size:49
Alignment explanation
Indices: 44432769--44433420 Score: 378
Period size: 49 Copynumber: 13.3 Consensus size: 49
44432759 CGGTTGTAAC
* * *
44432769 CTTTCCCTCCATATCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* * * *
44432818 CTTTCCCTTCAT-GCTTCCGAGGTACAAGG-TTC-CCATTGCGACTTAAAT
1 CTTTCCCTTCATATCTT-CGTGGTAC-TGGATTCGCCGTTGCGACTTAAAT
* * **
44432866 CTTTCTCTCCATATCATT-GTGGTACTGGATTTACCGTTGC-AGCTTAAAT
1 CTTTCCCTTCATATC-TTCGTGGTACTGGATTCGCCGTTGCGA-CTTAAAT
* * * * ** * * * *
44432915 CTCTCCCTTCAT-GCTTCTGAGGTACAAGG-TTCATCGCTACAACTTAAAC
1 CTTTCCCTTCATATCTTC-GTGGTAC-TGGATTCGCCGTTGCGACTTAAAT
* * *
44432964 CTTTTCTCC--CATATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGAT
1 C-TTTC-CCTTCATATCTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* * *
44433013 CTTTCCCTTCA-AGTC-TCTGAGGTA-TAAGG-TTCGCCATTGCGACTTAAAC
1 CTTTCCCTTCATA-TCTTC-GTGGTACT--GGATTCGCCGTTGCGACTTAAAT
* ** * *
44433062 CTTTGCCTTTGTGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* ** * * *
44433111 CTTTCCCTTCAT-GCTTTCAAGGTACAAGG-TTC-CCATTGCGACTTAAAC
1 CTTTCCCTTCATATC-TTCGTGGTAC-TGGATTCGCCGTTGCGACTTAAAT
* * * * *
44433159 CTTTCTCTCCATATCCTT-GTAGTACTGGATTTGCCGTTGCGGCTTAAAT
1 CTTTCCCTTCATAT-CTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* * * * ** * * *
44433208 CTCTCCCTTCAT-GCTTCTGAGGTACAAGG-TTCATCGCTGCAACTTAAAC
1 CTTTCCCTTCATATCTTC-GTGGTAC-TGGATTCGCCGTTGCGACTTAAAT
* * * *
44433257 CTTTTCCTTCCATATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGAT
1 CTTTCCCTT-CATATCTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* *
44433307 CTTTCCCTTCA-AGTC-TCTGAGGTA-TAAGG-TTCGCCGTTGCGACTTAAAC
1 CTTTCCCTTCATA-TCTTC-GTGGTACT--GGATTCGCCGTTGCGACTTAAAT
** * *
44433356 CTTTCCCTTTGTGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
*
44433405 CTTTCCCTTCAAATCT
1 CTTTCCCTTCATATCT
44433421 GTAGAATATG
Statistics
Matches: 447, Mismatches: 111, Indels: 90
0.69 0.17 0.14
Matches are distributed among these distances:
47 11 0.02
48 85 0.19
49 287 0.64
50 58 0.13
51 6 0.01
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (49 bp):
CTTTCCCTTCATATCTTCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
Found at i:44433244 original size:293 final size:294
Alignment explanation
Indices: 44432782--44433415 Score: 1153
Period size: 293 Copynumber: 2.2 Consensus size: 294
44432772 TCCCTCCATA
* *
44432782 TCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCCGAGGTACAAGG
1 TCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGTACAAGG
* *
44432847 TTCCCATTGCGACTTAAATCTTTCTCTCCATATCATTGTGGTACTGGATTTACCGTTGCAGCTTA
66 TTCCCATTGCGACTTAAACCTTTCTCTCCATATCATTGTAGTACTGGATTTACCGTTGCAGCTTA
44432912 AATCTCTCCCTTCATGCTTCTGAGGTACAAGGTTCATCGCTACAACTTAAACCTTTT-CTCCCAT
131 AATCTCTCCCTTCATGCTTCTGAGGTACAAGGTTCATCGCTACAACTTAAACCTTTTCCTCCCAT
44432976 ATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGATCTTTCCCTTCAAGTCTCTGAGGTATAAG
196 ATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGATCTTTCCCTTCAAGTCTCTGAGGTATAAG
*
44433041 GTTCGCCATTGCGACTTAAACCTTTGCCTTTGTG
261 GTTCGCCATTGCGACTTAAACCTTTCCCTTTGTG
*
44433075 TCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTCAAGGTACAAGG
