Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23
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: 3125668
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 362582 characters in sequence are not A, C, G, or T
File 14 of 18
Found at i:2251706 original size:41 final size:41
Alignment explanation
Indices: 2251655--2251748 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2251645 ACAATTCAAA
2251655 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2251696 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2251737 GTATCGATACAT
1 GTATCGATACAT
2251749 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:2251805 original size:13 final size:13
Alignment explanation
Indices: 2251787--2251812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2251777 TACAGCAAGT
2251787 ATGTATCGATACA
1 ATGTATCGATACA
2251800 ATGTATCGATACA
1 ATGTATCGATACA
2251813 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2270788 original size:20 final size:20
Alignment explanation
Indices: 2270740--2270813 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
2270730 GTAAAAGGAT
*
2270740 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTCA
*
2270760 AGAACGTATCGATACATTCA
1 AGAATGTATCGATACATTCA
* ** *
2270780 TA-CATGTATCGATATGTTAA
1 -AGAATGTATCGATACATTCA
*
2270800 AAAATGTATCGATA
1 AGAATGTATCGATA
2270814 AATCTGGGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTCA
Found at i:2270924 original size:50 final size:49
Alignment explanation
Indices: 2270783--2270924 Score: 171
Period size: 48 Copynumber: 2.9 Consensus size: 49
2270773 ACATTCATAC
** *
2270783 ATGTATCGATATGTTAAAAAATGTATCGATAAATCTGGGTAAAAGACAGA
1 ATGTATCGATACATTAAAAAA-GTATCGATACATCTGGGTAAAAGACAGA
* ** * *
2270833 ATGTATCCATACATT-TTAATGTATCGATACAT-TAGGGTAAAAGATAGA
1 ATGTATCGATACATTAAAAAAGTATCGATACATCT-GGGTAAAAGACAGA
2270881 ATGTATCGATACATTGAAAAAAGTATCGATACATCTGGGTAAAA
1 ATGTATCGATACATT-AAAAAAGTATCGATACATCTGGGTAAAA
2270925 AATGTGACTA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 38 0.50
49 2 0.03
50 34 0.45
51 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (49 bp):
ATGTATCGATACATTAAAAAAGTATCGATACATCTGGGTAAAAGACAGA
Found at i:2271924 original size:28 final size:28
Alignment explanation
Indices: 2271861--2272303 Score: 318
Period size: 28 Copynumber: 15.6 Consensus size: 28
2271851 CACCAACTTG
* *
2271861 TGTGGGCTTTAGAGAAGGTTGCCACCAACT
1 TGTGGGCTTTA-A-AAGGATGCCACTAACT
*
2271891 TGTGGGCTTTAAAAGGATGCCACTAATT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
* * *
2271919 TATGGG-TTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTT-AAAAGGATGCCACTAACT
* *
2271947 TGTGGGCTTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
** * *
2271975 TGTGGGCTTCGAAAGGGTGTCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
* * * *
2272003 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
* * *
2272031 TGTGGGCTTTGATAGAGGTTGCCA-TCGACT
1 TGTGGGCTTT-A-AAAGGATGCCACT-AACT
* * * *
2272061 TGTATGGG-GTTAAAGGGGTGCCACTGACT
1 TG--TGGGCTTTAAAAGGATGCCACTAACT
*
2272090 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTT-AAAAGGATGCCACTAACT
** * * *
2272119 CATGGGCTTTGAAAA-GTTACCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTAACT
* * * * * **
2272147 TATGGGCTCTGAAAGGATGCCATTGAGA
1 TGTGGGCTTTAAAAGGATGCCACTAACT
* * * *
2272175 TGTGGGTTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
** * *
2272203 CATGGGCTTTGAAAGGATGCCACTAACA
1 TGTGGGCTTTAAAAGGATGCCACTAACT
* * *
2272231 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
*
2272259 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTAACT
*
2272287 TGTTGGCTTTGAAAAGG
1 TGTGGGCTTT-AAAAGG
2272304 GTCGTATTGA
Statistics
Matches: 340, Mismatches: 61, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
27 10 0.03
28 247 0.73
29 49 0.14
30 28 0.08
31 2 0.01
32 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGATGCCACTAACT
Found at i:2271947 original size:56 final size:56
Alignment explanation
Indices: 2271861--2272303 Score: 408
Period size: 56 Copynumber: 7.8 Consensus size: 56
2271851 CACCAACTTG
* * * *
2271861 TGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGGGCTTTAAAAGGATGCCACTAATT
1 TGTGGGCTTT-GA-AAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
2271919 TATGGG-TTTCGAAAGGGTGCCACTAACTTGTGGGCTTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * * * *
2271975 TGTGGGCTTCGAAAGGGTGTCACTAACTTGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
2272031 TGTGGGCTTTGATAGAGGTTGCCA-TCGACTTGTATGGG-GTTAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGA-A-AGGATGCCACT-AACTTG--TGGGCTTTAAAAGGATGCCACTGACT
** * *
2272090 TGTGGGCTTTGAGAAGGATGCCACTAACTCATGGGCTTTGAAAA-GTTACCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACT
* * * * ** * * *
2272147 TATGGGCTCTGAAAGGATGCCATTGAGATGTGGGTTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
** * * *
2272203 CATGGGCTTTGAAAGGATGCCACTAACATATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
*
2272259 TGTGGGCTTTGAAAGGATGCCACTAACTTGTTGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT-AAAAGG
2272304 GTCGTATTGA
Statistics
Matches: 316, Mismatches: 58, Indels: 23
0.80 0.15 0.06
Matches are distributed among these distances:
55 3 0.01
56 210 0.66
57 37 0.12
58 31 0.10
59 32 0.10
60 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
Found at i:2271990 original size:84 final size:84
Alignment explanation
Indices: 2271833--2272303 Score: 389
Period size: 84 Copynumber: 5.5 Consensus size: 84
2271823 CCAGTGACAT
* * * * *
2271833 TGGGTTTAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGGGC
1 TGGGTTT-GAAAGGATGCCACTAAC-T-TGTGGGCTTT-GAAAAGGTTGCCACTAACTTGTGGGC
** * * *
2271898 TTTAAAAGGATGCCACTAATTTA
62 TTCGAAAGGATGCCACTGACTTG
* * *
2271921 TGGGTTTCGAAAGGGTGCCACTAACTTGTGGGC-TTCAAAAGGGTGCCACTAACTTGTGGGCTTC
1 TGGGTTT-GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTC
* * *
2271985 GAAAGGGTGTCACTAACTTG
65 GAAAGGATGCCACTGACTTG
* * * * *
2272005 TAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGATAGAGGTTGCCA-TCGACTTGTATGGG
1 T-GGGTTTGAAAGGATGCCACTAACTTGTGGGCTTTGA-AAAGGTTGCCACT-AACTTG--TGGG
* *
2272069 GTT--AAAGGGGTGCCACTGACTTG
61 CTTCGAAA-GGATGCCACTGACTTG
** * * *
2272092 TGGGCTTTGAGAAGGATGCCACTAACTCATGGGCTTTGAAAA-GTTACCACTGACTTATGGGC-T
1 TGGG-TTTGA-AAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTT
* **
2272155 CTGAAAGGATGCCATTGAGATG
64 C-GAAAGGATGCCACTGACTTG
* * ** * * * *
2272177 TGGGTTTTGAAAGGATGCCATTGACTCATGGGCTTTG-AAAGGATGCCACTAACATATGGGCTTT
1 TGGG-TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTC
2272241 GAAAGGATGCCACTGACTTG
65 GAAAGGATGCCACTGACTTG
*
2272261 TGGGCTTTGAAAGGATGCCACTAACTTGTTGGCTTTGAAAAGG
1 TGGG-TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGG
2272304 GTCGTATTGA
Statistics
Matches: 314, Mismatches: 53, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
83 4 0.01
84 157 0.50
85 38 0.12
86 40 0.13
87 24 0.08
88 51 0.16
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (84 bp):
TGGGTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTCG
AAAGGATGCCACTGACTTG
Found at i:2272340 original size:26 final size:26
Alignment explanation
Indices: 2272310--2272382 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
2272300 AAGGGTCGTA
2272310 TTGACGAAAATTTCTTGACAAAGTTGC
1 TTGACGAAAATTTCTTGACAAAGTT-C
2272337 -TGAC--AAATATTCTCT-ACAGAAGTTC
1 TTGACGAAAAT-TTCT-TGACA-AAGTTC
*
2272362 TTGACGATAATTTCTTGACAA
1 TTGACGAAAATTTCTTGACAA
2272383 CCATTTCTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
24 4 0.11
25 8 0.21
26 16 0.42
27 7 0.18
28 3 0.08
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (26 bp):
TTGACGAAAATTTCTTGACAAAGTTC
Found at i:2285642 original size:41 final size:41
Alignment explanation
Indices: 2285590--2285973 Score: 286
Period size: 41 Copynumber: 9.0 Consensus size: 41
2285580 AAAAGAAGAA
* * *
2285590 AAATGCATCCTGCCCTTTGAAGACAAAGGAAAAAGGAAATT
1 AAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATT
* *
2285631 AAATGTGTCCTGCTTTTTGAGGACAAAGGAAAAAGGAGAA-T
1 AAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATT
** * * *
2285672 AAAGTATGTCTTGCTCTTTGAGAACTAGAAGGGAAAAAAAGGAAATG
1 AAA-TGCGTCCTGCTCTTTGAGGAC-A-AA-GG--AAAAAGGAAATT
* * *
2285719 AAGTGCATCTTGCTCTTTGAGGACAAAGGAAAAAGGAAATT
1 AAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATT
* * *
2285760 AAATGTGTCCTGCTTTTTGAGGACAAAGGAAAAAGGAAAAT
1 AAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATT
* * *
2285801 AAAGTGCGTCCTGCTTTTTGAGAACTAAAAGGGAAAAGAAGGAAATG
1 AAA-TGCGTCCTGCTCTTTGAGGAC--AAA-GG-AAA-AAGGAAATT
* * * *
2285848 AAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAGA-A
1 AAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAA-ATT
* * * * * *
2285889 AAAGGCATCTTGCTCTTTGAGAACAAAAGGGAAAAAAAAGAAATG
1 AAATGCGTCCTGCTCTTTGAGGAC-AAA-GG--AAAAAGGAAATT
* * * *
2285934 AAATGTGTCCCGCTCTTTGAGGATAAAGGAGAGAAGGAAA
1 AAATGCGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAA
2285974 AGGCGTCCTA
Statistics
Matches: 276, Mismatches: 46, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
41 111 0.40
42 52 0.19
43 9 0.03
44 14 0.05
45 31 0.11
46 40 0.14
47 19 0.07
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (41 bp):
AAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATT
Found at i:2285869 original size:88 final size:84
Alignment explanation
Indices: 2285597--2285974 Score: 331
Period size: 88 Copynumber: 4.4 Consensus size: 84
2285587 GAAAAATGCA
* * * * *
2285597 TCCTGCCCTTTGAAGACAAAGGAAAAAGGAAATTAAATGTG--TCCTGCTTTTTGAGGACAAAGG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAATAAA-GTGCATCCTGCTCTTTGAGAACAAAGG
*
2285660 -AAAAAGGAGAAT-AAAGTATG
65 AAAAAAGGA-AATGAAA-TGTG
* * * * *
2285680 TCTTGCTCTTTGAGAACTAGAAGGGAAAAAAAGG-AAATGAAGTGCATCTTGCTCTTTGAGGACA
1 TCCTGCTCTTTGAGGAC-A-AA-GG--AAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGAACA
*
2285744 AAGG-AAAAAGGAAATTAAATGTG
61 AAGGAAAAAAGGAAATGAAATGTG
* * *
2285767 TCCTGCTTTTTGAGGACAAAGGAAAAAGGAAAATAAAGTGCGTCCTGCTTTTTGAGAACTAAAAG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGAAC--AAA-
* **
2285832 GGAAAAGAAGGAAATGAAGTGCA
63 GGAAAA-AAGGAAATGAAATGTG
* *
2285855 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAGAA-AAAG-GCATCTTGCTCTTTGAGAACAAAAG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAA-AATAAAGTGCATCCTGCTCTTTGAGAAC-AAA-
*
2285918 GGAAAAAAAAGAAATGAAATGTG
63 GG-AAAAAAGGAAATGAAATGTG
* * *
2285941 TCCCGCTCTTTGAGGATAAAGGAGAGAAGGAAAA
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAAA
2285975 GGCGTCCTAC
Statistics
Matches: 244, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
82 7 0.03
83 37 0.15
84 3 0.01
85 7 0.03
86 50 0.20
87 55 0.23
88 83 0.34
89 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (84 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGAACAAAGGA
AAAAAGGAAATGAAATGTG
Found at i:2285915 original size:129 final size:129
Alignment explanation
Indices: 2285578--2285881 Score: 490
Period size: 129 Copynumber: 2.4 Consensus size: 129
2285568 TAAGGATTAA
* *
2285578 GGAAAAGAA-GAAA--AA-TGCATCCTGCCCTTTGAAGACAAAGGAAAAAGGAAATTAAATGTGT
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGT
* * * *
2285639 CCTGCTTTTTGAGGACAAAGGAAAAAGGAGAATAAAGTATGTCTTGCTCTTTGAGAACTAGAAG
66 CCTGCTTTTTGAGGACAAAGGAAAAAGGAAAATAAAGTACGTCCTGCTCTTTGAGAACTAAAAG
* *
2285703 GGAAAAAAAGGAAATGAAGTGCATCTTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGT
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGT
* *
2285768 CCTGCTTTTTGAGGACAAAGGAAAAAGGAAAATAAAGTGCGTCCTGCTTTTTGAGAACTAAAAG
66 CCTGCTTTTTGAGGACAAAGGAAAAAGGAAAATAAAGTACGTCCTGCTCTTTGAGAACTAAAAG
2285832 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAA
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAA
2285882 AGAAGAAAAA
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 8 0.05
126 4 0.02
128 2 0.01
129 149 0.91
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.22
Consensus pattern (129 bp):
GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGT
CCTGCTTTTTGAGGACAAAGGAAAAAGGAAAATAAAGTACGTCCTGCTCTTTGAGAACTAAAAG
Found at i:2285982 original size:170 final size:172
Alignment explanation
Indices: 2285604--2286000 Score: 408
