Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 20 of 38
Found at i:3033719 original size:101 final size:99
Alignment explanation
Indices: 3033399--3033786 Score: 315
Period size: 101 Copynumber: 3.8 Consensus size: 99
3033389 GGTGGCATCT
* * *
3033399 TCTTCTAAAACCAATATCGCTGGCCTTGAATCAGCATATTGG-CGCCTTTGTCATCTTTAAGTCC
1 TCTTCTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGTTG-C--T-TCATCTTTAAGTCC
* *
3033463 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
62 AATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCA
* * * **
3033501 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-CGTCATCTTTAAAACC
1 TCTTCTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG----TTGCTTCATCTTTAAGTCC
*
3033564 AATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCA
62 AATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTT--TCA
* * *
3033605 TCTT-TCAA-ACCAATGTCGCCGGCCTTGAATCAGCACATTGGTTGCTTCATCTTTAAGTCCGAT
1 TCTTCT-AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGTTGCTTCATCTTTAAGTCCAAT
* * * *
3033668 ATCGTTGGTCTTGAATCAGCATATTGGCATCTTTAA
65 GTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTCA
* * * ** ** * * *
3033704 TATTCCTAAGCCCAATGTCATTGGCCTTGTCTCAGCACATT-G--ACATTCTTCTTTAAGTCTAA
1 TCTT-CTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGTTGC-TTCATCTTTAAGTCCAA
**
3033766 TGTCGCTGGCCACGAATCAGC
64 TGTCGCTGGCCTTGAATCAGC
3033787 GCATTGTCAT
Statistics
Matches: 233, Mismatches: 39, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
98 1 0.00
99 35 0.15
100 5 0.02
101 146 0.63
102 6 0.03
104 38 0.16
105 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (99 bp):
TCTTCTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGTTGCTTCATCTTTAAGTCCAATG
TCGCTGGCCTTGAATCAGCATATTGGCACTTTCA
Found at i:3033740 original size:153 final size:152
Alignment explanation
Indices: 3033404--3033732 Score: 428
Period size: 153 Copynumber: 2.2 Consensus size: 152
3033394 CATCTTCTTC
* * * * *
3033404 TAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAAACCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCAATGTC
*
3033469 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
66 GCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
3033534 CATATTGGCACCTTCGTCATCTT
131 CATATTGGCACCTTC-TAATATT
* *
3033557 TAAAACCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTCAA-ACCAATGT
1 TAAAACCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT-AAGACCAATGT
*** * * *
3033621 CGCCGGCCTTGAATCAGCACATTGGTTGCTTCATCTTTAAGTCCGATATCGTTGGTCTTGAATCA
65 CGCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
*
3033686 GCATATTGGCATCTT-TAATATT
130 GCATATTGGCACCTTCTAATATT
** *
3033708 CCTAAGCCCAATGTCATTGGCCTTG
1 --TAAAACCAATGTCACTGGCCTTG
3033733 TCTCAGCACA
Statistics
Matches: 154, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
151 5 0.03
153 147 0.95
154 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (152 bp):
TAAAACCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCAATGTC
GCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
CATATTGGCACCTTCTAATATT
Found at i:3034270 original size:20 final size:20
Alignment explanation
Indices: 3034245--3034321 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
3034235 TTTTACCAAG
3034245 ATGTATCAATACATTCTTCA
1 ATGTATCAATACATTCTTCA
* * *
3034265 ATGTATCGATACATGT-ATGA
1 ATGTATCAATACAT-TCTTCA
* *
3034285 CTATATCAATACATTCTTCA
1 ATGTATCAATACATTCTTCA
* *
3034305 ATGTCTCGATACATTCT
1 ATGTATCAATACATTCT
3034322 GTCTTTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATTCTTCA
Found at i:3046670 original size:21 final size:21
Alignment explanation
Indices: 3046600--3046673 Score: 98
Period size: 21 Copynumber: 3.5 Consensus size: 21
3046590 AAAAATTTCC
3046600 AAATGTATCGATACATTTGTA
1 AAATGTATCGATACATTTGTA
*
3046621 GAATGTATCGATACATTTGTGA
1 AAATGTATCGATACATTTGT-A
*
3046643 AAA-GTATCGATACA-TTCTA
1 AAATGTATCGATACATTTGTA
3046662 CAAATGTATCGA
1 -AAATGTATCGA
3046674 CACAGGGTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.02
20 6 0.13
21 37 0.79
22 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTA
Found at i:3046793 original size:20 final size:20
Alignment explanation
Indices: 3046768--3046822 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3046758 GCCAAGGAAA
*
3046768 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
3046788 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
3046808 TGTATCGATACATTT
1 TGTATCGATACATTT
3046823 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:3049403 original size:28 final size:28
Alignment explanation
Indices: 3049368--3049436 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
3049358 TCACAGTCGA
*
3049368 GGATACTCCAACCTCGTTATTTCATCG-GG
1 GGATACTCCAACCTCGTTACTTC--CGAGG
3049397 GG-TACTCCAACCTCGTTACTTCCGAGG
1 GGATACTCCAACCTCGTTACTTCCGAGG
3049424 GGATACTCCAACC
1 GGATACTCCAACC
3049437 CCGACTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 29 0.78
29 2 0.05
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACTTCCGAGG
Found at i:3049408 original size:108 final size:108
Alignment explanation
Indices: 3049205--3049493 Score: 352
Period size: 107 Copynumber: 2.7 Consensus size: 108
3049195 TTCTATAATC
*
3049205 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTCTTCACAATCGAGGATACTCC
*
3049270 AACCCCGTTAATCATCGGGGATACTCCAACC-CTGTTATTTCCGA
65 AACCCCGTTAATCATCGGGGATACTCCAACCTC-GTTACTTCCGA
* * * *
3049314 GGGGATATTCCAACTCTGATTTTATTTCCAAAAATACCAATTT-TTCACAGTCGAGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * *
3049378 ACCTCGTTATTTCATCGGGGGTACTCCAACCTCGTTACTTCCGA
66 ACCCCGTTA-ATCATCGGGGATACTCCAACCTCGTTACTTCCGA
* * * * *** * * *
3049422 GGGGATACTCCAACCCCGACTTTA-TTCCCAAAATATTGATTTC-TCATAATTGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
3049485 ACCCCGTTA
66 ACCCCGTTA
3049494 TTTTCGAGGG
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
107 65 0.42
108 62 0.40
109 28 0.18
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (108 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
ACCCCGTTAATCATCGGGGATACTCCAACCTCGTTACTTCCGA
Found at i:3049568 original size:78 final size:79
Alignment explanation
Indices: 3049393--3049596 Score: 232
Period size: 78 Copynumber: 2.6 Consensus size: 79
3049383 GTTATTTCAT
* * * *
3049393 CGGGGGTACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
3049458 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
3049472 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGA-TTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
3049535 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
3049550 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
3049597 TTATTATCTC
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.03
78 60 0.57
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:3061917 original size:12 final size:13
Alignment explanation
Indices: 3061902--3061953 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
3061892 CTTCTCTTAA
3061902 AAAAAAGCAAAA-
1 AAAAAAGCAAAAC
*
3061914 AAAAAAG-AAAAG
1 AAAAAAGCAAAAC
*
3061926 AAAAAAACAAAAC
1 AAAAAAGCAAAAC
3061939 AAAAAA-CAAAAC
1 AAAAAAGCAAAAC
3061951 AAA
1 AAA
3061954 GAAAAAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 4 0.11
12 22 0.61
13 10 0.28
ACGTcount: A:0.85, C:0.10, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAGCAAAAC
Found at i:3061941 original size:29 final size:28
Alignment explanation
Indices: 3061900--3061959 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
3061890 ACCTTCTCTT
*
3061900 AAAAAAAAGCAAAAAA-AAAAGAAAAGAA
1 AAAAAAAAACAAAAAACAAAA-AAAAGAA
*
3061928 AAAAACAAAACAAAAAACAAAACAAAGAA
1 AAAAA-AAAACAAAAAACAAAAAAAAGAA
3061957 AAA
1 AAA
3061960 GAGAGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.18
29 19 0.68
30 4 0.14
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (28 bp):
AAAAAAAAACAAAAAACAAAAAAAAGAA
Found at i:3063237 original size:55 final size:54
Alignment explanation
Indices: 3062938--3064047 Score: 1056
Period size: 55 Copynumber: 19.4 Consensus size: 54
3062928 TCCTTCCGCT
*
3062938 TTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
3062992 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TT-TCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCAC
* * *
3063053 TTTCCAGTCTTCAAAGAGCGGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACC---T--TTCAAAGCCCACACAAGTTGGTGGCAC
* *
3063113 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG-TGGATGGCACC
1 TT-TCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGG-TGGCA-C
* * * *
3063175 TTTCAGTCCCCGAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
3063229 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
3063284 CTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCAC
* * * *
3063343 CTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCAGC-CGAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCA-CACAAGTTGGTGGCAC
* * *
3063402 CTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* *
3063463 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCATACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
3063517 TTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * *
3063572 TTTCCAGTCCTTAGAGAGCAGGAAACCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * *
3063627 CTTCAGTCCTCAAAGTGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
3063686 CTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTGAAGCCCACCCAAGTTGGTGACAC
1 TTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCAC
* * * *
3063745 CTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * * *
3063806 TTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCAACACAAGTTGGTGGTACC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * * *
3063861 TTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGAATT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* *
3063916 TTTCAGTCCTTAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTAGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-C
* * *
3063971 TTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
3064025 TTTTTACTCCTCAATGAGCAGGA
1 -TTTCAGTCCTCAAAGAGCAGGA
3064048 TACACTTTAT
Statistics
Matches: 906, Mismatches: 91, Indels: 117
0.81 0.08 0.11
Matches are distributed among these distances:
54 50 0.06
55 411 0.45
56 7 0.01
57 2 0.00
59 198 0.22
60 91 0.10
61 130 0.14
62 3 0.00
64 10 0.01
65 3 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (54 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:3063285 original size:29 final size:29
Alignment explanation
Indices: 3063197--3063286 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
3063187 AAGAGTAGGA
*
3063197 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAAAGCCCACACAAGTTGGTGG
** * * * **
3063226 CA--TTTTCCAGTCCTCA-AAG-AGCAGG
1 CACCTTTTAAAGCCCACACAAGTTGGTGG
3063251 ACACCTTTTAAAGCCCACACAAGTTGGTGG
1 -CACCTTTTAAAGCCCACACAAGTTGGTGG
3063281 CACCTT
1 CACCTT
3063287 CAGTCCTCAA
Statistics
Matches: 41, Mismatches: 15, Indels: 10
0.62 0.23 0.15
Matches are distributed among these distances:
25 3 0.07
26 5 0.12
27 9 0.22
28 10 0.24
29 11 0.27
30 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (29 bp):
CACCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:3063487 original size:288 final size:283
Alignment explanation
Indices: 3062937--3064047 Score: 1340
Period size: 288 Copynumber: 3.9 Consensus size: 283
3062927 CTCCTTCCGC
*
3062937 TTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTC
1 TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTC
* ** *
3063001 CTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCTTCA
65 CTCAAAGAGCAGGACG-----ACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCA
* * *
3063066 AAGAGCGGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGA
124 AAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGA
* * * * *
3063130 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAG-TGGATGGCACCTTTCAGTCCCCGAAGAGTA
187 GCAGGACG-CTTTTTCTTTTAAAGCCCACACAAGTTGG-TGGCACCTTTCAGTCCTCAAAGAGCA
3063194 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
250 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
3063228 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* *
3063292 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
65 CTCAAAGAGCAGGACGAC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
* *
3063357 GAGCGGGACGCCTTTTCTTTTAAAGCCCAGC-CGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
126 GAGCGGGACACCTTTTCTTTTAAAGCCCA-CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
*
3063421 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
190 GGACGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
*
3063486 ACCTTTCAAAGCCCATACAAGTTGGTGGCA
254 ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* **
3063516 TTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* * * *
3063581 CTTAGAGAGCAGGA-AACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGTGC
65 CTCAAAGAGCAGGACGACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
* *
3063645 GGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACG
130 GGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG
* * * * *
3063710 CCTTTTCTTTTGAAGCCCACCCAAGTTGGTGACACC-TTCAGTCCTCAAAAAGCAGGATGCTTTT
195 CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----
* *
3063774 TCTTTTCAAAGCCCACACAAGTTGGTGGCA
254 ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
3063804 CCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCAACACAAGTTGGTGGTACCTTTCAGTC
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* * ** *
3063869 CCCAAAGAGCAGGAC-ACCTTTTAAAGCCCACACAAGTTGGTGGAATTTTTCAGTCCTTAAAGAG
65 CTCAAAGAGCAGGACGACCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAG
* * *
3063933 CAGGACACC---TC--TTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGTAGGA
129 CGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGA
* * * * * *
3063993 CGC-----CTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
193 CGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
3064048 TACACTTTAT
Statistics
Matches: 727, Mismatches: 70, Indels: 56
0.85 0.08 0.07
Matches are distributed among these distances:
280 24 0.03
281 17 0.02
282 20 0.03
283 23 0.03
284 141 0.19
285 22 0.03
286 3 0.00
287 9 0.01
288 265 0.36
289 92 0.13
290 34 0.05
291 24 0.03
292 50 0.07
293 3 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (283 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCC
TCAAAGAGCAGGACGACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCG
GGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGC
TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
AAAGCCCACACAAGTTGGTGGCA
Found at i:3063602 original size:343 final size:342
Alignment explanation
Indices: 3062963--3064024 Score: 1550
Period size: 343 Copynumber: 3.1 Consensus size: 342
3062953 AGCAGGACAC
* *
3062963 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCGGGACGCCTT-TTCTT
** * * * * *
3063027 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCTTCAAAGAGCGGGACGCCTTTTC-CTTCAA
