Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 87 of 332
Found at i:27702933 original size:4 final size:4
Alignment explanation
Indices: 27702924--27702954 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
27702914 CCTTTTCTCC
27702924 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
27702955 CCCCTGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:27703015 original size:9 final size:9
Alignment explanation
Indices: 27702997--27703031 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
27702987 TTTCTTTTTC
*
27702997 ATTTCTTTT
1 ATTTCATTT
27703006 ATTTCATTT
1 ATTTCATTT
27703015 ATTTC-TTT
1 ATTTCATTT
27703023 ATTTCATTT
1 ATTTCATTT
27703032 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:27703023 original size:17 final size:18
Alignment explanation
Indices: 27702997--27703043 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
27702987 TTTCTTTTTC
27702997 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
27703015 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
27703032 CTTTATTTTATT
1 ATTTCTTTTATT
27703044 ATTAAACCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:27703033 original size:13 final size:13
Alignment explanation
Indices: 27702997--27703039 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
27702987 TTTCTTTTTC
* *
27702997 ATTTCTTTTATTT
1 ATTTCATTTCTTT
27703010 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
27703023 ATTTCATTTCTTT
1 ATTTCATTTCTTT
27703036 ATTT
1 ATTT
27703040 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:27707381 original size:18 final size:18
Alignment explanation
Indices: 27707358--27707610 Score: 115
Period size: 18 Copynumber: 13.6 Consensus size: 18
27707348 GGATAATTAT
27707358 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
27707376 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAA
* * ** *
27707394 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAA
*
27707412 TTATTCAGTATC-GATCAA
1 TTATTCAGTAACAG-TCAA
27707430 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAGTCAA
* * *
27707456 TAATTCAG-AAAAATCAGA
1 TTATTCAGTAACAGTCA-A
*
27707474 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
27707491 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
27707509 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
27707528 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
27707546 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
27707564 TTATTCAGTAACAATCTAA
1 TTATTCAGTAACAGTC-AA
*
27707583 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
27707600 TTATCCAGTAA
1 TTATTCAGTAA
27707611 TAATCAGTTA
Statistics
Matches: 175, Mismatches: 38, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
17 17 0.10
18 125 0.71
19 17 0.10
20 1 0.01
24 1 0.01
25 2 0.01
26 11 0.06
27 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:27707400 original size:36 final size:36
Alignment explanation
Indices: 27707358--27707622 Score: 153
Period size: 36 Copynumber: 7.1 Consensus size: 36
27707348 GGATAATTAT
*
27707358 TTATTCAGTAACAGTCAATTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAATTATTCAGTAACAATCAA
* * ** * * *
27707394 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAGTCAATTATTCAGTAACAATCAA
* *
27707430 TTGATCGGTTATCCAGTAACAGTCAATAATTCAG-AAAAATCAGA
1 TT-A-----T-T-CAGTAACAGTCAATTATTCAGTAACAATCA-A
* * *
27707474 -TATTCAGTAACTA-TTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AGTCAA-TTATTCAGTAACAATCAA
* * * **
27707509 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAGTCAATTATTCAGTAACAATCAA
* * *
27707546 TTATTCAGTAATATTCAGTTATTCAGTAACAATCTAA
1 TTATTCAGTAACAGTCAATTATTCAGTAACAATC-AA
* * * *
27707583 -TATCCAGTAACAGTCAATTATCCAGTAATAATCAG
1 TTATTCAGTAACAGTCAATTATTCAGTAACAATCAA
27707618 TTATT
1 TTATT
27707623 TTATACCTTT
Statistics
Matches: 169, Mismatches: 42, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
35 12 0.07
36 110 0.65
37 22 0.13
42 2 0.01
43 7 0.04
44 16 0.09
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAGTCAATTATTCAGTAACAATCAA
Found at i:27707570 original size:54 final size:53
Alignment explanation
Indices: 27707458--27707622 Score: 156
Period size: 54 Copynumber: 3.1 Consensus size: 53
27707448 ACAGTCAATA
* * ** *
27707458 ATTCAG-AAAAATCAGATATTCAGTAACTATTAAGTTATTCAGTAGCAGTCA-TT
1 ATTCAGTAACAATCAGATATTCAGTAA-TATCAA-TTATTCAGTAATAATCAGTT
* * *
27707511 CATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTT
1 -ATTCAGTAACAATCAGATATTCAGTAAT-ATCAATTATTCAGTAATAATCAGTT
* * *
27707566 ATTCAGTAACAATCTA-ATATCCAGTAACAGTCAATTATCCAGTAATAATCAGTT
1 ATTCAGTAACAATC-AGATATTCAGTAATA-TCAATTATTCAGTAATAATCAGTT
27707620 ATT
1 ATT
27707623 TTATACCTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
53 1 0.01
54 68 0.73
55 24 0.26
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (53 bp):
ATTCAGTAACAATCAGATATTCAGTAATATCAATTATTCAGTAATAATCAGTT
Found at i:27707847 original size:45 final size:45
Alignment explanation
Indices: 27707796--27708080 Score: 399
Period size: 45 Copynumber: 6.3 Consensus size: 45
27707786 AATAGTAACA
* * * ** *
27707796 GTAACAGTAAGAGTAACAGTATTCAACACACAAAGTGTTGAATTG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
**
27707841 GTAACAGTATTAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * * *
27707886 GTAACGGTAATAGTAACAATATTCGACACACACAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
** *
27707931 GTAATGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
27707976 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
**
27708021 GTAACAGTAGTAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
27708066 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
27708081 GCGGTAACAG
Statistics
Matches: 218, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 218 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:27709291 original size:10 final size:10
Alignment explanation
Indices: 27709278--27709313 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
27709268 ATTAATCATA
*
27709278 ATTCCATTCC
1 ATTCAATTCC
27709288 ATTCAATTCC
1 ATTCAATTCC
*
27709298 ATTCAATTCA
1 ATTCAATTCC
27709308 ATTCAA
1 ATTCAA
27709314 ATTCACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTCAATTCC
Found at i:27709297 original size:15 final size:15
Alignment explanation
Indices: 27709277--27709311 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
27709267 AATTAATCAT
*
27709277 AATTCCATTCCATTC
1 AATTCCATTCAATTC
27709292 AATTCCATTCAATTC
1 AATTCCATTCAATTC
27709307 AATTC
1 AATTC
27709312 AAATTCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTCCATTCAATTC
Found at i:27710631 original size:12 final size:13
Alignment explanation
Indices: 27710616--27710644 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27710606 CCTTTTCTCC
27710616 CTTTCTTT-CTTT
1 CTTTCTTTCCTTT
27710628 CTTTCTTTCCTTT
1 CTTTCTTTCCTTT
27710641 CTTT
1 CTTT
27710645 TTCCCTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTCTTTCCTTT
Found at i:27716812 original size:28 final size:29
Alignment explanation
Indices: 27716781--27716841 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
27716771 GTGAGCATGA
*
27716781 ATAT-AAGGTGATTTGGGCCTAACGGTCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
*
27716809 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
27716838 ATAT
1 ATAT
27716842 GGATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAACGGGCC
Found at i:27716854 original size:29 final size:29
Alignment explanation
Indices: 27716822--27716928 Score: 130
Period size: 29 Copynumber: 3.7 Consensus size: 29
27716812 TAAAGGTGAT
27716822 TTGGGCCTAATGGGCCATATGGATATGAA
1 TTGGGCCTAATGGGCCATATGGATATGAA
* * *
27716851 TTGGGCCTGATAGGCCATATGGATGTGAA
1 TTGGGCCTAATGGGCCATATGGATATGAA
* *
27716880 TTGGGCCTGATGGGCCATAT--AAATGAGA
1 TTGGGCCTAATGGGCCATATGGATATGA-A
27716908 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
27716929 CGTGTATGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 5 0.07
28 18 0.26
29 45 0.66
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGGATATGAA
Found at i:27718261 original size:43 final size:43
Alignment explanation
Indices: 27718196--27718397 Score: 253
Period size: 43 Copynumber: 4.7 Consensus size: 43
27718186 ATATCATACA
* ** *
27718196 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
27718239 ATGCC-ACTATCCTAGACATGGTCTTACATGTAATCACATGTCG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAATCACATATCG
* *
27718282 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCA
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
* * ** *
27718325 ATTCCAACGTCCCAGATGTGGTCTTACACGTAATGACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
*
27718368 ATGCCAACGTCCCAGACATGGTCTTACACG
1 ATGCCAACATCCCAGACATGGTCTTACACG
27718398 CACACACATG
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
42 2 0.01
43 135 0.97
44 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:27719063 original size:15 final size:16
Alignment explanation
Indices: 27719029--27719067 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
27719019 GATTTCTTTG
27719029 ATTCATAATCTAAACAT
1 ATTCA-AATCTAAACAT
*
27719046 ATTCAAAT-TAAACTT
1 ATTCAAATCTAAACAT
27719061 ATTCAAA
1 ATTCAAA
27719068 CACAAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 3 0.14
17 5 0.24
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTCAAATCTAAACAT
Found at i:27721102 original size:48 final size:48
Alignment explanation
Indices: 27721031--27721251 Score: 266
Period size: 48 Copynumber: 4.6 Consensus size: 48
27721021 ATGAGAGCGT
*
27721031 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCA
* * * *
27721079 GTGTAAGACCATGTCTAGGACATGGCATTAGCGTTGATATGTATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCA
* * ****
27721127 ATATAAGACCATGTCTGGGACATGGCATTGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCA
* * *
27721175 ATGTAAGACCATGTCTGGGACATGGCATC-A-GTAATGACATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAACGT--TGATATGTGTGCCA
* *
27721223 GTGTAAGACTATGTCTAGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
27721252 GGCACCGATA