Period size: 170 Copynumber: 2.3 Consensus size: 172
2285594 GCATCCTGCC
* * * *
2285604 CTTTGAAGACAAAGGAAAAAGGAAATTAAA-TGTGTCCTGCTTTTTGAGGAC--AAA-GG-AAA-
1 CTTTGAGGACAAAGGAAAAAGG-AA-TAAAGTGCGTCCTACTTTTTGAGAACTAAAAGGGAAAAG
* *** * *
2285663 AAGGAGAATAAAGTATGTCTTGCTCTTTGAGAACTAGAAGGGAAAAAAAGGAAATGAAGTGCATC
64 AAGGA-AATGAAGTGCATCCTGCTCTTTGAGAACTAGAAGGGAAAAAAAAGAAA-GAAGTGCATC
* * * *
2285728 TTGCTCTTTGAGGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCT
127 TTGCTCTTTGAGAACAAAGGAAAAAAGAAATGAAATGTGTCCCGCT
* *
2285774 TTTTGAGGACAAAGGAAAAAGGAAAATAAAGTGCGTCCTGCTTTTTGAGAACTAAAAGGGAAAAG
1 CTTTGAGGACAAAGGAAAAAGG--AATAAAGTGCGTCCTACTTTTTGAGAACTAAAAGGGAAAAG
*
2285839 AAGGAAATGAAGTGCATCCTGCTCTTTGAGGAC-A-AA-GGAAAAAAGAAGAAA-AAG-GCATCT
64 AAGGAAATGAAGTGCATCCTGCTCTTTGAGAACTAGAAGGGAAAAAA-AAGAAAGAAGTGCATCT
2285899 TGCTCTTTGAGAACAAAAGGGAAAAAAAAGAAATGAAATGTGTCCCGCT
128 TGCTCTTTGAGAAC-AAA-GG--AAAAAAGAAATGAAATGTGTCCCGCT
* * *
2285948 CTTTGAGGATAAAGGAGAGAAGG-A-AAAG-GCGTCCTACTTTTTGAGGACTAAAA
1 CTTTGAGGACAAAGGA-AAAAGGAATAAAGTGCGTCCTACTTTTTGAGAACTAAAA
2286001 AGTGCCACCA
Statistics
Matches: 194, Mismatches: 20, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
170 66 0.34
171 32 0.16
172 11 0.06
173 10 0.05
174 40 0.21
175 30 0.15
176 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (172 bp):
CTTTGAGGACAAAGGAAAAAGGAATAAAGTGCGTCCTACTTTTTGAGAACTAAAAGGGAAAAGAA
GGAAATGAAGTGCATCCTGCTCTTTGAGAACTAGAAGGGAAAAAAAAGAAAGAAGTGCATCTTGC
TCTTTGAGAACAAAGGAAAAAAGAAATGAAATGTGTCCCGCT
Found at i:2286494 original size:245 final size:247
Alignment explanation
Indices: 2285967--2286632 Score: 927
Period size: 245 Copynumber: 2.7 Consensus size: 247
2285957 TAAAGGAGAG
* * * ** *
2285967 AAGGAAAAGGCGTCCTACTTTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAAAA-
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* * * * *
2286031 GAAAAGGCGTCCTACTTTTTGAAGACTAG-AAGGTGCCACCAACTTGTGTGGG-TTTGCAAA-GA
65 GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
* * * * * * * *
2286093 AAAAGCATCCTACTCTTTGTGGACT-GGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAA
129 AAAGGCGTCCTACTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAGGAAAA
* * *
2286157 GGGGTCCTTCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAAA
194 GGGATCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
* *
2286211 AA-GAGAAA-GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGA-AAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
2286274 GAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
65 GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
* *
2286339 AAGGCGTCCTGCTCTTTAAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAG
130 AAGGCGTCCTACTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAG
* * * * *
2286404 GTATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAA
195 GGATCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
2286456 AAGGAAAAGGCGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
2286520 AAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCGCCAACTTGTGTGGGCTTTAAATGGAAA
66 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
2286585 AGGCGTCCTACTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGG
131 AGGCGTCCTACTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGG
2286633 ACTTTGAATG
Statistics
Matches: 374, Mismatches: 40, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
242 4 0.01
243 69 0.18
244 30 0.08
245 199 0.53
246 72 0.19
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (247 bp):
AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
AGGCGTCCTACTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAGG
GATCCTGCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
Found at i:2286643 original size:62 final size:61
Alignment explanation
Indices: 2285967--2286637 Score: 859
Period size: 61 Copynumber: 11.0 Consensus size: 61
2285957 TAAAGGAGAG
* * ** *
2285967 AAGGAAAAGGCGTCCTACTTTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * *
2286029 AA-GAAAAGGCGTCCTACTTTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGG-TTTGCA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * * * *
2286089 AA-GAAAAAGCATCCTACTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTAGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
2286149 AAGGAGAAGGGGTCCTTCTCATTGAAGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
2286210 AAAGAGAAA-GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGA-AAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
2286271 AAGGAAAAGGCGTCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
2286333 AAGGAAAAGGCGTCCTGCTCTTTAAGGACTAGCAAAGTGCCACCAACTTGTGTGGGCTCTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
** * *
2286395 AAGGAAAAGGTATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AA
*
2286456 AAGGAAAAGGCGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
2286516 AAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCGCCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
2286578 ATGGAAAAGGCGTCCTACTCTTTGAGGACTAGCAAAGTGCCACCAACTTGTGTGGACTTT
1 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT
2286638 GAATGGCATC
Statistics
Matches: 538, Mismatches: 63, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
60 113 0.21
61 227 0.42
62 198 0.37
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
AAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:2288335 original size:19 final size:19
Alignment explanation
Indices: 2288311--2288371 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
2288301 CTTAACTGTT
2288311 TGTATCGATACATACAAGA
1 TGTATCGATACATACAAGA
2288330 TGTATCGATACAT------
1 TGTATCGATACATACAAGA
2288343 TGTATCGATACATACAAGA
1 TGTATCGATACATACAAGA
*
2288362 TGTATTGATA
1 TGTATCGATA
2288372 ATTGTATCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 13 0.37
19 22 0.63
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATACAAGA
Found at i:2288348 original size:13 final size:13
Alignment explanation
Indices: 2288330--2288355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2288320 ACATACAAGA
2288330 TGTATCGATACAT
1 TGTATCGATACAT
2288343 TGTATCGATACAT
1 TGTATCGATACAT
2288356 ACAAGATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2288351 original size:32 final size:32
Alignment explanation
Indices: 2288310--2288408 Score: 157
Period size: 32 Copynumber: 3.1 Consensus size: 32
2288300 CCTTAACTGT
*
2288310 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATTGATACA
2288342 TTGTATCGATACATACAAGATGTATTGATA-A
1 TTGTATCGATACATACAAGATGTATTGATACA
2288373 TTGTATCGATACATGACCAA-ATGTATTGATACA
1 TTGTATCGATACAT-A-CAAGATGTATTGATACA
2288406 TTG
1 TTG
2288409 GCTTGTAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
31 15 0.24
32 41 0.65
33 7 0.11
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATTGATACA
Found at i:2289114 original size:24 final size:24
Alignment explanation
Indices: 2289065--2289124 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
2289055 ACAAGCGATT
* * *
2289065 AATAAAAGTAAAATTATTAATATA
1 AATAAAAATCAAATTATCAATATA
2289089 AATAAAAATCAAATTATCAAGT-TA
1 AATAAAAATCAAATTATCAA-TATA
*
2289113 AATGAAAATCAA
1 AATAAAAATCAA
2289125 TCTTACCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
AATAAAAATCAAATTATCAATATA
Found at i:2291052 original size:1 final size:1
Alignment explanation
Indices: 2291046--2291168 Score: 93
Period size: 1 Copynumber: 123.0 Consensus size: 1
2291036 AAATCTTCAC
* * ** * * * **
2291046 TTTTTTTTTTGTTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** * * *
2291111 TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2291169 CCAATTGCCA
Statistics
Matches: 94, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 94 1.00
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:2291096 original size:32 final size:32
Alignment explanation
Indices: 2291048--2291162 Score: 216
Period size: 32 Copynumber: 3.7 Consensus size: 32
2291038 ATCTTCACTT
2291048 TTTTTTTTG-TTT-TTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
2291078 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
2291110 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
2291142 TTTTTTTTGTTTTGTTTTTTT
1 TTTTTTTTGTTTTGTTTTTTT
2291163 CTTTTTCCAA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
30 9 0.11
31 3 0.04
32 71 0.86
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (32 bp):
TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC
Found at i:2297442 original size:24 final size:24
Alignment explanation
Indices: 2297393--2297452 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
2297383 ACAAGCGATT
* * *
2297393 AATAAAAGTAAAATTATTAATATA
1 AATAAAAATCAAATTATCAATATA
2297417 AATAAAAATCAAATTATCAAGT-TA
1 AATAAAAATCAAATTATCAA-TATA
*
2297441 AATGAAAATCAA
1 AATAAAAATCAA
2297453 TCTTACCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
AATAAAAATCAAATTATCAATATA
Found at i:2304424 original size:13 final size:13
Alignment explanation
Indices: 2304402--2304437 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2304392 ACATTCTCTA
*
2304402 TATCGATACATTG
1 TATCGATACAGTG
*
2304415 TATTGATACAGTG
1 TATCGATACAGTG
2304428 TATCGATACA
1 TATCGATACA
2304438 AAGGGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:2306322 original size:43 final size:43
Alignment explanation
Indices: 2306269--2306404 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
2306259 TAAATTTATG
2306269 ATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTT
1 ATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTT
* ** * * ** *
2306312 ATTAAAGGGGAG-A-G-AATTTCT-A-TAAA-TAAATT-TATG
1 ATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTT
2306348 ATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTT
1 ATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTT
2306391 ATTAAGGGGGAGAA
1 ATTAAGGGGGAGAA
2306405 ATTTTTTATT
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
36 12 0.17
37 6 0.09
38 5 0.07
39 5 0.07
40 5 0.07
41 5 0.07
42 6 0.09
43 26 0.37
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.25
Consensus pattern (43 bp):
ATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTT
Found at i:2306322 original size:79 final size:79
Alignment explanation
Indices: 2306239--2306408 Score: 324
Period size: 79 Copynumber: 2.2 Consensus size: 79
2306229 TAACAAAAAG
2306239 GGGGAGAGAATTTCTATAAATAAATTTATGATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAA
1 GGGGAGAGAATTTCTATAAATAAATTTATGATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAA
2306304 ATTGCCTTATTAAA
66 ATTGCCTTATTAAA
2306318 GGGGAGAGAATTTCTATAAATAAATTTATGATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAA
1 GGGGAGAGAATTTCTATAAATAAATTTATGATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAA
*
2306383 ATTGCCTTATTAAG
66 ATTGCCTTATTAAA
2306397 GGGGAGA-AATTT
1 GGGGAGAGAATTT
2306409 TTTATTTGAT
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 5 0.06
79 85 0.94
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.28
Consensus pattern (79 bp):
GGGGAGAGAATTTCTATAAATAAATTTATGATTAAGGGGGAGAAGGAAACATGTGATTAAAGGAA
ATTGCCTTATTAAA
Found at i:2306352 original size:36 final size:36
Alignment explanation
Indices: 2306236--2306360 Score: 115
Period size: 36 Copynumber: 3.3 Consensus size: 36
2306226 CTATAACAAA
2306236 AAGGGGGAGAGAATTTCTATAAATAAATTTATGATT
1 AAGGGGGAGAGAATTTCTATAAATAAATTTATGATT
** * * ** *
2306272 AAGGGGGAGAAGGAAACATGTGATTAAAGGAAATTGCCTTATT
1 AAGGGGGAG-A-G-AATTTCT-A-TAAA-TAAATT-TATGATT
*
2306315 AAAGGGGAGAGAATTTCTATAAATAAATTTATGATT
1 AAGGGGGAGAGAATTTCTATAAATAAATTTATGATT
2306351 AAGGGGGAGA
1 AAGGGGGAGA
2306361 AGGAAACATG
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
36 22 0.33
37 6 0.09
38 5 0.08
39 5 0.08
40 5 0.08
41 5 0.08
42 6 0.09
43 12 0.18
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (36 bp):
AAGGGGGAGAGAATTTCTATAAATAAATTTATGATT
Found at i:2307084 original size:19 final size:20
Alignment explanation
Indices: 2307060--2307111 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2307050 CTTAACTGTT
*
2307060 TGTATCAATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
2307079 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