63 TTAAAGCCCAC-CAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* *
3063091 AGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
126 AGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGC
* *
3063155 CCACACAAG-TGGATGGCACCTTTCAGTCCCCGAAGAGTAGGACACCTTTCAAAGCCCACACAAG
184 CCACACAAGTTGG-TGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAG
*
3063219 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAC
248 TTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAC
3063284 CTTCAGTCCTCAAAGAGCGGGACGCCTTTT
313 CTTCAGTCCTCAAAGAGCGGGACGCCTTTT
3063314 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
*
3063379 AAGCCCAGCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
66 AAGCCCA-CCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
*
3063444 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCATACAAGTT
130 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTT
* * *
3063509 GGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
195 GGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
* *
3063573 TTCCAGTCCTTAGAGAGCAGGAAACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
259 TTCCAGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
* * *
3063638 AAAGTGCGGGACACATTTT
324 AAAGAGCGGGACGCCTTTT
*
3063657 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTG
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
* *
3063722 AAGCCCACCCAAGTTGGTGACACCTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCC
66 AAGCCCA-CCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
* * *
3063787 CACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCAACACAAGTT
130 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTT
* * *
3063852 GGTGGTACCTTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGAATTT
195 GGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * *
3063917 TTCAGTCCTTAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTC
260 TCCAGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTC
**
3063982 AAAGAGTAGGACGCC-TTT
324 AAAGAGCGGGACGCCTTTT
*
3064000 C----AAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
3064025 TTTTTACTCC
Statistics
Matches: 653, Mismatches: 50, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
339 23 0.04
342 3 0.00
343 438 0.67
344 26 0.04
347 1 0.00
348 25 0.04
349 78 0.12
350 28 0.04
351 28 0.04
352 3 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (342 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
AAGCCCACCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCC
ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
GTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
CCAGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
AGAGCGGGACGCCTTTT
Found at i:3064802 original size:21 final size:21
Alignment explanation
Indices: 3064778--3064854 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
3064768 AAAATTTCCA
3064778 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
3064799 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* * *
3064819 AAAAGTATCGATACA-TTCTACA
1 -AATGTATCGATACATTTGTA-G
3064841 AATGTATCGATACA
1 AATGTATCGATACA
3064855 GGGTCCCATC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:3064983 original size:13 final size:13
Alignment explanation
Indices: 3064965--3064990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3064955 CATTTTTCTG
3064965 TGTATCGATACAT
1 TGTATCGATACAT
3064978 TGTATCGATACAT
1 TGTATCGATACAT
3064991 GGATCTTTGT
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:3064987 original size:33 final size:33
Alignment explanation
Indices: 3064945--3065011 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3064935 GCCAAGGAAA
***
3064945 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3064978 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3065011 T
1 T
3065012 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3067532 original size:31 final size:28
Alignment explanation
Indices: 3067449--3067517 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
3067439 CTTCACAATC
* * ***
3067449 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCATTATTTCCGA
3067476 GGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCATTATTTCCGA
3067504 GGGGATACTCCAAC
1 GGGGATACTCCAAC
3067518 TCCGATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCCGA
Found at i:3067590 original size:28 final size:28
Alignment explanation
Indices: 3067558--3067629 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
3067548 TCACAGTCGA
*
3067558 GGATACTCCAACCTCGTTA-TTTC-ATCGG
1 GGATACTCCAACCCCGTTACTTTCGA--GG
3067586 GGATACTCCAACCCCGTTACTTTCGAGG
1 GGATACTCCAACCCCGTTACTTTCGAGG
3067614 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
3067630 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTTCGAGG
Found at i:3067599 original size:108 final size:108
Alignment explanation
Indices: 3067395--3067683 Score: 370
Period size: 107 Copynumber: 2.7 Consensus size: 108
3067385 TTCTATAATC
*
3067395 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTCTTCACAATCGAGGATACTCC
3067460 AACCCCGTTAATCATCGGGGATACTCCAACCCCATTA-TTTCCGA
65 AACCCCGTTAATCATCGGGGATACTCCAACCCCATTACTTT-CGA
* *
3067504 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTT-TTCACAGTCGAGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * *
3067568 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGA
66 ACCCCGTTA-ATCATCGGGGATACTCCAACCCCATTACTTTCGA
* ** * * *** * * *
3067612 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTC-TCATAATTGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
3067675 ACCCCGTTA
66 ACCCCGTTA
3067684 TTTTCGAGGG
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
107 65 0.41
108 62 0.39
109 32 0.20
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (108 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
ACCCCGTTAATCATCGGGGATACTCCAACCCCATTACTTTCGA
Found at i:3067762 original size:77 final size:79
Alignment explanation
Indices: 3067583--3067785 Score: 241
Period size: 77 Copynumber: 2.6 Consensus size: 79
3067573 GTTATTTCAT
* *
3067583 CGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
3067648 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
3067662 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-TCCTGATTT-TTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
3067724 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
3067739 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
3067786 TTATTATCTC
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
76 3 0.03
77 53 0.51
78 8 0.08
79 40 0.38
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:3070401 original size:18 final size:17
Alignment explanation
Indices: 3070378--3070449 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 17
3070368 TTATACCCCA
3070378 AAAAAAACAAAAAAAAGG
1 AAAAAAACAAAAAAAA-G
* *
3070396 AAAAAAACCAAAACAAAC
1 AAAAAAA-CAAAAAAAAG
3070414 AAAAAAACAAAAAACAAAG
1 AAAAAAAC-AAAAA-AAAG
*
3070433 AAAAAAATAACAAAAAA
1 AAAAAAACAA-AAAAAA
3070450 CAGAAAGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
17 1 0.02
18 23 0.51
19 21 0.47
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.01
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAG
Found at i:3070401 original size:19 final size:18
Alignment explanation
Indices: 3070377--3070455 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 18
3070367 TTTATACCCC
3070377 AAAAAAAACAAAAAAAAGG
1 AAAAAAAACAAAAAAAA-G
* *
3070396 AAAAAAACCAAAACAAA-
1 AAAAAAAACAAAAAAAAG
*
3070413 CAAAAAAACAAAAAACAAAG
1 AAAAAAAAC-AAAAA-AAAG
*
3070433 AAAAAAATAACAAAAAACAG
1 -AAAAAA-AACAAAAAAAAG
3070453 AAA
1 AAA
3070456 GGGGTCCAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
17 7 0.15
18 4 0.08
19 21 0.44
20 3 0.06
21 10 0.21
22 3 0.06
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.01
Consensus pattern (18 bp):
AAAAAAAACAAAAAAAAG
Found at i:3070428 original size:15 final size:15
Alignment explanation
Indices: 3070396--3070449 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
3070386 AAAAAAAAGG
3070396 AAAAAAACCAAAACAAAC
1 AAAAAAA-C-AAA-AAAC
3070414 AAAAAAACAAAAAAC
1 AAAAAAACAAAAAAC
*
3070429 AAAGAAAA-AAATAAC
1 AAA-AAAACAAAAAAC
3070444 AAAAAA
1 AAAAAA
3070450 CAGAAAGGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 3 0.09
15 16 0.47
16 7 0.21
17 1 0.03
18 7 0.21
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (15 bp):
AAAAAAACAAAAAAC
Found at i:3071710 original size:28 final size:28
Alignment explanation
Indices: 3071667--3072220 Score: 561
Period size: 28 Copynumber: 19.5 Consensus size: 28
3071657 CGTTCATCTC
* *
3071667 TTCAAAGCCCACAAGTCAGTGGTAGCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * ** *
3071695 TTAAAAGCCCACAAGTCAATAACGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
3071723 TTCAAAGCCCACATGTCAGTGTCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071751 TTCAAAGCCAACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071779 TTTAAAGCCCACAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071807 TTCAAAGCCCACAAGTCAGTGGCATCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071835 TTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071863 TTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071891 TTCAAAGCCCATAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3071919 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
3071947 TTCAAAGCCCATAAATTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * **
3071975 TCCAAAGATCACAAGTCAGTGGAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
3072004 TTCAAAGCCCACAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
3072032 TTCAAAGCCTACAAGTGAGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
3072060 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
3072088 TTCAAAGCCCACAAGTCAAAGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
3072116 TTCAAAACCCACACAAATTAGTGGCA-CCT
1 TTC-AAAGCC-CACAAGTCAGTGGCACCCT
* * * *
3072145 TTCCAAAGCTCACAAGTCAGTGCCATAGCTT
1 TT-CAAAGCCCACAAGTCAGTGGC--ACCCT
* * *
3072176 TTCAAAGCCTACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGC-AC-CCT
3072208 TTCAAAGCCCACA
1 TTCAAAGCCCACA
3072221 CAAGTTAGTA
Statistics
Matches: 436, Mismatches: 80, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
28 349 0.80
29 37 0.08
30 22 0.05
31 5 0.01
32 23 0.05
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:3072465 original size:48 final size:48
Alignment explanation
Indices: 3072315--3072469 Score: 211
Period size: 48 Copynumber: 3.2 Consensus size: 48
3072305 CCGATATCGC
* * * **
3072315 TAGCTTTGAATCAACACAATGTCCACTTTTCCCTTAGCTTAATGTCAC
1 TAGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCAATGTCGT
* *
3072363 TAGCCTTGAATCAGCACATTGTCCACTTTTCCCTTTGCTCAATGTCGT
1 TAGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCAATGTCGT
* * *
3072411 TGGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCGATGTTGT
1 TAGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCAATGTCGT
*
3072459 TCGCCTTGAAT
1 TAGCCTTGAAT
3072470 TGGCACATTG
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (48 bp):
TAGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCAATGTCGT
Found at i:3073076 original size:20 final size:20
Alignment explanation
Indices: 3073024--3073240 Score: 143
Period size: 20 Copynumber: 10.3 Consensus size: 20
3073014 GGTAGAGGAT
3073024 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* **
3073044 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
3073064 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
3073084 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
3073104 CATTCTATCTTTTTCCCCAGATGTATCGATA
1 CA---T-TC---TT---CA-ATGTATCGATA
* * *
3073135 CATTTTTCAACGTATCAATA
1 CATTCTTCAATGTATCGATA
* * *
3073155 CATGT-ATGACTGTATCGATA
1 CAT-TCTTCAATGTATCGATA
* *
3073175 CATTTTTCAATGTATCAATA
1 CATTCTTCAATGTATCGATA
* * * *
3073195 CATGT-ATGACTATATCGATA
1 CAT-TCTTCAATGTATCGATA
*
3073215 CATTCTTCAATGTATCGGTA
1 CATTCTTCAATGTATCGATA
3073235 CATTCT
1 CATTCT
3073241 GTCTTTTTTT
Statistics
Matches: 152, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
19 3 0.02
20 120 0.79
21 5 0.03
23 1 0.01
24 4 0.03
27 3 0.02
28 1 0.01
30 2 0.01
31 13 0.09
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:3073079 original size:40 final size:39
Alignment explanation
Indices: 3073024--3073237 Score: 187
Period size: 40 Copynumber: 5.6 Consensus size: 39
3073014 GGTAGAGGAT
3073024 CATTCTTCAATGTATCGATACATGTATGGATGTATCGATA
1 CATTCTTCAATGTATCGATACATGTAT-GATGTATCGATA
* *
3073064 CATTCTTCAATGTATCGATACAT-TCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATACATGT-AT-GATGTATCGATA
* ***
3073104 CATTCTATC--T-T-T---TTC-CCCA-GATGTATCGATA
1 CATTCT-TCAATGTATCGATACATGTATGATGTATCGATA
* * *
3073135 CATTTTTCAACGTATCAATACATGTATGACTGTATCGATA
1 CATTCTTCAATGTATCGATACATGTATGA-TGTATCGATA
* * *
3073175 CATTTTTCAATGTATCAATACATGTATGACTATATCGATA
1 CATTCTTCAATGTATCGATACATGTATGA-TGTATCGATA
*
3073215 CATTCTTCAATGTATCGGTACAT
1 CATTCTTCAATGTATCGATACAT
3073238 TCTGTCTTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
30 2 0.01
31 16 0.11
33 1 0.01
34 3 0.02
37 3 0.02
38 2 0.01
39 4 0.03
40 109 0.77
41 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (39 bp):
CATTCTTCAATGTATCGATACATGTATGATGTATCGATA
Found at i:3074191 original size:19 final size:19
Alignment explanation
Indices: 3074157--3074195 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3074147 ACCATGTATT
*
3074157 TTTTTATTATGTTTCATGCA
1 TTTTTAATATGTTTCA-GCA
3074177 TTTTTAATATG-TTCAGCA
1 TTTTTAATATGTTTCAGCA
3074195 T
1 T
3074196 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTAATATGTTTCAGCA
Found at i:3083234 original size:20 final size:20
Alignment explanation
Indices: 3083209--3083302 Score: 106
Period size: 20 Copynumber: 4.7 Consensus size: 20
3083199 ATTTAACTAG
3083209 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
3083229 ATGTATCGATACATCTGGGTAAAA
1 ATGTATCGATACAT-T--G-AAAA
*
3083253 A-G-A-C-ATACATTGAAGA
1 ATGTATCGATACATTGAAAA
*
3083269 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
3083289 ATGTATCGATACAT
1 ATGTATCGATACAT
3083303 CTGGGTACTT
Statistics
Matches: 65, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
16 4 0.06
17 2 0.03
18 1 0.02
19 2 0.03
20 46 0.71
21 2 0.03
22 1 0.02
23 2 0.03
24 5 0.08
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:3087033 original size:47 final size:47
Alignment explanation
Indices: 3086947--3087691 Score: 446
Period size: 47 Copynumber: 15.8 Consensus size: 47
3086937 GCCAAAATGA
* *
3086947 AAAGAGTTTGACCAAGGTCCTAATGCCAATGCAGCCAAACAAGAGTGG
1 AAAGAGTTTGACCAA-GTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * *** * * *
3086995 AAGGAGTTTGACCAGGTCCTAACATCAATATAGTCAAACAACAGTGA
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
** * *
3087042 AAAGAGTTTGACCAAG-CCTTAATGGTAATATAGTCAAATGAA-AGTGG
1 AAAGAGTTTGACCAAGTCC-TAATGCCAATACAGTCAAA-CAAGAGTGG
* * *
3087089 AAAGAGTTTGACCAAGTCTTAATGCCAATACAGTCAAACGAGAATGG
