Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 40 of 425
Found at i:10482837 original size:32 final size:31
Alignment explanation
Indices: 10482801--10482861 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10482791 AATTTGTATA
*
10482801 AAAATAATCTAAACTTAAAATGATTTTAATTT
1 AAAATAATCT-AACCTAAAATGATTTTAATTT
* * *
10482833 AAAATTATCTAGCCTAAAATTATTTTAAT
1 AAAATAATCTAACCTAAAATGATTTTAAT
10482862 AAATAGTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
AAAATAATCTAACCTAAAATGATTTTAATTT
Found at i:10488022 original size:21 final size:22
Alignment explanation
Indices: 10487998--10488048 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
10487988 TTTTTCTCTC
10487998 TTCTATTAACAAATTTAA-TC-T
1 TTCTATTAA-AAATTTAATTCAT
10488019 TTCTATTAAAAATTTAATTCAT
1 TTCTATTAAAAATTTAATTCAT
10488041 TTCTATTA
1 TTCTATTA
10488049 TTTAACTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.29
21 11 0.39
22 9 0.32
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCTATTAAAAATTTAATTCAT
Found at i:10492272 original size:35 final size:35
Alignment explanation
Indices: 10492205--10492273 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
10492195 ACCTTGGATC
** * *
10492205 TTAAATCTTAAACTGTAGACCATGGACTTTAAATT
1 TTAAATCTTAAACCCTAGACCATGAACCTTAAATT
* *
10492240 TTAAATCTTGAACCCTAGACCTTGAACCTTAAAT
1 TTAAATCTTAAACCCTAGACCATGAACCTTAAAT
10492274 CTTATACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (35 bp):
TTAAATCTTAAACCCTAGACCATGAACCTTAAATT
Found at i:10492444 original size:14 final size:14
Alignment explanation
Indices: 10492427--10492460 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10492417 AGGTTCAAGG
10492427 TTTAATGTTTAAGA
1 TTTAATGTTTAAGA
* *
10492441 TTTAAGGTTTAGGA
1 TTTAATGTTTAAGA
10492455 TTTAAT
1 TTTAAT
10492461 ATTTTAGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (14 bp):
TTTAATGTTTAAGA
Found at i:10495512 original size:2 final size:2
Alignment explanation
Indices: 10495505--10495535 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10495495 TATGAGAATA
10495505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10495536 GGTGATATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10498907 original size:7 final size:7
Alignment explanation
Indices: 10498889--10498920 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
10498879 TTGCAATTCA
10498889 AATTTTT
1 AATTTTT
10498896 -ATTTTT
1 AATTTTT
10498902 -ATTTTT
1 AATTTTT
10498908 AATTTTT
1 AATTTTT
10498915 AATTTT
1 AATTTT
10498921 CTTTTCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
AATTTTT
Found at i:10498944 original size:19 final size:20
Alignment explanation
Indices: 10498898--10498946 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10498888 AAATTTTTAT
*
10498898 TTTTATTTT-TAATTTTTAA
1 TTTTATTTTCTAATTCTTAA
* *
10498917 TTTTCTTTTCTAATTCTTCA
1 TTTTATTTTCTAATTCTTAA
10498937 -TTTATTTTCT
1 TTTTATTTTCT
10498947 TTTGACAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTTTCTAATTCTTAA
Found at i:10505155 original size:3 final size:3
Alignment explanation
Indices: 10505149--10505271 Score: 246
Period size: 3 Copynumber: 41.0 Consensus size: 3
10505139 AAAAAAAGAA
10505149 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10505197 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10505245 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
10505272 TCATTACATA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 120 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10510981 original size:2 final size:2
Alignment explanation
Indices: 10510940--10510967 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10510930 TTGAGAATTT