2307099 TGTATCGATACAT
1 TGTATCGATACAT
2307112 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
20 15 0.50
21 3 0.10
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:2323869 original size:43 final size:43
Alignment explanation
Indices: 2323796--2323882 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
2323786 GCGCTCGACC
* * *
2323796 CTTGACGATAGGGCAAATGAGGCGCGCCCAACTTAATATCCCT
1 CTTGACGATAGGACAAATGAGGCACACCCAACTTAATATCCCT
*
2323839 CTTGGCGATAGGACAAATGAGGCACACCCAACTTAATATCCCT
1 CTTGACGATAGGACAAATGAGGCACACCCAACTTAATATCCCT
2323882 C
1 C
2323883 GTGATTGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (43 bp):
CTTGACGATAGGACAAATGAGGCACACCCAACTTAATATCCCT
Found at i:2330596 original size:9 final size:9
Alignment explanation
Indices: 2330582--2330610 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2330572 TAATCTCCAT
2330582 AAAAAAAAG
1 AAAAAAAAG
2330591 -AAAAAAAG
1 AAAAAAAAG
2330599 AAAAAAAAG
1 AAAAAAAAG
2330608 AAA
1 AAA
2330611 GAGGAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2331583 original size:31 final size:31
Alignment explanation
Indices: 2331548--2332498 Score: 1072
Period size: 31 Copynumber: 30.9 Consensus size: 31
2331538 TTCAAATCTC
*
2331548 TCAAAGTTCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
2331579 TCAAAGTCCATGAC-CTAGTGGCAT-TTCTTC-
1 TCAAAGTCCACGACTC-AGTGGCATCTT-TTCT
* * * *
2331609 CCAAAGTCCACAACTCTGTGACATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* **
2331640 TCAAAGTCCATGACTCAGTGGCATCCCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2331670 CCAAAGTCCACGACTCGGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2331701 TCAAAGTCCACGACTCAGTGGTATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
2331732 TAAAAGTCCACGACTCTGTGGCATCTCTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
2331763 TCAAAGTCCATGACTTAGTGGCATCTCTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2331794 TCAAAGTCCATGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
2331824 CCAAAGTCCACAACTCCGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
2331855 TCAAAGTCCACGACTCTA-TGGCATTTTTTCT
1 TCAAAGTCCACGACTC-AGTGGCATCTTTTCT
* **
2331886 TTAAAGTCCACGACTCAGTGGCATCCCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2331916 CCAAAGTCCACAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
2331947 TTAAAGTCCATGACTCAGTCGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* ** *
2331978 TCAAAGTCTACGACTTTGTGGCATCTCTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
2332009 TCAAAGTCCACGACTCAGTGGCATTTTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * **
2332039 CCAAAGTCCATGACTTTGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
2332070 TCAAAGTCCAAGACTCTGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
**
2332101 TCAAAGTCCACGACTCAGTGGCATCCCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2332131 TCAAAGTCCACGACTCTGTGGCATGTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
2332162 TCAAAGTCCACGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2332192 CCAAAGTCCACAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
2332223 TCAAAGTCCATGACTTAGTGGCAATCTCTTCT
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
2332255 TCAAAGTCCAC-ATCTCAGTGGCATCTTTTC-
1 TCAAAGTCCACGA-CTCAGTGGCATCTTTTCT
* *
2332285 CCAAAGTCCACGACTCAGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
2332316 TCAAAGTCCATGACTCTA-TGGCATCTTTTCT
1 TCAAAGTCCACGACTC-AGTGGCATCTTTTCT
* *
2332347 TCAAAGTCCACGACTTAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
2332377 CCAAAGTCCATGACTCAGTGGCATCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2332408 TCAAAGTCCACGACTCAGGGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* *
2332439 TCAAAGTCCACAACTTAGTGGCATCTTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2332469 CCCAAAGTCCACGACTCTA-TGGCACCTTTT
1 -TCAAAGTCCACGACTC-AGTGGCATCTTTT
2332499 TCTTTTCAAA
Statistics
Matches: 768, Mismatches: 128, Indels: 48
0.81 0.14 0.05
Matches are distributed among these distances:
30 235 0.31
31 499 0.65
32 34 0.04
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:2331706 original size:92 final size:92
Alignment explanation
Indices: 2331549--2332498 Score: 1112
Period size: 92 Copynumber: 10.3 Consensus size: 92
2331539 TCAAATCTCT
* *
2331549 CAAAGTTCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGAC-CTAGTGGCAT-TTCTTC-CC
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTC-AGTGGCATCTT-TTCTTC
* * * * *
2331611 AAAGTCCACAACTCTGTGACATCTTTTCTT
64 AAAGTCCACGACTCAGTGGCATCTCTTC-C
* ** * * *
2331641 CAAAGTCCATGACTCAGTGGCATCCCTTC-CCAAAGTCCACGACTCGGTGGCATCTTTTCTTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAA
* * * *
2331705 AGTCCACGACTCAGTGGTATTTTTTCTT
66 AGTCCACGACTCAGTGGCATCTCTTC-C
* * * * *
2331733 AAAAGTCCACGACTCTGTGGCATCTCTTCTTCAAAGTCCATGACTTAGTGGCATCTCTTCTTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAA
*
2331798 AGTCCATGACTCAGTGGCATCTCTTCC
66 AGTCCACGACTCAGTGGCATCTCTTCC
* * * * *
2331825 CAAAGTCCACAACTCCGTGGCATCTTTTCTTCAAAGTCCACGACTCTA-TGGCATTTTTTCTTTA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTC-AGTGGCATCTTTTCTTCA
*
2331889 AAGTCCACGACTCAGTGGCATCCCTTCC
65 AAGTCCACGACTCAGTGGCATCTCTTCC
* * * *
2331917 CAAAGTCCACAACTCAGTGGCATCTTTTCTTTAAAGTCCATGACTCAGTCGCATTTTTTCTTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAA
* ** *
2331982 AGTCTACGACTTTGTGGCATCTCTTCTT
66 AGTCCACGACTCAGTGGCATCTCTTC-C
* * **
2332010 CAAAGTCCACGACTCAGTGGCATTTTTTC-CCAAAGTCCATGACTTTGTGGCATCTTTTCTTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAA
* * * * *
2332074 AGTCCAAGACTCTGTGGCATTTTTTCTT
66 AGTCCACGACTCAGTGGCATCTCTTC-C
** * * *
2332102 CAAAGTCCACGACTCAGTGGCATCCCTTC-TCAAAGTCCACGACTCTGTGGCATGTTTTCTTCAA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAA
2332166 AGTCCACGACTCAGTGGCATCTCTTCC
66 AGTCCACGACTCAGTGGCATCTCTTCC
* * *
2332193 CAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTTAGTGGCAATCTCTTCTTCA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGC-ATCTTTTCTTCA
*
2332258 AAGTCCAC-ATCTCAGTGGCATCTTTTCC
65 AAGTCCACGA-CTCAGTGGCATCTCTTCC
*
2332286 CAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCATGACTCTA-TGGCATCTTTTCTTCA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTC-AGTGGCATCTTTTCTTCA
*
2332350 AAGTCCACGACTTAGTGGCATCTCTTCC
65 AAGTCCACGACTCAGTGGCATCTCTTCC
* * * * *
2332378 CAAAGTCCATGACTCAGTGGCATCTTTTTTTCAAAGTCCACGACTCAGGGGCAATCTCTTC-TCA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGC-ATCTTTTCTTCA
* * *
2332442 AAGTCCACAACTTAGTGGCATCTTTTTCC
65 AAGTCCACGACTCAGTGGCATC-TCTTCC
*
2332471 CAAAGTCCACGACTCTA-TGGCACCTTTT
1 CAAAGTCCACGACTC-AGTGGCATCTTTT
2332499 TCTTTTCAAA
Statistics
Matches: 744, Mismatches: 98, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
91 50 0.07
92 493 0.66
93 199 0.27
94 2 0.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (92 bp):
CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAA
AGTCCACGACTCAGTGGCATCTCTTCC
Found at i:2331923 original size:215 final size:216
Alignment explanation
Indices: 2331548--2332498 Score: 1184
Period size: 215 Copynumber: 4.4 Consensus size: 216
2331538 TTCAAATCTC
* * *
2331548 TCAAAGTTCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGAC-CTAGTGGCATTTCTTCCCA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCATGACTC-AGTGGCATCTCTTCCCA
* * *** *
2331612 AAGTCCACAACTCTGTGACATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCCCTTC-CCAAAG
65 AAGTCCACAACTCTGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAG
* ** * * *
2331676 TCCACGACTCGGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGTATTTTTTCTTAAAAGTCC
130 TCCACGACTCAGTGGCATCCCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCC
*
2331741 ACGACTCTGTGGCATCTCTTCT
195 ACGACTCAGTGGCATCTCTTCT
* *
2331763 TCAAAGTCCATGACTTAGTGGCATCTCTTCTTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAA
* *
2331828 AGTCCACAACTCCGTGGCATCTTTTCTTCAAAGTCCACGACTCTA-TGGCATTTTTTCTTTAAAG
66 AGTCCACAACTCTGTGGCATCTTTTCTTCAAAGTCCACGACTC-AGTGGCATTTTTTCTTCAAAG
* * *
2331892 TCCACGACTCAGTGGCATCCCTTC-CCAAAGTCCACAACTCAGTGGCATCTTTTCTTTAAAGTCC
130 TCCACGACTCAGTGGCATCCCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCC
* * * *
2331956 ATGACTCAGTCGCATTTTTTCT
195 ACGACTCAGTGGCATCTCTTCT
* ** * * *
2331978 TCAAAGTCTACGACTTTGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCATTTTTTCCCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAA
** * * *
2332043 AGTCCATGACTTTGTGGCATCTTTTCTTCAAAGTCCAAGACTCTGTGGCATTTTTTCTTCAAAGT
66 AGTCCACAACTCTGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGT
* *
2332108 CCACGACTCAGTGGCATCCCTTC-TCAAAGTCCACGACTCTGTGGCATGTTTTCTTCAAAGTCCA
131 CCACGACTCAGTGGCATCCCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCA
2332172 CGACTCAGTGGCATCTCTTC-
196 CGACTCAGTGGCATCTCTTCT
* * * * *
2332192 CCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTTAGTGGCAATCTCTTCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCATGACTCAGTGGC-ATCTCTTC-CC
* * *
2332257 AAAGTCCACATCTCAGTGGCATCTTTTC-CCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAA
64 AAAGTCCACAACTCTGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAA
* ** * * *
2332321 GTCCATGACTCTA-TGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTC-CCAAAGT
129 GTCCACGACTC-AGTGGCATCCCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGT
* * *
2332384 CCATGACTCAGTGGCATCTTTTTT
193 CCACGACTCAGTGGCATCTCTTCT
* ** * *
2332408 TCAAAGTCCACGACTCAGGGGCAATCTCTTC-TCAAAGTCCACAACTTAGTGGCATCTTTTTCCC
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTTCAAAGTCCATGACTCAGTGGCATC-TCTTCCC
* * *
2332472 AAAGTCCACGACTCTATGGCACCTTTT
64 AAAGTCCACAACTCTGTGGCATCTTTT
2332499 TCTTTTCAAA
Statistics
Matches: 634, Mismatches: 91, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
214 45 0.07
215 461 0.73
216 121 0.19
217 7 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (216 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAA
AGTCCACAACTCTGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGT
CCACGACTCAGTGGCATCCCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCA
CGACTCAGTGGCATCTCTTCT
Found at i:2338301 original size:21 final size:20
Alignment explanation
Indices: 2338262--2338306 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
2338252 CATGCAAGTT
* *
2338262 TTTATTTTTTTAGCTAATTC
1 TTTATTTTATTAGCCAATTC
*
2338282 TTTATTTTCATTAGCCAATTT
1 TTTATTTT-ATTAGCCAATTC
2338303 TTTA
1 TTTA
2338307 AAATCAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTATTTTATTAGCCAATTC
Found at i:2338891 original size:3 final size:3
Alignment explanation
Indices: 2338883--2338913 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2338873 TCCGAGTCAC
2338883 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
2338914 TTCCTCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:2340543 original size:34 final size:33
Alignment explanation
Indices: 2340502--2340571 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
2340492 CCGTTACAAG
2340502 CAATGTATCGATACAATT-TCCTCATGTACCGATA
1 CAATGTATCGATAC-ATTGTCC-CATGTACCGATA
*
2340536 CAATGTATCGATACATTGTCCCATGTATCGATA
1 CAATGTATCGATACATTGTCCCATGTACCGATA
2340569 CAA
1 CAA
2340572 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCCCATGTACCGATA
Found at i:2341011 original size:27 final size:27
Alignment explanation
Indices: 2340973--2341091 Score: 85
Period size: 32 Copynumber: 4.0 Consensus size: 27
2340963 ATTTTAACAA
*
2340973 AAGTTCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
2341000 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
** *
2341033 AAGTCCACAACTATGTGGCACCTTTTTTTTTT
1 AAGTCCACAACTCCGTGGCACC-----CTTTT
* *
2341065 AAGTCCACGACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
2341092 CCCTTTTAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
27 24 0.32
28 1 0.01
32 25 0.34
33 24 0.32
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:2341141 original size:34 final size:34
Alignment explanation
Indices: 2340994--2341146 Score: 179
Period size: 33 Copynumber: 4.6 Consensus size: 34
2340984 TCCGTGGCAC
2340994 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