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
46 2 0.01
48 150 0.99
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCA
Found at i:27721263 original size:96 final size:96
Alignment explanation
Indices: 27720983--27721254 Score: 296
Period size: 96 Copynumber: 2.8 Consensus size: 96
27720973 TGAGATCCCG
* * * * *
27720983 TGTAAGACCATGTCTGGGACATGGCATCGGC-ATCCAAGATGAGAGCGT-GTGTAAGACCATGTC
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAAT--GACATGTGTGC-TAGTGTAAGACCATGTC
** * *
27721046 TGGGACATGGCATCAACGTTGATATATGTGCCAG
63 TGGGACATGGCATCGGCGTTGATATGTGTGCCAA
* * ** * * * * *
27721080 TGTAAGACCATGTCTAGGACATGGCATTAGCGTTGATATGTATGCCAATATAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAATGACATGTGTGCTAGTGTAAGACCATGTCTGG
* *
27721145 GACATGGCATTGGTGTTGATATGTGTGCCAA
66 GACATGGCATCGGCGTTGATATGTGTGCCAA
* * *
27721176 TGTAAGACCATGTCTGGGACATGGCATCAGTAATGACATGTGTGCTAGTGTAAGACTATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAATGACATGTGTGCTAGTGTAAGACCATGTCTGG
27721241 GACATGGCATCGGC
66 GACATGGCATCGGC
27721255 ACCGATATGA
Statistics
Matches: 141, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
96 112 0.79
97 28 0.20
98 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCAATGACATGTGTGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCGTTGATATGTGTGCCAA
Found at i:27721276 original size:144 final size:144
Alignment explanation
Indices: 27721032--27721296 Score: 333
Period size: 144 Copynumber: 1.8 Consensus size: 144
27721022 TGAGAGCGTG
*
27721032 TGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATATGTGCCAGTGTAAGACCATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAACGTTGACATATGTGCCAGTGTAAGACCATGTCTAG
* *** * *
27721097 GACATGGCATTAGCGTTGATATGTATGCCAATATAAGACCATGTCTGGGACATGGCATTGGTGTT
66 GACATGGCATCAGCACCGATATGTATGCCAATATAAGACCATATCTAGGACATGGCATTGGTGTT
27721162 GATATGTGTGCCAA
131 GATATGTGTGCCAA
* * *
27721176 TGTAAGACCATGTCTGGGACATGGCATC-A-GTAATGACATGTGTGCTAGTGTAAGACTATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCAACGT--TGACATATGTGCCAGTGTAAGACCATGTCT
* * *
27721239 AGGACATGGCATCGGCACCGATATG-A-GACTTC-GTATAAGACCATATCTAGGATATGGC
64 AGGACATGGCATCAGCACCGATATGTATG-C--CAATATAAGACCATATCTAGGACATGGC
27721297 GTCGACATGT
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
142 3 0.03
143 3 0.03
144 96 0.93
145 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (144 bp):
TGTAAGACCATGTCTGGGACATGGCATCAACGTTGACATATGTGCCAGTGTAAGACCATGTCTAG
GACATGGCATCAGCACCGATATGTATGCCAATATAAGACCATATCTAGGACATGGCATTGGTGTT
GATATGTGTGCCAA
Found at i:27727027 original size:30 final size:30
Alignment explanation
Indices: 27726993--27727067 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
27726983 TACGAGCTTT
*
27726993 GGGGCAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
27727023 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* *
27727053 GGGGAAAAATTGTAA
1 GGGGCAAAAGTGTAA
27727068 TTTTTCCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.28, T:0.24
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:27727550 original size:46 final size:46
Alignment explanation
Indices: 27727500--27727675 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
27727490 TGGTTGAGCA
*
27727500 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
27727546 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
27727593 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * ** *
27727639 CCCGAGCTCATTGAGTTGAGTATGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27727676 CCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:27727656 original size:93 final size:93
Alignment explanation
Indices: 27727497--27727668 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27727487 GGATGGTTGA
* * * *
27727497 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
*
27727562 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTACGAGTTCGTGAGATGTAACTAG
* *
27727590 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
*
27727655 TGAGTATGAGTTCG
66 TGAGTACGAGTTCG
27727669 CTTATGGCCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTACGAGTTCGTGAGATGTAACTAG
Found at i:27733205 original size:44 final size:43
Alignment explanation
Indices: 27733142--27733290 Score: 171
Period size: 42 Copynumber: 3.5 Consensus size: 43
27733132 TGAATTATTG
* *
27733142 TGTAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATCTG-AATTTACA
*
27733186 TGTAAGACCATGTCTGGGACATC-GGCATCGTATCTG-ATTT-CG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGAATTTACA
* * *
27733228 TATAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA-TTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGAT-CTGAATTTACA
*
27733271 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
27733291 GTTGGCATTA
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.02
42 32 0.36
43 23 0.26
44 27 0.30
45 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATCTGAATTTACA
Found at i:27751872 original size:44 final size:43
Alignment explanation
Indices: 27751809--27751957 Score: 171
Period size: 42 Copynumber: 3.5 Consensus size: 43
27751799 TGAATTATTG
* *
27751809 TGTAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATCTG-AATTTACA
*
27751853 TGTAAGACCATGTCTGGGACATC-GGCATCGTATCTG-ATTT-CG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGAATTTACA
* * *
27751895 TATAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA-TTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGAT-CTGAATTTACA
*
27751938 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
27751958 GTTGGCATTA
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.02
42 32 0.36
43 23 0.26
44 27 0.30
45 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATCTGAATTTACA
Found at i:27753682 original size:20 final size:20
Alignment explanation
Indices: 27753657--27753694 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27753647 ACCGAGTAGG
*
27753657 GTTTAGGGTTTATGGTTTAT
1 GTTTAGGGTTTAGGGTTTAT
*
27753677 GTTTAGGTTTTAGGGTTT
1 GTTTAGGGTTTAGGGTTT
27753695 GAGGGTGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (20 bp):
GTTTAGGGTTTAGGGTTTAT
Found at i:27753686 original size:6 final size:7
Alignment explanation
Indices: 27753653--27753700 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
27753643 TTCGACCGAG
27753653 TAGGGTT
1 TAGGGTT
27753660 TAGGGTT
1 TAGGGTT
*
27753667 TATGGTT
1 TAGGGTT
*
27753674 TA-TGTT
1 TAGGGTT
*
27753680 TAGGTTT
1 TAGGGTT
27753687 TAGGGTT
1 TAGGGTT
27753694 TGAGGGT
1 T-AGGGT
27753701 GTCAATTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
6 5 0.15
7 24 0.71
8 5 0.15
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.48
Consensus pattern (7 bp):
TAGGGTT
Found at i:27755525 original size:28 final size:28
Alignment explanation
Indices: 27755493--27755578 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
27755483 TACCTGTATC
* *
27755493 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
27755521 TGGCCCATTAGGCCCAAATCACCTGCATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
27755550 TGGCGCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
27755578 T
1 T
27755579 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:27755550 original size:29 final size:29
Alignment explanation
Indices: 27755484--27755565 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
27755474 AAATTCACAT
* * *
27755484 ACCTGTATCTGGCCCATTAAGCCC-AATC
1 ACCTGCATATGGCCCATTAGGCCCAAATC
** *
27755512 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGCATATGGCCCATTAGGCCCAAATC
*
27755541 ACCTGCATATGGCGCATTAGGCCCA
1 ACCTGCATATGGCCCATTAGGCCCA
27755566 GTCACATTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (29 bp):
ACCTGCATATGGCCCATTAGGCCCAAATC
Found at i:27759968 original size:29 final size:29
Alignment explanation
Indices: 27759911--27760012 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
27759901 TACCTGTATC
* *
27759911 TGGCCCATTAAGCCC-AATCATAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATAT-ATA
* * *
27759939 TCGCCTATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACATATATA
*
27759968 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATATATA
*
27759997 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
27760013 GTCACATTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
28 12 0.19
29 49 0.79
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATATATA
Found at i:27759984 original size:57 final size:58
Alignment explanation
Indices: 27759902--27760012 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
27759892 AAATTCACAT
* * * *
27759902 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATCGCCTATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATCGCCCATTAGGCCCAAATC
* * * *
27759959 ACCTATATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATCGCCCATTAGGCCCA
27760013 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATCGCCCATTAGGCCCAAATC
Found at i:27765395 original size:27 final size:27
Alignment explanation
Indices: 27765364--27765454 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
27765354 CCCCAAAATA
27765364 GGTAAAATGATTGCAATACCCCTTAAG
1 GGTAAAATGATTGCAATACCCCTTAAG
*
27765391 GGTAAAATGA--CCATACTACCCCTGTAA-
1 GGTAAAATGATTGCA-A-TACCCCT-TAAG
* *
27765418 GGTAAAATGATTGTAATGCCCC-TAGAG
1 GGTAAAATGATTGCAATACCCCTTA-AG
27765445 GGTAAAATGA
1 GGTAAAATGA
27765455 CAGTAATTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 42 0.79
28 4 0.08
29 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GGTAAAATGATTGCAATACCCCTTAAG
Found at i:27765473 original size:27 final size:27
Alignment explanation
Indices: 27765389--27765475 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
27765379 ATACCCCTTA
* *
27765389 AGGGTAAAATGACCA-TACTACCCCTGT
1 AGGGTAAAATGA-CAGTAATACCCTTGT
* ** * *
27765416 AAGGTAAAATGATTGTAATGCCCCTAG-
1 AGGGTAAAATGACAGTAAT-ACCCTTGT
*
27765443 AGGGTAAAATGACAGTAATTCCCTTGT
1 AGGGTAAAATGACAGTAATACCCTTGT
27765470 AGGGTA
1 AGGGTA
27765476 CCTGTATGGT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
26 5 0.11
27 36 0.80
28 4 0.09