1 TCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGTACAAGG
* * *
44433140 TTCCCATTGCGACTTAAACCTTTCTCTCCATATCCTTGTAGTACTGGATTTGCCGTTGCGGCTTA
66 TTCCCATTGCGACTTAAACCTTTCTCTCCATATCATTGTAGTACTGGATTTACCGTTGCAGCTTA
* *
44433205 AATCTCTCCCTTCATGCTTCTGAGGTACAAGGTTCATCGCTGCAACTTAAACCTTTTCCTTCCAT
131 AATCTCTCCCTTCATGCTTCTGAGGTACAAGGTTCATCGCTACAACTTAAACCTTTTCCTCCCAT
44433270 ATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGATCTTTCCCTTCAAGTCTCTGAGGTATAAG
196 ATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGATCTTTCCCTTCAAGTCTCTGAGGTATAAG
*
44433335 GTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTG
261 GTTCGCCATTGCGACTTAAACCTTTCCCTTTGTG
44433369 TCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
1 TCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
44433416 AATCTGTAGA
Statistics
Matches: 328, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
293 178 0.54
294 150 0.46
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (294 bp):
TCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGTACAAGG
TTCCCATTGCGACTTAAACCTTTCTCTCCATATCATTGTAGTACTGGATTTACCGTTGCAGCTTA
AATCTCTCCCTTCATGCTTCTGAGGTACAAGGTTCATCGCTACAACTTAAACCTTTTCCTCCCAT
ATCTTCGTGGTATTGGATTCGCCGTTACGACTTAGATCTTTCCCTTCAAGTCTCTGAGGTATAAG
GTTCGCCATTGCGACTTAAACCTTTCCCTTTGTG
Found at i:44433416 original size:98 final size:98
Alignment explanation
Indices: 44432739--44433415 Score: 769
Period size: 98 Copynumber: 6.9 Consensus size: 98
44432729 CATGTTTTTA
* * *
44432739 AGGTACAAGGTTCGCCGTTGCG-GTTGTAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCAC
1 AGGTACAAGGTTCGCCGTTGCGACTT-AAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGC
*
44432803 CGTTGCGGCTTAAATCTTTCCCTTCATGCTTCCG
65 CGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTG
* * * **
44432837 AGGTACAAGGTTC-CCATTGCGACTTAAATCTTTCTCTCCATATCATT-GTGGTACTGGATTTAC
1 AGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATC-TTCGTGGTACTGGATTCGC
* *
44432900 CGTTGCAGCTTAAATCTCTCCCTTCATGCTTCTG
65 CGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTG
** * * * * *
44432934 AGGTACAAGGTTCATCGCTACAACTTAAACCTTT-TCTCCCATATCTTCGTGGTATTGGATTCGC
1 AGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT-CCATATCTTCGTGGTACTGGATTCGC
* * * *
44432998 CGTTACGACTTAGATCTTTCCCTTCAAG-TCTCTG
65 CGTTGCGGCTTAAATCTTTCCCTTCATGCT-TCTG
* * * *** *
44433032 AGGTATAAGGTTCGCCATTGCGACTTAAACCTTTGCCTTTGTGTCTTCGTGGTACTGGATTCGCC
1 AGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCC
*
44433097 GTTGCGGCTTAAATCTTTCCCTTCATGCTT-TCA
66 GTTGCGGCTTAAATCTTTCCCTTCATGCTTCT-G
* * * *
44433130 AGGTACAAGGTTC-CCATTGCGACTTAAACCTTTCTCTCCATATCCTT-GTAGTACTGGATTTGC
1 AGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATAT-CTTCGTGGTACTGGATTCGC
*
44433193 CGTTGCGGCTTAAATCTCTCCCTTCATGCTTCTG
65 CGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTG
** * * * *
44433227 AGGTACAAGGTTCATCGCTGCAACTTAAACCTTTTCCTTCCATATCTTCGTGGTATTGGATTCGC
1 AGGTACAAGGTTCGCCGTTGCGACTTAAACC-TTTCCCTCCATATCTTCGTGGTACTGGATTCGC
* * * *
44433292 CGTTACGACTTAGATCTTTCCCTTCAAG-TCTCTG
65 CGTTGCGGCTTAAATCTTTCCCTTCATGCT-TCTG
* *** *