**
2341027 CCTTTTAAGTCCACAACTATGTGGCAC-CTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* * * * *
2341060 -TTTTTAAGTCCACGACTCTGTGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
* *
2341093 CCTTTTAAGCCCACACCTCCGTGGCATCTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTT
*
2341128 CC-TGTAAGTCCACAACTCC
1 CCTTTTAAGTCCACAACTCC
2341147 ATGGTACCTT
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.23
33 35 0.35
34 34 0.34
35 8 0.08
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.37
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
Found at i:2341227 original size:49 final size:48
Alignment explanation
Indices: 2341154--2341899 Score: 340
Period size: 49 Copynumber: 16.0 Consensus size: 48
2341144 TCCATGGTAC
* * * * * *
2341154 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTTGT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCAC-TTTGT
*
2341203 CTTTAGGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA-----T
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTTGT
* * * *** * * * *
2341246 CTTTAAGTCTAATATTGTTGGCCTTGAATCAGTATATTGGCACCTTTAT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA-CTTTGT
*
2341295 CTTTAAGACCAATGTCCCTAGCCTTGAATCAGCACATTGGCAC-----
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTTGT
* * * * *
2341338 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGA-ATTGGCACCTTGT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGC-ACATTGGCACTTTGT
2341386 -TTATAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA------
1 CTT-TAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTTGT
* * ** * * *
2341428 ---TAAGCCCAATATTGCTGGCCTTGAATCAACATATTGGCACTTTGT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTTGT
* *
2341473 CTTTAAGACCAATGTC-CTTGGCCTTGAATAAGCACATTGGCA----G-
1 CTTTAAGACCAATGTCAC-TAGCCTTGAATCAGCACATTGGCACTTTGT
* * * * **
2341516 ----AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA-CTTTGT
* ** ** * *
2341561 CTTTAATACTGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTAT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA-CTT---TGT
* ** ** * * **
2341613 CTTTAAGTCCTAATGTTGCCGGTCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGACC-AATGTCACTAGCCTTGAATCAGCACATTGGCA-CTTTGT
* ** * *
2341663 CTTTAAGACCGATGTCGTTGGCCTTGAATCAGCATATTGGCAC-----
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTTGT
* * * * * * **
2341706 CTTTAAGTCCTATATCACTGGCCTTGAATTAGCACATGGGCATCTTCAT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA-CTTTGT
* * * * * * *
2341755 CTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACATTTAT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCAC-TTTGT
* * * *
2341804 CTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCAT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTT-GT
* * * * * *
2341853 CTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTT
1 CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCA-CTTT
2341900 AACATTCCTA
Statistics
Matches: 546, Mismatches: 103, Indels: 95
0.73 0.14 0.13
Matches are distributed among these distances:
39 64 0.12
40 1 0.00
43 104 0.19
44 3 0.01
47 4 0.01
48 70 0.13
49 246 0.45
50 15 0.03
52 9 0.02
53 30 0.05
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (48 bp):
CTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTTGT
Found at i:2341316 original size:92 final size:92
Alignment explanation
Indices: 2341154--2341901 Score: 687
Period size: 92 Copynumber: 8.1 Consensus size: 92
2341144 TCCATGGTAC
* * * *
2341154 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTTGTCTTTAGGACCAATGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
*
2341219 ACTAGCCTTGAATCAGCACATTGGCAT
66 ACTGGCCTTGAATCAGCACATTGGCAT
* * * *
2341246 CTTTAAGTCTAATATTGTTGGCCTTGAATCAGTATATTGGCACCTTTATCTTTAAGACCAATGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
* * *
2341311 CCTAGCCTTGAATCAGCACATTGGCAC
66 ACTGGCCTTGAATCAGCACATTGGCAT
*
2341338 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGA-ATTGGCACCTTGT-T-TATAAGACCAATG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGC-ATATTGGCACCTT-TATCTTTAAGACCAATG
*
2341400 TCACTAGCCTTGAATCAGCACATTGGCA-
64 TCACTGGCCTTGAATCAGCACATTGGCAT
* * * *
2341428 ---TAAGCCCAATATTGCTGGCCTTGAATCAACATATTGGCA-CTTTGTCTTTAAGACCAATGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
*
2341489 -CTTGGCCTTGAATAAGCACATTGGCA-
66 AC-TGGCCTTGAATCAGCACATTGGCAT
* * * * * **
2341515 ---GAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAATACTGATGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
**
2341577 GTTGGCCTTGAATCAGCACATTGGCACCTTAACTAT
66 ACTGGCCTTGAATCAGCACATTGG--------C-AT
* * * * * *
2341613 CTTTAAGTCCTAATGTTGCCGGTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGT
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGT
** * *
2341678 CGTTGGCCTTGAATCAGCATATTGGCAC
65 CACTGGCCTTGAATCAGCACATTGGCAT
* * * * * * * * * *
2341706 CTTTAAGTCCTATATCACTGGCCTTGAATTAGCACATGGGCATCTTCATCTTTAAGTCCGATATC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
* *
2341771 GCTGGCCTTGAATCAGCATATTGGCACATTTAT
66 ACTGGCCTTGAATCAGCACATTGG--C----AT
* * * * * * *
2341804 CTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTCATCTTTAAGTCCGATAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGACCAATGT
* *
2341868 CATTGGCCTTGAATCAGCATATTGGCAT
65 CACTGGCCTTGAATCAGCACATTGGCAT
2341896 CTTTAA
1 CTTTAA
2341902 CATTCCTAAG
Statistics
Matches: 559, Mismatches: 68, Indels: 58
0.82 0.10 0.08
Matches are distributed among these distances:
85 1 0.00
86 6 0.01
87 105 0.19
88 38 0.07
91 39 0.07
92 197 0.35
93 13 0.02
94 2 0.00
96 2 0.00
97 4 0.01
98 76 0.14
101 5 0.01
102 71 0.13
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
ACTGGCCTTGAATCAGCACATTGGCAT
Found at i:2341449 original size:39 final size:39
Alignment explanation
Indices: 2341388--2341553 Score: 109
Period size: 39 Copynumber: 4.0 Consensus size: 39
2341378 CACCTTGTTT
* * * *
2341388 ATAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGC
1 ATAAGCCCAATATTACTGGCCTTGAATCAGCACATTGGC
* * *
2341427 ATAAGCCCAATATTGCTGGCCTTGAATCAACATATTGGC
1 ATAAGCCCAATATTACTGGCCTTGAATCAGCACATTGGC
* * * *
2341466 ACTTTGTCTTTAAGACCAAT-GTCCTTGGCCTTGAATAAGCACATTGGC
1 A---------TAAGCCCAATATTAC-TGGCCTTGAATCAGCACATTGGC
* * *
2341514 AGAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGC
1 ATAAGCCCAATATTACTGGCCTTGAATCAGCACATTGGC
2341553 A
1 A
2341554 CCTTCATCTT
Statistics
Matches: 96, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
39 63 0.66
40 1 0.01
47 2 0.02
48 30 0.31
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (39 bp):
ATAAGCCCAATATTACTGGCCTTGAATCAGCACATTGGC
Found at i:2341643 original size:53 final size:50
Alignment explanation
Indices: 2341530--2341946 Score: 392
Period size: 49 Copynumber: 8.5 Consensus size: 50
2341520 CCAATATCAC
*
2341530 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA-TACTGATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
* * * *
2341579 TGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGTCCTAATGTTGC
1 TGGCCTTGAATCAGCATATTGGCACCTT--C-ATCTTTAAGTCCTGATGTCGT
* * *
2341632 CGGTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACC-GATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
* **
2341681 TGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCT-ATATCAC
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
* * * * * *
2341724 TGGCCTTGAATTAGCACATGGGCATCTTCATCTTTAAGTCC-GATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
* * * * *
2341773 TGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAG-ACTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
* * * *
2341822 TGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCC-GATATCAT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
* * * *
2341871 TGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAG-CCTAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGTCCTGATGTCGT
** *
2341923 TGGCCTTGTCTCAGCACATTGGCA
1 TGGCCTTGAATCAGCATATTGGCA
2341947 TTCTTCTTCA
Statistics
Matches: 300, Mismatches: 50, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
43 34 0.11
45 1 0.00
47 1 0.00
48 1 0.00
49 174 0.58
50 14 0.05
51 4 0.01
52 38 0.13
53 33 0.11
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (50 bp):
TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCTGATGTCGT
Found at i:2341845 original size:190 final size:188
Alignment explanation
Indices: 2341152--2341901 Score: 752
Period size: 190 Copynumber: 4.0 Consensus size: 188
2341142 ACTCCATGGT
* * * ** * * *
2341152 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTTGTCTTTAGGACCAATG
1 ACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCA-ATTGGCACCTTCATCTTTAAGTCCGATG
* * * *
2341217 TCACTAGCCTTGAATCAGCACATTGG--C---ATCTTTAAGTCTAATATTGTTGGCCTTGAATCA
65 TCGCTGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGCCTAATATTGCTGGCCTTGAATCA
* * * *
2341277 GTATATTGGCACCTTTATCTTTAAGACCAATGTCCCTAGCCTTGAATCAGCACATTGGC
130 GCATATTGGCACCTTCATCTTTAAGACCAATGTCCTTGGCCTTGAATCAGCACATTGGC
* * * *
2341336 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGAATTGGCACCTT-GT-TTATAAGACCAAT
1 ACCTTTAAGTCCAATATCACTGGCCTTGAATCAGC-AATTGGCACCTTCATCTT-TAAGTCCGAT
* * *
2341399 GTCACTAGCCTTGAATCAGCACATTGG--C---A----TAAGCCCAATATTGCTGGCCTTGAATC
64 GTCGCTGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGCCTAATATTGCTGGCCTTGAATC
* ** *
2341455 AACATATTGGCA-CTTTGTCTTTAAGACCAATGTCCTTGGCCTTGAATAAGCACATTGGC
129 AGCATATTGGCACCTTCATCTTTAAGACCAATGTCCTTGGCCTTGAATCAGCACATTGGC
* * *
2341514 A----GAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA-TACTGAT
1 ACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCA-ATTGGCACCTTCATCTTTAAGT-CCGAT
* * * *
2341574 GTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGTCCTAATGTTGCCGGTCTT
64 GTCGCTGGCCTTGAATCAGCACATTGGCA-CTT---TATCTTTAAG-CCTAATATTGCTGGCCTT
* * *
2341639 GAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCATATTGGC
124 GAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCCTTGGCCTTGAATCAGCACATTGGC
* * * * *
2341704 ACCTTTAAGTCCTATATCACTGGCCTTGAATTAGCACATGGGCATCTTCATCTTTAAGTCCGATA
1 ACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCA-ATTGGCACCTTCATCTTTAAGTCCGATG
* * * *
2341769 TCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGACTAATGTCGCTGGCCTTGAATC
65 TCGCTGGCCTTGAATCAGCACATTGGCAC-TTTATCTTTAAGCCTAATATTGCTGGCCTTGAATC
* * * * * * *
2341834 AGCACATTGGCACTTTCATCTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGC
129 AGCATATTGGCACCTTCATCTTTAAGACCAATGTCCTTGGCCTTGAATCAGCACATTGGC
*
2341894 ATCTTTAA
1 ACCTTTAA
2341902 CATTCCTAAG
Statistics
Matches: 485, Mismatches: 54, Indels: 48
0.83 0.09 0.08
Matches are distributed among these distances:
173 1 0.00
174 38 0.08
175 31 0.06
176 2 0.00
178 45 0.09
179 34 0.07
182 2 0.00
183 40 0.08
184 45 0.09
185 1 0.00
188 4 0.01
189 30 0.06
190 123 0.25
191 10 0.02
193 1 0.00
194 77 0.16
195 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (188 bp):
ACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCAATTGGCACCTTCATCTTTAAGTCCGATGT
CGCTGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGCCTAATATTGCTGGCCTTGAATCAG
CATATTGGCACCTTCATCTTTAAGACCAATGTCCTTGGCCTTGAATCAGCACATTGGC
Found at i:2341875 original size:98 final size:98
Alignment explanation
Indices: 2341529--2341990 Score: 478
Period size: 98 Copynumber: 4.7 Consensus size: 98
2341519 CCCAATATCA
* * *
2341529 CTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA-TACTGATGTCGTTGGCCTTGAATCAG
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT-CCGATATCGTTGGCCTTGAATCAG
* *
2341593 CACATTGGCACCTTAACTATCTTTAAGTCCTAATGTTG
65 CATATTGGCA-CTT---TATCTTTAAGTCCTAATGTCG
* * * * *
2341631 CCGGTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGC
* *
2341696 ATATTGGCAC-----CTTTAAGTCCT-ATATCA
66 ATATTGGCACTTTATCTTTAAGTCCTAATGTCG
* * * *
2341723 CTGGCCTTGAATTAGCACATGGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGC
*
2341788 ATATTGGCACATTTATCTTTAAG-ACTAATGTCG
66 ATATTGGCAC-TTTATCTTTAAGTCCTAATGTCG
* *
2341821 CTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCGATATCATTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGC
*
2341886 ATATTGGCATCTTTAACATTCCTAAG-CCTAATGTCG