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACAGTAATACCCTTGT
Found at i:27765678 original size:27 final size:27
Alignment explanation
Indices: 27765634--27765687 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27765624 GCAGTACTGG
*
27765634 ACTGGTGACTATGTCACATTCACTGTT
1 ACTGGTGACTATGCCACATTCACTGTT
* * *
27765661 ACTGGTGGCTTTGCCACATTTACTGTT
1 ACTGGTGACTATGCCACATTCACTGTT
27765688 TCAGGCAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (27 bp):
ACTGGTGACTATGCCACATTCACTGTT
Found at i:27769361 original size:48 final size:48
Alignment explanation
Indices: 27769290--27769405 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
27769280 AGTGATATTG
* * *
27769290 CGACATTGAGGTTCCATGTCGTGACACCTCTACAAGATACTGATGTCA
1 CGACATCGGGGTTGCATGTCGTGACACCTCTACAAGATACTGATGTCA
* **
27769338 CGACATCGGGGTTGCATGTCGTGACACCTCTGCAAGATACTGATGTTG
1 CGACATCGGGGTTGCATGTCGTGACACCTCTACAAGATACTGATGTCA
* *
27769386 CAACATCGGGATTG-ATGTCG
1 CGACATCGGGGTTGCATGTCG
27769406 CGAGACACTT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 6 0.10
48 54 0.90
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (48 bp):
CGACATCGGGGTTGCATGTCGTGACACCTCTACAAGATACTGATGTCA
Found at i:27776473 original size:40 final size:40
Alignment explanation
Indices: 27776421--27776652 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
27776411 TATTACCACA
* * * * * *
27776421 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* * * *
27776461 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* *
27776501 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
27776541 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
27776581 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
27776621 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
27776653 TCATTCAAAT
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 176 0.98
41 4 0.02
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
Found at i:27784836 original size:40 final size:40
Alignment explanation
Indices: 27784783--27785014 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
27784773 TATTACCACA
* * * * * *
27784783 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* * * *
27784823 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* *
27784863 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
27784903 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
27784943 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
27784983 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
27785015 TCATTCAAAT
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 176 0.98
41 4 0.02
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
Found at i:27791898 original size:29 final size:29
Alignment explanation
Indices: 27791856--27791928 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
27791846 TATAGTAAGT
27791856 CCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
27791885 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
27791914 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27791929 CAATTTCATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:27799673 original size:28 final size:29
Alignment explanation
Indices: 27799641--27799739 Score: 146
Period size: 29 Copynumber: 3.4 Consensus size: 29
27799631 TAGTAAGTCT
* * * *
27799641 GCACACTTAGTGTTATATAA-TCGAACTC
1 GCACACTTAGTGCTATACAACTTGAACCC
27799669 GCACACTTAGTGCTATACAACTTGAACCC
1 GCACACTTAGTGCTATACAACTTGAACCC
*
27799698 GCACACTTAGTGCTATACAATTTGAACCC
1 GCACACTTAGTGCTATACAACTTGAACCC
27799727 GCACACTTAGTGC
1 GCACACTTAGTGC
27799740 CAATTTCATG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 18 0.28
29 47 0.72
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCTATACAACTTGAACCC
Found at i:27805029 original size:39 final size:38
Alignment explanation
Indices: 27804970--27805044 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 38
27804960 TTGAGAGTTG
*
27804970 TTCTACATATTCTTGTGAGAAAAAGTTTTATGCTAAGT
1 TTCTACAGATTCTTGTGAGAAAAAGTTTTATGCTAAGT
*
27805008 TTCTACAGATTTTTCGTGAGAAAAAGTTTTATGCTAA
1 TTCTACAGATTCTT-GTGAGAAAAAGTTTTATGCTAA
27805045 ATTGAGTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 12 0.35
39 22 0.65
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (38 bp):
TTCTACAGATTCTTGTGAGAAAAAGTTTTATGCTAAGT
Found at i:27806551 original size:29 final size:29
Alignment explanation
Indices: 27806518--27806578 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
27806508 ATTAAAATAA
*
27806518 AGTAAAAAAAATGAGGCATCATCTTCCTT
1 AGTAAAAAAAATAAGGCATCATCTTCCTT
27806547 AGTAAAAAAAATAAGGCATCATCTTCCTT
1 AGTAAAAAAAATAAGGCATCATCTTCCTT
27806576 AGT
1 AGT
27806579 GTTTCGTACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (29 bp):
AGTAAAAAAAATAAGGCATCATCTTCCTT
Found at i:27809706 original size:39 final size:39
Alignment explanation
Indices: 27809660--27809741 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
27809650 TAATGTCTAG
27809660 CAGGCCTCGTGCCGGTGATAAATTCAAGTTTATACCTAA
1 CAGGCCTCGTGCCGGTGATAAATTCAAGTTTATACCTAA
* * * *
27809699 CAGGCCTCGTGCCGGTGATAAGTTTAGGTTTATACCTAG
1 CAGGCCTCGTGCCGGTGATAAATTCAAGTTTATACCTAA
27809738 CAGG
1 CAGG
27809742 TTAATTGCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
CAGGCCTCGTGCCGGTGATAAATTCAAGTTTATACCTAA
Found at i:27813235 original size:25 final size:25
Alignment explanation
Indices: 27813203--27813285 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
27813193 TTATAAAAGT
27813203 ATAATCATGTTTTACTTTGTATTTA
1 ATAATCATGTTTTACTTTGTATTTA
* * **
27813228 ATAATCAT-TATGTA-TTTATA-AAA
1 ATAATCATGT-TTTACTTTGTATTTA
27813251 GTATAATCATGTTTTACTTTGTATTTA
1 --ATAATCATGTTTTACTTTGTATTTA
27813278 ATAATCAT
1 ATAATCAT
27813286 TATGTATAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
23 1 0.02
24 6 0.14
25 30 0.68
26 6 0.14
27 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (25 bp):
ATAATCATGTTTTACTTTGTATTTA
Found at i:27813267 original size:50 final size:50
Alignment explanation
Indices: 27813192--27813292 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
27813182 GCAAAGACTG
27813192 TTTATAAAAGTATAATCATGTTTTACTTTGTATTTAATAATCATTATGTA
1 TTTATAAAAGTATAATCATGTTTTACTTTGTATTTAATAATCATTATGTA
27813242 TTTATAAAAGTATAATCATGTTTTACTTTGTATTTAATAATCATTATGTA
1 TTTATAAAAGTATAATCATGTTTTACTTTGTATTTAATAATCATTATGTA
27813292 T
1 T
27813293 AAGTGATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (50 bp):
TTTATAAAAGTATAATCATGTTTTACTTTGTATTTAATAATCATTATGTA
Found at i:27818024 original size:27 final size:27
Alignment explanation
Indices: 27817983--27818036 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27817973 TGTCATGTGA
* *
27817983 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
27818010 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
27818037 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:27818280 original size:49 final size:49
Alignment explanation
Indices: 27818208--27818344 Score: 202
Period size: 49 Copynumber: 2.8 Consensus size: 49
27818198 TGAGGTCACG
* *
27818208 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
27818257 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
27818306 AGTGTAGTACTAAGTTCTGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27818345 GCCTTGTCTA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:27823874 original size:20 final size:20
Alignment explanation
Indices: 27823849--27823896 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
27823839 GCTTGTACTG
27823849 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
27823869 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
27823889 GTTATGCA
1 GTT-TGCA
27823897 TCATTGATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.08, C:0.27, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:27825105 original size:21 final size:22
Alignment explanation
Indices: 27825081--27825134 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
27825071 TAATTTTTTT
27825081 TGTGTTTAATAAG-TG-TTTAGA
1 TGTGTTTAATAAGTTGTTTTA-A
*
27825102 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTTAA
27825125 TGTGTTTAAT
1 TGTGTTTAAT
27825135 TGCAGGTGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.41
23 13 0.45
24 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTTAA
Found at i:27827351 original size:21 final size:22
Alignment explanation
Indices: 27827304--27827357 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
27827294 AAAAGAAGCT
*
27827304 AGAAAAAGAAATCGAGAGAAGA
1 AGAAAAAGAAATCGAGAGAAAA
* *
27827326 A-AAAAAGACATGGA-AGAAAA
1 AGAAAAAGAAATCGAGAGAAAA
*
27827346 AGAAAAGGAAAT
1 AGAAAAAGAAAT
27827358 AAAAAGAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.06
Consensus pattern (22 bp):
AGAAAAAGAAATCGAGAGAAAA
Found at i:27829334 original size:50 final size:50
Alignment explanation
Indices: 27829272--27829397 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 50
27829262 TATAAAGTAA
** * *
27829272 TGCATTATGTAACTTTCATGTTAGTTAAGTAAGCATCATAAATAATGGCT
1 TGCATTATGTAACTCCCATGTTAGTTAAATAAGCATCATAAATAATGACT
* * *
27829322 TGTATTATGTAACTCCCATATTAGTTAAATAAGCATCATCAATAATGACT
1 TGCATTATGTAACTCCCATGTTAGTTAAATAAGCATCATAAATAATGACT
27829372 TGCATTATGTAACTCCCATGTTAGTT
1 TGCATTATGTAACTCCCATGTTAGTT
27829398 TAAGGTTGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (50 bp):
TGCATTATGTAACTCCCATGTTAGTTAAATAAGCATCATAAATAATGACT
Found at i:27831832 original size:21 final size:22
Alignment explanation
Indices: 27831785--27831832 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
27831775 AAAGGAAGCG
*
27831785 AGAAAAAGAAATCGAGAGAAGA
1 AGAAAAAGAAATCGAGAGAAAA
* *
27831807 A-AAAAAGACATGGA-AGAAAA
1 AGAAAAAGAAATCGAGAGAAAA
27831827 AGAAAA
1 AGAAAA
27831833 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 15 0.68
22 1 0.05
ACGTcount: A:0.69, C:0.04, G:0.23, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAAATCGAGAGAAAA
Found at i:27831923 original size:18 final size:20
Alignment explanation
Indices: 27831900--27831949 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
27831890 TCATGTGAGC
27831900 AAGAAAAGAAAG-TTGAA-A