10510940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10510968 CACATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10512602 original size:20 final size:18
Alignment explanation
Indices: 10512555--10512603 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
10512545 ACAAATAAAC
10512555 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10512572 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
10512592 ATTAAATTAATA
1 ATTAAATTAATA
10512604 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10519810 original size:46 final size:48
Alignment explanation
Indices: 10519753--10519873 Score: 165
Period size: 46 Copynumber: 2.6 Consensus size: 48
10519743 TGATATGTGT
* *
10519753 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAA
* * * *
10519799 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAA
*
10519847 GCTAGTGTAAGACTTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
10519874 ATGTCAGCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 38 0.58
47 1 0.02
48 27 0.41
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGACAA
Found at i:10520008 original size:137 final size:138
Alignment explanation
Indices: 10519748--10520010 Score: 313
Period size: 137 Copynumber: 1.9 Consensus size: 138
10519738 TTGGGTGATA
*
10519748 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCTAGTGTAAGACA
1 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACACTGAGACGAGAGCTAGTGTAAGACA
* * * * * *
10519813 TGTCTGGGACATGTATCGGCCTTGAGATATACAAGCTAGTGTAAGACTTGTCTGGGACATGATGT
66 TGTCTGGGACAGGCATCGGCCTTCAGATATACAAGCTAGTGTAAGACCTATCTAGGACATGATGT
10519878 CAGCTTGT
131 CAGCTTGT
* * **
10519886 TGTGTG-TCAGTGTAAGACTTGTCTGGGACATGGCATCGACACTGATA-GA-TTCTAGTGTAAGA
1 TGTGTGCT-AGTGTAAGACATGTCTGGGACAT-GCATCGACACTGAGACGAGAGCTAGTGTAAGA
* * *
10519948 -ATTGTCTGGGACACGGCATTGGCC-TCA-ATATATGAAGTTAGTGTAAGACCTATCTAGGACAT
64 CA-TGTCTGGGACA-GGCATCGGCCTTCAGATATA-CAAGCTAGTGTAAGACCTATCTAGGACAT
10520010 G
126 G
10520011 GCATTGAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
136 6 0.06
137 50 0.47
138 37 0.35
139 13 0.12
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (138 bp):
TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACACTGAGACGAGAGCTAGTGTAAGACA
TGTCTGGGACAGGCATCGGCCTTCAGATATACAAGCTAGTGTAAGACCTATCTAGGACATGATGT
CAGCTTGT
Found at i:10522738 original size:15 final size:15
Alignment explanation
Indices: 10522718--10522749 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10522708 TAGGGGTCAC
10522718 ACCATATTGAAATCA
1 ACCATATTGAAATCA
10522733 ACCATATTGAAATCA
1 ACCATATTGAAATCA
10522748 AC
1 AC
10522750 TAACCACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (15 bp):
ACCATATTGAAATCA
Found at i:10526349 original size:23 final size:23
Alignment explanation
Indices: 10526323--10526415 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 23
10526313 GATGGATTAT
10526323 ATTATTTTGGTGTGTTTGGGAGG
1 ATTATTTTGGTGTGTTTGGGAGG
*
10526346 ATTATATGATACTGGTGTGTTTTGGAGG
1 ATTAT-T--T--TGGTGTGTTTGGGAGG
** **
10526374 ATTATACTGGTGTGTTTTGGTTGG
1 ATTATTTTGGTGTG-TTTGGGAGG
*
10526398 A-CATTTTGGTGTGTTTGG
1 ATTATTTTGGTGTGTTTGG
10526416 ATGGAATCCG
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
22 5 0.09
23 21 0.38
24 8 0.15
26 1 0.02
28 20 0.36
ACGTcount: A:0.15, C:0.03, G:0.34, T:0.47
Consensus pattern (23 bp):
ATTATTTTGGTGTGTTTGGGAGG
Found at i:10526349 original size:28 final size:28
Alignment explanation
Indices: 10526296--10526379 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
10526286 CACTTTATGC
10526296 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
10526325 TATTTTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
10526353 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