66 ATATTGGCA-CTTTATC-TT--TAAGTCCTAATGTCG
* ** * * ** ** *
2341922 TTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATATCGCCGGCCATGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGC
*
2341985 ACATTG
66 ATATTG
2341991 TCATTCTTCG
Statistics
Matches: 308, Mismatches: 40, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
92 69 0.22
93 11 0.04
97 2 0.01
98 84 0.27
99 38 0.12
101 36 0.12
102 68 0.22
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (98 bp):
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGC
ATATTGGCACTTTATCTTTAAGTCCTAATGTCG
Found at i:2347083 original size:69 final size:70
Alignment explanation
Indices: 2346955--2347084 Score: 154
Period size: 69 Copynumber: 1.9 Consensus size: 70
2346945 CGATGATGAG
* * ** *
2346955 AATTTAGGCAAAAATAAGATTTAAAACTTAAGGAGTTAAAAAGCGAGGTTGGAGTATCCCCGGTG
1 AATTTAAGCAAAAATAAGATTTAAAACTTAAGAAGTTAAAAAGCGAGGTTAAAGAATCCCCGGTG
2347020 ATGCC
66 ATGCC
* * * * * *
2347025 AATTTAAGC-AAAATAAGATTTGAATCTTGATAAGTTTAAAAGCGGGGTTAAAGAATCCCC
1 AATTTAAGCAAAAATAAGATTTAAAACTTAAGAAGTTAAAAAGCGAGGTTAAAGAATCCCC
2347085 TCGAAGGAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
69 41 0.84
70 8 0.16
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (70 bp):
AATTTAAGCAAAAATAAGATTTAAAACTTAAGAAGTTAAAAAGCGAGGTTAAAGAATCCCCGGTG
ATGCC
Found at i:2349312 original size:20 final size:20
Alignment explanation
Indices: 2349287--2349329 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2349277 ATTTGCTTAC
*
2349287 ATGTATCGATACATTAAATA
1 ATGTATCGATACAATAAATA
*
2349307 ATGTATCGATACAATGAATA
1 ATGTATCGATACAATAAATA
2349327 ATG
1 ATG
2349330 CCTTACATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATAAATA
Found at i:2349456 original size:19 final size:20
Alignment explanation
Indices: 2349409--2349460 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
2349399 CAAGTGAATA
2349409 TATCGATACATGTTTGAAATG
1 TATCGATACAT-TTTGAAATG
* * *
2349430 TATTGATACATTTT-TATTG
1 TATCGATACATTTTGAAATG
2349449 TATCGATACATT
1 TATCGATACATT
2349461 CTGAGTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 10 0.37
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (20 bp):
TATCGATACATTTTGAAATG
Found at i:2349528 original size:52 final size:50
Alignment explanation
Indices: 2349425--2349592 Score: 196
Period size: 52 Copynumber: 3.3 Consensus size: 50
2349415 TACATGTTTG
* * *
2349425 AAATGTATTGATACATTTTTATTGTATCGATACATTCTGAG--TTTGATCC
1 AAATGTATCGATACATTTTAATTGTATCGATACATTCTG-GTTTTTGACCC
* * *
2349474 AAATATATCGATACATATTTAATTATATTGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACAT-TTTAATTGTATCGATACATTCT-GGTTTTTGACCC
* *
2349526 AAATTTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATT-TTAATTGTATCGATACATTCT-GGTTTTTGACCC
*
2349578 AAATGTATTGATACA
1 AAATGTATCGATACA
2349593 CTCTTCAATG
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
49 14 0.14
50 20 0.20
51 2 0.02
52 65 0.64
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (50 bp):
AAATGTATCGATACATTTTAATTGTATCGATACATTCTGGTTTTTGACCC
Found at i:2349612 original size:104 final size:100
Alignment explanation
Indices: 2349425--2349617 Score: 235
Period size: 104 Copynumber: 1.9 Consensus size: 100
2349415 TACATGTTTG
* * *
2349425 AAATGTATTGATACATTTTTATTGTATCGATACATTCTGAGTTTGATCCAAATATATCGATACAT
1 AAATGTATCGATACATTTTCATTGTATCGATACATTCTGAGTTTGACCCAAATATATCGATACAT
* *
2349490 ATTTAATTATATTGATACATTCTAGGTTTTTGACCC
66 ATTCAATTATATTAATACA-TCTAGGTTTTTGACCC
* * * *
2349526 AAATTTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCCAAATGTATTGATA
1 AAATGTATCGATACATT-TTCATTGTATCGATACATTCTGAG--TTTGACCCAAATATATCGATA
* *
2349591 CACTCTTCAA-TGTATTAATACATCTAG
63 CA-TATTCAATTATATTAATACATCTAG
2349618 TTAATTTGCA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
101 15 0.19
102 22 0.29
103 5 0.06
104 30 0.39
105 5 0.06
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (100 bp):
AAATGTATCGATACATTTTCATTGTATCGATACATTCTGAGTTTGACCCAAATATATCGATACAT
ATTCAATTATATTAATACATCTAGGTTTTTGACCC
Found at i:2354184 original size:52 final size:52
Alignment explanation
Indices: 2354099--2354223 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2354089 ATATGAAAAG
* *
2354099 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2354151 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2354203 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2354224 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2354236 original size:52 final size:51
Alignment explanation
Indices: 2354099--2354243 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
2354089 ATATGAAAAG
*
2354099 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2354151 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2354203 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2354244 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2354250 original size:13 final size:13
Alignment explanation
Indices: 2354232--2354256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2354222 CAAAGATCAG
2354232 TGTATCGATACAA
1 TGTATCGATACAA
2354245 TGTATCGATACA
1 TGTATCGATACA
2354257 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2354338 original size:13 final size:13
Alignment explanation
Indices: 2354320--2354344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2354310 CAAAAAAATA
2354320 TGTATCGATACAT
1 TGTATCGATACAT
2354333 TGTATCGATACA
1 TGTATCGATACA
2354345 ACACTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2354344 original size:33 final size:33
Alignment explanation
Indices: 2354302--2354364 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2354292 GCTTAAATTT
2354302 TATCGATACAAAAAAATATGTATCGATACATTG
1 TATCGATACAAAAAAATATGTATCGATACATTG
* ***
2354335 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAAAAAAATATGTATCGATACA
2354365 AATCGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAAAAATATGTATCGATACATTG
Found at i:2355109 original size:15 final size:15
Alignment explanation
Indices: 2355089--2355119 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2355079 TTTTACCTTT
*
2355089 TACTTAATTAAGTCA
1 TACTTAATTAAATCA
2355104 TACTTAATTAAATCA
1 TACTTAATTAAATCA
2355119 T
1 T
2355120 GGATTTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (15 bp):
TACTTAATTAAATCA
Found at i:2361622 original size:52 final size:52
Alignment explanation
Indices: 2361544--2361672 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
2361534 CGAAATATGA
* *
2361544 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* * *
2361596 AAATTTGCCTACATATATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
2361648 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
2361673 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:2361685 original size:52 final size:51
Alignment explanation
Indices: 2361544--2361692 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 51
2361534 CGAAATATGA
*
2361544 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * * *
2361596 AAATTTGCCTACATATATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
2361648 AAATTTGCCTGCATGTATTGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2361693 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:2361699 original size:13 final size:13
Alignment explanation
Indices: 2361681--2361705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2361671 CAAAGATCAG
2361681 TGTATCGATACAA
1 TGTATCGATACAA
2361694 TGTATCGATACA
1 TGTATCGATACA
2361706 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2361783 original size:33 final size:33
Alignment explanation
Indices: 2361746--2361812 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2361736 AGTAGCTTAA
2361746 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
2361779 ATTGTATCGATGCAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2361812 A
1 A
2361813 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2362641 original size:169 final size:171
Alignment explanation
Indices: 2362348--2362734 Score: 448
Period size: 169 Copynumber: 2.3 Consensus size: 171
2362338 GTTTTGCAAT
* * * * *
2362348 GTGCCACTGTG-TAGATTCAAGGCCTGTC-ACACTGGACTTAAAGATGATGAGGATGAAGAGTGA
1 GTGCCAATGTGCT-GATTCAAGGCCAG-CGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGA
*
2362411 TAAAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGA-TAA
64 TAAAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAA
* *
2362475 AAGAGCCAATATGC-GGCTAGCGATATT-AGACTTAAAGAT-AAAG
129 AAGAGCCAAT-T-CAGGCCAGCGACATTGA-ACTTAAAGATGAAAG
*
2362518 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATA
* * * *
2362582 AAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAATATGAGAAAAAGGATGTCA
66 AA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA-GTAA
* * ** *
2362646 ATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
129 AAGAGCCAATTC-AGGCCAGCGACATTGAACTTAAAGAT-G-AAAG
* *
2362692 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
2362735 GTGCCAATGT
Statistics
Matches: 186, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
169 64 0.34
170 47 0.25
171 29 0.16
172 1 0.01
174 45 0.24
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (171 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAA
GAGCCAATTCAGGCCAGCGACATTGAACTTAAAGATGAAAG
Found at i:2362681 original size:55 final size:52
Alignment explanation
Indices: 2362581--2363140 Score: 352
Period size: 49 Copynumber: 11.6 Consensus size: 52
2362571 GAAAAGTGAT
* * * * * ** *
2362581 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAATATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATG-G-A
* * *
2362635 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* *
2362688 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * * *
2362731 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * * **
2362781 -AAGATGCCAATATGCTGATCCAAGGCCAGCGATATTGGGC-T-----TGG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * * *
2362825 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * **
2362873 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----TGG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * * *
2362917 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* *
2362967 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * * * *
2363010 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTGAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
* * * *
2363060 -AAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
2363109 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
2363141 TATTAGGCTT
Statistics
Matches: 413, Mismatches: 60, Indels: 71
0.76 0.11 0.13
Matches are distributed among these distances:
43 143 0.35
44 3 0.01
46 2 0.00
48 1 0.00
49 150 0.36
51 2 0.00
52 66 0.16
53 6 0.01
54 5 0.01
55 35 0.08
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGGA
Found at i:2362749 original size:43 final size:44
Alignment explanation
Indices: 2362688--2363140 Score: 371
Period size: 43 Copynumber: 9.8 Consensus size: 44
2362678 TAAAGATGGA
*
2362688 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT-T
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAT
* *
2362731 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGA-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-AT
* * *
2362775 AAGATGAAGATGCCAATATGCTGATCCAAGGCCAGCGATATTGGGCT-T
1 AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAT
** * *
2362823 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGA-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-AT
* *
2362867 AAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT-T
1 AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAT
** * * *
2362915 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGA-CT----AT
*
2362964 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT-T
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAT
* * *
2363010 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTGA-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-AT
*
2363054 AAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT
1 AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-----AT
*
2363108 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
2363141 TATTAGGCTT
Statistics