44433326 AGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCGCC
1 AGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCC
44433391 GTTGCGGCTTAAATCTTTCCCTTCA
66 GTTGCGGCTTAAATCTTTCCCTTCA
44433416 AATCTGTAGA
Statistics
Matches: 483, Mismatches: 81, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
97 170 0.35
98 233 0.48
99 80 0.17
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.36
Consensus pattern (98 bp):
AGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCC
GTTGCGGCTTAAATCTTTCCCTTCATGCTTCTG
Found at i:44433611 original size:17 final size:17
Alignment explanation
Indices: 44433591--44433651 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
44433581 AAAATTCATT
44433591 TTAAAATTAAATTTATG
1 TTAAAATTAAATTTATG
*
44433608 TTAAAGTTAAATTTAT-
1 TTAAAATTAAATTTATG
* *
44433624 TTTAAATTAGA-TT-TG
1 TTAAAATTAAATTTATG
*
44433639 TTAAATTTAAATT
1 TTAAAATTAAATT
44433652 GAATTTGTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 9 0.26
17 15 0.43
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TTAAAATTAAATTTATG
Found at i:44433649 original size:20 final size:20
Alignment explanation
Indices: 44433622--44433671 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
44433612 AGTTAAATTT
44433622 ATTTTAAATT-AGATTTGTTAA
1 ATTTTAAATTGA-ATTTG-TAA
44433643 A-TTTAAATTGAATTTGTAA
1 ATTTTAAATTGAATTTGTAA
44433662 ATTTTAAATT
1 ATTTTAAATT
44433672 TATAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 21 0.78
21 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (20 bp):
ATTTTAAATTGAATTTGTAA
Found at i:44435582 original size:29 final size:29
Alignment explanation
Indices: 44435521--44435611 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
44435511 AACAGTCCAG
* * * *
44435521 AAATTACATTTTGACCT-TAAAATTTTAGG
1 AAATTACATTTTGACCTCCAAACTTTCA-A
*
44435550 AAATTACATTTTGACCTCGAAACTTTCAA
1 AAATTACATTTTGACCTCCAAACTTTCAA
44435579 AAATTACCATTTT-ACC-CCAAACTTTTCAA
1 AAATTA-CATTTTGACCTCCAAAC-TTTCAA
44435608 AAAT
1 AAAT
44435612 CTATTTTAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 5 0.09
29 36 0.67
30 13 0.24
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTGACCTCCAAACTTTCAA
Found at i:44435655 original size:30 final size:30
Alignment explanation
Indices: 44435577--44435893 Score: 173
Period size: 29 Copynumber: 10.8 Consensus size: 30
44435567 CGAAACTTTC
**
44435577 AAAAATTACCATTTTACCCCAAACTTTT-C-
1 AAAAATTACCATTTTACCCCCGA-TTTTACT
* *
44435606 AAAAA-T-CTATTTTAACCCCGATTTTACT
1 AAAAATTACCATTTTACCCCCGATTTTACT
*
44435634 AAAAATTACCATTTTACCCCCGAACCTTT--T
1 AAAAATTACCATTTTACCCCCG-A-TTTTACT
* *
44435664 -AAAATT-CCATTTTTGACCCCAG-TTTCACT
1 AAAAATTACCA-TTTT-ACCCCCGATTTTACT
* * **
44435693 AAAAATTATCATTTTACCCTCGAACCTT-C-
1 AAAAATTACCATTTTACCCCCG-ATTTTACT
* * *
44435722 CAAAATT-CCATTTTTAACCCCAATTTTACT
1 AAAAATTACCA-TTTTACCCCCGATTTTACT
**
44435752 AAAAATTACCATTTTACCCCCGAACCTT-CT
1 AAAAATTACCATTTTACCCCCG-ATTTTACT
* * *
44435782 -AAAATT-CCATTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGATTTTACT
* ** *
44435810 AAAAATTTACCATTTTACCCCCAAACTTCCT
1 AAAAA-TTACCATTTTACCCCCGATTTTACT
* * * *
44435841 -AAAATT-CCATTTTTAACCTCGATTTCACCA