1 AAGAAAAGAAAGATTGAAGA
*
27831918 AAG-AAAGAGAGATTGAAGA
1 AAGAAAAGAAAGATTGAAGA
*
27831937 AAGAAAAGGAAGA
1 AAGAAAAGAAAGA
27831950 GTCCAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.27
18 8 0.31
19 4 0.15
20 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (20 bp):
AAGAAAAGAAAGATTGAAGA
Found at i:27833778 original size:50 final size:52
Alignment explanation
Indices: 27833724--27833832 Score: 143
Period size: 50 Copynumber: 2.1 Consensus size: 52
27833714 AATAAAGTAA
**
27833724 TGCATTATGTAACTTTCATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAA-GACT
* * *
27833774 TGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTATTAAATTAAGTCT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
27833826 TGCATTA
1 TGCATTA
27833833 AATAACTCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 22 0.43
51 12 0.24
52 14 0.27
53 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (52 bp):
TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
Found at i:27833839 original size:52 final size:50
Alignment explanation
Indices: 27833740--27833840 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 50
27833730 ATGTAACTTT
**
27833740 CATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTATGTAACTCC
1 CATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTAAATAACTCC
* * *
27833790 CATGTTAGTTTAAGTCTGCATTATTAAATTAA-GTCTTGCATTAAATAACTC
1 CATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACTTGCATTAAATAACTC
27833841 ATCTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
50 8 0.19
51 12 0.28
52 20 0.47
53 3 0.07
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (50 bp):
CATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTAAATAACTCC
Found at i:27834015 original size:27 final size:25
Alignment explanation
Indices: 27833982--27834043 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 25
27833972 TTATTTAAGT
* *
27833982 TAAGTGTTTAATGTGTTTTGTGTTTAA
1 TAAGTGTTTAATATG-TCTGT-TTTAA
27834009 TAAGTGTTTAATATGTCTGTTTTAA
1 TAAGTGTTTAATATGTCTGTTTTAA
27834034 T--GTGTTTAAT
1 TAAGTGTTTAAT
27834044 TGCAGGTGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 9 0.27
25 6 0.18
26 4 0.12
27 14 0.42
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.55
Consensus pattern (25 bp):
TAAGTGTTTAATATGTCTGTTTTAA
Found at i:27837352 original size:55 final size:55
Alignment explanation
Indices: 27837280--27837404 Score: 232
Period size: 55 Copynumber: 2.3 Consensus size: 55
27837270 TCTCATGGCT
*
27837280 ATATACAAAGAATAAGTATACCATTTAAGCCTTTACATTGGCTAGCCAAATGACAC
1 ATATA-AAAAAATAAGTATACCATTTAAGCCTTTACATTGGCTAGCCAAATGACAC
27837336 ATATAAAAAAATAAGTATACCATTTAAGCCTTTACATTGGCTAGCCAAATGACAC
1 ATATAAAAAAATAAGTATACCATTTAAGCCTTTACATTGGCTAGCCAAATGACAC
27837391 ATATAAAAAAATAA
1 ATATAAAAAAATAA
27837405 CCAAAAACCC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
55 63 0.93
56 5 0.07
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.26
Consensus pattern (55 bp):
ATATAAAAAAATAAGTATACCATTTAAGCCTTTACATTGGCTAGCCAAATGACAC
Found at i:27846870 original size:26 final size:26
Alignment explanation
Indices: 27846841--27846892 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27846831 TCATTGTTCT
27846841 CGGAAGTATTATAGTGGCTATCTATC
1 CGGAAGTATTATAGTGGCTATCTATC
27846867 CGGAAGTATTATAGTGGCTATCTATC
1 CGGAAGTATTATAGTGGCTATCTATC
27846893 TTCTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (26 bp):
CGGAAGTATTATAGTGGCTATCTATC
Found at i:27850524 original size:29 final size:29
Alignment explanation
Indices: 27850491--27850564 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
27850481 GTTGTGAGAT
* *
27850491 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
27850520 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
27850549 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27850565 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:27855973 original size:29 final size:29
Alignment explanation
Indices: 27855940--27856013 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
27855930 GTTGTGAGAT
* *
27855940 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
27855969 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
27855998 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27856014 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:27867679 original size:29 final size:29
Alignment explanation
Indices: 27867646--27867719 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
27867636 GTTGTGAGAT
* *
27867646 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
27867675 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
27867704 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27867720 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:27870231 original size:46 final size:46
Alignment explanation
Indices: 27870129--27870444 Score: 211
Period size: 46 Copynumber: 6.7 Consensus size: 46
27870119 GTTATTTGTG
* * * *
27870129 AGCCAGTGTAAGACCATGTCTTGGACATGGCATCGACATTCAGATAA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAGATTA
* *
27870176 GAGCTAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCCTCAAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-AGAT-TA
*
27870223 AGCCAGTGTAA-AACATGTCTGGGACAT-GCATCGG-CTACGAGATT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-AGATTA
* ** *
27870267 A-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAGAT-T-A
* * * *
27870315 GAGCTAGTGTAAGACCATGTCTGAGATATGGCGTCGGCCTCA-ATTTCGA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAGA-TT--A
*** * * * * *
27870364 TATTTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGA-TG
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA--GATTA
27870412 AGCCAGTGTAAGACCATGT-TGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
27870445 TGTATTATAC
Statistics
Matches: 215, Mismatches: 35, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
43 8 0.04
44 16 0.07
45 16 0.07
46 61 0.28
47 30 0.14
48 14 0.07
49 38 0.18
50 31 0.14
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAGATTA
Found at i:27890834 original size:10 final size:10
Alignment explanation
Indices: 27890819--27890864 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
27890809 ATTCTAAAAT
27890819 ATAAATACAA-
1 ATAAATA-AAG
27890829 ATAAATAAAG
1 ATAAATAAAG
*
27890839 ATAATTAAAG
1 ATAAATAAAG
27890849 ATAAATGAAA-
1 ATAAAT-AAAG
27890859 ATAAAT
1 ATAAAT
27890865 CTTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:27891692 original size:96 final size:97
Alignment explanation
Indices: 27891518--27891699 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 97
27891508 TATTTATTTA
* * * * *
27891518 TTTAGTTTTGCTTAAGAATATATTGAACCTTTTGACGCAAAGAGAGATAACAACCAACCACCTCA
1 TTTAATTTTGCTTAAGAACATATCGAACCTTTCGACGCAAAGAGAGATAACAACCAAACACCTCA
27891583 CCACAGTTACTCAGCCCAACACACTCCTAATT
66 CCACAGTTACTCAGCCCAACACACTCCTAATT
* *
27891615 TTTAATTTT-CTTAAGAACATATCGAACCTTTCGACGCGAAGAGAGATGACAGA-CAAACACCTC
1 TTTAATTTTGCTTAAGAACATATCGAACCTTTCGACGCAAAGAGAGATAACA-ACCAAACACCTC
* *
27891678 ACCCCGGTTACTCAGCCCAACA
65 ACCACAGTTACTCAGCCCAACA
27891700 TATTCTTAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
96 66 0.88
97 9 0.12
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (97 bp):
TTTAATTTTGCTTAAGAACATATCGAACCTTTCGACGCAAAGAGAGATAACAACCAAACACCTCA
CCACAGTTACTCAGCCCAACACACTCCTAATT
Found at i:27894381 original size:13 final size:13
Alignment explanation
Indices: 27894348--27894393 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
27894338 TGAAAATAAA
27894348 ATAAATAATTAAGG
1 ATAAATAATTAA-G
27894362 AATAAATAATTAAG
1 -ATAAATAATTAAG
*
27894376 ATAAATAATTAAA
1 ATAAATAATTAAG
27894389 ATAAA
1 ATAAA
27894394 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.57
14 1 0.03
15 12 0.40
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
ATAAATAATTAAG
Found at i:27894402 original size:6 final size:6
Alignment explanation
Indices: 27894340--27894457 Score: 96
Period size: 6 Copynumber: 18.8 Consensus size: 6
27894330 ATTAATATTG
* * * *
27894340 AAAAT- AAAATA AATAATTA AGGAATA AATAATT AAGATA AATAATT AAAAT-
1 AAAATA AAAATA AA-AA-TA A-AAATA AA-AATA AAAATA AA-AATA AAAATA
*
27894391 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAGAAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA
* *
27894440 ATAAAGA GAAATA AAAAT
1 A-AAATA AAAATA AAAAT
27894458 TAAGTTGCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
5 10 0.11
6 55 0.60
7 21 0.23
8 6 0.07
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:27900732 original size:10 final size:10
Alignment explanation
Indices: 27900705--27900742 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
27900695 TTAAATCCCA
*
27900705 AAAGATAAGT
1 AAAGATAATT
27900715 ATAA-ATAATT
1 A-AAGATAATT
27900725 AAAGATAATT
1 AAAGATAATT
27900735 AAAGATAA
1 AAAGATAA
27900743 ATGAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (10 bp):
AAAGATAATT
Found at i:27907528 original size:30 final size:30
Alignment explanation
Indices: 27907483--27907571 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
27907473 CAAAGATAAC
*
27907483 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
* *
27907512 GAGAAACCCGGAATAAAGAAATCCAAAATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
* * *
27907542 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
27907572 TGATACTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 7 0.14
30 38 0.76
31 5 0.10
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:27907571 original size:15 final size:15
Alignment explanation
Indices: 27907494--27907571 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
27907484 AGAAAACCGA
27907494 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
27907509 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
*
27907523 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
* *
27907539 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAAG
*
27907554 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27907569 ATA
1 ATA
27907572 TGATACTATG
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