Matches: 331, Mismatches: 42, Indels: 68
0.75 0.10 0.15
Matches are distributed among these distances:
43 140 0.42
44 7 0.02
45 3 0.01
46 6 0.02
47 2 0.01
48 3 0.01
49 128 0.39
50 1 0.00
51 1 0.00
52 36 0.11
53 3 0.01
54 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAT
Found at i:2362829 original size:92 final size:92
Alignment explanation
Indices: 2362635--2363138 Score: 720
Period size: 92 Copynumber: 5.3 Consensus size: 92
2362625 AATATGAGAA
* * * *
2362635 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT-G--AAGATGCCAAT
2362700 ATGCTGATTCAAGGCCAGCGATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
2362731 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
* *
2362796 TGATCCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
**
2362823 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
*
2362888 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
** * * *
2362915 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT-G--AAGATGCCAATA
2362980 TGCTGATTCAAGGCCAGCGATATTGGACTT
63 TGCTGATTCAAGGCCAGCGATATTGGACTT
*
2363010 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
* *
2363075 TGATTCAAGGCCAGCTACATTGGACTGAAAGAT
66 TGATTCAAGGCCAGCGATATTGGACT------T
* *
2363108 GAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGC
2363139 GATATTAGGC
Statistics
Matches: 375, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
92 213 0.57
93 1 0.00
94 2 0.01
95 125 0.33
96 5 0.01
98 29 0.08
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:2362994 original size:187 final size:184
Alignment explanation
Indices: 2362635--2363138 Score: 720
Period size: 187 Copynumber: 2.7 Consensus size: 184
2362625 AATATGAGAA
* * * *
2362635 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGAT-G--AAGATGCCAAT
2362700 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
62 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
*
2362765 ATTGGACTGAAAGATGAAGATGCCAATATGCTGATCCAAGGCCAGCGATATTGGGCTT
127 ATTGGACTGAAAGATGAAGATGCCAATATGCTGATCCAAGGCCAGCGATATTGGACTT
**
2362823 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
* **
2362888 TGATTCAAGGCCAGCGATATTGGGCTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
66 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
* * * *
2362953 GATTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
131 GACTGAAAGAT-G--AAGATGCCAATATGCTGATCCAAGGCCAGCGATATTGGACTT
*
2363010 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
* * * *
2363075 TGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
66 TGATTCAAGGCCAGCGATATTGGACT------TAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
2363139 GATATTAGGC
Statistics
Matches: 285, Mismatches: 22, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
184 85 0.30
185 1 0.00
186 1 0.00
187 165 0.58
188 3 0.01
193 30 0.11
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (184 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTGAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
GACTGAAAGATGAAGATGCCAATATGCTGATCCAAGGCCAGCGATATTGGACTT
Found at i:2363193 original size:33 final size:33
Alignment explanation
Indices: 2363151--2363280 Score: 210
Period size: 33 Copynumber: 4.0 Consensus size: 33
2363141 TATTAGGCTT
2363151 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2363184 AGAATGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2363216 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AG
*
2363250 AGAA-AGTTGCCACCGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
2363281 AAAAGGAAAA
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
32 32 0.35
33 55 0.60
34 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2363259 original size:65 final size:65
Alignment explanation
Indices: 2363151--2363279 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
2363141 TATTAGGCTT
* *
2363151 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAATAGTTGCCACCGACTTGTGTGGGCTTTG
2363216 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGAA-AGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAGAATAGTTGCCACCGACTTGTGTGGGCTTT
2363280 AAAAAGGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 56 0.92
66 5 0.08
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (65 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAATAGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:2363307 original size:36 final size:35
Alignment explanation
Indices: 2363159--2363352 Score: 130
Period size: 33 Copynumber: 5.8 Consensus size: 35
2363149 TTAGAAGGGT
* * *
2363159 TGCCACCGACTTGTGTGGGCTTT-AGA-G-AATGG
1 TGCCACAGACTTGTGTGGGCTTTAAAAGGAAAAGG
* * *
2363191 TTGCCACCGACTTGTGTGGGCTTTGAGAAGG----GT
1 -TGCCACAGACTTGTGTGGGCTTT-AAAAGGAAAAGG
* *
2363224 TGCCACCGACTTGTGTGGGCTTTAAAA-G-AAAGT
1 TGCCACAGACTTGTGTGGGCTTTAAAAGGAAAAGG
*
2363257 TGCCACCGACTTGTGTGGGCTTTAAAAAGGAAAAGG
1 TGCCACAGACTTGTGTGGGCTTT-AAAAGGAAAAGG
* *
2363293 TGCCACAGA-GT-TGTGGAC-TTAAAAGGAAAAAGAG
1 TGCCACAGACTTGTGTGGGCTTTAAAAGG-AAAAG-G
*
2363327 TGCCACAGA-GT-TGTGGGC-TTAAAAGG
1 TGCCACAGACTTGTGTGGGCTTTAAAAGG
2363353 GTGCCACGGA
Statistics
Matches: 141, Mismatches: 9, Indels: 21
0.82 0.05 0.12
Matches are distributed among these distances:
30 1 0.01
31 3 0.02
32 29 0.21
33 56 0.40
34 36 0.26
35 3 0.02
36 13 0.09
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (35 bp):
TGCCACAGACTTGTGTGGGCTTTAAAAGGAAAAGG
Found at i:2363308 original size:34 final size:32
Alignment explanation
Indices: 2363281--2363591 Score: 235
Period size: 34 Copynumber: 10.0 Consensus size: 32
2363271 GTGGGCTTTA
*
2363281 AAAAGGAAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* *
2363313 AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGG-AAAAG-GTGCCACGGAGTTGTGGACTT
2363347 AAAA-G----GGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* *
2363374 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGG-AAAAG-GTGCCACGGAGTTGTGGACTT
2363408 AAAA-G----GGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* ** *
2363435 AGAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTT
1 AAAAGG-AAAAG-GTGCCACGGAGTTGTGGACTT
* * *
2363469 AAAA-G----GGTGCCATGAAGTTGTGGGCTT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* *
2363496 TAAA--AAGA-GTGCCACGGAGTTGTGGACTTT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGAC-TT
* *
2363526 GAAAAGAAAAAGGTGCCACGGAGTCGTGGACTT
1 -AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* * * *
2363559 AGAAGGAAAAAGATGCCACAGAGTCGTGGACTT
1 AAAAGG-AAAAGGTGCCACGGAGTTGTGGACTT
2363592 TGAAAAGAGA
Statistics
Matches: 228, Mismatches: 25, Indels: 51
0.75 0.08 0.17
Matches are distributed among these distances:
27 67 0.29
28 5 0.02
29 16 0.07
30 2 0.01
31 3 0.01
32 10 0.04
33 39 0.17
34 86 0.38
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (32 bp):
AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:2363358 original size:27 final size:28
Alignment explanation
Indices: 2363319--2363520 Score: 176
Period size: 27 Copynumber: 6.9 Consensus size: 28
2363309 ACTTAAAAGG
*
2363319 AAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
2363347 -AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTT
2363374 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 ------AAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
2363408 -AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTT
**
2363435 AGAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTT
1 ------AAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
2363469 -AAAAGGGTGCCATGAAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT
2363497 AAAAAGAGTGCCACGGAGTTGTGG
1 AAAAAGAGTGCCACGGAGTTGTGG
2363521 ACTTTGAAAA
Statistics
Matches: 141, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
27 71 0.50
28 2 0.01
29 20 0.14
34 48 0.34
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.21
Consensus pattern (28 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:2363365 original size:61 final size:61
Alignment explanation
Indices: 2363287--2363649 Score: 386
Period size: 61 Copynumber: 5.9 Consensus size: 61
2363277 TTTAAAAAGG
* *
2363287 AAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
*
2363347 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
*
2363408 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
* * * * * *
2363469 AAAAGGGTGCCATGAAGTTGTGGGCTT-----TAAAAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TT
* * *
2363526 GAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGA-TGCCACAGAGTCGTGGAC
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGC
2363590 TTT
60 -TT
* * * * * *
2363593 GAAAAGAGATTGCCACTGAGTCGTGGACTTTGAA-G-AAAAGA-TGCCACTGAATTGTGG
1 -AAAAG-G-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGG
2363650 ACTTTGGAAA
Statistics
Matches: 264, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
56 23 0.09
57 2 0.01
58 5 0.02
60 4 0.02
61 136 0.52
62 19 0.07
63 21 0.08
64 22 0.08
67 25 0.09
68 7 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
Found at i:2363521 original size:90 final size:88
Alignment explanation
Indices: 2363381--2363544 Score: 240
Period size: 90 Copynumber: 1.8 Consensus size: 88
2363371 CTTAGAAGGA
* * *
2363381 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAG-AAGGAAAA
1 AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGAGTGCCACGGAGTTGTGGACTTAGAAAAGAAAA
2363445 AGAGTGCCACAAAGTTGTGGGCTT
66 AG-GTGCCACAAAGTTGTGGGCTT
* * *
2363469 AAAAGGGTGCCATGAAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAA
1 AAAAGAGTGCCACGAAGTTGTGGGC-TT-AAAAGAGTGCCACGGAGTTGTGGACTTAGAAAAGAA
2363534 AAAGGTGCCAC
64 AAAGGTGCCAC
2363545 GGAGTCGTGG
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 22 0.33
89 2 0.03
90 34 0.51
91 9 0.13
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (88 bp):
AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGAGTGCCACGGAGTTGTGGACTTAGAAAAGAAAA
AGGTGCCACAAAGTTGTGGGCTT
Found at i:2363608 original size:31 final size:30
Alignment explanation
Indices: 2363320--2363664 Score: 154
Period size: 27 Copynumber: 11.3 Consensus size: 30
2363310 CTTAAAAGGA
* * *
2363320 AAAAGAG-TGCCACAGAGTTGTGGGC-TT-
1 AAAAGAGATGCCACGGAGTCGTGGACTTTG
* * *
2363347 AAAAG-GGTGCCACGGAGTTGTGGACTTAG
1 AAAAGAGATGCCACGGAGTCGTGGACTTTG
* * *
2363376 AAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-
1 -A--AAAGAGA-TGCCACGGAGTCGTGGACTTTG
* * *
2363408 AAAAG-GGTGCCACGGAGTTGTGGACTTAG
1 AAAAGAGATGCCACGGAGTCGTGGACTTTG
* ** * *
2363437 AAGGAAAAAGAGTGCCACAAAGTTGTGGGC-TT-
1 -A--AAAGAGA-TGCCACGGAGTCGTGGACTTTG
* * * * * *
2363469 AAAAG-GGTGCCATGAAGTTGTGGGCTTTA
1 AAAAGAGATGCCACGGAGTCGTGGACTTTG
*
2363498 AAAAGAG-TGCCACGGAGTTGTGGACTTTG
1 AAAAGAGATGCCACGGAGTCGTGGACTTTG
* *
2363527 AAAAGAAAAAGGTGCCACGGAGTCGTGGACTTAG
1 AAAAG----AGATGCCACGGAGTCGTGGACTTTG
* *
2363561 AAGGAAAAAGATGCCACAGAGTCGTGGACTTTG
1 -A--AAAGAGATGCCACGGAGTCGTGGACTTTG
*
2363594 AAAAGAGATTGCCACTGAGTCGTGGACTTTG
1 AAAAGAGA-TGCCACGGAGTCGTGGACTTTG
* * * *
2363625 AAGAAAAGATGCCACTGAATTGTGGACTTTG
1 AA-AAGAGATGCCACGGAGTCGTGGACTTTG
*
2363656 GAAAGAGAT
1 AAAAGAGAT
2363665 TTGAAGAATT
Statistics
Matches: 252, Mismatches: 38, Indels: 53
0.73 0.11 0.15
Matches are distributed among these distances:
26 1 0.00
27 54 0.21
28 6 0.02
29 34 0.13
30 15 0.06
31 46 0.18
32 12 0.05
33 28 0.11
34 52 0.21
35 1 0.00
37 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (30 bp):
AAAAGAGATGCCACGGAGTCGTGGACTTTG
Found at i:2364627 original size:24 final size:24
Alignment explanation
Indices: 2364600--2364647 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2364590 GGTTTTTCCC
2364600 TTCTTCTTCTTCTTTT-TTTTTTGT
1 TTCTTCTT-TTCTTTTCTTTTTTGT
*
2364624 TTCTTCTTTTTTTTTCTTTTTTGT
1 TTCTTCTTTTCTTTTCTTTTTTGT
2364648 GTTTGGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (24 bp):
TTCTTCTTTTCTTTTCTTTTTTGT
Found at i:2371894 original size:52 final size:52
Alignment explanation
Indices: 2371816--2371944 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
2371806 CGAAATATGA
* * * *
2371816 AAATTTACCTGCATATATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
*
2371868 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