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * * * *
3087136 AAAGAGTTTGGCCAGGTCTTAATGCCAATGCAGTTAAATAAGAGTGG
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* ** * *
3087183 AAAGAGTTTGACTAAGTCCTAATGCCAATACAGTCAAATGAGAATTG
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * * * * *
3087230 AAAAAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACATGGGT-A
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * * * *
3087276 AAAAAGGTTTGACTAAGCCCCAATGCCAATGCAATCAAACAAGAGTGG
1 AAAGA-GTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * ** * **
3087324 AAAGAGTTTGACCAGGTCCTAATGCTAATACAATCAAACGTGGGTAA
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * * * * * *
3087371 AAAGGGTTTGACTAGGGCCCAATGCCAATCCAGTCAAACGAGAATGG
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * ** * * * * **
3087418 AAAGAGTTTGACGAGGTTTTAATGCTAATATAGTCAAACATGGGTAA
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * * * * *
3087465 AAAAAGGTTTGACTAAGCCCCAATAG--AATGTC-GCCAAA-AGAGAATGG
1 AAAGA-GTTTGACCAAGTCCTAAT-GCCAAT-ACAGTCAAACA-AGAGTGG
* * ** * * * **
3087512 AAAGAGTTTGACTAGGTCAAAATGCCAATACAGTAAAACGTAGATTAAC
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAAC-AAGAGT-GG
* * * * ** *
3087561 AAAG-GTTTGA-CTAGGCCTCAATGCCAATGCAGTTAAAGGAGAATGG
1 AAAGAGTTTGACCAAGTCCT-AATGCCAATACAGTCAAACAAGAGTGG
* * *
3087607 AAAAAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGTGG
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
* * * * *
3087654 AAAGAGTTTGACTAGGTCTTAATGCTAATAAAGTCAAA
1 AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAA
3087692 TGAGATAAAT
Statistics
Matches: 524, Mismatches: 154, Indels: 39
0.73 0.21 0.05
Matches are distributed among these distances:
45 1 0.00
46 27 0.05
47 428 0.82
48 63 0.12
49 5 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (47 bp):
AAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAAGAGTGG
Found at i:3087187 original size:141 final size:141
Alignment explanation
Indices: 3086947--3087696 Score: 550
Period size: 141 Copynumber: 5.3 Consensus size: 141
3086937 GCCAAAATGA
* * * * * * *
3086947 AAAGAGTTTGACCAAGGTCCTAATGCCAATGCAGCCAAACAAGAGTGGAAGGAGTTTGACCAGGT
1 AAAGAGTTTGA-CTAGGTCTTAATGCCAATACAGTCAAACGAGAATGGAAAGAGTTTGACCAGGT
* *** ** * * ** *
3087012 CCTAACATCAATATAGTCAAACAACAGTGAAAAGAGTTTGACCAAG-CCTTAATGGTAATATAGT
65 CTTAATGCCAATGCAGTCAAACAAGAGTGGAAAGAGTTTGACCAAGTCC-TAATGCCAATACAGT
3087076 CAAATGAAAGTGG
129 CAAATGAAAGTGG
* * *
3087089 AAAGAGTTTGACCAAGTCTTAATGCCAATACAGTCAAACGAGAATGGAAAGAGTTTGGCCAGGTC
1 AAAGAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACGAGAATGGAAAGAGTTTGACCAGGTC
* * *
3087154 TTAATGCCAATGCAGTTAAATAAGAGTGGAAAGAGTTTGACTAAGTCCTAATGCCAATACAGTCA
66 TTAATGCCAATGCAGTCAAACAAGAGTGGAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCA
*
3087219 AATGAGAA-TTG
131 AATGA-AAGTGG
* * * * *
3087230 AAAAAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACATGGGTAA--AAAAG-GTTTGACTAA
1 AAAGAGTTTGACTAGGTCTTAATGCCAATACAGTCAAAC--GAG-AATGGAAAGAGTTTGACCAG
* ** * * * *
3087292 GCCCCAATGCCAATGCAATCAAACAAGAGTGGAAAGAGTTTGACCAGGTCCTAATGCTAATACAA
63 GTCTTAATGCCAATGCAGTCAAACAAGAGTGGAAAGAGTTTGACCAAGTCCTAATGCCAATACAG
* *** **
3087357 TCAAACGTGGGTAA
128 TCAAATGAAAGTGG
* * ** * * *
3087371 AAAGGGTTTGACTAGGGCCCAATGCCAATCCAGTCAAACGAGAATGGAAAGAGTTTGACGAGGTT
1 AAAGAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACGAGAATGGAAAGAGTTTGACCAGGTC
* ** * * ** * * * * *
3087436 TTAATGCTAATATAGTCAAACATGGGTAAAAAAAGGTTTGACTAAGCCCCAATAG--AATGTC-G
66 TTAATGCCAATGCAGTCAAACAAGAGTGGAAAGA-GTTTGACCAAGTCCTAAT-GCCAAT-ACAG
* *
3087498 CCAAAAGAGAA-TGG
128 TCAAATGA-AAGTGG
** * * ** *
3087512 AAAGAGTTTGACTAGGTCAAAATGCCAATACAGTAAAACGTAGATTAACAAAG-GTTTGACTAGG
1 AAAGAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACG-AGAAT-GGAAAGAGTTTGACCAGG
* * * ** * * * *
3087576 CCTCAATGCCAATGCAGTTAAAGGAGAATGGAAAAAGTTTGACCAGGTCCTAATGCCAATACAAT
64 TCTTAATGCCAATGCAGTCAAACAAGAGTGGAAAGAGTTTGACCAAGTCCTAATGCCAATACAGT
*
3087641 CAAA-CAAGAGTGG
129 CAAATGAA-AGTGG
* * *
3087654 AAAGAGTTTGACTAGGTCTTAATGCTAATAAAGTCAAATGAGA
1 AAAGAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACGAGA
3087697 TAAATTTGAT
Statistics
Matches: 466, Mismatches: 122, Indels: 41
0.74 0.19 0.07
Matches are distributed among these distances:
138 2 0.00
139 2 0.00
140 6 0.01
141 333 0.71
142 114 0.24
143 7 0.02
144 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (141 bp):
AAAGAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACGAGAATGGAAAGAGTTTGACCAGGTC
TTAATGCCAATGCAGTCAAACAAGAGTGGAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCA
AATGAAAGTGG
Found at i:3087286 original size:94 final size:94
Alignment explanation
Indices: 3086942--3087696 Score: 549
Period size: 94 Copynumber: 8.0 Consensus size: 94
3086932 ATTAGGCCAA
* * * * * ** *
3086942 AATGAAAAGAGTTTGACCAAGGTCCTAATGCCAATGCAGCCAAACAAGAGT-GGAAGGAGTTTGA
1 AATGGAAAGAGTTTGACC-AGGTCTTAATGCCAATACAGTCAAACATGAGTAAAAAAG-GTTTGA
* * *** * * *
3087006 CCAGGTCCTAACATCAATATAGTCAAACAAC
64 CTAAGTCCTAATGCCAATACAGTCAAACGAG
* * * * ** * **
3087037 AGTGAAAAGAGTTTGACCAAGCCTTAATGGTAATATAGTC-AA-ATGAAAGT-GGAAAGAGTTTG
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATG--AGTAAAAAAG-GTTTG
* *
3087099 ACCAAGTCTTAATGCCAATACAGTCAAACGAG
63 ACTAAGTCCTAATGCCAATACAGTCAAACGAG
* * * * * **
3087131 AATGGAAAGAGTTTGGCCAGGTCTTAATGCCAATGCAGTTAAATAAGAGT-GGAAAGAGTTTGAC
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATGAGTAAAAAAG-GTTTGAC
*
3087195 TAAGTCCTAATGCCAATACAGTCAAATGAG
65 TAAGTCCTAATGCCAATACAGTCAAACGAG
* * * *
3087225 AATTGAAAAAGTTTGACTAGGTCTTAATGCCAATACAGTCAAACATGGGTAAAAAAGGTTTGACT
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATGAGTAAAAAAGGTTTGACT
* * * * *
3087290 AAGCCCCAATGCCAATGCAATCAAACAAG
66 AAGTCCTAATGCCAATACAGTCAAACGAG
* * * * * * *
3087319 AGTGGAAAGAGTTTGACCAGGTCCTAATGCTAATACAATCAAACGTGGGTAAAAAGGGTTTGACT
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATGAGTAAAAAAGGTTTGACT
* * * *
3087384 AGGGCCCAATGCCAATCCAGTCAAACGAG
66 AAGTCCTAATGCCAATACAGTCAAACGAG
* * * * *
3087413 AATGGAAAGAGTTTGACGAGGTTTTAATGCTAATATAGTCAAACATGGGTAAAAAAAGGTTTGAC
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATGAGT-AAAAAAGGTTTGAC
* * * * *
3087478 TAAGCCCCAATAG--AATGTC-GCCAAAAGAG
65 TAAGTCCTAAT-GCCAAT-ACAGTCAAACGAG
* ** * * * *
3087507 AATGGAAAGAGTTTGACTAGGTCAAAATGCCAATACAGTAAAACGTAGATTAACAAAGGTTTGAC
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACAT-GAGTAAAAAAGGTTTGAC
* * * *
3087572 T-AGGCCTCAATGCCAATGCAGTTAAAGGAG
65 TAAGTCCT-AATGCCAATACAGTCAAACGAG
* * * * **
3087602 AATGGAAAAAGTTTGACCAGGTCCTAATGCCAATACAATCAAACAAGAGT-GGAAAGAGTTTGAC
1 AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATGAGTAAAAAAG-GTTTGAC
* * * * *
3087666 TAGGTCTTAATGCTAATAAAGTCAAATGAG
65 TAAGTCCTAATGCCAATACAGTCAAACGAG
3087696 A
1 A
3087697 TAAATTTGAT
Statistics
Matches: 532, Mismatches: 113, Indels: 31
0.79 0.17 0.05
Matches are distributed among these distances:
92 2 0.00
93 11 0.02
94 417 0.78
95 99 0.19
96 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (94 bp):
AATGGAAAGAGTTTGACCAGGTCTTAATGCCAATACAGTCAAACATGAGTAAAAAAGGTTTGACT
AAGTCCTAATGCCAATACAGTCAAACGAG
Found at i:3089641 original size:16 final size:15
Alignment explanation
Indices: 3089620--3089650 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
3089610 TTTTTACCAT
3089620 TTTTCTTCTTTTTTTC
1 TTTTCTT-TTTTTTTC
3089636 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTTTTC
3089651 AAAGAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTTTTTTC
Found at i:3092085 original size:130 final size:131
Alignment explanation
Indices: 3091895--3092232 Score: 389
Period size: 130 Copynumber: 2.6 Consensus size: 131
3091885 AAAAAAAATG
* * * * * *
3091895 AAGTGCATTCTGCTTTTTGAGGAC-AAAGGGAAAATAAGGAAATGAGGTACA-CCATACTCTTTG
1 AAGTGCGTTCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCATCC-TACTCTTTG
* *
3091958 AAGACAAAAGGAAAAGAAAGAAATGAGGTACGCGCTACTCCTAAAGGACAAAGGAAAAAGG-AAA
65 AGGACAAAAGGAAAAGAAAGAAATGAGGTACGCCCTACTCCTAAAGGACAAAGGAAAAAGGAAAA
*
3092022 TA
130 AA
* * *
3092024 AAGTGTG-TCTTGCTCTTTGAGGACAAAAAAGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTG
1 AAGTGCGTTC-TGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTG
* * * * * * ** *
3092088 AGGACAAAGGGAAAATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGATAAAGGAAAAAGGAAAA
65 AGGACAAAAGGAAAAGAAAGAAATGAGGTACGCCCTACTCCTAAAGGACAAAGGAAAAAGGAAAA
3092153 AA
130 AA
* * ** *
3092155 AAGTGCGTTCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATGAAATGTGTCTTACTCTTTGA
1 AAGTGCGTTCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTGA
3092220 GGAC-AAAGGAAAA
66 GGACAAAAGGAAAA
3092233 AAAAAGGCAT
Statistics
Matches: 174, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
128 2 0.01
129 18 0.10
130 88 0.51
131 64 0.37
132 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.20
Consensus pattern (131 bp):
AAGTGCGTTCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTGA
GGACAAAAGGAAAAGAAAGAAATGAGGTACGCCCTACTCCTAAAGGACAAAGGAAAAAGGAAAAA
A
Found at i:3092095 original size:86 final size:84
Alignment explanation
Indices: 3092002--3092907 Score: 826
Period size: 86 Copynumber: 10.8 Consensus size: 84
3091992 CTACTCCTAA
* * *
3092002 AGGAC-AAAGG-AAA-AAGGAAATAAAGTGTGTCTTGCTCTTTGAGGACAAAAAAGAAAAGAAGG
1 AGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGAC---AAAGGAAA-AAGG
*
3092064 AAATGAAGTGCATCCTGCTCTTTG
62 AAA-AAAGTGCATCCTGCTCTTTG
* * * * * *
3092088 AGGACAAAGGGAAAATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGATAAAGGAAAAAGGAAAA
1 AGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGG--AA
* *
3092153 AAAAGTGCGTTCTGCTCTTTG
64 AAAAGTGCATCCTGCTCTTTG
* * * *
3092174 AGGACAAAAGAGAAAAGAAAGAAATGAAATGTGTCTTACTCTTTGAGGACAAAGG--AAA--AAA
1 AGGACAAAAG-GAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAA
*
3092235 AAAG-GCATCATGCTCTTTG
65 AAAGTGCATCCTGCTCTTTG
* * * * *
3092254 AGGACTAAAA-GAAAAAAAGGAAATGAGGAGCG-CCTTGCTCTTTAAGGACAAAGGAAAAAGGAA
1 AGGAC-AAAAGGAAAAGAAGGAAATGAAGTGTGTCC-TGCTCTTTGAGGACAAAGGAAAAAGGAA
* * *
3092317 AAAAATGCATCATACTCTTTG
64 AAAAGTGCATCCTGCTCTTTG
* * * * *
3092338 AGGACAAAAAGGAAAAGAAGAAAATGAAATGTATCTTGCTCTTTGAGGACAAAAGAGAAAA-G-A
1 AGGAC-AAAAGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAA
* *
3092401 AAAAG-GCATCATGCTCTTTA
64 AAAAGTGCATCCTGCTCTTTG
* * * *** * *
3092421 AGGACTAAAGGAAATGAAGGAAATGAAGAGCACCCTGCTTTTTAAGGACAAAGGAAAAAGGAAAA
1 AGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGG-AAA
** *
3092486 AAAGCACATCCTACTCTTTG
65 AAAGTGCATCCTGCTCTTTG
* *
3092506 AGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGTTCTTTGAGGACAAAGGAGAAAAGG--
1 AGGACAAAA-GGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAA
* *
3092569 AAAAG-GCGTCCTACTCTTTG
64 AAAAGTGCATCCTGCTCTTTG
* * * * ** * *
3092589 AGGACTAAGGGAAAAGAAGGAATTGAGGTGTGTCCCACTCTTTCAAGACAAAGGAAAAAGGAAAA
1 AGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGG-AAA
3092654 AAAGTGCATCCTGCTCTTTG
65 AAAGTGCATCCTGCTCTTTG
** * * * *
3092674 AAAATAAAAGGGAAAAGAAGGAAATGAAATGTGTCATGCTCTTTGAAGACAAAGGAGAAAAGG--
1 AGGACAAAA-GGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAA
* *
3092737 AAAAG-GCGTCCTGCTCTTTA
64 AAAAGTGCATCCTGCTCTTTG
* * * * *
3092757 AGGACTAAGGGAAAAGAAGGAAATGAGGTGCG-CCATGCTCTTTGAGGACAAAGGAAAGAGGAAA
1 AGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCC-TGCTCTTTGAGGACAAAGGAAAAAGGAAA
3092821 TAAAGTGCATCCTGCTCTTTG
65 -AAAGTGCATCCTGCTCTTTG
* * * *
3092842 AGGGCAAAAGGGAAAAGAAGAAAATGAAGTGTGTCCTGCCCTTTAAGGACAAAGGAAAAAAGGAA
1 AGGACAAAA-GGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGG-AAAAAGGAA
3092907 A
64 A
3092908 TAAGGAAAAT
Statistics
Matches: 660, Mismatches: 124, Indels: 71
0.77 0.15 0.08
Matches are distributed among these distances:
78 1 0.00
79 33 0.05
80 17 0.03
81 30 0.05
82 117 0.18
83 62 0.09
84 53 0.08
85 96 0.15
86 156 0.24
87 65 0.10
88 3 0.00
89 27 0.04
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.19
Consensus pattern (84 bp):
AGGACAAAAGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAA
AAGTGCATCCTGCTCTTTG
Found at i:3092216 original size:131 final size:130
Alignment explanation
Indices: 3091949--3092238 Score: 357
Period size: 131 Copynumber: 2.2 Consensus size: 130
3091939 AGGTACACCA
* * *
3091949 TACTCTTTGAAGACAAAAGGAAAAGAAAGAAATGAGGTACGCGCTACTCCTAAAGGACAAAGGAA
1 TACTCTTTGAGGACAAAGGGAAAAGAAAGAAATGAGGTACGCCCTACTCCTAAAGGACAAAGGAA
* * * *
3092014 AAAGGAAATAAAGTGTGTCTTGCTCTTTGAGGACAAAAAAGAAAAGAAGGAAATGAAGTGCATCC
66 AAAGGAAAAAAAGTGCGTCTTGCTCTTTGAGGACAAAAAAGAAAAGAAAGAAATGAAATGCATCC
* * * * * * ** *
3092079 TGCTCTTTGAGGACAAAGGGAAAATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGATAAAGGAA
1 TACTCTTTGAGGACAAAGGGAAAAGAAAGAAATGAGGTACGCCCTACTCCTAAAGGACAAAGGAA
* **
3092144 AAAGGAAAAAAAAGTGCGT-TCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATGAAATGTGT
66 AAAGG-AAAAAAAGTGCGTCT-TGCTCTTTGAGGACAAAAAAGAAAAGAAAGAAATGAAATGCAT
*
3092208 CT
129 CC
* *
3092210 TACTCTTTGAGGACAAAGGAAAAAAAAAG
1 TACTCTTTGAGGACAAAGGGAAAAGAAAG
3092239 GCATCATGCT
Statistics
Matches: 134, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
130 59 0.44
131 75 0.56
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (130 bp):
TACTCTTTGAGGACAAAGGGAAAAGAAAGAAATGAGGTACGCCCTACTCCTAAAGGACAAAGGAA
AAAGGAAAAAAAGTGCGTCTTGCTCTTTGAGGACAAAAAAGAAAAGAAAGAAATGAAATGCATCC
Found at i:3092575 original size:168 final size:168
Alignment explanation
Indices: 3092015--3092907 Score: 1091
Period size: 168 Copynumber: 5.3 Consensus size: 168
3092005 ACAAAGGAAA
* *
3092015 AAGGAAAT-AAAGTGTGTCTTGCTCTTTGAGGACAAAAAAGAAAAGAAGGAAATGAAGTGCATCC
1 AAGGAAATGAAA-TGTGTCTTGCTCTTTGAGGAC--AAAGGAGAA-AAGG-AA--AAG-GCATCC
* * *
3092079 TGCTCTTTGAGGAC-AAAGGGAAAATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGATAAAGGA
58 TGCTCTTTGAGGACTAAA-GGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGGA
* * *
3092143 AAAAGGAAAAAAAAGTGCGTTCTGCTCTTTGAGGACAAAAGAGAAAAG
122 AAAAGG-AAAAAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAG
* * *
3092191 AAAGAAATGAAATGTGTCTTACTCTTTGAGGACAAAGGA-AAAA--AAAAGGCATCATGCTCTTT
1 AAGGAAATGAAATGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTGCTCTTT
* * * *
3092253 GAGGACTAAAAGAAAAAAAGGAAATGAGGAGCGCCTTGCTCTTTAAGGACAAAGGAAAAAGGAAA
66 GAGGACTAAAGGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAA
* * *
3092318 AAAA-TGCATCATACTCTTTGAGGACAAAAAGGAAAAG
131 AAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAG
* * * * *
3092355 AAGAAAATGAAATGTATCTTGCTCTTTGAGGACAAAAGAGAAAAGAAAAAGGCATCATGCTCTTT
1 AAGGAAATGAAATGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTGCTCTTT
* * * * * *
3092420 AAGGACTAAAGGAAATGAAGGAAATGAAGAGCACCCTGCTTTTTAAGGACAAAGGAAAAAGGAAA
66 GAGGACTAAAGGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAA
** *
3092485 AAAAGCACATCCTACTCTTTGAGGACAAAAGGGAAAAG
131 AAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAG
* * * *
3092523 AAGGAAATGAAATGTGTCCTGTTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCGTCCTACTCTTT
1 AAGGAAATGAAATGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTGCTCTTT
* * * *
3092588 GAGGACTAAGGGAAAAGAAGGAATTGAGGTGTGTCCC-ACTCTTTCAA-GACAAAGGAAAAAGGA
66 GAGGACTAAAGGAAAAGAAGGAAATGAGGTGCG-CCCTGCTCTTT-AAGGACAAAGGAAAAAGGA
** *
3092651 AAAAAAGTGCATCCTGCTCTTTGAAAATAAAAGGGAAAAG
129 AAAAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAG
* * *
3092691 AAGGAAATGAAATGTGTCATGCTCTTTGAAGACAAAGGAGAAAAGGAAAAGGCGTCCTGCTCTTT
1 AAGGAAATGAAATGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTGCTCTTT
* * * * *
3092756 AAGGACTAAGGGAAAAGAAGGAAATGAGGTGCGCCATGCTCTTTGAGGACAAAGGAAAGAGGAAA
66 GAGGACTAAAGGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAA
* *
3092821 TAAAGTGCATCCTGCTCTTTGAGGGCAAAAGGGAAAAG
131 AAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAG
* * * * * *
3092859 AAGAAAATGAAGTGTGTCCTGCCCTTTAAGGACAAAGGAAAAAAGGAAA
1 AAGGAAATGAAATGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAA
3092908 TAAGGAAAAT
Statistics
Matches: 626, Mismatches: 81, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
164 61 0.10
165 11 0.02
166 65 0.10
167 89 0.14
168 354 0.57
169 7 0.01
172 2 0.00
173 2 0.00
174 5 0.01
176 27 0.04
177 3 0.00
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.19
Consensus pattern (168 bp):
AAGGAAATGAAATGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTGCTCTTT
GAGGACTAAAGGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAA
AAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAG
Found at i:3092896 original size:44 final size:43
Alignment explanation
Indices: 3091890--3092908 Score: 535
Period size: 44 Copynumber: 24.1 Consensus size: 43
3091880 ATAAGAAAAA
* * * * *
3091890 AAATGAAGTGCATTCTGCTTTTTGAGGACAAAGGGAAAATAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAA-GGAAAAGAAGG
* * * * *
3091934 AAATGAGGTAC-ACCATACTCTTTGAA-GACAAAAGGAAAAGAAAG
1 AAATGAAGTGCGTCC-TGCTCTTT-AAGGAC-AAAGGAAAAGAAGG
* * * * *
3091978 AAATGAGGTACG-CGCTACTCCTAAAGGACAAAGG-AAA-AAGG
1 AAATGAAGTGCGTC-CTGCTCTTTAAGGACAAAGGAAAAGAAGG
* * * * *
3092019 AAATAAAGTGTGTCTTGCTCTTTGAGGACAAAAAAGAAAAGAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC--AAAGGAAAAGAAGG
* * *
3092064 AAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGGAAAATAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAA-GGAAAAGAAGG
* * * *
3092108 AAATGAGGTGCGCCCTGCTCTTTGAGGATAAAGG-AAA-AAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
** * * *
3092149 AAAAAAAAGTGCGTTCTGCTCTTTGAGGACAAAAGAGAAAAGAAAG
1 -AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAAG-GAAAAGAAGG
* * * * *
3092195 AAATGAAATGTGTCTTACTCTTTGAGGACAAAGG--AA-AA--
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
* * * * *
3092233 AAA--AAG-GCATCATGCTCTTTGAGGACTAAAAGAAAAAAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAAGGAAAAGAAGG
* *
3092274 AAATGAGGAGCG-CCTTGCTCTTTAAGGACAAAGG-AAA-AAGG
1 AAATGAAGTGCGTCC-TGCTCTTTAAGGACAAAGGAAAAGAAGG
* * * * * * *
3092315 AAA-AAAATGCATCATACTCTTTGAGGACAAAAAGGAAAAGAAGA
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC--AAAGGAAAAGAAGG
* ** * * * *
3092359 AAATGAAATGTATCTTGCTCTTTGAGGACAAAAGAGAA-AA-G
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
* * *
3092400 AAA--AAG-GCATCATGCTCTTTAAGGACTAAAGGAAATGAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAAGGAAAAGAAGG
* ** *
3092441 AAATGAAGAGCACCCTGCTTTTTAAGGACAAAGG-AAA-AAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
** ** * * *
3092482 AAAAAAAGCACATCCTACTCTTTGAGGACAAAAGGGAAAAGAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAA-GGAAAAGAAGG
* * * * *
3092527 AAATGAAATGTGTCCTGTTCTTTGAGGACAAAGGAGAA-AAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
* * *
3092569 -AA--AAG-GCGTCCTACTCTTTGAGGACTAAGGGAAAAGAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAAGGAAAAGAAGG
* * * **
3092609 AATTGAGGTGTGTCCCACTCTTTCAA-GACAAAGG-AAA-AAGG
1 AAATGAAGTGCGTCCTGCTCTTT-AAGGACAAAGGAAAAGAAGG
** * * *
3092650 AAAAAAAGTGCATCCTGCTCTTTGAA-AATAAAAGGGAAAAGAAGG
1 AAATGAAGTGCGTCCTGCTCTTT-AAGGA-CAAA-GGAAAAGAAGG
* * * *
3092695 AAATGAAATGTGTCATGCTCTTTGAA-GACAAAGGAGAA-AAGG
1 AAATGAAGTGCGTCCTGCTCTTT-AAGGACAAAGGAAAAGAAGG
*
3092737 -AA--AAG-GCGTCCTGCTCTTTAAGGACTAAGGGAAAAGAAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAAGGAAAAGAAGG
* *
3092777 AAATGAGGTGCG-CCATGCTCTTTGAGGACAAAGG-AAAG-AGG
1 AAATGAAGTGCGTCC-TGCTCTTTAAGGACAAAGGAAAAGAAGG
* * * * *
3092818 AAATAAAGTGCATCCTGCTCTTTGAGGGCAAAAGGGAAAAGAAGA
1 AAATGAAGTGCGTCCTGCTCTTTAAGGAC-AAA-GGAAAAGAAGG
* *
3092863 AAATGAAGTGTGTCCTGCCCTTTAAGGACAAAGGAAAA-AAGG
1 AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
3092905 AAAT
1 AAAT
3092909 AAGGAAAATG
Statistics
Matches: 754, Mismatches: 154, Indels: 136
0.72 0.15 0.13
Matches are distributed among these distances:
35 16 0.02
36 6 0.01
37 2 0.00
38 54 0.07
39 28 0.04
40 27 0.04
41 124 0.16
42 75 0.10
43 83 0.11
44 181 0.24
45 155 0.21
46 3 0.00
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (43 bp):
AAATGAAGTGCGTCCTGCTCTTTAAGGACAAAGGAAAAGAAGG
Found at i:3093015 original size:62 final size:62
Alignment explanation
Indices: 3092919--3093621 Score: 826
Period size: 62 Copynumber: 11.4 Consensus size: 62
3092909 AAGGAAAATG
* * ** * * *
3092919 TCCTGCTCCTTGAGGACTAAAAGGTGCCACCAACTCCCGTGGGCTTCGAAAAGAAAAATGCG
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* ** *
3092981 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATAAGGGCTTTGAAAAGTAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * *
3093043 TCCTACTCTTTGATGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTCAAAAGAAAAAGG-A
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * *
3093104 GTCTTGCTCTTTCAGGACTAAAGGGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAAGGCA
1 -TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * *
3093167 TCCTGCTCTTTAAGGACTAAAGGCTGCCACCAGCTCGTATGGGCTTTGAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * * *
3093229 TCCTGTTCTTTGTGGACTAAAGGGTGCCACCAGCTCGTGTAGGCTTTGAAAAGAAAAAAGG-G
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCA
* * * * ** *
3093291 TCCTGCTATTTAAGGACTATAGGGTGCCAGCAACTAATGTGGGCTTTGGAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * **
3093353 TCCTGCTCTTTGAGGACTAAA-GGTGCCACCAAGTCATGTGGGC-TTGAAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AAAAGAAAAAGGCA
* * * * * *
3093414 TCCTACTCTTTGAGGACTAATGGGTGCCACCAGCTCATGTGGGATATGAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * *
3093476 TCTTGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * *
3093538 TCCTAC-CTTTGAGGACTAAA-GGTGCCACCAACTCTTGTGGGC-TTGAGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGA-AAAGAAAAAGGCA
* * * *
3093598 ACCTACTCTTTGTGGAGTAAAGGG
1 TCCTGCTCTTTGAGGACTAAAGGG
3093622 CTAAAAGGGG
Statistics
Matches: 546, Mismatches: 85, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
59 4 0.01
60 40 0.07
61 81 0.15
62 411 0.75
63 10 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
Found at i:3094045 original size:22 final size:24
Alignment explanation
Indices: 3094015--3094058 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3094005 CCTCACAATC
*
3094015 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
3094038 TCTT-AAGAGATTATAACCCAA
1 TCTTCAAGAGATTATAACCCAA
3094059 TGTTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:3100220 original size:15 final size:16
Alignment explanation
Indices: 3100193--3100226 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3100183 GAGAGTTTCC
3100193 TTTTCTATTTCAACAA
1 TTTTCTATTTCAACAA
*
3100209 TTTTCT-TTTCAAGAA
1 TTTTCTATTTCAACAA
3100224 TTT
1 TTT
3100227 CACTCTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTCTATTTCAACAA
Found at i:3103561 original size:32 final size:31
Alignment explanation
Indices: 3103516--3103575 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
3103506 AACCTTTTTG
* *
3103516 TTTTTTTCTCTTGTTTTTTTATTTTTTTCAT
1 TTTTTTTCTCTTGTGTTTCTATTTTTTTCAT
*
3103547 TTTTGTTTCTCTTGTGTTTCTCTTTTTTT
1 TTTT-TTTCTCTTGTGTTTCTATTTTTTT
3103576 GCTTTTACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.03, C:0.12, G:0.07, T:0.78
Consensus pattern (31 bp):
TTTTTTTCTCTTGTGTTTCTATTTTTTTCAT
Found at i:3105292 original size:20 final size:20
Alignment explanation
Indices: 3105267--3105304 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3105257 ACTACCAAGG
*
3105267 AAATGTATCGATACATTGAT
1 AAATGTATCCATACATTGAT
3105287 AAATGTATCCATACATTG
1 AAATGTATCCATACATTG
3105305 TATCGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
AAATGTATCCATACATTGAT
Found at i:3112144 original size:79 final size:79
Alignment explanation
Indices: 3111989--3112566 Score: 439
Period size: 79 Copynumber: 7.5 Consensus size: 79
3111979 TATTCTCTTG
* * * * * * *
3111989 AAAATAATGGGGTTGGAGTAT-CCCAATGGTGGAAAATCGATGTTTTGGAAATAAAACCAGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTAGAAATAAAACCGGGGTT
*
3112053 GGAGTATGCCCTCA
66 GGAGTATCCCCTCA
* * * * * * *
3112067 AAAATAATGGGTTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTAAAAATAAAGCCGGGGTC
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTAGAAATAAAACCGGGGTT
*
3112132 GAAGTATCCCCTCA
66 GGAGTATCCCCTCA
* * ** * * * **
3112146 AAAATAACGGGGTTAGAATATCCCCGATTGT-AAAGAATTGATATTTCAGAAATAAAGCCAAGGT
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA-AATCAATGTTTTAGAAATAAAACCGGGGT
3112210 T--AG----------
65 TGGAGTATCCCCTCA
* * * * * *
3112213 GAAATAAGGGGGTTGGAGTATCCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAAATCGAGG
1 AAAATAACGGGGTTGGAGTAT-CCCCGATTGTGAAAAATCAATGTTTTAGAAAT-AAAACCGGGG
3112278 TTGGAGTATCCCCTCA
64 TTGGAGTATCCCCTCA
* * * * *
3112294 TAAATAACGGGGTTGGAGTAT-CCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACCGAGATC
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTAGAAATAAAACCGGGGTT
*
3112358 GGAGTATCCCCTCG
66 GGAGTATCCCCTCA
* * * * * * **
3112372 AAAATAATGGGGTTGAAGTATCCCCAATTATGAAAAATCAGTGTTTTGGAAATAAAATTGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTAGAAATAAAACCGGGGTT
* *
3112437 GGAGTATTCTCTCA
66 GGAGTATCCCCTCA
* * * * * * *
3112451 AAAATAACGAGGTTGGAGTATCTCTGATTATGAAAAATCAGTGTATTAGAAATAAAAACCAGGGT
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTAGAAAT-AAAACCGGGGT
** *
3112516 TAAAGTATCCCCTCG
65 TGGAGTATCCCCTCA
* * * * * * *
3112531 GAAACAATGGGGTTGGGGTAGCCCTGATGGTGAAAA
1 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
3112567 TTTGGTATTT
Statistics
Matches: 394, Mismatches: 87, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
67 17 0.04
68 24 0.06
69 12 0.03
71 2 0.01
77 2 0.01
78 63 0.16
79 210 0.53
80 45 0.11
81 19 0.05
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTAGAAATAAAACCGGGGTT
GGAGTATCCCCTCA
Found at i:3112427 original size:226 final size:224
Alignment explanation
Indices: 3111990--3112402 Score: 553
Period size: 226 Copynumber: 1.8 Consensus size: 224
3111980 ATTCTCTTGA
* * * *
3111990 AAATAATGGGGTTGGAGTATCCCAATGGTGGAAAATCGATGTTTTGGAAATAAAACCAGGGTTGG
1 AAATAAGGGGGTTGGAGTATCCCAATGATGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTGG
* * * * *
3112055 AGTATGCCCTCAAAAATAATGGGTTTGGAGTATCCTCGATTGTGAAAAATTAATGTTTTAAAAAT
66 AGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTTTAAAAAT
* * * * * *
3112120 AAAGCCGGGGTCGAAGTATCCCCTCAAAAATAACGGGGTTAGAATATCCCCGATTGTAAAGAATT
131 AAAACCGAGATCGAAGTATCCCCTCAAAAATAACGGGGTTAGAATATCCCCAATTATAAAGAATA
3112185 GATATTTCAGAAATAAAGCCAAGGTTAGG
196 GATATTTCAGAAATAAAGCCAAGGTTAGG
* * *
3112214 AAATAAGGGGGTTGGAGTATCCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAAATC-GAGG
1 AAATAAGGGGGTTGGAGTAT--CCCAATGATGAAAAATCGATGTTTTAGAAAT-AAAACCAG-GG
* *
3112278 TTGGAGTATCCCCTCATAAATAACGGGGTTGGAGTATCC-CGATGGTGAAAAATCAATGTTTTAG
62 TTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTTTAA
* * *
3112342 AAATAAAACCGAGATCGGAGTATCCCCTCGAAAATAATGGGGTT-GAAGTATCCCCAATTAT
127 AAATAAAACCGAGATCGAAGTATCCCCTCAAAAATAACGGGGTTAGAA-TATCCCCAATTAT
3112403 GAAAAATCAG
Statistics
Matches: 162, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
224 19 0.12
225 3 0.02
226 98 0.60
227 42 0.26
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (224 bp):
AAATAAGGGGGTTGGAGTATCCCAATGATGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTGG
AGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTTTAAAAAT
AAAACCGAGATCGAAGTATCCCCTCAAAAATAACGGGGTTAGAATATCCCCAATTATAAAGAATA
GATATTTCAGAAATAAAGCCAAGGTTAGG
Found at i:3112578 original size:159 final size:157
Alignment explanation
Indices: 3112243--3112587 Score: 361
Period size: 159 Copynumber: 2.2 Consensus size: 157
3112233 TCCCCCGATT
* * * *
3112243 ATGAAAAATC-GATGTTTTAGAAATAAAAATCGAGGTTGGAGTATCCCCTCATAAATAACGGGGT
1 ATGAAAAATCAG-TATTTTGGAAAT-AAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGAGGT
* * **
3112307 TGGAGTATCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACCGAGATCGGAGTATCCCCTCG
64 TGGAGTATCCCGATGATGAAAAATCAATGTATTAGAAATAAAACCGAGATCAAAGTATCCCCTCG
* * *
3112372 AAAATAATGGGGTTGAAGTATCCCCAATT
129 AAAACAATGGGGTTGAAGTAGCCCCAATG
* * * * *
3112401 ATGAAAAATCAGTGTTTTGGAAATAAAATTGGGGTTGGAGTATTCTCTCAAAAATAACGAGGTTG
1 ATGAAAAATCAGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTG
* * * * *
3112466 GAGTATCTCTGATTATGAAAAATCAGTGTATTAGAAATAAAAACC-AGGGTTAAAGTATCCCCTC
66 GAGTATC-CCGATGATGAAAAATCAATGTATTAGAAAT-AAAACCGA-GATCAAAGTATCCCCTC
* ** **
3112530 GGAAACAATGGGGTTGGGGTAGCCCTGATG
128 GAAAACAATGGGGTTGAAGTAGCCCCAATG
* * **
3112560 GTGAAAATTTGGTATTTTGGAAATAAAA
1 ATGAAAAATCAGTATTTTGGAAATAAAA
3112588 ACATGAATAA
Statistics
Matches: 154, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
157 42 0.27
158 47 0.31
159 65 0.42
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (157 bp):
ATGAAAAATCAGTATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTG
GAGTATCCCGATGATGAAAAATCAATGTATTAGAAATAAAACCGAGATCAAAGTATCCCCTCGAA
AACAATGGGGTTGAAGTAGCCCCAATG
Found at i:3115273 original size:19 final size:19
Alignment explanation
Indices: 3115249--3115310 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
3115239 AACAGTAACG
3115249 GTATCGATACATAAGTGTT
1 GTATCGATACATAAGTGTT
*
3115268 GTATCGATAC---A---CT
1 GTATCGATACATAAGTGTT
3115281 GTATCGATACATAAGTGTT
1 GTATCGATACATAAGTGTT
3115300 GTATCGATACA
1 GTATCGATACA
3115311 ATGTATCGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
16 2 0.06
19 22 0.63
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (19 bp):
GTATCGATACATAAGTGTT
Found at i:3115285 original size:13 final size:13
Alignment explanation
Indices: 3115267--3115291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3115257 ACATAAGTGT
3115267 TGTATCGATACAC
1 TGTATCGATACAC
3115280 TGTATCGATACA
1 TGTATCGATACA
3115292 TAAGTGTTGT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:3115290 original size:32 final size:32
Alignment explanation
Indices: 3115249--3115323 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
3115239 AACAGTAACG
*
3115249 GTATCGATACATAAGTGTTGTATCGATACACT
1 GTATCGATACATAAGTGTTGTATCGATACAAT
3115281 GTATCGATACATAAGTGTTGTATCGATACAAT
1 GTATCGATACATAAGTGTTGTATCGATACAAT
*
3115313 GTATCGCTACA