14 3 0.06
15 43 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27910582 original size:46 final size:47
Alignment explanation
Indices: 27910529--27910704 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 47
27910519 TATTTGGGCA
27910529 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * * * * *
27910575 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAAGCG
* *
27910622 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * *
27910668 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27910705 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
Found at i:27910684 original size:93 final size:93
Alignment explanation
Indices: 27910525--27910697 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
27910515 GGGATATTTG
*
27910525 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGCCCGAACTCGTTGAG
*
27910590 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
27910618 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CGCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCGCCCGAACTCGTTGA
27910682 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
27910698 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:27912622 original size:93 final size:93
Alignment explanation
Indices: 27912515--27912686 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27912505 GCCCATAAGT
* * *
27912515 GAACTCGCACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTAAACTCAGACTCAACTCAA
1 GAACTCGCACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCAGACTCAACTCAA
27912580 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
27912608 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGCACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCAGACTCAACTCAA
*
27912673 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
27912687 CAAAAATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGCACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27912682 original size:46 final size:46
Alignment explanation
Indices: 27912507--27912682 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
27912497 TGTAACCTGC
* * * *
27912507 CCATAAGTGAACTCGCACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* * * *
27912553 CCATAAGTAAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAGCAT
* *** * *
27912599 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
27912646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27912683 TGCCCAAAAA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:27919694 original size:19 final size:20
Alignment explanation
Indices: 27919662--27919699 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27919652 AACATTATGA
*
27919662 CCAAAAATAGATTT-ATACT
1 CCAAAAATAAATTTCATACT
*
27919681 CCAAAATTAAATTTCATAC
1 CCAAAAATAAATTTCATAC
27919700 AGTCTGAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (20 bp):
CCAAAAATAAATTTCATACT
Found at i:27921159 original size:21 final size:22
Alignment explanation
Indices: 27921133--27921173 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
27921123 TTCTTAACAC
27921133 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
27921154 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
27921174 ACATTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:27929920 original size:93 final size:93
Alignment explanation
Indices: 27929808--27929979 Score: 319
Period size: 93 Copynumber: 1.8 Consensus size: 93
27929798 CGCCCATAAG
27929808 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
27929872 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
27929901 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27929966 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27929980 TCAATCATCC
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27929976 original size:46 final size:46
Alignment explanation
Indices: 27929801--27929976 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
27929791 TGTAACCCGC
*
27929801 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
27929847 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
27929897 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27929940 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27929977 TGCTCAATCA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.54
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27930156 original size:21 final size:21
Alignment explanation
Indices: 27930132--27930176 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
27930122 CACATAATTT
27930132 ACATATTATTTGAAATTAACC
1 ACATATTATTTGAAATTAACC
27930153 ACATATTATTTGAAATTAACC
1 ACATATTATTTGAAATTAACC
27930174 ACA
1 ACA
27930177 AAGCATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (21 bp):
ACATATTATTTGAAATTAACC
Found at i:27937789 original size:10 final size:10
Alignment explanation
Indices: 27937774--27937807 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
27937764 CAACATACTT
*
27937774 ATTAAATTAA
1 ATTAAATTTA
27937784 ATTAAATTTA
1 ATTAAATTTA
*
27937794 ATTTAATTTA
1 ATTAAATTTA
27937804 ATTA
1 ATTA
27937808 TAAAATTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTAAATTTA
Found at i:27941862 original size:23 final size:22
Alignment explanation
Indices: 27941818--27941862 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
27941808 AATATACAAC
** *
27941818 CCAAAACATACCAATTCTTAAG
1 CCAAAACATACCAAAACATAAG
27941840 CCAAAATCATACCAAAACATAAG
1 CCAAAA-CATACCAAAACATAAG
27941863 TTTCATAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (22 bp):
CCAAAACATACCAAAACATAAG
Found at i:27942010 original size:25 final size:25
Alignment explanation
Indices: 27941982--27942035 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
27941972 AAACACATCA
27941982 CATAAGCATAATTTGCATCACATAT
1 CATAAGCATAATTTGCATCACATAT
27942007 CATAAGCATAATTTGCATCACATAT
1 CATAAGCATAATTTGCATCACATAT
27942032 CATA
1 CATA
27942036 TACCAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (25 bp):
CATAAGCATAATTTGCATCACATAT
Found at i:27942676 original size:43 final size:42
Alignment explanation
Indices: 27942629--27942726 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
27942619 CCCAGACGTT
* * *
27942629 GTCTTACATGTAATCAAATATTGATGC-CACTATCCCAGATAGG
1 GTCTTACATGTAATCAAATA-CGATGCTAAC-ATCCCAGACAGG
*** *
27942672 GTCTTACACAAAATCAAATACGATGCTAACATCCCAGACATG
1 GTCTTACATGTAATCAAATACGATGCTAACATCCCAGACAGG
27942714 GTCTTACATGTAA
1 GTCTTACATGTAA
27942727 AACATAAGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
GTCTTACATGTAATCAAATACGATGCTAACATCCCAGACAGG
Found at i:27949145 original size:49 final size:49
Alignment explanation
Indices: 27948971--27949645 Score: 1136
Period size: 49 Copynumber: 13.9 Consensus size: 49
27948961 CCCTTCGGGA
* * * * *
27948971 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27949018 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCCTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949065 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27949112 CTTATCACATATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27949161 CTTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949210 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949306 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27949357 CTTTTCACATATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27949406 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949455 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949502 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27949551 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27949600 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
27949646 CGCCATACTA
Statistics
Matches: 595, Mismatches: 23, Indels: 18
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 180 0.30
49 366 0.62
51 48 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27949168 original size:96 final size:97
Alignment explanation
Indices: 27948971--27949645 Score: 1112
Period size: 96 Copynumber: 7.0 Consensus size: 97
27948961 CCCTTCGGGA
* * * * * * * *
27948971 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
*
27949033 CACTTTCACATTCATCACATCGGCCCTTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
27949065 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
*
27949129 AACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
27949161 CTTATCACATATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
27949224 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
27949257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
27949322 ATACACTTTCACATTCATCACATCGGCCATTAGGC
63 ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27949357 CTTTTCACATATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
27949422 ACACTTTCACATTCATCACATCGGCTATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
27949455 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
27949519 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
27949551 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
27949616 ACACTTTCACATTCATCACATCGGCCATTA
65 ACACTTTCACATTCATCACATCGGCCATTA
27949646 CGCCATACTA
Statistics
Matches: 551, Mismatches: 20, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
94 47 0.09
96 233 0.42
98 177 0.32
100 94 0.17
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (97 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27949248 original size:145 final size:146
Alignment explanation
Indices: 27948971--27949645 Score: 1132
Period size: 145 Copynumber: 4.7 Consensus size: 146
27948961 CCCTTCGGGA
* * * * * * *
27948971 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
27949032 ACACTTTCACATTCATCACATCGGCCCTTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
27949096 ACATCGGCCATTAGGC
131 ACATCGGCCATTAGGC
*
27949112 CTTATCACATATATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
27949177 ACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
27949241 ACATCGGCCATTAGGC
131 ACATCGGCCATTAGGC
27949257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