1 AAAAATTACCA-TTTTACCCCCGATTTTA-CT
44435871 AAAAATTACCATTTTACCCCCGA
1 AAAAATTACCATTTTACCCCCGA
44435894 AGTCTCAAAA
Statistics
Matches: 211, Mismatches: 50, Indels: 52
0.67 0.16 0.17
Matches are distributed among these distances:
26 4 0.02
27 16 0.08
28 31 0.15
29 59 0.28
30 54 0.26
31 41 0.19
32 6 0.03
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAATTACCATTTTACCCCCGATTTTACT
Found at i:44435698 original size:59 final size:59
Alignment explanation
Indices: 44435577--44435942 Score: 435
Period size: 59 Copynumber: 6.3 Consensus size: 59
44435567 CGAAACTTTC
* * * * *
44435577 AAAAATTACCATTTTA-CCCC-AAACTTTTCAAAAATCTA-TTTTAACCCCGATTTTACT
1 AAAAATTACCATTTTACCCCCGAACCTTCT-AAAATTCCATTTTTAACCCCGATTTCACT
* *
44435634 AAAAATTACCATTTTACCCCCGAACCTTTTAAAATTCCATTTTTGACCCC-AGTTTCACT
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGA-TTTCACT
* * * * *
44435693 AAAAATTATCATTTTACCCTCGAACCTTCCAAAATTCCATTTTTAACCCCAATTTTACT
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACT
*
44435752 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCA-TTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACT
* * *
44435810 AAAAATTTACCATTTTACCCCC-AAACTTCCTAAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAAA-TTACCATTTTACCCCCGAACCTT-CTAAAATTCCATTTTTAACCCCGATTTCA-CT
* * *
44435871 AAAAATTACCATTTTACCCCCGAA--GTCTCAAAATTCCTTTTTTAACCCCGATTACAC-
1 AAAAATTACCATTTTACCCCCGAACCTTCT-AAAATTCCATTTTTAACCCCGATTTCACT
*
44435928 CAAAATTACCATTTT
1 AAAAATTACCATTTT
44435943 GCCCTCGGGT
Statistics
Matches: 273, Mismatches: 25, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
57 30 0.11
58 41 0.15
59 161 0.59
60 33 0.12
61 8 0.03
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACT
Found at i:44435971 original size:59 final size:58
Alignment explanation
Indices: 44435576--44435982 Score: 249
Period size: 59 Copynumber: 6.9 Consensus size: 58
44435566 TCGAAACTTT
* * * * **
44435576 CAAAAATTACCATTTTA-CCCCAAACTTTTCAAAAAT--CTATTTTAACCCCGATTTTAC
1 CAAAAATTACCATTTTACCCCCGAA-GTATC-AAAATCCCTTTTTTAACCCCGATTACAC
* * * * * * * *
44435633 TAAAAATTACCATTTTACCCCCGAACCTTTTAAAATTCCATTTTTGACCCC-AGTTTCAC
1 CAAAAATTACCATTTTACCCCCGAA-GTATCAAAATCCCTTTTTTAACCCCGA-TTACAC
* * * * * * * **
44435692 TAAAAATTATCATTTTACCCTCGAACCT-TCCAAAATTCCATTTTTAACCCCAATTTTAC
1 CAAAAATTACCATTTTACCCCCGAA-GTAT-CAAAATCCCTTTTTTAACCCCGATTACAC
* * * * *
44435751 TAAAAATTACCATTTTACCCCCGAACCT-TCTAAAATTCC-ATTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAA-GTATC-AAAATCCCTTTTTTAACCCCGATTACAC
* * * * * *
44435809 CAAAAATTTACCATTTTACCCCCAAACT-TCCTAAAATTCCATTTTTAACCTCGATTTCAC
1 CAAAAA-TTACCATTTTACCCCCGAAGTAT-C-AAAATCCCTTTTTTAACCCCGATTACAC
* *
44435869 CAAAAAATTACCATTTTACCCCCGAAGTCTCAAAATTCCTTTTTTAACCCCGATTACAC
1 C-AAAAATTACCATTTTACCCCCGAAGTATCAAAATCCCTTTTTTAACCCCGATTACAC
* * * *
44435928 C-AAAATTACCATTTTGCCCTCG-GGTATCCAAAAGTCCCATTTTTCAACCCCGATT
1 CAAAAATTACCATTTTACCCCCGAAGTAT-CAAAA-TCCC-TTTTTTAACCCCGATT
44435983 TCATCGTTTC
Statistics
Matches: 302, Mismatches: 33, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
56 3 0.01
57 45 0.15
58 40 0.13
59 169 0.56
60 39 0.13