1 GTATCGATACA
3115324 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (32 bp):
GTATCGATACATAAGTGTTGTATCGATACAAT
Found at i:3115365 original size:20 final size:20
Alignment explanation
Indices: 3115340--3115395 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
3115330 CTGCCAAGGA
*
3115340 AATGTATCAATACATTATTC
1 AATGTATCGATACATTATTC
3115360 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
3115380 AATGTATCGATACATT
1 AATGTATCGATACATT
3115396 GTATCGATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:3115399 original size:33 final size:33
Alignment explanation
Indices: 3115362--3115460 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
3115352 CATTATTCAA
**
3115362 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCTTTGTATCGATACAT
*
3115395 TGTATCGATACATTGATCTTTGTATCAATACAT
1 TGTATCGATACATTGATCTTTGTATCGATACAT
*
3115428 TGCATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCTTTGTATCGATACAT
3115461 CTGGGAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 59 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGATCTTTGTATCGATACAT
Found at i:3115400 original size:13 final size:13
Alignment explanation
Indices: 3115382--3115442 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
3115372 CATTATTCAA
3115382 TGTATCGATACAT
1 TGTATCGATACAT
3115395 TGTATCGATACAT
1 TGTATCGATACAT
3115408 TG-ATC--T---T
1 TGTATCGATACAT
*
3115415 TGTATCAATACAT
1 TGTATCGATACAT
*
3115428 TGCATCGATACAT
1 TGTATCGATACAT
3115441 TG
1 TG
3115443 ATCTTTGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
10 2 0.05
12 3 0.08
13 29 0.73
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3115419 original size:20 final size:20
Alignment explanation
Indices: 3115394--3115460 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
3115384 TATCGATACA
3115394 TTGTATCGATACATTGATCT
1 TTGTATCGATACATTGATCT
*
3115414 TTGTATCAATACATTG--C-
1 TTGTATCGATACATTGATCT
3115431 ----ATCGATACATTGATCT
1 TTGTATCGATACATTGATCT
3115447 TTGTATCGATACAT
1 TTGTATCGATACAT
3115461 CTGGGAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.29
15 1 0.03
18 1 0.03
20 25 0.66
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGATCT
Found at i:3116948 original size:21 final size:20
Alignment explanation
Indices: 3116920--3116958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3116910 GTTGCATGTT
3116920 TAAAAATTATTT-TAAAATAC
1 TAAAAATT-TTTATAAAATAC
3116940 TAAACAATTTTTATAAAAT
1 TAAA-AATTTTTATAAAAT
3116959 GTTTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATTTTTATAAAATAC
Found at i:3122639 original size:152 final size:152
Alignment explanation
Indices: 3122298--3122651 Score: 406
Period size: 152 Copynumber: 2.3 Consensus size: 152
3122288 GCTCCAAAGG
* * * *
3122298 GATACTTTCGATGTAAAAGTACTCGATACCCCTAAAAGACTTAAAAAGGTTTGAAATGGGATGAA
1 GATACATTCGACGTAAAAGTACTCGATA-CCCTAAAGGACTTAAAAAGGTTTGAAATGGGATAAA
* * *** * * *
3122363 CCTATCCTAATTGCCCACCTTTGGCATAAAAACGGACCTGGCAATAACCTAGGAGTTGGTTCTAA
65 CCTATCCTAACTACCCACCTTTGGCATAAAAACGGACCCAACAACAACCTAAGAGTTAGTTCTAA
* *
3122428 AAATTACAAAAATACCTCTAGGG
130 AAATTACAAAAATACCCCTAGGA
* ** * * *
3122451 GATACCTTAAACGTAAAAGTACTTGGTACTCCTAAAGGATTTAAAAAGGTTTGAAATGGGATAAA
1 GATACATTCGACGTAAAAGTACTCGATAC-CCTAAAGGACTTAAAAAGGTTTGAAATGGGATAAA
* * * *
3122516 CCT-TCC-AACTACCCACCTTTGGCATAAAAGCGGACCCAACGACAATCTAAGAGTTAGTTTTGA
65 CCTATCCTAACTACCCACCTTTGGCATAAAAACGGACCCAACAACAACCTAAGAGTTAGTTCT-A
* *
3122579 AAAATTACAAAAATGCCCCTATGA
129 AAAATTACAAAAATACCCCTAGGA
* *
3122603 GATACATTCGACGTAAAAATACTCGATACCCATAAAGAACTTAAAAAGG
1 GATACATTCGACGTAAAAGTACTCGATACCC-TAAAGGACTTAAAAAGG
3122652 ATAATAGATG
Statistics
Matches: 165, Mismatches: 33, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
151 45 0.27
152 63 0.38
153 57 0.35
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (152 bp):
GATACATTCGACGTAAAAGTACTCGATACCCTAAAGGACTTAAAAAGGTTTGAAATGGGATAAAC
CTATCCTAACTACCCACCTTTGGCATAAAAACGGACCCAACAACAACCTAAGAGTTAGTTCTAAA
AATTACAAAAATACCCCTAGGA
Found at i:3123454 original size:159 final size:158
Alignment explanation
Indices: 3123061--3123525 Score: 594
Period size: 159 Copynumber: 2.9 Consensus size: 158
3123051 TTAAATTTTT
* *
3123061 TCTCAAAAGTATTAATTCAATTTAATTTTATTTTTTTTTGAAAATACCATTTCATACCCTAATAG
1 TCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCATACCCTAATA-
* *
3123126 AAGAC-CGAAAGGATACGAAAGGTTTTTGAAATCTTTTATACCCTTACGGATGCCTATAGGAATA
65 AAAACTCGAAAGGATACGAAAGGTTTTTGAAATCTTTTATACCC-TACGGATGCCCATAGGAATA
3123190 TAAAAGATTAGAACAAATAAATATTAGAATTTA
129 TAAAAGATTAG-A-AAA-AAATATTAGAATTTA
* ** **
3123223 TCTCAAGAGTACCAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCATACCCTAATGG
1 TCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCATACCCTAATAA
* * * * *
3123288 AAGCTCGAAAGAATACAAAAGGTTTTTGAAATCTTCTATACTCCTAAGGATGCCCATAGGAATAT
66 AAACTCGAAAGGATACGAAAGGTTTTTGAAATCTTTTATAC-CCTACGGATGCCCATAGGAATAT
*
3123353 AAAAGATTAGAAAAAAATATTGGAATTTA
130 AAAAGATTAGAAAAAAATATTAGAATTTA
* * * * ** **
3123382 TC-CTAAAAATATTAATTCACTTTGATTTTATTTACTTTCGAAAATAATATTTTGTACCCTAATA
1 TCTC-AAAAGTATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCATACCCTAATA
* ** *
3123446 AAAACTCGAAAGGATGCGAAACATTTTTAAAATCTTTTATACCCCTACGGATGCCCATAGGAATA
65 AAAACTCGAAAGGATACGAAAGGTTTTTGAAATCTTTTATA-CCCTACGGATGCCCATAGGAATA
3123511 TAAAAGATTA-AAAAA
129 TAAAAGATTAGAAAAA
3123526 TTAATAAACA
Statistics
Matches: 262, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
158 6 0.02
159 127 0.48
160 4 0.02
161 3 0.01
162 120 0.46
163 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (158 bp):
TCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCATACCCTAATAA
AAACTCGAAAGGATACGAAAGGTTTTTGAAATCTTTTATACCCTACGGATGCCCATAGGAATATA
AAAGATTAGAAAAAAATATTAGAATTTA
Found at i:3124619 original size:140 final size:142
Alignment explanation
Indices: 3124367--3124726 Score: 451
Period size: 140 Copynumber: 2.6 Consensus size: 142
3124357 TTCCATGCCC
* * * * * * * * *
3124367 TAATAGAGGACCGAAAAGACATGAAAAGTTATGAAAATTTTCATACCCCTACGGATGCCCAAAGG
1 TAATAGAGAACCAAAAAGATACGAAAAGTTTTGAAAATTTTCATACCCCCATGGATACCCATAGG
3124432 AATATTAGAAA-TTCTAAAAAATTAGGATAATAATTTTTATTGGAC-TTTAAAATTTTAAAAATT
66 AATATTAGAAATTTCTAAAAAATTAGGATAATAATTTTTATTGGACTTTTAAAATTTTAAAAATT
3124495 CATTTCATACCT
131 CATTTCATACCT
* * * *
3124507 TAATAGAGAACCAAAAAGATACGAAAAGTTTTGAAAATTTTAAAACCCCCATGAATTCCCATAGG
1 TAATAGAGAACCAAAAAGATACGAAAAGTTTTGAAAATTTTCATACCCCCATGGATACCCATAGG
* * * * *
3124572 AATATTAGAAATTTC-AAAAAATTGGGATAATCATTTTTATTTGACTTTTAAATTTTTCAAAATT
66 AATATTAGAAATTTCTAAAAAATTAGGATAATAATTTTTATTGGACTTTTAAAATTTTAAAAATT
*
3124636 CGTTTCATACCT
131 CATTTCATACCT
* * * * *
3124648 TAAT-GAAGAACCAAAAAGATACAAAAAG-TTAGAAAATTTTCATACTCCCGTGGATACCCATGG
1 TAATAG-AGAACCAAAAAGATACGAAAAGTTTTGAAAATTTTCATACCCCCATGGATACCCATAG
*
3124711 GAATATAAGAAATTTC
65 GAATATTAGAAATTTC
3124727 GAGAAATTTA
Statistics
Matches: 189, Mismatches: 28, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
140 134 0.71
141 55 0.29
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (142 bp):
TAATAGAGAACCAAAAAGATACGAAAAGTTTTGAAAATTTTCATACCCCCATGGATACCCATAGG
AATATTAGAAATTTCTAAAAAATTAGGATAATAATTTTTATTGGACTTTTAAAATTTTAAAAATT
CATTTCATACCT
Found at i:3126226 original size:34 final size:35
Alignment explanation
Indices: 3126158--3126229 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
3126148 GTGTTTATGA
*
3126158 AAAGAATAAGCACAAAGTAATACAAATGAGCTTTG
1 AAAGAATAAGCACAAAGTAATACAAAAGAGCTTTG
**
3126193 AAAGAATAA-CAACAAAG-AATACAAAAGCTCTTTG
1 AAAGAATAAGC-ACAAAGTAATACAAAAGAGCTTTG
3126227 AAA
1 AAA
3126230 TGTAGAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.56, C:0.12, G:0.14, T:0.18
Consensus pattern (35 bp):
AAAGAATAAGCACAAAGTAATACAAAAGAGCTTTG
Found at i:3126615 original size:13 final size:13
Alignment explanation
Indices: 3126597--3126623 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3126587 TACAATGAAC
3126597 ATGTATCGATACA
1 ATGTATCGATACA
3126610 ATGTATCGATACA
1 ATGTATCGATACA
3126623 A
1 A
3126624 AGCAATATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3126639 original size:33 final size:32
Alignment explanation
Indices: 3126579--3126642 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
3126569 TATTTTAGTG
*
3126579 TGTATCGATACAATGAACATGTATCGATACAA
1 TGTATCGATACAAAGAACATGTATCGATACAA
*
3126611 TGTATCGATACAAAGCAATATGTATCGATACA
1 TGTATCGATACAAAG-AACATGTATCGATACA
3126643 TCTAGGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAA
Found at i:3129760 original size:20 final size:19
Alignment explanation
Indices: 3129714--3129791 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
3129704 TTTTACCCTG
* *
3129714 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTATGA
**
3129734 AAATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* *
3129754 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTATG-A
3129774 ATGTATCGATACATTATG
1 ATGTATCGATACATTATG
3129792 TCTTTTTACC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
19 4 0.09
20 42 0.91
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:3129781 original size:40 final size:39
Alignment explanation
Indices: 3129714--3129791 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
3129704 TTTTACCCTG
* *
3129714 ATGTATCGATACATTTTTCAAAATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAAAATATCGATACAT-TATGA
* **
3129754 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAAAATATCGATACATTATG
3129792 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAAAATATCGATACATTATGA
Found at i:3130735 original size:22 final size:22
Alignment explanation
Indices: 3130701--3130754 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
3130691 AGCCTTTGAC
3130701 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
3130722 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
3130744 CATGCATTTTT
1 CATGCATTTTT
3130755 GACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:3136734 original size:13 final size:13
Alignment explanation
Indices: 3136716--3136740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3136706 TACCACTGTT
3136716 TGTATCGATACAA
1 TGTATCGATACAA
3136729 TGTATCGATACA
1 TGTATCGATACA
3136741 TGATGAATTG
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:3138365 original size:3 final size:3
Alignment explanation
Indices: 3138350--3138383 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
3138340 AACCATCAAA
*
3138350 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
3138384 TTGACTCGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:3142145 original size:21 final size:21
Alignment explanation
Indices: 3142112--3142152 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3142102 CTAAGTAAAA
3142112 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3142133 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3142153 CAAAGTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3147774 original size:13 final size:13
Alignment explanation
Indices: 3147756--3147781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3147746 TACACAAAGT
3147756 ATGTATCGATACA
1 ATGTATCGATACA
3147769 ATGTATCGATACA
1 ATGTATCGATACA
3147782 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:3147800 original size:34 final size:32
Alignment explanation
Indices: 3147738--3147802 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
3147728 TAGCCAAACT
**
3147738 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
3147770 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
3147803 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:3153464 original size:38 final size:38
Alignment explanation
Indices: 3153413--3153487 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
3153403 TTGCTGAAGG
*
3153413 AAGGTTTCTGGGGAAAGGATATGCTCAGCCAAAACCTC
1 AAGGTTGCTGGGGAAAGGATATGCTCAGCCAAAACCTC
3153451 AAGGTTGCTGGGGAAAGGATATGCTCAGCCAAAACCT
1 AAGGTTGCTGGGGAAAGGATATGCTCAGCCAAAACCT
3153488 TCTTTGCTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (38 bp):
AAGGTTGCTGGGGAAAGGATATGCTCAGCCAAAACCTC
Found at i:3153989 original size:19 final size:19
Alignment explanation
Indices: 3153929--3153989 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
3153919 CAGGGTAACT
*
3153929 TTTGTATCGATACAACACT-
1 TTTGTATCGATACAA-ATTG
* *
3153948 TATGTATCGATACATTTATTG
1 TTTGTATCGATACA--AATTG
3153969 TTTGTATCGATACAAATTG
1 TTTGTATCGATACAAATTG
3153988 TT
1 TT
3153990 GAAATTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (19 bp):
TTTGTATCGATACAAATTG
Found at i:3154394 original size:33 final size:33
Alignment explanation
Indices: 3154351--3154413 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
3154341 TACCACTATT
* *
3154351 TGTATTGATACAT-TTCACATTGTATCGATATAA
1 TGTATCGATACATGATCA-ATTGTATCGATATAA
*
3154384 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGATCAATTGTATCGATA
3154414 CATTGCTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATGATCAATTGTATCGATATAA
Found at i:3157717 original size:20 final size:20
Alignment explanation
Indices: 3157686--3157739 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3157676 ATTAGGCTTA
* *
3157686 ATGTAT-GATACATTTCACC
1 ATGTATCGATACAATCCACC
*
3157705 ATGTATCGATACAATCCTCC
1 ATGTATCGATACAATCCACC
3157725 ATGTATCGATACAAT
1 ATGTATCGATACAAT
3157740 GTGAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATCCACC
Found at i:3158514 original size:167 final size:164
Alignment explanation
Indices: 3158336--3158801 Score: 569
Period size: 167 Copynumber: 2.9 Consensus size: 164
3158326 GAGGTTTTTG
** * *
3158336 AAGGTAAAAAATTAAAAACTCGTGAAAATAAATGAAAATTTCAAAGCAGATTTAATATGAATTAA
1 AAGG-AAAAAA-TAAAAACT-GTGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAATTAA
* *
3158401 ATGATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCGCCT-AAAAACATTTACG
63 ATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCTCGAAAACATTTACG
* * *
3158465 GAGTAGATAACTCCGTATTTGAGAAATAGGGAAATTTC
127 GAGTAGAAAACTCCGTATTTGAGAAATAGGAAAAATTC
* *
3158503 AAGGAAAAAAATGAAAAACTAATGAAAATAAATGAATTTTTCAAAACTGATTTAATATGGATTAA
1 AAGG-AAAAAAT-AAAAACT-GTGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAATTAA
*
3158568 ATAATGA-ATTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAACACTTACG
63 ATAATGATA-TTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAACATTTACG
* * *
3158632 GAGTAGAAAACTTCATATTTTAGAAATAGGAAAAATTC
127 GAGTAGAAAACTCCGTATTTGAGAAATAGGAAAAATTC
* * * *
3158670 AAGG-------AAAAA-TG-AAAAATAAATGAATTTTTTAAAAATGATTTAATATGAATTAGATA
1 AAGGAAAAAATAAAAACTGTGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAATTAAATA
* * * *
3158726 ATAATATTTTATGAATTTTAAAAATTAAAAA-CAAAAAAAATCCCCTCGAAAATATTTACGGAGT
66 ATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAACATTTACGGAGT
3158790 AGAAAACTCCGT
131 AGAAAACTCCGT
3158802 GCTTCGGAAA
Statistics
Matches: 265, Mismatches: 30, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
154 40 0.15
155 67 0.25
156 1 0.00
157 1 0.00
158 5 0.02
166 5 0.02
167 146 0.55
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (164 bp):
AAGGAAAAAATAAAAACTGTGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAATTAAATA
ATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAACATTTACGGAGT
AGAAAACTCCGTATTTGAGAAATAGGAAAAATTC
Found at i:3159746 original size:16 final size:16
Alignment explanation
Indices: 3159727--3159761 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3159717 GCATATTAAG
*
3159727 GTTCGAGCCTTTTCGA
1 GTTCGAGCATTTTCGA
3159743 GTTCGAGCATTTTCGA
1 GTTCGAGCATTTTCGA
3159759 GTT
1 GTT
3159762 TAGGCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.20, G:0.26, T:0.40
Consensus pattern (16 bp):
GTTCGAGCATTTTCGA
Found at i:3160935 original size:22 final size:22
Alignment explanation
Indices: 3160882--3160925 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3160872 TAAAACTCAT
3160882 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
*
3160904 GATATAATTTATTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
3160926 ATTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
GATATAATTTACTTTTTGATAA
Found at i:3161676 original size:21 final size:19
Alignment explanation
Indices: 3161634--3161701 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
3161624 TTAATAAAAT
3161634 ATATTATAAAAAAATTAAA
1 ATATTATAAAAAAATTAAA
* *
3161653 ATATTATATAAAATATTATCA
1 ATATTATA-AAAAAATTA-AA
* **
3161674 ATA-TATAAATATTTTAAA
1 ATATTATAAAAAAATTAAA
3161692 ATATATATAA
1 ATAT-TATAA
3161702 TATAAATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.10
19 15 0.38
20 17 0.43
21 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATTATAAAAAAATTAAA
Found at i:3161686 original size:29 final size:27
Alignment explanation
Indices: 3161649--3161713 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
3161639 ATAAAAAAAT
3161649 TAAAATATTATATAAAATAT-TATCAATA
1 TAAAATATTAT-TAAAATATATAT-AATA
3161677 TATAAATATT-TTAAAATATATATAATA
1 TA-AAATATTATTAAAATATATATAATA
*
3161704 TAAATTATTA
1 TAAAATATTA
3161714 AGATATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 6 0.18
27 14 0.42
28 6 0.18
29 7 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAAATATTATTAAAATATATATAATA
Found at i:3161749 original size:27 final size:28
Alignment explanation
Indices: 3161627--3161759 Score: 76
Period size: 29 Copynumber: 4.5 Consensus size: 28
3161617 TTACAATTTA
* *
3161627 ATAAAATATATTATAAAAAAATTAAAATATT
1 ATAAAATA-ATTAT--ATAAATTATAATATT
* *
3161658 ATATAA-AA-TATTATCAATATATAAATATT
1 ATAAAATAATTA-TATAAAT-TAT-AATATT
* *
3161687 TTAAAATATATATAATATAAATTATTAAGA-T
1 ATAAAATA-AT-T-ATATAAATTA-TAATATT
3161718 ATAAAA-AATTATATAAATTATAATATT
1 ATAAAATAATTATATAAATTATAATATT
*
3161745 TTAAATATAATTATA
1 ATAAA-ATAATTATA
3161760 ATATATAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
26 4 0.05
27 19 0.24
28 6 0.08
29 21 0.27
30 3 0.04
31 12 0.15
32 5 0.06
33 8 0.10
34 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
ATAAAATAATTATATAAATTATAATATT
Found at i:3161760 original size:27 final size:27
Alignment explanation
Indices: 3161645--3161784 Score: 72
Period size: 29 Copynumber: 4.9 Consensus size: 27
3161635 TATTATAAAA
*
3161645 AAATTAAAATATTATATAAA-AT-ATTAT
1 AAATTATAATATT-T-TAAATATAATTAT
*
3161672 CAATATATAAATATTTTAAAATATATATAATAT
1 AAAT-TAT-AATATTTT-AAATATA-AT--TAT
* * * * *
3161705 AAATTATTAAGATATAAAAAATTA-TAT
1 AAATTA-TAATATTTTAAATATAATTAT
3161732 AAATTATAATATTTTAAATATAATTAT
1 AAATTATAATATTTTAAATATAATTAT
*
3161759 -AATATATAAAAATATTTAAATATAAT
1 AAAT-TAT-AATAT-TTTAAATATAAT
3161785 ACAAAATTAG
Statistics
Matches: 86, Mismatches: 14, Indels: 24
0.69 0.11 0.19
Matches are distributed among these distances:
26 15 0.17
27 19 0.22
28 10 0.12
29 20 0.23
30 1 0.01
31 7 0.08
32 7 0.08
33 7 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
AAATTATAATATTTTAAATATAATTAT
Found at i:3162271 original size:22 final size:22
Alignment explanation
Indices: 3162243--3162289 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3162233 AATATATTTT
*
3162243 TATT-AAATTTTAATAATAAAAA
1 TATTAAAATATTAA-AATAAAAA
3162265 TATTAAAATATTAAAATAAAAA
1 TATTAAAATATTAAAATAAAAA
3162287 TAT
1 TAT
3162290 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTAAAATATTAAAATAAAAA
Found at i:3162841 original size:29 final size:29
Alignment explanation
Indices: 3162781--3162842 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
3162771 ATATCTGTTT
* *
3162781 TTATTATTTATGTAATTATTTATTTTTAA
1 TTATTATTTATATAATTATATATTTTTAA
3162810 TTATTA-TTATATAA-TATATATTTATTATA
1 TTATTATTTATATAATTATATATTT-TTA-A
3162839 TTAT
1 TTAT
3162843 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 10 0.34
29 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
TTATTATTTATATAATTATATATTTTTAA
Found at i:3166968 original size:30 final size:29
Alignment explanation
Indices: 3166929--3166985 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
3166919 AATTTTATAA
*
3166929 AAATAATTTTAAAT-TTTATTGTTATATTT
1 AAATAATTTTAAATATTTAAT-TTATATTT
*
3166958 AAATAAATTTTTAATATTTAATTTATAT
1 AAAT-AATTTTAAATATTTAATTTATAT
3166986 CAAATTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.17
30 15 0.62
31 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
AAATAATTTTAAATATTTAATTTATATTT
Found at i:3169520 original size:15 final size:15
Alignment explanation
Indices: 3169484--3169538 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
3169474 TTATTTTTAG
* *
3169484 TTTATTTTTTAAATA
1 TTTAATTTTTAAAAA
*
3169499 TAT-ATTTTTAAAAA
1 TTTAATTTTTAAAAA
*
3169513 TTTAATTTTTAATAA
1 TTTAATTTTTAAAAA
3169528 TTTAATATTTT
1 TTTAAT-TTTT
3169539 TTAAGTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 11 0.33
15 18 0.55
16 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAAAAA
Found at i:3169669 original size:18 final size:19
Alignment explanation
Indices: 3169618--3169669 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
3169608 TTTTTATTTG
3169618 ATAAAAATTATATAA-TAT
1 ATAAAAATTATATAATTAT
* *
3169636 ATAAACA-TATAAAATTA-
1 ATAAAAATTATATAATTAT
*
3169653 ATAAATATTATATAATT
1 ATAAAAATTATATAATT
3169670 GTAAAACATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATTATATAATTAT
Found at i:3171732 original size:20 final size:20
Alignment explanation
Indices: 3171709--3171937 Score: 109
Period size: 20 Copynumber: 10.8 Consensus size: 20
3171699 AAGTACCCAG
*
3171709 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
3171729 ATGTATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* *
3171749 ATGTATCGATACATTCTTCG
1 ATGTATCGATACATTTTTCA
*
3171769 ATGTATCAATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
3171799 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
** * ** * *
3171820 ACATATCGGTACACGTATGA
1 ATGTATCGATACATTTTTCA
* * *
3171840 ATGTATCAAGACATTCTTCGA
1 ATGTATCGATACATTTTTC-A
3171861 TGTATGTATCGATACATTTTTCA
1 ---ATGTATCGATACATTTTTCA
* * *
3171884 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
3171904 ATGTATCAATA-ATTCTTCG
1 ATGTATCGATACATTTTTCA
3171923 ATGTATCGATACATT
1 ATGTATCGATACATT
3171938 CTGTCTTTTT
Statistics
Matches: 150, Mismatches: 43, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
19 13 0.09
20 95 0.63
21 3 0.02
23 1 0.01
24 21 0.14
27 4 0.03
30 1 0.01
31 12 0.08
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3171877 original size:24 final size:24
Alignment explanation
Indices: 3171840--3171889 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
3171830 ACACGTATGA
*
3171840 ATGTATCAAGACATTCTTCGATGT
1 ATGTATCAAGACATTCTTCAATGT
* * *
3171864 ATGTATCGATACATTTTTCAATGT
1 ATGTATCAAGACATTCTTCAATGT
3171888 AT
1 AT
3171890 CGATACATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (24 bp):
ATGTATCAAGACATTCTTCAATGT
Found at i:3171902 original size:64 final size:63
Alignment explanation
Indices: 3171800--3171928 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 63
3171790 TTTTACCCAG
*
3171800 ATGTATCGATACATTTTTCAACATATCGGTACACGTATGAATGTATCAAGACATTCTTCGATGT
1 ATGTATCGATACATTTTTCAACATATCGATACACGTATGAATGTATCAAGA-ATTCTTCGATGT
** * *
3171864 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCAATAATTCTTCGATGT
1 ATGTATCGATACATTTTTCAACATATCGATACACGTATGAATGTATCAAGAATTCTTCGATGT
3171927 AT
1 AT
3171929 CGATACATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 14 0.23
64 46 0.77
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (63 bp):
ATGTATCGATACATTTTTCAACATATCGATACACGTATGAATGTATCAAGAATTCTTCGATGT
Found at i:3172879 original size:23 final size:23
Alignment explanation
Indices: 3172849--3172901 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
3172839 CTTTGACCAC
3172849 GCATTTTCTTTATTATGTTTCAT
1 GCATTTTCTTTATTATGTTTCAT
3172872 GCATTTTCTTTATTATGTTTCAT
1 GCATTTTCTTTATTATGTTTCAT
3172895 GCATTTT
1 GCATTTT
3172902 TAATATGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.60
Consensus pattern (23 bp):
GCATTTTCTTTATTATGTTTCAT
Found at i:3185934 original size:1 final size:1
Alignment explanation
Indices: 3185928--3185983 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
3185918 CTTTATACCT
* * * ** *
3185928 AAAAAAACAAAAAAAAACAAAAAAAAACAAAAAAAACCAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3185984 CCAAGAAACA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3185943 original size:10 final size:10
Alignment explanation
Indices: 3185928--3186013 Score: 104
Period size: 10 Copynumber: 8.3 Consensus size: 10
3185918 CTTTATACCT
3185928 AAAAAAACAA
1 AAAAAAACAA
3185938 AAAAAAACAA
1 AAAAAAACAA
3185948 AAAAAAAC-A
1 AAAAAAACAA
*
3185957 AAAAAAACCA
1 AAAAAAACAA
3185967 AAAAAAACAA
1 AAAAAAACAA
3185977 AAAAAAACCAA
1 AAAAAAA-CAA
3185988 GAAACAAATAGCAA
1 -AAA-AAA-A-CAA
3186002 AAAAAAA-AA
1 AAAAAAACAA
3186011 AAA
1 AAA
3186014 TAGAAAAGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
9 14 0.20
10 35 0.51
11 4 0.06
12 6 0.09
13 6 0.09
14 4 0.06
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:3185960 original size:29 final size:29
Alignment explanation
Indices: 3185928--3185984 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
3185918 CTTTATACCT
3185928 AAAAAAACAAAAAAAAACAAAAAAAAACA
1 AAAAAAACAAAAAAAAACAAAAAAAAACA
*
3185957 AAAAAAACCAAAAAAAACAAAAAAAAAC
1 AAAAAAACAAAAAAAAACAAAAAAAAAC
3185985 CAAGAAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (29 bp):
AAAAAAACAAAAAAAAACAAAAAAAAACA
Found at i:3187290 original size:28 final size:28
Alignment explanation
Indices: 3187246--3188769 Score: 1684
Period size: 28 Copynumber: 52.6 Consensus size: 28
3187236 TAAAATCCAT
*
3187246 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
3187274 AAGTCAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
3187302 AAGTCAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187330 AAGTTAGTGGCAACACCTTTCAAAGCCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
3187360 AAGTCAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187388 AAGTCAGTGGCACCCTTTCAAAGCCCAG
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187416 AAGCCAGTGGCATCCTTTCAAAGCCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187444 AAGTCAGTGGCATCTTTTCAAAGCCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3187472 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3187500 GAGTTAGTGGCAACTCTTTTCAAAGCCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
*
3187530 AAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3187558 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
3187586 AAGTCAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3187614 GAGTCAATAGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3187642 GAGTTAGTGGCAACTCTTTTCAAAGCCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
*
3187672 AAGTCAGTGGCGTCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * **
3187700 GAGTTAGTGGCAACTTTTTTCAAAGCCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
* *
3187730 GAGTCAGTGGCAACTCTTTTCAAAGCCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
*
3187760 AAGTCAATGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187788 AAGTGAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3187816 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3187844 GAGTCAGTGGCAACTCTTTTCAAAGCCCAT
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
*
3187874 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3187902 AAGTCAGTGGCACCCTTTGAAAGCCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187930 AAGTTAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
**
3187958 AAGTCAGTGGCATCCTTTCAAAGCTGAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3187986 GAGTCAGTGGCAACTCTTTTCAAAGCCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
*
3188016 AAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3188044 AAGTTAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3188072 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3188100 GTAAGTTAGTGGCA-CCTTTTCAAAGCCCAC
1 --AAGTCAGTGGCATCC-TTTCAAAGCCCAC
* *
3188130 AAGTTAGTGGCATCCTTTTAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3188158 AAGTCAGTGGCACTCTTTTCAATGCCCAC
1 AAGTCAGTGGCA-TCCTTTCAAAGCCCAC
*
3188187 AAGTCAGTGGCATCCTTTCAAAGCTCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3188215 AAGTCAGTGGCATGCTTTCAAAGCCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3188243 AAGTTAGTGGCACTCTTTTGAAAGCCCAC
1 AAGTCAGTGGCA-TCCTTTCAAAGCCCAC
* *
3188272 AAGTGAGTGGCATCCTTTCAAAGCTCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3188300 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
*
3188328 AAGTGAGTGGCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
3188356 AAGTTAGTGGCACCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * *
3188384 AACTCAGTGGCATTCTTTTAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
* * * *
3188412 ATAAGTTAGTGGCAACCCATTTCAAAGCTCAT
1 --AAGTCAGTGGC-ATCC-TTTCAAAGCCCAC
* *
3188444 TAGTCAGTGGTATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC
3188472 AAGTCAGTGGCATCCTTATCAAAGTCCACAC
1 AAGTCAGTGGCATCCTT-TCAAAG-CC-CAC
** *
3188503 AAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 AAGTCAGTGGC-ATCC-TTTCAAAGCCCAC
*
3188533 AAGTCAGTGGCATCATTTCAAAGCCCACAC
1 AAGTCAGTGGCATCCTTTCAAAG-CC-CAC
* * * *
3188563 AAGTCGGTGGCAACTCATTTGAAAGCCCATAT
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCC--AC
** * *
3188595 AAGTTGGTGGCAACCCATTTTAAAGCCCACAC
1 AAGTCAGTGGC-ATCC-TTTCAAAG-CC-CAC
** *
3188627 AAGTTGGTGGTATCCCATTTCAAAGCCCATAC
1 AAGTCAGTGGCAT-CC-TTTCAAAGCCC--AC
* *
3188659 AAGTCAGTGGCAACCCCTTTCAAAACCCAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
* *
3188689 AAGTTAGTGGTATGCCCTTTCAAAGCCCACAC
1 AAGTCAGTGGCAT--CCTTTCAAAG-CC-CAC
** *
3188721 AAGTTGGTGGCAACTCTTTTCAAAGCCTACAC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCC--CAC
*
3188753 AAGTTAGTGGCA-CCTTT
1 AAGTCAGTGGCATCCTTT
3188770 TATTTAAAAA
Statistics
Matches: 1297, Mismatches: 151, Indels: 95
0.84 0.10 0.06
Matches are distributed among these distances:
28 793 0.61
29 80 0.06
30 261 0.20
31 28 0.02
32 125 0.10
33 8 0.01
34 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (28 bp):
AAGTCAGTGGCATCCTTTCAAAGCCCAC
Found at i:3187453 original size:114 final size:113
Alignment explanation