27949322 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTTTCACATATATATACACTTTCACATTT
64 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTC
27949387 ATCACATCGGCCATTAGGC
128 ATCACATCGGCCATTAGGC
*
27949406 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
27949469 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
27949534 CACATCGGCCATTAGGC
130 CACATCGGCCATTAGGC
*
27949551 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
27949616 ACACTTTCACATTCATCACATCGGCCATTA
66 ACACTTTCACATTCATCACATCGGCCATTA
27949646 CGCCATACTA
Statistics
Matches: 507, Mismatches: 17, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 36 0.07
145 283 0.56
147 83 0.16
149 94 0.19
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (146 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
ACATCGGCCATTAGGC
Found at i:27953420 original size:40 final size:39
Alignment explanation
Indices: 27953315--27953453 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
27953305 CACCAGCATG
* * * * *
27953315 ATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 ATGCTCTTCGGAACTTAG-CCGGATATATCACTAGCAC-GA
***
27953356 ATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGC-CGGATATATCACTAGCACGA
*
27953396 ATGCTCTTCGGAACTTAGTCCGGATACATCAACTAGC-CGA
1 ATGCTCTTCGGAACTTAG-CCGGATATATC-ACTAGCACGA
27953436 ATGCTCTTC-GAGACTTAG
1 ATGCTCTTCGGA-ACTTAG
27953454 AGAGTAGTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 44 0.52
41 38 0.45
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
ATGCTCTTCGGAACTTAGCCGGATATATCACTAGCACGA
Found at i:27959236 original size:40 final size:40
Alignment explanation
Indices: 27959152--27959368 Score: 232
Period size: 40 Copynumber: 5.4 Consensus size: 40
27959142 AAACCAAGTA
** * *
27959152 CCTTCGGGGTTTAGCCGGA-TATAGCT-ACTCGCTGCAAATG
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGC-ACAAATG
*
27959192 -CTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* * *
27959231 CCTTC-GGACTTGGCCCGGTTATAGTAA-TCGCCCGACCAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCG--C-A-CAAATG
*
27959273 CCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
27959312 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
*
27959352 CCTTCGAGACTTAGCCC
1 CCTTCGGGACTTAGCCC
27959369 AGTTATCAAT
Statistics
Matches: 156, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 51 0.33
40 64 0.41
41 3 0.02
42 32 0.21
43 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
Found at i:27959280 original size:42 final size:40
Alignment explanation
Indices: 27959192--27959374 Score: 246
Period size: 40 Copynumber: 4.5 Consensus size: 40
27959182 GCTGCAAATG
*
27959192 CTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGC
*
27959232 CTTC-GGACTTGGCCCGGTTATAGTAA-TCGCCCGACCAATTGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCG--C-A-CAATTGC
*
27959274 CTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGC
* *
27959313 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGC
* *
27959353 CTTCGAGACTTAGCCCAGTTAT
1 CTTCGGGACTTAGCCCGGTTAT
27959375 CAATCCGAAT
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.23
40 59 0.46
41 2 0.02
42 32 0.25
43 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGC
Found at i:27959289 original size:81 final size:79
Alignment explanation
Indices: 27959152--27959368 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 79
27959142 AAACCAAGTA
** *
27959152 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTGCAAATG-CTTCGGGACTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGC-ACAAATGCCTTC-GGACTTAGCCCGATTAT
*
27959214 AGTAACTCGCACAATTG
63 AGTAACTCGCACAAATG
* * * *
27959231 CCTTC-GGACTTGGCCCGGTTATAGTAA-TCGCCCGACCAATTGCCTTCGGACTTAGCCCGGTTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCG--C-A-CAAATGCCTTCGGACTTAGCCCGATTA
27959294 TAGTAACTCGCACAAATG
62 TAGTAACTCGCACAAATG
27959312 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG-GACTTAGCCC
27959369 AGTTATCAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
78 9 0.08
79 26 0.22
80 12 0.10
81 43 0.37
82 24 0.21
83 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGATTATAGT
AACTCGCACAAATG
Found at i:27965009 original size:13 final size:13
Alignment explanation
Indices: 27964993--27965039 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
27964983 GTTAAATATA
27964993 AAATGAAAATTTT
1 AAATGAAAATTTT
* * *
27965006 AAATAAAAATATA
1 AAATGAAAATTTT
27965019 AAATGAAAATTTT
1 AAATGAAAATTTT
27965032 AAA-GAAAA
1 AAATGAAAA
27965040 ATAGAACGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 5 0.18
13 23 0.82
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (13 bp):
AAATGAAAATTTT
Found at i:27965015 original size:26 final size:26
Alignment explanation
Indices: 27964986--27965042 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
27964976 AAGTAAAGTT
*
27964986 AAATATAAAATGAAAATTTTAAATAA
1 AAATATAAAATGAAAATTTTAAAGAA
27965012 AAATATAAAATGAAAATTTTAAAGAA
1 AAATATAAAATGAAAATTTTAAAGAA
27965038 AAATA
1 AAATA
27965043 GAACGTCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (26 bp):
AAATATAAAATGAAAATTTTAAAGAA
Found at i:27965177 original size:14 final size:15
Alignment explanation
Indices: 27965158--27965191 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27965148 ACTAAGAATT
27965158 TTTTTA-AATATCCA
1 TTTTTACAATATCCA
*
27965172 TTTTTACAATATTCA
1 TTTTTACAATATCCA
27965187 TTTTT
1 TTTTT
27965192 CTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTACAATATCCA
Found at i:27966797 original size:53 final size:53
Alignment explanation
Indices: 27966619--27966822 Score: 147
Period size: 53 Copynumber: 3.8 Consensus size: 53
27966609 AGGGTTTAAG
* * ** * * * *
27966619 GATACCAAGTAAGACCATGCCAAGGCATGATATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * ** * * * *
27966673 GAAATCATGTAAGACCATATCAAGACATGGCATTGATAAACTACGATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * * * * *
27966728 GATCCCATGTACGACCATGCCAAGGCGTGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* *
27966781 GATACCACGTAAGACCATGTCAAGATATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
27966823 GAAAAAGGAA
Statistics
Matches: 112, Mismatches: 36, Indels: 5
0.73 0.24 0.03
Matches are distributed among these distances:
53 43 0.38
54 32 0.29
55 37 0.33
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:27984818 original size:19 final size:21
Alignment explanation
Indices: 27984794--27984832 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27984784 ATTCGATCAA
*
27984794 ATAAAT-TATTAAAA-AATTC
1 ATAAATATAATAAAATAATTC
27984813 ATAAATATAATAAAATAATT
1 ATAAATATAATAAAATAATT
27984833 TAAATTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAATATAATAAAATAATTC
Found at i:27985098 original size:85 final size:84
Alignment explanation
Indices: 27984966--27985127 Score: 279
Period size: 85 Copynumber: 1.9 Consensus size: 84
27984956 AATCTGACTA
27984966 TTTGGTGTGGTTCTAAAAGAAGTTAATTTTGATTGATGAAGACTTTTTCTGAACTCTTCAAGTCG
1 TTTGGTGTGGTTCTAAAAGAAGTTAATTTTGATTGATGAAGACTTTTT-TGAACTCTTCAAGTCG
*
27985031 AGAAGCAGACAATCCGATTG
65 AAAAGCAGACAATCCGATTG
* *
27985051 TTTGGTGTGGTTCTAAAAGAAGTTAATTTTGATTGATGAAGACTTTTTTTATCTCTTCAAGTCGA
1 TTTGGTGTGGTTCTAAAAGAAGTTAATTTTGATTGATGAAGACTTTTTTGAACTCTTCAAGTCGA
*
27985116 AAAGCAGGCAAT
66 AAAGCAGACAAT
27985128 GAAGTTTGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
84 25 0.34
85 48 0.66
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (84 bp):
TTTGGTGTGGTTCTAAAAGAAGTTAATTTTGATTGATGAAGACTTTTTTGAACTCTTCAAGTCGA
AAAGCAGACAATCCGATTG
Found at i:27987976 original size:65 final size:65
Alignment explanation
Indices: 27987872--27988002 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
27987862 AGTCCCATGC
27987872 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
27987937 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTTAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
27988002 A
1 A
27988003 AGCCTATGGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:28029979 original size:48 final size:48
Alignment explanation
Indices: 28029908--28030243 Score: 555
Period size: 48 Copynumber: 7.0 Consensus size: 48
28029898 CACAAGATAA
28029908 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
28029956 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
28030004 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
28030052 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
28030100 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* * *
28030150 AGATATGTATATGTGGTAAAGCCGAAAGGGTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
28030198 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
28030244 GGAGTGTGGG
Statistics
Matches: 275, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 230 0.84
49 4 0.01
50 41 0.15
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:28030444 original size:40 final size:40
Alignment explanation
Indices: 28030384--28030981 Score: 930
Period size: 40 Copynumber: 15.0 Consensus size: 40
28030374 AACTTGGAAA
*
28030384 TATATTCCGGG-TAAGACCCGAAGAGCATTCGTGCTGGTGT
1 TATA-TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
28030424 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28030464 TATATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
28030504 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28030544 TATATCCGGGATAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28030584 TATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
28030624 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
28030664 TATATCCGGGCTAGGTCTCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
28030704 TATATCCGGGCTAAGTCCTGAAGAGCATTTGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
28030744 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
28030784 TATATCC-GGATAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
28030823 TATATCCGGGCTAGGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
28030863 TATATCCGGGCTATGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
28030903 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