2371920 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2371945 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
Found at i:2371957 original size:52 final size:51
Alignment explanation
Indices: 2371816--2371964 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
2371806 CGAAATATGA
* * *
2371816 AAATTTACCTGCATATATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
* *
2371868 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
*
2371920 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2371965 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:2371971 original size:13 final size:13
Alignment explanation
Indices: 2371953--2371977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2371943 CAAAGATCAG
2371953 TGTATCGATACAA
1 TGTATCGATACAA
2371966 TGTATCGATACA
1 TGTATCGATACA
2371978 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2372055 original size:33 final size:33
Alignment explanation
Indices: 2372018--2372084 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2372008 AGTAGCTTAA
2372018 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2372051 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2372084 A
1 A
2372085 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2372058 original size:13 final size:13
Alignment explanation
Indices: 2372040--2372064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2372030 CAAAAAAATA
2372040 TGTATCGATACAT
1 TGTATCGATACAT
2372053 TGTATCGATACA
1 TGTATCGATACA
2372065 ACACTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2376434 original size:13 final size:13
Alignment explanation
Indices: 2376416--2376440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2376406 ATAATGCACA
2376416 GTATCGATACATT
1 GTATCGATACATT
2376429 GTATCGATACAT
1 GTATCGATACAT
2376441 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2376453 original size:20 final size:21
Alignment explanation
Indices: 2376428--2376480 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2376418 ATCGATACAT
*
2376428 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
2376448 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
2376469 TGTATCGATACA
1 TGTATCGATACA
2376481 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:2378179 original size:3 final size:3
Alignment explanation
Indices: 2378165--2378195 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2378155 CATCAAGGAC
*
2378165 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2378196 GTGACTCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2382758 original size:13 final size:13
Alignment explanation
Indices: 2382740--2382775 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2382730 GCATTCTCTA
2382740 TATCGATACA-TAG
1 TATCGATACAGT-G
2382753 TATCGATACAGTG
1 TATCGATACAGTG
2382766 TATCGATACA
1 TATCGATACA
2382776 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 21 0.95
14 1 0.05
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:2383854 original size:13 final size:13
Alignment explanation
Indices: 2383836--2383861 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2383826 TACAGCAAGT
2383836 ATGTATCGATACA
1 ATGTATCGATACA
2383849 ATGTATCGATACA
1 ATGTATCGATACA
2383862 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2386119 original size:21 final size:21
Alignment explanation
Indices: 2386086--2386130 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2386076 TTGCAAGTTG
*
2386086 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2386108 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2386128 AAA
1 AAA
2386131 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2387954 original size:15 final size:15
Alignment explanation
Indices: 2387934--2387964 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2387924 TAAAAATGTC
*
2387934 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2387949 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2387964 C
1 C
2387965 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2390052 original size:13 final size:13
Alignment explanation
Indices: 2390034--2390072 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2390024 ACATTTTTCT
2390034 TTGTATCGATACA
1 TTGTATCGATACA
2390047 TTGTATCGATACA
1 TTGTATCGATACA
*
2390060 CTGTATCGATACA
1 TTGTATCGATACA
2390073 GGAGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2390555 original size:21 final size:20
Alignment explanation
Indices: 2390513--2390555 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2390503 GGCAGCACCA
* *
2390513 CCAGGTCGCGACCGGCATTC
1 CCAGGTCGCAACCGGCAGTC
2390533 CCAGGTCGCAACCGGGCAGTC
1 CCAGGTCGCAACC-GGCAGTC
2390554 CC
1 CC
2390556 CACACTAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.16, C:0.42, G:0.30, T:0.12
Consensus pattern (20 bp):
CCAGGTCGCAACCGGCAGTC
Found at i:2392632 original size:13 final size:13
Alignment explanation
Indices: 2392614--2392639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2392604 TATAGCAAGT
2392614 ATGTATCGATACA
1 ATGTATCGATACA
2392627 ATGTATCGATACA
1 ATGTATCGATACA
2392640 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2394569 original size:21 final size:21
Alignment explanation
Indices: 2394543--2394585 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2394533 TTCTGTAAAT
2394543 AAATTTATGATTAAGGGGGAG
1 AAATTTATGATTAAGGGGGAG
* *
2394564 AAATTTTTTATTAAGGGGGAG
1 AAATTTATGATTAAGGGGGAG
2394585 A
1 A
2394586 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (21 bp):
AAATTTATGATTAAGGGGGAG
Found at i:2395160 original size:13 final size:13
Alignment explanation
Indices: 2395142--2395166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2395132 ATAATGCACA
2395142 GTATCGATACATT
1 GTATCGATACATT
2395155 GTATCGATACAT
1 GTATCGATACAT
2395167 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2395179 original size:20 final size:21
Alignment explanation
Indices: 2395154--2395206 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2395144 ATCGATACAT
**
2395154 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGAAAAAAA
*
2395174 TGTATCGATACTTGAAAAAAA
1 TGTATCGATACATGAAAAAAA
2395195 TGTATCGATACA
1 TGTATCGATACA
2395207 GGTGATTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAAA
Found at i:2396555 original size:13 final size:13
Alignment explanation
Indices: 2396537--2396574 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2396527 ACAATATTTC
2396537 TTGTATCGATACA
1 TTGTATCGATACA
2396550 TTGTATCGATACA
1 TTGTATCGATACA
*
2396563 ATGTATCGATAC
1 TTGTATCGATAC
2396575 CTGGGTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2398484 original size:22 final size:22
Alignment explanation
Indices: 2398459--2398505 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2398449 TATTTTAATT
2398459 TTTGACAAAGGAGGAGAAATGC
1 TTTGACAAAGGAGGAGAAATGC
** * *
2398481 TTTGATTAAGGGGGAGAAATTC
1 TTTGACAAAGGAGGAGAAATGC
2398503 TTT
1 TTT
2398506 AATCAAGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGACAAAGGAGGAGAAATGC
Found at i:2398517 original size:22 final size:22
Alignment explanation
Indices: 2398471--2398521 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2398461 TGACAAAGGA
* * *
2398471 GGAGAAATGCTTTGATTAAGGG
1 GGAGAAATGCTTTAATCAAGAG
*
2398493 GGAGAAATTCTTTAATCAAGAG
1 GGAGAAATGCTTTAATCAAGAG
2398515 GGAGAAA
1 GGAGAAA
2398522 AACGAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.31, T:0.24
Consensus pattern (22 bp):
GGAGAAATGCTTTAATCAAGAG
Found at i:2399069 original size:20 final size:19
Alignment explanation
Indices: 2399046--2399118 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
2399036 CTCACCTAGA
*
2399046 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
2399066 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
*
2399085 TGTATCGATACATAG-ACAAT
1 TGTATCGATACAT-GTTC-AT
2399105 TGTATCGATACATG
1 TGTATCGATACATG
2399119 AAATTGGCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:2399186 original size:13 final size:13
Alignment explanation
Indices: 2399168--2399215 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
2399158 CATGGTGCAA
2399168 TGTATCGATACAT
1 TGTATCGATACAT
2399181 TGTATCGATACA-
1 TGTATCGATACAT
2399193 TG-AT-G--A-AT
1 TGTATCGATACAT
2399201 TGTATCGATACAT
1 TGTATCGATACAT
2399214 TG
1 TG
2399216 CTTATAACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2399189 original size:33 final size:33
Alignment explanation
Indices: 2399147--2399215 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
2399137 CTACCACTAT
*
2399147 TTGTATCGATACATGGTGCAA-TGTATCGATACA
1 TTGTATCGATACATGATG-AATTGTATCGATACA
2399180 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
2399213 TTG
1 TTG
2399216 CTTATAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:2400393 original size:16 final size:15
Alignment explanation
Indices: 2400365--2400396 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
2400355 AGTAGAAAAT
2400365 TAATTTAATTTTATA
1 TAATTTAATTTTATA
2400380 TAATTTATATTTTATA
1 TAATTTA-ATTTTATA
2400396 T
1 T
2400397 TTTTGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTTAATTTTATA
Found at i:2402044 original size:42 final size:42
Alignment explanation
Indices: 2401997--2402077 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
2401987 TAGAGGTCTT
* *
2401997 CTAGAATATTTTTAGGTTAACCTACTTAAGTTAGCTCTCCAA
1 CTAGAATATTTTTAAGTTAACCGACTTAAGTTAGCTCTCCAA
2402039 CTAGAATATTTTTAAGTTAACCGACTTAAGTTAGCTCTC
1 CTAGAATATTTTTAAGTTAACCGACTTAAGTTAGCTCTC
2402078 TAATGGTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (42 bp):
CTAGAATATTTTTAAGTTAACCGACTTAAGTTAGCTCTCCAA
Found at i:2402650 original size:16 final size:16
Alignment explanation
Indices: 2402631--2402669 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
2402621 ATTCTATTTT
2402631 TTATTGA-TTCAGTGAA
1 TTATTGATTTCA-TGAA
*
2402647 TTATTGATTTCATGAT
1 TTATTGATTTCATGAA
2402663 TTATTGA
1 TTATTGA
2402670 CTTTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (16 bp):
TTATTGATTTCATGAA
Found at i:2404789 original size:30 final size:30
Alignment explanation
Indices: 2404755--2404813 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
2404745 ATTGATTTTG
2404755 AGCCACAAATTCCGAATCATGCTCGAGCTA
1 AGCCACAAATTCCGAATCATGCTCGAGCTA
2404785 AGCCACAAATTCCGAATCATGCTCGAGCT
1 AGCCACAAATTCCGAATCATGCTCGAGCT
2404814 TGACGTGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (30 bp):
AGCCACAAATTCCGAATCATGCTCGAGCTA
Found at i:2408917 original size:29 final size:29
Alignment explanation
Indices: 2408884--2408950 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
2408874 TCTTGTACCC
*
2408884 AATTAAGCCCTTAAA-GTACTGTTTTGAAT
1 AATTAAGCCCTAAAAGGTACT-TTTTGAAT
* **
2408913 AATTAAGCTCTAAAAGGTACTTTTTGTTT
1 AATTAAGCCCTAAAAGGTACTTTTTGAAT
2408942 AATTAAGCC
1 AATTAAGCC
2408951 TTCGTTGCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (29 bp):
AATTAAGCCCTAAAAGGTACTTTTTGAAT
Found at i:2412356 original size:2 final size:2
Alignment explanation
Indices: 2412349--2412377 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2412339 TTCCTTTCTC
2412349 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2412378 CAATAGAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2414371 original size:21 final size:21
Alignment explanation
Indices: 2414345--2414384 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2414335 CAGTTACGTA
*
2414345 AATC-AATACCTTTGTCTCCTC
1 AATCAAAT-CCTTTATCTCCTC
2414366 AATCAAATCCTTTATCTCC
1 AATCAAATCCTTTATCTCC
2414385 CGCAAGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.38
Consensus pattern (21 bp):
AATCAAATCCTTTATCTCCTC
Found at i:2419547 original size:23 final size:23
Alignment explanation
Indices: 2419499--2419549 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2419489 GTAGAAATAG
* *
2419499 AAAATTAAAAATAAAAATTAATA
1 AAAATCAAAAATAAAAATTAAAA
*
2419522 AAAATCAAATAATAACAA-TAAAA
1 AAAATCAAA-AATAAAAATTAAAA
2419545 AAAAT
1 AAAAT
2419550 TATGAAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAATCAAAAATAAAAATTAAAA
Found at i:2419548 original size:24 final size:23
Alignment explanation
Indices: 2419499--2419548 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
2419489 GTAGAAATAG
* * *
2419499 AAAATTAAAAATAAAAATTAATA
1 AAAATCAAAAATAAAAATAAAAA
*
2419522 AAAATCAAATAATAACAATAAAAA