Indices: 3187246--3188769 Score: 1704
Period size: 114 Copynumber: 13.2 Consensus size: 113
3187236 TAAAATCCAT
* *
3187246 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
*
3187311 GCATCCTTTCAAAGCCCACAAGTTAGTGGCAACACCTTTCAAAGCCCAC
66 GCATCCTTTCAAAGCCCACAAGTTAGTGGC-ACTCCTTTCAAAGCCCAC
* *
3187360 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAGAAGCCAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
* * * *
3187425 GCATCCTTTCAAAGCCCATAAGTCAGTGGCA-TCTTTTCAAAGCCCAT
66 GCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * * *
3187472 AAGTCAGTGGCATCTTTTCAAAGCCCACGAGTTAGTGGCAACTCTTTTCAAAGCCCACAAGTTAG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAG
*
3187537 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCAC
64 TGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * * * *
3187586 AAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAATAGCATCCTTTCAAAGCCCACGAGTTAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
* * *
3187651 GCAACTCTTTTCAAAGCCCACAAGTCAGTGGC-GTCCTTTCAAAGCCCAC
66 GC-A-TCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * ** * *
3187700 GAGTTAGTGGCAACTTTTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTC
1 AAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTC
* *
3187765 AATGGCATCCTTTCAAAGCCCACAAGTGAGTGGCAC-CCTTTCAAAGCCCAC
62 AGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * *
3187816 AAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAAGCCCATAAGTCAG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAG
* * * *
3187881 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTGAAAGCCCAT
64 TGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * ** *
3187930 AAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTGACGAGTCAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
*
3187995 GCAACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCAC
66 GC-A-TCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * *
3188044 AAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTTAG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAG
*
3188109 TGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTTAAAGCCCAC
64 TGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * *
3188158 AAGTCAGTGGCACTCTTTTCAATGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGT
1 AAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGT
* * * *
3188223 GGCATGCTTTCAAAGCCCATAAGTTAGTGGCACTCTTTTGAAAGCCCAC
65 GGCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * *
3188272 AAGTGAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTGAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
3188337 GCATCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCAC
66 GCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * * * **
3188384 AACTCAGTGGCATTCTTTTAAAGCCCACATAAGTTAGTGGCAACCCATTTCAAAGCTCATTAGTC
1 AAGTCAGTGGCATCCTTTCAAAGCCCAC--AAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTC
* *
3188449 AGTGGTATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTATCAAAGTCCACAC
62 AGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTT-TCAAAG-CC-CAC
** * * *
3188503 AAGTTGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTC
1 AAGTCAGTGGC-ATCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTC
* * * * * *
3188568 GGTGGCAACTCATTTGAAAGCCCATATAAGTTGGTGGCAAC-CCATTTTAAAGCCCACAC
62 AGTGGC-A-TCCTTTCAAAGCCC--ACAAGTTAGTGGC-ACTCC-TTTCAAAG-CC-CAC
** * *
3188627 AAGTTGGTGGTATCCCATTTCAAAGCCCATACAAGTCAGTGGCAACCCCTTTCAAAACCCACAAG
1 AAGTCAGTGGCAT-CC-TTTCAAAGCCC--ACAAGTCAGTGGC-A-CCCTTTCAAAGCCCACAAG
* * * *
3188692 TTAGTGGTATGCCCTTTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCTACAC
60 TCAGTGGCAT--CCTTTCAAAG-CC-CACAAGTTAGTGGC-ACTCCTTTCAAAGCC--CAC
*
3188753 AAGTTAGTGGCA-CCTTT
1 AAGTCAGTGGCATCCTTT
3188770 TATTTAAAAA
Statistics
Matches: 1219, Mismatches: 141, Indels: 91
0.84 0.10 0.06
Matches are distributed among these distances:
112 130 0.11
113 120 0.10
114 547 0.45
115 46 0.04
116 132 0.11
117 16 0.01
118 27 0.02
119 31 0.03
120 3 0.00
121 24 0.02
123 14 0.01
124 41 0.03
125 5 0.00
126 68 0.06
127 6 0.00
128 9 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (113 bp):
AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
GCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
Found at i:3187521 original size:142 final size:140
Alignment explanation
Indices: 3187246--3188769 Score: 1718
Period size: 142 Copynumber: 10.5 Consensus size: 140
3187236 TAAAATCCAT
3187246 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
1 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
* * * *
3187311 GCATCCTTTCAAAGCCCACAAGTTAGTGGCAACACCTTTCAAAGCCCACAAGTCAGTGGCATCCT
66 GCATCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
3187376 TTCAAAGCCCAC
129 TTCAAAGCCCAC
* * *
3187388 AAGTCAGTGGCACCCTTTCAAAGCCCAGAAGCCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTG
1 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
* * * * *
3187453 GCATCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCACGAGTTAGTGGCAACTCTT
66 GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC-AC-CCT
3187518 TTCAAAGCCCAC
129 TTCAAAGCCCAC
* * *
3187530 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
1 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
* * * * *
3187595 GCATCCTTTCAAAGCCCACGAGTCAATAGCATCCTTTCAAAGCCCACGAGTTAGTGGCAACTCTT
66 GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC-AC-CCT
3187660 TTCAAAGCCCAC
129 TTCAAAGCCCAC
** * * ** *
3187672 AAGTCAGTGGCGTCCTTTCAAAGCCCACGAGTTAGTGGCAACTTTTTTCAAAGCCCACGAGTCAG
1 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAG
* * *
3187737 TGGCAACTCTTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTGAGTGGCACC
64 TGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
3187802 CTTTCAAAGCCCAC
127 CTTTCAAAGCCCAC
* * *
3187816 AAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAAGCCCATAAGTCAG
1 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAG
* * * *
3187881 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTGAAAGCCCATAAGTTAGTGGCACCCT
64 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
3187946 TTCAAAGCCCAC
129 TTCAAAGCCCAC
* ** * * *
3187958 AAGTCAGTGGCATCCTTTCAAAGCTGACGAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTTAG
1 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAG
* * *
3188023 TGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
64 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
3188088 TTCAAAGCCCAC
129 TTCAAAGCCCAC
* * * *
3188100 GTAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTCAG
1 --AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * **
3188165 TGGCACTCTTTTCAATGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATGC
64 TGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCC
*
3188230 TTTCAAAGCCCAT
128 TTTCAAAGCCCAC
* * * * *
3188243 AAGTTAGTGGCACTCTTTTGAAAGCCCACAAGTGAGTGGCATCCTTTCAAAGCTCACAAGTCAGT
1 AAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
* *
3188308 GGCACCCTTTCAAAGCCCACAAGTGAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTT
65 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTT
3188373 TCAAAGCCCAC
130 TCAAAGCCCAC
* ** * * * * **
3188384 AACTCAGTGGCATTCTTTTAAAGCCCACATAAGTTAGTGGCAACCCATTTCAAAGCTCATTAGTC
1 AAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGC-ATCC-TTTCAAAGCCCACAAGTC
* *
3188449 AGTGGTATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTATCAAAGTCCACACAAGTTGGTGGC
62 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAG-CC-CACAAGTTAGTGGC
3188514 AACCCATTTCAAAGCCCAC
124 -ACCC-TTTCAAAGCCCAC
* * * * * *
3188533 AAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCATATAAG
1 AAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCC--ACAAG
** * * ** *
3188598 TTGGTGGCAACCCATTTTAAAGCCCACACAAGTTGGTGGTATCCCATTTCAAAGCCCATACAAGT
60 TCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGCAT-CC-TTTCAAAGCCC--ACAAGT
* *
3188663 CAGTGGCAACCCCTTTCAAAACCCAC
117 TAGTGGC-A-CCCTTTCAAAGCCCAC
* * ** *
3188689 AAGTTAGTGGTATGCCCTTTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCTACACA
1 AAGTCAGTGGCA--CCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCC--CACA
*
3188754 AGTTAGTGGCA-CCTTT
58 AGTCAGTGGCATCCTTT
3188770 TATTTAAAAA
Statistics
Matches: 1210, Mismatches: 135, Indels: 61
0.86 0.10 0.04
Matches are distributed among these distances:
140 35 0.03
141 88 0.07
142 553 0.46
143 70 0.06
144 185 0.15
145 9 0.01
146 52 0.04
147 13 0.01
148 4 0.00
149 52 0.04
150 3 0.00
151 12 0.01
152 3 0.00
153 7 0.01
154 3 0.00
155 18 0.01
156 45 0.04
157 6 0.00
158 51 0.04
160 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (140 bp):
AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
GCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
CAAAGCCCAC
Found at i:3188943 original size:49 final size:47
Alignment explanation
Indices: 3188848--3188973 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 47
3188838 GTCCAATATT
* * * * *
3188848 GCTGGCATTGAATAAGCATATTGGCACCTTT--ATTAGCCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACTTTTCCCTTAGCCCAATGTC
3188893 GCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGG--CACTTTTCCCTTAGCCCAATGTC
**
3188942 GCTGGCCTTGAATTGGCACATTGGCACTTTTC
1 GCTGGCCTTGAATCAGCACATTGGCACTTTTC
3188974 TAATCTTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
45 21 0.30
47 14 0.20
49 35 0.50
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (47 bp):
GCTGGCCTTGAATCAGCACATTGGCACTTTTCCCTTAGCCCAATGTC
Found at i:3191607 original size:33 final size:33
Alignment explanation
Indices: 3191562--3191664 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
3191552 TAAATTGTAA
* *
3191562 AATGTATAGATACAATGAGCAGTGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* * *
3191595 ATTGTATCGATACTATGAGCAATGTATCGATAT
1 AATGTATCGATACAATGAGCAATGTATCGATAC
3191628 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
3191661 AATG
1 AATG
3191665 CAAAATGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:3191622 original size:20 final size:19
Alignment explanation
Indices: 3191597--3191681 Score: 83
Period size: 20 Copynumber: 4.6 Consensus size: 19
3191587 ATCGATACAT
*
3191597 TGTATCGATACTATGAGCAA
1 TGTATCGATACAATGA-CAA
3191617 TGTATCGAT---AT---AA
1 TGTATCGATACAATGACAA
3191630 TGTATCGATACAATGAGCAA
1 TGTATCGATACAATGA-CAA
*
3191650 TGTATCGATACAATGCAAAA
1 TGTATCGATACAATG-ACAA
3191670 TGTATCGATACA
1 TGTATCGATACA
3191682 TCTGGGTAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
13 11 0.20
16 2 0.04
17 2 0.04
20 40 0.71
21 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (19 bp):
TGTATCGATACAATGACAA
Found at i:3191663 original size:13 final size:13
Alignment explanation
Indices: 3191614--3191644 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3191604 ATACTATGAG
3191614 CAATGTATCGATA
1 CAATGTATCGATA
*
3191627 TAATGTATCGATA
1 CAATGTATCGATA
3191640 CAATG
1 CAATG
3191645 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3191722 original size:20 final size:20
Alignment explanation
Indices: 3191697--3191751 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3191687 GTAAACCCAG
*
3191697 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
*
3191717 AATGTATCGATATAATGAAC
1 AATGTATCGATACAATGAAC
* *
3191737 AATGTGTTGATACAA
1 AATGTATCGATACAA
3191752 ATTGTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:3192445 original size:42 final size:43
Alignment explanation
Indices: 3192394--3192575 Score: 158
Period size: 42 Copynumber: 4.2 Consensus size: 43
3192384 TCTTGAAGAC
*
3192394 AAAGTGAAAAAG-AGTACGTCCTGCT-TTTCGAGGACAAAGGAAA
1 AAAG-GAAAAAGAAGTACGTCCTACTCTTT-GAGGACAAAGGAAA
* * * * *
3192437 AAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAG-AA
1 AAAGGAAAAAGAAGTACGTCCTACTCTTTGAGGACAAAGGAAA
* * *
3192479 AGAGGAAAACA-AAGTGCGTCCTACTATTTGAGGACAAAAAGGAAA
1 AAAGGAAAA-AGAAGTACGTCCTACTCTTTGAGGAC--AAAGGAAA
* * * *
3192524 AGAAGG-GAATGAAGTATGTCCTACTCTTTGAGGACAAAGGAGA
1 A-AAGGAAAAAGAAGTACGTCCTACTCTTTGAGGACAAAGGAAA
3192567 AAAGGAAAA
1 AAAGGAAAA
3192576 GGCATCCTAC
Statistics
Matches: 112, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
42 41 0.37
43 35 0.31
44 7 0.06
45 26 0.23
46 3 0.03
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.17
Consensus pattern (43 bp):
AAAGGAAAAAGAAGTACGTCCTACTCTTTGAGGACAAAGGAAA
Found at i:3192709 original size:61 final size:61
Alignment explanation
Indices: 3192565--3192906 Score: 446
Period size: 61 Copynumber: 5.7 Consensus size: 61
3192555 GGACAAAGGA
* * * *
3192565 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * **
3192627 -----G-AAAGGCGTCCTACTTTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
3192682 GAAAAGAAGAGGCGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATG
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
3192743 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
3192804 G-AAGGAGAAGGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
3192864 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCA
3192907 AAAAAAGTAC
Statistics
Matches: 244, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
55 50 0.20
56 1 0.00
60 56 0.23
61 137 0.56
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:3192869 original size:121 final size:122
Alignment explanation
Indices: 3192565--3192906 Score: 457
Period size: 121 Copynumber: 2.9 Consensus size: 122
3192555 GGACAAAGGA
* * * ** * *
3192565 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT---
1 GAAAA-GAAGAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* * **
3192627 --G-AAAGGCGTCCTACTTTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT
65 AAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
3192682 GAAAAGAAGAGGCGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATGGAAA
1 GAAAAGAAGAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
3192747 AGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
66 AGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
3192804 G--AAGGAGAAGGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAA
1 GAAAAGAAG-AGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAA
*
3192867 AAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
65 AAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCA
3192907 AAAAAAGTAC
Statistics
Matches: 198, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
116 46 0.23
117 5 0.03
120 5 0.03
121 91 0.46
122 51 0.26
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (122 bp):
GAAAAGAAGAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
AGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:3192883 original size:182 final size:178
Alignment explanation
Indices: 3192565--3192906 Score: 506
Period size: 182 Copynumber: 1.9 Consensus size: 178
3192555 GGACAAAGGA
3192565 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
1 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
* *
3192630 AGGCGTCCTACTTTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAGAGGC
66 AGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGC
* *
3192695 GTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATG
131 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCATG
* * * *
3192743 GAAAA-GAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
1 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT---
* * ** **
3192807 GGAGAAGGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA
63 -GA-AAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAA
3192872 AAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
126 AAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
3192907 AAAAAAGTAC
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
177 52 0.36
178 5 0.03
181 2 0.01
182 86 0.59
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (178 bp):
GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
AGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGC
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCATG
Found at i:3194300 original size:33 final size:33
Alignment explanation
Indices: 3194263--3194329 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3194253 TTCAACGATT
3194263 TGTATCAATACATAAAATGTTGTATCGATACAA
1 TGTATCAATACATAAAATGTTGTATCGATACAA
* *** *
3194296 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCAATACATAAAATGTTGTATCGATACAA
3194329 T
1 T
3194330 TGAAGCTACT
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:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATAAAATGTTGTATCGATACAA
Found at i:3194301 original size:13 final size:13
Alignment explanation
Indices: 3194283--3194307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3194273 CATAAAATGT
3194283 TGTATCGATACAA
1 TGTATCGATACAA
3194296 TGTATCGATACA
1 TGTATCGATACA
3194308 TATTTTTTTG
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:3194388 original size:13 final size:13
Alignment explanation
Indices: 3194370--3194395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3194360 ATCACTTAAA
3194370 TGTATCGATACAT
1 TGTATCGATACAT
3194383 TGTATCGATACAT
1 TGTATCGATACAT
3194396 GTAGGCAAAT
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:3194461 original size:52 final size:52
Alignment explanation
Indices: 3194383--3194511 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
3194373 ATCGATACAT
* *
3194383 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3194435 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3194487 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3194512 TCATATTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3202808 original size:79 final size:79
Alignment explanation
Indices: 3202695--3202902 Score: 276
Period size: 79 Copynumber: 2.6 Consensus size: 79
3202685 CTGGAGTATC
* * *
3202695 ACTGATTATGGAAAATCGGTGTTTTGAAAGTAAAATCGGGGTTGGAGTATCCCCTCGGAAATAAC
1 ACTGATTATAGAAAATCGATGTTTTGAAACTAAAATCGGGGTTGGAGTATCCCCTCGGAAATAAC
3202760 AGGGTTGAAATA-T
66 AGGGTTGAAATATT
* * *
3202773 CCTTGATTATAGAAAATCGATATTTTGAAACTAAAATCGGGGTTGGAGTGTCCCCTCGGAAATAA
1 AC-TGATTATAGAAAATCGATGTTTTGAAACTAAAATCGGGGTTGGAGTATCCCCTCGGAAATAA
* *
3202838 CAGGGTTGGAGTATT
65 CAGGGTTGAAATATT
* * * *
3202853 ACTGATTATAAAAAAT-TAGTGTTTTGAAATTAAAATCGGAGTTGGAGTAT
1 ACTGATTATAGAAAATCGA-TGTTTTGAAACTAAAATCGGGGTTGGAGTAT
3202903 TCCCGATTGT
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
78 2 0.02
79 108 0.96
80 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.31
Consensus pattern (79 bp):
ACTGATTATAGAAAATCGATGTTTTGAAACTAAAATCGGGGTTGGAGTATCCCCTCGGAAATAAC
AGGGTTGAAATATT
Found at i:3202897 original size:51 final size:50
Alignment explanation
Indices: 3202842--3202953 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 50
3202832 AAATAACAGG
* * *
3202842 GTTGGAGTATTACTGATTATAAAAAATTAGTGTTTT-GAAATTAAAATCGGA
1 GTTGGAGTATTACCGATTATAAAAAATTAGTATTTTAGAAA-TAAAATC-AA
* * * *
3202893 GTTGGAGTATTCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAA
1 GTTGGAGTATTACCGATTATAAAAAATTAGTATTTTAGAAATAAAATCAA
3202943 GATTGGAGTAT
1 G-TTGGAGTAT
3202954 CCCCTCGGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.04
51 46 0.88
52 4 0.08
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (50 bp):
GTTGGAGTATTACCGATTATAAAAAATTAGTATTTTAGAAATAAAATCAA
Found at i:3203088 original size:28 final size:29
Alignment explanation
Indices: 3203048--3203120 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
3203038 GTATAAAGCT
*
3203048 GGGGTTGGAGTATCCCCTCG-GAAATAAC
1 GGGGTTGGAGTATCCCCTCGAAAAATAAC
3203076 GGGGTTGGAGTAT--CCTCGATAAAATAAC
1 GGGGTTGGAGTATCCCCTCGA-AAAATAAC
*
3203104 GGGGTTTGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3203121 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 5 0.13
28 32 0.82
30 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTCGAAAAATAAC
Found at i:3203166 original size:107 final size:107
Alignment explanation
Indices: 3202893--3203169 Score: 328
Period size: 107 Copynumber: 2.6 Consensus size: 107
3202883 TAAAATCGGA
* * * *
3202893 GTTGGAGTATTCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATC-AAGATTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAATCGGAG-TTGGAGTATCCC
* *
3202957 CTCGGAAATAACGGAATTGGAGTATCCCGAATGAAATAATGGG
65 CTCGGAAATAACGGAATTGGAGTATCCCGAATAAAATAACGGG
* * ** * * *
3203000 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGG-TAT-AAAGCTGGGGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTT-GGAAATAAAATC-GGAGTTGGAGTATCC
**
3203063 CCTCGGAAATAACGGGGTTGGAGTATCCTCG-ATAAAATAACGGG
64 CCTCGGAAATAACGGAATTGGAGTATCC-CGAATAAAATAACGGG
* * *
3203107 GTTTGAGTATCCCCAATTGTGAAAAATTGATATTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAATCGGAGTTGGAGTATCC
3203170 TCGATTGCGG
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
106 6 0.04
107 125 0.90
108 8 0.06
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (107 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
TCGGAAATAACGGAATTGGAGTATCCCGAATAAAATAACGGG
Found at i:3205548 original size:20 final size:20
Alignment explanation
Indices: 3205525--3205644 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
3205515 TACATTATAA
3205525 AATGTATCGATACAAT-AAGC
1 AATGTATCGATACAATGAA-C
3205545 AATGTATCGATACAATGCAA-
1 AATGTATCGATACAATG-AAC
* *
3205565 AATGTATCAATACATCTAGGTAAACCC
1 AATGTATCGATACA---A--TGAA--C
3205592 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
3205614 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
3205634 AATGTATCGAT
1 AATGTATCGAT
3205645 GCAAATTGTG
Statistics
Matches: 84, Mismatches: 4, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
20 60 0.71
22 3 0.04
23 1 0.01
24 5 0.06
25 1 0.01
26 1 0.01
29 13 0.15
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:3208229 original size:49 final size:49
Alignment explanation
Indices: 3208166--3208292 Score: 236
Period size: 49 Copynumber: 2.6 Consensus size: 49
3208156 AGAGGAGTGT
**
3208166 CAATGTGCCAATTCAAGGCCAGCGACATTAGGTTAAGGGAAAAATGGAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGGTTAAGGGAAAAATGGAC
3208215 CAATGTGCTGATTCAAGGCCAGCGACATTAGGTTAAGGGAAAAATGGAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGGTTAAGGGAAAAATGGAC
3208264 CAATGTGCTGATTCAAGGCCAGCGACATT
1 CAATGTGCTGATTCAAGGCCAGCGACATT
3208293 GGGCTAATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTAGGTTAAGGGAAAAATGGAC
Found at i:3208494 original size:28 final size:28
Alignment explanation
Indices: 3208433--3209072 Score: 685
Period size: 28 Copynumber: 22.5 Consensus size: 28
3208423 CACCGACTCA
* *
3208433 TGTGGGCTTTGAAAAGAGTTACCACT-AGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGA-CT
3208463 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
3208491 TGTGGGCTTTG-AA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3208517 TATGGGCTTTAAAAAGAGTGCCACTGACC
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
*
3208546 TGTGGGTTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3208574 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
3208603 TATGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3208631 TGCGTGGGCTTTGAAAGGGTGCCACTAACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3208661 TATGGGCTTTAAAAGGGTACCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3208689 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
3208717 TATGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
3208746 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
3208774 TATGGGCTTTGAAAAGAATACCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
3208803 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
3208831 TGTAGGCTTCGAAAAAGGTGCTACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
3208860 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3208888 TATGGGCTTCGAAAAGAGTGCC-CTTGACT
1 TGTGGGCTTTG-AAAGGGTGCCAC-TGACT
3208917 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3208945 TGTGGACTTTGAAAGGATGCCACTGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
* * *
3208974 TGTGGGCTTTGAAAAGAGTGTCAATGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
3209003 TGTGGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
3209031 TGTGGGCTTTGAAAAAAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
3209060 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
3209073 GAGATGAACG
Statistics
Matches: 509, Mismatches: 85, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
26 22 0.04
27 2 0.00
28 249 0.49
29 188 0.37
30 48 0.09
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:3208589 original size:57 final size:57
Alignment explanation
Indices: 3208403--3209072 Score: 705
Period size: 57 Copynumber: 11.7 Consensus size: 57
3208393 CTAACTTGTA
* * * *
3208403 TGGGCTTCGAAAAGAGTTGCCACCGACTCATGTGGGCTTTGAAAAGAGTTACCACT-AGCTTG
1 TGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG-AAAG-GGTGCCACTGA-CTTG
* *
3208465 TGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AA-GGTGCCACTGACTTA
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3208519 TGGGCTTTAAAAAGAGTGCCACTGACCTGTGGGTTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3208576 TGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTGCG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--G
* * * * * *
3208635 TGGGCTTTG-AAAGGGTGCCACTAACTTATGGGCTTTAAAAGGGTACCATTGACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* * **
3208691 TGGGCTTTGAAAAGA-TGCCACTAACTTATGGGCTTTGAAAAAAGTGCCACTGACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTG
* * * ** * *
3208748 TGGGCTTTG-AAAGGGTGTCACTGACTTATGGGCTTTGAAAAGAATACCACTAACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTG
* * * * * * *
3208805 TGGGCTTTGAAAGGA-TGCCATTGACTTGTAGGCTTCGAAAAAGGTGCTACTAACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTG
* * * *
3208862 TGGGCTTTGAAAGGA-TGCCACTGACTTATGGGCTTCGAAAAGAGTGCC-CTTGACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC-TGACTTG
* * *
3208919 TGGGCTTTG-AAAGGGTGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACTTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC-TTG
* * * *
3208976 TGGGCTTTGAAAAGAGTGTCAATGACTTGTGGGCTTCGAAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3209033 TGGGCTTTGAAAAAAGTGCCACTAACTTGTGGGCTTTGAA
1 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
3209073 GAGATGAACG
Statistics
Matches: 520, Mismatches: 73, Indels: 35
0.83 0.12 0.06
Matches are distributed among these distances:
54 18 0.03
55 26 0.05
56 55 0.11
57 297 0.57
58 91 0.17
59 10 0.02
60 10 0.02
61 5 0.01
62 8 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (57 bp):
TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
Found at i:3208726 original size:200 final size:200
Alignment explanation
Indices: 3208401--3209072 Score: 831
Period size: 200 Copynumber: 3.4 Consensus size: 200
3208391 CTCTAACTTG
* * * * *
3208401 TATGGGCTTCGAAAAGAGTTGCCACCGACTCATGTGGGCTTTGAAAAGAGTTACCACTAGCTTGT
1 TATGGGCTTCGAAAAG-GATGCCACTGACT--TGTGGGCTTTGAAAA-AGGTGCCACTAACTTGT
*
3208466 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG--AAGGTGCCACTGACTTATGGGCTTTAA
62 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTAA
* *
3208529 AAAGAGTGCCACTGACCTGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
127 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
3208594 CCACTGACT
192 CCACTGACT
* * *
3208603 TATGGGCTTTGAAAAGG-TGCCACTGACTTGCGTGGGCTTTG-AAAGGGTGCCACTAACTTATGG
1 TATGGGCTTCGAAAAGGATGCCACTGACTT--GTGGGCTTTGAAAAAGGTGCCACTAACTTGTGG
* * * *
3208666 GCTTTAAAAGGGTACCATTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGCTTTGAAA
64 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTT-AAA
* * * *
3208731 AA-AGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTATGGGCTTTGAAAAGAATAC
128 AAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGC
*
3208795 CACTAACT
193 CACTGACT
* * * * * *
3208803 TGTGGGCTTTG-AAAGGATGCCATTGACTTGTAGGCTTCGAAAAAGGTGCTACTAACTTGTGGGC
1 TATGGGCTTCGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTAACTTGTGGGC
* * * * *
3208867 TTTGAAAGGATGCCACTGACTTATGGGCTTCGAAAAGAGTGCC-CTTGACTTGTGGGCTTT-GAA
66 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCAC-TGACTTATGGGCTTTAAAA
* * * *
3208930 AGGGTGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACTTTGTGGGCTTTGAAAAGAGTGT
129 AGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC-TTGTGGGCTTTGAAAAGAGTGC
*
3208995 CAATGACT
193 CACTGACT
* * * *
3209003 TGTGGGCTTCG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAAAGTGCCACTAACTTGTGGGC
1 TATGGGCTTCGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTAACTTGTGGGC
3209067 TTTGAA
66 TTTGAA
3209073 GAGATGAACG
Statistics
Matches: 406, Mismatches: 53, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
198 57 0.14
199 98 0.24
200 230 0.57
201 6 0.01
202 15 0.04
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (200 bp):
TATGGGCTTCGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTAACTTGTGGGC
TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTAAAAAG
AGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
TGACT
Found at i:3217155 original size:13 final size:13
Alignment explanation
Indices: 3217137--3217162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3217127 CAATTTTTTG
3217137 TGTATCGATACAT
1 TGTATCGATACAT
3217150 TGTATCGATACAT
1 TGTATCGATACAT
3217163 ACTTGGTGTA
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:3217177 original size:32 final size:33
Alignment explanation
Indices: 3217117--3217181 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
3217107 TACAAGCCAA
** *
3217117 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3217150 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3217182 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3223174 original size:24 final size:25
Alignment explanation
Indices: 3223147--3223194 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
3223137 ATTGAATATG
*
3223147 CTTTGATGAATGAAAT-TATGTTTA
1 CTTTCATGAATGAAATGTATGTTTA
* *
3223171 CTTTCATGATTGTAATGTATGTTT
1 CTTTCATGAATGAAATGTATGTTT
3223195 GCCTTGCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (25 bp):
CTTTCATGAATGAAATGTATGTTTA
Done.