28030943 TATATCCGGGCTAAGTCTCGAAGAGCATTCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
28030982 ATGTGTATTC
Statistics
Matches: 517, Mismatches: 39, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 41 0.08
40 476 0.92
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:28032153 original size:37 final size:37
Alignment explanation
Indices: 28032094--28032239 Score: 204
Period size: 37 Copynumber: 3.9 Consensus size: 37
28032084 AGCTCAGATG
* *
28032094 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
28032131 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * *
28032167 TATATTTCCACACGTAGTCATCGAGTCTTACCTGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
28032205 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
28032240 ATATATTTCC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
36 1 0.01
37 93 0.98
38 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:28032197 original size:74 final size:74
Alignment explanation
Indices: 28032099--28032250 Score: 250
Period size: 74 Copynumber: 2.1 Consensus size: 74
28032089 AGATGAAATC
* * *
28032099 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGAGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTCACCCG
28032164 GAATATATT
66 GAATATATT
* * *
28032173 TCCACACGTAGTCATCGAGTCTTACCTGGACATAATCTCCACACGTAGTCATCGGGTCTCACCCG
1 TCCACACGAAGTCATCGAGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTCACCCG
28032238 GAATATATT
66 GAATATATT
28032247 TCCA
1 TCCA
28032251 AGTTTCATGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
TCCACACGAAGTCATCGAGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTCACCCG
GAATATATT
Found at i:28032438 original size:48 final size:48
Alignment explanation
Indices: 28032385--28032624 Score: 399
Period size: 48 Copynumber: 5.0 Consensus size: 48
28032375 CCCACACTCC
* * * *
28032385 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
28032433 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
28032483 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
28032531 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
28032579 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
28032625 TTATCTTGTG
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 137 0.75
50 45 0.25
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:28032494 original size:98 final size:96
Alignment explanation
Indices: 28032385--28032624 Score: 399
Period size: 98 Copynumber: 2.5 Consensus size: 96
28032375 CCCACACTCC
* * * *
28032385 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
28032450 CCATTCGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
* * *
28032483 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
28032548 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
28032579 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
28032625 TTATCTTGTG
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
96 45 0.34
98 88 0.66
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:28047505 original size:28 final size:27
Alignment explanation
Indices: 28047448--28047599 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
28047438 TAAATTGTGC
*
28047448 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
28047475 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
28047503 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
28047530 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
28047558 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
28047585 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28047600 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:28047512 original size:55 final size:55
Alignment explanation
Indices: 28047448--28047599 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
28047438 TAAATTGTGC
*
28047448 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
28047503 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
28047558 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
28047600 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:28061549 original size:40 final size:40
Alignment explanation
Indices: 28061499--28061721 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
28061489 CTACTTGCTC
* *
28061499 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
28061539 AATGCTTTCGGGACTTAGCCCGGATATAGTAGCTCGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
28061579 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
28061619 AATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
28061659 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
28061699 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
28061722 TTATCATCCG
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 164 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:28061712 original size:120 final size:120
Alignment explanation
Indices: 28061499--28061721 Score: 369
Period size: 120 Copynumber: 1.9 Consensus size: 120
28061489 CTACTTGCTC
* * *
28061499 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCTTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
28061564 ATAGTAGCTCGCGCAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
66 ATAGTAGCTAGCGCAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
*
28061619 AATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
1 AATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
28061683 ACTAGTCA-CTAGCGCAAATGCCTTCGGGACTTAGCCCGG
66 A-TAGT-AGCTAGCGCAAATGCCTTCGGGACTTAGCCCGG
28061722 TTATCATCCG
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
119 1 0.01
120 94 0.98
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAGCTAGCGCAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
Found at i:28069609 original size:40 final size:40
Alignment explanation
Indices: 28069527--28069781 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
28069517 AAGCCAAGTA
* * * *
28069527 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
28069565 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
28069605 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
28069645 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
28069685 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
28069724 CCTTC-GGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
28069763 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
28069782 TTATCATCCG
Statistics
Matches: 195, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 21 0.11
39 69 0.35
40 105 0.54
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:28073497 original size:9 final size:9
Alignment explanation
Indices: 28073483--28073514 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
28073473 TCTTTTATTT
28073483 TTATTTTTA
1 TTATTTTTA
28073492 TTA--TTTA
1 TTATTTTTA
28073499 TTATTTTTA
1 TTATTTTTA
28073508 TTATTTT
1 TTATTTT
28073515 ATCTATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:28073504 original size:16 final size:15
Alignment explanation
Indices: 28073477--28073514 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
28073467 ACTCAATCTT
28073477 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
28073492 TTATTTATTATTTTTA
1 TTATTT-TTATTTTTA
28073508 TTATTTT
1 TTATTTT
28073515 ATCTATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:28073523 original size:25 final size:22
Alignment explanation
Indices: 28073472--28073521 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
28073462 AGGCAACTCA
* *
28073472 ATCTTTTATTTTTATTTTTATT
1 ATCTATTATTTTTATTATTATT
*
28073494 ATTTATTATTTTTATTATT-TT
1 ATCTATTATTTTTATTATTATT
28073515 ATCTATT
1 ATCTATT
28073522 TAGATAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (22 bp):
ATCTATTATTTTTATTATTATT
Found at i:28075001 original size:40 final size:40
Alignment explanation
Indices: 28074898--28075141 Score: 356
Period size: 39 Copynumber: 6.2 Consensus size: 40
28074888 CCTTCGGTGT
*
28074898 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
28074937 TTAGCCCGG-TATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
28074976 TTAGCCCGGTTATAGTAACTCGCAC-ATTGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
28075015 TT-GGCCGGTTATAGTAACTCGCACAAATGCC-TCGGGGC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
28075053 TTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
28075093 TTAGCCCGGATATTGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
28075133 TTAGCCCGG
1 TTAGCCCGG
28075142 TTATCAATCC
Statistics
Matches: 188, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
38 30 0.16
39 86 0.46
40 72 0.38
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:28100005 original size:39 final size:38
Alignment explanation
Indices: 28099922--28100103 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 38
28099912 CCAAATGAAA
*
28099922 AATGCTCTTCGGAACTTAGCCCGGACTACATCACTAGCATG
1 AATGCTCTTC-GAACTTAGCCC-GA-TACATCACTAGCACG
*
28099963 AATGCTCTTCGAACTTCGCCCGATACATCAACTAGCACG
1 AATGCTCTTCGAACTTAGCCCGATACATC-ACTAGCACG
* *
28100002 AATGCTCTTCGGAACTTATCCGGAATAC-TCACTAGCACG
1 AATGCTCTTC-GAACTTAGCCCG-ATACATCACTAGCACG
*
28100041 AATGCTCTTCGAAACTTAGTCCGGATACATCACTAGCAGCG
1 AATGCTCTTCG-AACTTAG-CCCGATACATCACTAGCA-CG
*
28100082 AATGCTCTTCGAGATTTAGCCC
1 AATGCTCTTCGA-ACTTAGCCC
28100104 AGACATTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
38 7 0.06
39 49 0.39
40 37 0.30
41 32 0.26
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (38 bp):
AATGCTCTTCGAACTTAGCCCGATACATCACTAGCACG
Found at i:28100068 original size:80 final size:80
Alignment explanation
Indices: 28099922--28100092 Score: 249
Period size: 80 Copynumber: 2.1 Consensus size: 80
28099912 CCAAATGAAA
* * *
28099922 AATGCTCTTCGGAACTTAGCCCGGACTACATCACTAGCATGAATGCTCTTCGAACTTCGCCCGAT
1 AATGCTCTTCGGAACTTAGCCCGGAATACATCACTAGCACGAATGCTCTTCGAACTTAGCCCGAT
28099987 ACATCAACTAGCA-CG
66 ACATC-ACTAGCAGCG
* *
28100002 AATGCTCTTCGGAACTTA-TCCGGAATAC-TCACTAGCACGAATGCTCTTCGAAACTTAGTCCGG
1 AATGCTCTTCGGAACTTAGCCCGGAATACATCACTAGCACGAATGCTCTTCG-AACTTAG-CCCG
28100065 ATACATCACTAGCAGCG
64 ATACATCACTAGCAGCG
28100082 AATGCTCTTCG