1 AAAATCAAA-AATAAAAATAAAAA
2419546 AAA
1 AAA
2419549 TTATGAAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATCAAAAATAAAAATAAAAA
Found at i:2420082 original size:28 final size:28
Alignment explanation
Indices: 2420046--2420102 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2420036 GCAGTAGCTT
* *
2420046 CTAGTAGCAAGAGTA-TCTGAAACCAACA
1 CTAGCAGCAAGAGCATTC-GAAACCAACA
*
2420074 CTAGCAGCAGGAGCATTCGAAACCAACA
1 CTAGCAGCAAGAGCATTCGAAACCAACA
2420102 C
1 C
2420103 CGGCAGCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.14
Consensus pattern (28 bp):
CTAGCAGCAAGAGCATTCGAAACCAACA
Found at i:2423393 original size:13 final size:13
Alignment explanation
Indices: 2423375--2423401 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2423365 ATATTATGCT
2423375 TTGTATCGATACA
1 TTGTATCGATACA
2423388 TTGTATCGATACA
1 TTGTATCGATACA
2423401 T
1 T
2423402 GATCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2423398 original size:33 final size:32
Alignment explanation
Indices: 2423356--2423417 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
2423346 CACACCCAGA
* * *
2423356 TGTATCGATATATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
2423389 TGTATCGATACATGATCATTGTATCGATA
1 TGTATCGATACATGATCATTGTATCGATA
2423418 TATGGACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:2423431 original size:20 final size:19
Alignment explanation
Indices: 2423386--2423442 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
2423376 TGTATCGATA
2423386 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
*
2423405 CATTGTATCGATATATGGA-
1 CATTGTATCGATACAT-GAT
2423424 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
2423443 AACTGGAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:2424467 original size:15 final size:16
Alignment explanation
Indices: 2424442--2424474 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2424432 TTGATTATGG
2424442 TTAATGGATTTCAAAA
1 TTAATGGATTTCAAAA
2424458 TTAA-GGATTTCAAAA
1 TTAATGGATTTCAAAA
2424473 TT
1 TT
2424475 TTGAAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TTAATGGATTTCAAAA
Found at i:2427623 original size:13 final size:13
Alignment explanation
Indices: 2427605--2427653 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
2427595 ACATACAAGA
2427605 TGTATCGATACAT
1 TGTATCGATACAT
2427618 TGTATCGATACA-
1 TGTATCGATACAT
*
2427630 TG-A-CCA-A-AT
1 TGTATCGATACAT
2427639 TGTATCGATACAT
1 TGTATCGATACAT
2427652 TG
1 TG
2427654 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2427648 original size:34 final size:32
Alignment explanation
Indices: 2427585--2427653 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2427575 CCTTAACTGT
2427585 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
2427617 TTGTATCGATACATGACCAA-ATTGTATCGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
2427651 TTG
1 TTG
2427654 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 2 0.06
34 18 0.53
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:2429152 original size:52 final size:51
Alignment explanation
Indices: 2429089--2429484 Score: 276
Period size: 52 Copynumber: 7.6 Consensus size: 51
2429079 GAAATAATGA
** *
2429089 GGTTGGAGTATCCTTGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAACCGG
* ** * *
2429141 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAACCGG
* *
2429193 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * * * *** * *
2429244 GGTTGGAGTTTCCCCCATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
**** * ** ** * * *
2429295 GGTTGGAGTATCCCC--TCCAAAATAACAGGGTTGGAGTATCCCCGGTGAGATAA-CGA
1 GGTTGGAGTATCCCCGATTGTGAA-AA-A---TTGGTGT-T--TTGGAAATAAAACCGG
* * *
2429351 GATTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAACCGG
* ** * * *
2429403 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * *
2429455 GGTTGGTGTATCCCCGATTATGAATAATTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTG
2429485 AGAAACTTAA
Statistics
Matches: 261, Mismatches: 69, Indels: 29
0.73 0.19 0.08
Matches are distributed among these distances:
49 2 0.01
50 2 0.01
51 97 0.37
52 102 0.39
53 28 0.11
54 3 0.01
55 1 0.00
56 16 0.06
57 7 0.03
58 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:2429220 original size:104 final size:102
Alignment explanation
Indices: 2429089--2429309 Score: 273
Period size: 102 Copynumber: 2.1 Consensus size: 102
2429079 GAAATAATGA
** * * *
2429089 GGTTGGAGTATCCTTGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTAGAAATAAAACCGGAGTTGGAGTATCC
* *** *
2429154 CCGATTAAAGGA-AAATTGGTGTTTTGAAAATAAAACCGG
65 CCCATT--AGGAGAAATCAATATTTTGAAAATAAAACCGG
* *
2429193 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTTTCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCC
* * *
2429258 CCATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
66 CCATTAGGAGAAATCAATATTTTGAAAATAAAACCGG
2429295 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2429310 TCCAAAATAA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
101 3 0.03
102 36 0.36
103 32 0.32
104 30 0.30
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (102 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCC
CCATTAGGAGAAATCAATATTTTGAAAATAAAACCGG
Found at i:2431852 original size:34 final size:33
Alignment explanation
Indices: 2431813--2431877 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
2431803 AACTTCCTAG
*
2431813 ATGTATCGATACAAAGAATAGATGTATCGATATA
1 ATGTATCGATACAAAGAA-AAATGTATCGATATA
*
2431847 ATGTATCGATACATAGAAAAATGTATCGATA
1 ATGTATCGATACAAAGAAAAATGTATCGATA
2431878 CATTTCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATATA
Found at i:2431935 original size:19 final size:20
Alignment explanation
Indices: 2431911--2431964 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
2431901 AGCGATACAT
*
2431911 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
* **
2431930 TGTATCAATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
2431951 TGTATCGATACAAA
1 TGTATCGATACAAA
2431965 TTATTGGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:2433013 original size:29 final size:29
Alignment explanation
Indices: 2432932--2433013 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 29
2432922 GACTGGAAAA
2432932 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** *
2432961 TGTCCTGC-TCTT-TG-GGGAC--TGAAAGG
1 TG-CCACCAACTTGTGTGGG-CTTTGAAAGG
2432987 TGCCACCAACTTGTGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
2433014 AGAAAAAGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
25 3 0.08
26 12 0.30
27 6 0.15
28 6 0.15
29 10 0.25
30 3 0.08
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:2433158 original size:61 final size:59
Alignment explanation
Indices: 2432743--2433630 Score: 999
Period size: 55 Copynumber: 15.4 Consensus size: 59
2432733 ATAAAGTGCA
* * * * * *
2432743 TCCTACTCTTTGAGGACTAAAAAGTACCACCAACTCGTGTAGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
2432798 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACCTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
2432853 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
2432908 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
2432963 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
2433024 TCCTACTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
2433083 TCCTGCTCTCTGAGGACTGGAAAATGACACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
2433144 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
2433203 TCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
2433262 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-GGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
2433316 TCCTACTCTTTGAGGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACTGAA-A-GTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
2433377 TCCTGCTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
2433432 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
2433493 TCTTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
2433548 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
2433609 TCCTGCTCTTTGAGGACT-AAAG
1 TCCTGCTCTTTGAGGACTGAAAG
2433631 GGCGAAAGGA
Statistics
Matches: 733, Mismatches: 58, Indels: 80
0.84 0.07 0.09
Matches are distributed among these distances:
52 2 0.00
53 2 0.00
54 47 0.06
55 281 0.38
56 12 0.02
57 1 0.00
59 137 0.19
60 66 0.09
61 183 0.25
62 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:2433461 original size:116 final size:115
Alignment explanation
Indices: 2432743--2433631 Score: 1109
Period size: 116 Copynumber: 7.7 Consensus size: 115
2432733 ATAAAGTGCA
* * * * *
2432743 TCCTACTCTTTGAGGACTAAAAAGTACCACCAACTCGTGTAGGCTTT----GA-AAGGTGTCCTG
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTG
* *
2432803 CTCTTTGAGGACTGAAAGGTGCCACCAACCTGTGTGGGCTTT-AAGAGGTG
66 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
2432853 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---A-AG-AGGTGTCCT
1 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCT
* *
2432912 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
65 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
2432963 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCCT
* * *
2433028 ACTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGAAAAGGCG
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * * * *
2433083 TCCTGCTCTCTGAGGACTGGAAAA-TGACACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCC
2433147 TGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
64 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
2433203 TCCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTG
*
2433267 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGT-GGCTTTGAAAGGCG
66 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2433316 TCCTACTCTTTGAGGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCC
1 TCCTACTCTTTGAGGACTGAA-AAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCC
*
2433380 TGCTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
64 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2433432 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCTT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCT
* *
2433497 GCTTTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGCG
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
2433548 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCT
2433613 GCTCTTTGAGGACT-AAAGG
65 GCTCTTTGAGGACTGAAAGG
2433632 GCGAAAGGAG
Statistics
Matches: 705, Mismatches: 45, Indels: 53
0.88 0.06 0.07
Matches are distributed among these distances:
109 4 0.01
110 128 0.18
111 10 0.01
113 26 0.04
114 36 0.05
115 56 0.08
116 230 0.33
117 2 0.00
118 37 0.05
119 61 0.09
120 111 0.16
121 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (115 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTG
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2433718 original size:100 final size:100
Alignment explanation
Indices: 2433545--2433729 Score: 307
Period size: 100 Copynumber: 1.9 Consensus size: 100
2433535 GCTTTGAAAG
* * * * *
2433545 GCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTACTCTTTGAGCACTGAAAAGTGCCACCAACTTGTGGGGGCTTTAAAAGAAAAAGGCAT
2433610 CCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
66 CCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
**
2433645 GCGTCCTACTCTTTGAGCACTGGGAAGTGCCACCAACTTGTGGGGGCTTTAAAAGAAAAAGGCAT
1 GCGTCCTACTCTTTGAGCACTGAAAAGTGCCACCAACTTGTGGGGGCTTTAAAAGAAAAAGGCAT
2433710 CCTGCTCTTTGAGGACTAAA
66 CCTGCTCTTTGAGGACTAAA
2433730 AAGCGGAAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
GCGTCCTACTCTTTGAGCACTGAAAAGTGCCACCAACTTGTGGGGGCTTTAAAAGAAAAAGGCAT
CCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
Found at i:2434702 original size:1 final size:1
Alignment explanation
Indices: 2434696--2434774 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
2434686 AAGCAGATTC
* * * * ** * * **
2434696 TTTTTTTTTCTTTGTTTTTTTTTATTTTTTTTTGTTCGTTTTTTTTGTTGTTTTTTTTTGCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
2434761 GTTGTTTTTTTTTT
1 TTTTTTTTTTTTTT
2434775 ATAGAAAAGA
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.85
Consensus pattern (1 bp):
T
Done.