61 6 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAAGTATCAAAATCCCTTTTTTAACCCCGATTACAC
Found at i:44443064 original size:29 final size:29
Alignment explanation
Indices: 44443031--44443100 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
44443021 CAAAAATGTG
**
44443031 ATTTTTGGATTCTT-GAGGGTAAAACGGTA
1 ATTTTTGGACACTTCGAGGGT-AAACGGTA
*
44443060 A-TTTTGGACACTTCGAGGGTAAATGGTA
1 ATTTTTGGACACTTCGAGGGTAAACGGTA
44443088 ATTTTTGGACACT
1 ATTTTTGGACACT
44443101 CGGGGACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (29 bp):
ATTTTTGGACACTTCGAGGGTAAACGGTA
Found at i:44443145 original size:28 final size:29
Alignment explanation
Indices: 44443047--44443149 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 29
44443037 GGATTCTTGA
* *
44443047 GGGTAAAACGGTAA-TTTTGGACACTTCGA
1 GGGTAAAATGGTAATTTTTGGACAC-TCGG
44443076 GGGT-AAATGGTAATTTTTGGACACTCGG
1 GGGTAAAATGGTAATTTTTGGACACTCGG
**
44443104 GGACAAAAAT-GTAATTTTTGGACA-TCGG
1 GG-GTAAAATGGTAATTTTTGGACACTCGG
*
44443132 GGGTAACATGGTAATTTT
1 GGGTAAAATGGTAATTTT
44443150 CAAAAAGTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.06
28 27 0.43
29 28 0.44
30 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGACACTCGG
Found at i:44443199 original size:86 final size:88
Alignment explanation
Indices: 44443109--44443297 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 88
44443099 CTCGGGGACA
* * * *
44443109 AAAATGTAATTTTTGGACAT-CGGGGGTAACATGGTAA-TTTTCAAAAAGTTTG-GGTTTAAAAA
1 AAAATGTAATTTTTGGACATCCGAGGGTAAAATAGTAATTTTTCAAAAA--TTGAGG-TCAAAAA
* *
44443171 TGTAATTTTTGG-AAGTTCAA-GGTT
63 TGTAATTTCTGGAAAGTTCAAGGGTC
* * **
44443195 AAAATGGAATTTTTAGACATCCGAGGGTAAAATAGTAATTTTTGGAAAATTGAGGTCAAAAATGT
1 AAAATGTAATTTTTGGACATCCGAGGGTAAAATAGTAATTTTTCAAAAATTGAGGTCAAAAATGT
*
44443260 AATTTCTGGAAAGTTTAAGGGTC
66 AATTTCTGGAAAGTTCAAGGGTC
*
44443283 AAAATGTGATTTTTG
1 AAAATGTAATTTTTG
44443298 AGAAGTTTAG
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
86 38 0.45
87 23 0.27
88 23 0.27
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (88 bp):
AAAATGTAATTTTTGGACATCCGAGGGTAAAATAGTAATTTTTCAAAAATTGAGGTCAAAAATGT
AATTTCTGGAAAGTTCAAGGGTC
Found at i:44443366 original size:29 final size:28
Alignment explanation
Indices: 44443167--44443367 Score: 145
Period size: 29 Copynumber: 6.9 Consensus size: 28
44443157 TTTGGGTTTA
* * *
44443167 AAAATGTAATTTTTGGAAGTTCAAGGTT
1 AAAATGTAATTTTTGGAAATTTAGGGTT
* * * **
44443195 AAAATGGAATTTTTAGACATCCGAGGG-T
1 AAAATGTAATTTTTGGAAAT-TTAGGGTT
* *
44443223 AAAATAGTAATTTTTGGAAAATT-GAGGTCA
1 AAAAT-GTAATTTTTGGAAATTTAG-GGT-T
* *
44443253 AAAATGTAATTTCTGGAAAGTTTAAGGGTC
1 AAAATGTAATTTTTGGAAA-TTT-AGGGTT
* *
44443283 AAAATGTGATTTTTGAGAAGTTTAGGGGTTT
1 AAAATGTAATTTTTG-GAAATTTA-GGG-TT
*
44443314 AAAATGTAATTTTTGAAAAGTTTAGGGTT
1 AAAATGTAATTTTTGGAAA-TTTAGGGTT
*
44443343 AAAATATAATTTTTGGACAATTTAG
1 AAAATGTAATTTTTGGA-AATTTAG
44443368 AGACCTCTTA
Statistics
Matches: 134, Mismatches: 26, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
27 1 0.01
28 24 0.18
29 50 0.37
30 33 0.25
31 25 0.19
32 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (28 bp):
AAAATGTAATTTTTGGAAATTTAGGGTT
Done.