1 AATGCTCTTCG
28100093 AGATTTAGCC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
78 21 0.25
79 21 0.25
80 41 0.49
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (80 bp):
AATGCTCTTCGGAACTTAGCCCGGAATACATCACTAGCACGAATGCTCTTCGAACTTAGCCCGAT
ACATCACTAGCAGCG
Found at i:28105355 original size:27 final size:27
Alignment explanation
Indices: 28105309--28105440 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
28105299 AAACATATAT
* * *
28105309 CACATAGGGGCAAAATAGTCAGTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
28105336 CAAATAAGGGCGAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
28105363 CACATAAAGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
28105390 TACATAAGCGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
28105417 CACATAAGGACAAAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
28105441 CATCAATTAG
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:28111382 original size:27 final size:26
Alignment explanation
Indices: 28111345--28111508 Score: 148
Period size: 27 Copynumber: 6.1 Consensus size: 26
28111335 ATATCCTCAG
*
28111345 TTGTAAAATTACCAAAGTACCCTCGGT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* *
28111372 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* * *
28111399 TTGCAAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
28111426 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
28111453 ATGTAAAATTATCAAAGTACCCTCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
** **
28111480 TTACAAAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACCA-AATACCCTCGAT
28111507 TT
1 TT
28111509 ACAGAATTAC
Statistics
Matches: 110, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.04
27 101 0.92
28 5 0.05
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:28111433 original size:54 final size:54
Alignment explanation
Indices: 28111324--28111493 Score: 191
Period size: 54 Copynumber: 3.2 Consensus size: 54
28111314 TTAGTTTACC
** * * *
28111324 AAATTACTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTCGGTTTATA
1 AAATTACCAAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTCGATTTATA
* * * * *
28111377 AAATTACCCAAATATCCTCGATTTGCAAAATTATCGAAA-TACCCTCAATTTGTA
1 AAATTACCAAAATATCCTCGACTTGTAAAATTATC-AAAGTACCCTCGATTTATA
* * * *
28111431 AAATTACTAAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTCGATTTATA
28111485 AAATTACCA
1 AAATTACCA
28111494 TTTTACCCTC
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 20 0.21
54 73 0.76
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTCGATTTATA
Found at i:28111460 original size:81 final size:80
Alignment explanation
Indices: 28111318--28111491 Score: 199
Period size: 81 Copynumber: 2.2 Consensus size: 80
28111308 AATACTTTAG
* * * ***
28111318 TTTACCAAATTACTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA
1 TTTACAAAATTACTGAAATACCCTCAGTTGTAAAATTACCAAAATACCCTCGACATATAAAATTA
*
28111383 CCCAAA-TATCCTCGA
66 -CCAAAGTACCCTCGA
* * * *
28111398 TTTGCAAAATTA-TCGAAATACCCTCAATTTGTAAAATTACTAAAATACCCTCGACATGTAAAAT
1 TTTACAAAATTACT-GAAATACCCTC-AGTTGTAAAATTACCAAAATACCCTCGACATATAAAAT
*
28111462 TATCAAAGTACCCTCGA
64 TACCAAAGTACCCTCGA
28111479 TTTACAAAATTAC
1 TTTACAAAATTAC
28111492 CATTTTACCC
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 24 0.31
81 52 0.68
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
TTTACAAAATTACTGAAATACCCTCAGTTGTAAAATTACCAAAATACCCTCGACATATAAAATTA
CCAAAGTACCCTCGA
Found at i:28111501 original size:54 final size:54
Alignment explanation
Indices: 28111346--28111559 Score: 152
Period size: 54 Copynumber: 4.0 Consensus size: 54
28111336 TATCCTCAGT
* * * * *
28111346 TGTAAAATTA-CCAAAGTACCCTCGGTTTATAAAATTACCCA-AATATCCTCGATT
1 TGTAAAATTATCGAAAGTACCCTCGATTTACAAAATTA-CCATAATACCCTCGA-A
* * ** * *
28111400 TGCAAAATTATCGAAA-TACCCTCAATTTGTAAAATTACTAAAATACCCTCGACA
1 TGTAAAATTATCGAAAGTACCCTCGATTTACAAAATTACCATAATACCCTCGA-A
**
28111454 TGTAAAATTATC-AAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCG-A
1 TGTAAAATTATCGAAAGTACCCTCGATTTACAAAATTACCATAATACCCTCGAA
* * *** * **
28111506 TTTACAGAATTA-CTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGA
1 TGTA-A-AATTATCGAAAGTACCCTCGATTTACAAAATTACCATAATACCCTCGA
28111560 TTTACAGAGT
Statistics
Matches: 131, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.03
53 7 0.05
54 116 0.89
55 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (54 bp):
TGTAAAATTATCGAAAGTACCCTCGATTTACAAAATTACCATAATACCCTCGAA
Found at i:28111509 original size:27 final size:27
Alignment explanation
Indices: 28111470--28111886 Score: 338
Period size: 27 Copynumber: 15.4 Consensus size: 27
28111460 ATTATCAAAG
*
28111470 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
28111497 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
28111524 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
28111551 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
28111578 TACCATTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* ** *
28111605 TACCCTCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAAAATTACTATTT
* * *
28111632 T-CCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
28111658 TACCTTTGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* ***
28111685 TACCCTCGATTTAGAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTATTT
* ** ***
28111712 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTACAAAATTACTATTT
* ** **
28111739 TACCCCCTGATTTGTAAAATTACTGA-AA
1 TACCCTC-GATTTACAAAATTACT-ATTT
* * ***
28111767 TACCCTCGACTGGTA-AAAATTACCAAAG
1 TACCCTCGA-T-TTACAAAATTACTATTT
* * * *
28111795 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
28111822 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
28111849 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
28111876 TACCCTCGATT
1 TACCCTCGATT
28111887 GTGAAATTAC
Statistics
Matches: 327, Mismatches: 55, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
26 26 0.08
27 256 0.78
28 43 0.13
29 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:28111733 original size:107 final size:107
Alignment explanation
Indices: 28111470--28111716 Score: 269
Period size: 107 Copynumber: 2.3 Consensus size: 107
28111460 ATTATCAAAG
* * * *** ** *
28111470 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCATCGAATTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCGTTCT-CCCTCGATT
* * *
28111535 TACAAAATTACTATTTTACCCTCGATTTACAGAGTTACTATTT
65 TACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* ***
28111578 TACCATTGAATTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTCTCCCTCGATTT
1 TACCATCGAATTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCGTTCTCCCTCGATTT
* * * * *
28111643 ATAGAATTACCATTTTACCTTTGATTTAGAGAATTACCATTT
66 ACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * *
28111685 TACCCTCGATTTAGAAAATTACTAAAATACCC
1 TACCATCGAATTACAAAATTACTAAAATACCC
28111717 CTGGTTTGTA
Statistics
Matches: 117, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
107 69 0.59
108 48 0.41
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (107 bp):
TACCATCGAATTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCGTTCTCCCTCGATTT
ACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:28111754 original size:28 final size:28
Alignment explanation
Indices: 28111699--28111771 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
28111689 CTCGATTTAG
*
28111699 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
28111726 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
*
28111754 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
28111772 TCGACTGGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 15 0.35
28 28 0.65
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:28111785 original size:28 final size:28
Alignment explanation
Indices: 28111699--28111799 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
28111689 CTCGATTTAG
** *
28111699 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGACTGGT
* *
28111726 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGACTGGT
* *
28111754 AAAATTACTGAAATACCCTC-GACTGGT
1 AAAATTACTAAAATACCCCCTGACTGGT
* *
28111781 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
28111800 TTGATTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 20 0.31
28 44 0.69
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGACTGGT
Found at i:28111921 original size:27 final size:27
Alignment explanation
Indices: 28111891--28112407 Score: 720
Period size: 27 Copynumber: 19.3 Consensus size: 27
28111881 TCGATTGTGA
* *
28111891 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
28111918 AATTACCAAAACACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
28111945 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
28111972 AATTACTAAAATA-CCCTAGTAAGGCAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
28111999 AATTACCG-AATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
28112025 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28112052 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
28112079 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28112106 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
28112133 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
28112160 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28112187 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
28112214 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
28112241 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28112268 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28112295 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
28112322 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
28112349 AATTACTAAAATA-CCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
28112375 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
28112401 AATTACC
1 AATTACC
28112408 ATTTTACCCC
Statistics
Matches: 439, Mismatches: 46, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
26 62 0.14
27 376 0.86
28 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Done.