10526380 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:10526622 original size:23 final size:23
Alignment explanation
Indices: 10526586--10526666 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 23
10526576 TTTACTGATC
*
10526586 AGGCACTTTATGTGTCGCATTTT
1 AGGCACCTTATGTGTCGCATTTT
*
10526609 AGGCACCTTGTGTGTCGCA--TT
1 AGGCACCTTATGTGTCGCATTTT
** *
10526630 AGGCACCTCGTGTGTCG--TTTC
1 AGGCACCTTATGTGTCGCATTTT
10526651 AGGCA-CTTATGTGTCG
1 AGGCACCTTATGTGTCG
10526667 TATTCTAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 9 0.18
21 24 0.48
23 17 0.34
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (23 bp):
AGGCACCTTATGTGTCGCATTTT
Found at i:10527880 original size:46 final size:45
Alignment explanation
Indices: 10527749--10527898 Score: 138
Period size: 46 Copynumber: 3.1 Consensus size: 45
10527739 TGGTTGGACC
* * **
10527749 ATGGCATCAGTGTGATATGCGATTTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCCGTGTAAGACCATA-CTGGGCT
* * * *
10527795 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCCGTGTAAGACCATA-CTGGGCT
10527848 ATGGCATCAATGTGATATGTGATCCGTGTAAGACCATGACTGGGCT
1 ATGGCATCAATGTGATATGTGATCCGTGTAAGACCAT-ACTGGGCT
10527894 ATGGC
1 ATGGC
10527899 TTCGGTGTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
46 33 0.40
47 6 0.07
48 6 0.07
49 1 0.01
50 1 0.01
51 5 0.06
52 4 0.05
53 27 0.33
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (45 bp):
ATGGCATCAATGTGATATGTGATCCGTGTAAGACCATACTGGGCT
Found at i:10535336 original size:25 final size:24
Alignment explanation
Indices: 10535255--10535341 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 24
10535245 AGTTTCCTTG
*
10535255 GTTTCATTT-TTTTTGTTTTTTTA
1 GTTTCATTTATTTTTGTTATTTTA
* * * *
10535278 TTTTTATTTATTATTCTTATTTCTA
1 GTTTCATTTATTTTTGTTATTT-TA
*
10535303 ATCTT-ATTTATTTTTGTTATATTTA
1 GT-TTCATTTATTTTTGTTAT-TTTA
*
10535328 GTTTCATTTGTTTT
1 GTTTCATTTATTTT
10535342 CTTATTCTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
23 7 0.14
24 11 0.22
25 27 0.55
26 4 0.08
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (24 bp):
GTTTCATTTATTTTTGTTATTTTA
Found at i:10535478 original size:3 final size:3
Alignment explanation
Indices: 10535470--10535531 Score: 115
Period size: 3 Copynumber: 20.3 Consensus size: 3
10535460 TCATTCATTC
10535470 ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
10535516 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
10535532 CTTAGTCTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10537196 original size:26 final size:26
Alignment explanation
Indices: 10537133--10537196 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
10537123 TTTTTAGTTG
*
10537133 TTTTATTTTTATTTTCTTAAACTTAT
1 TTTTATTTTTATCTTCTTAAACTTAT
* * *
10537159 TTCGT-TTCTTATCTT-TTGAACTATAT
1 TT-TTATTTTTATCTTCTTAAACT-TAT
10537185 TTTTATTTTTAT
1 TTTTATTTTTAT
10537197 GGTTGTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
25 7 0.24
26 21 0.72
27 1 0.03
ACGTcount: A:0.20, C:0.09, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTTATTTTTATCTTCTTAAACTTAT
Found at i:10537828 original size:21 final size:21
Alignment explanation
Indices: 10537787--10537828 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
10537777 TGGTTACGAA
*
10537787 TCTATGAACTTGATTTGTTAT
1 TCTATGAACTTGATTCGTTAT
*
10537808 TCTA-GAACTTGCTTCGATTAT
1 TCTATGAACTTGATTCG-TTAT
10537829 GCATGTCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (21 bp):
TCTATGAACTTGATTCGTTAT
Found at i:10538151 original size:13 final size:15
Alignment explanation
Indices: 10538116--10538150 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
10538106 TGATTGTTCT
10538116 AAAAAAAGAAAAGAA
1 AAAAAAAGAAAAGAA
10538131 AAAAAAAGAAATA-AA
1 AAAAAAAGAAA-AGAA
10538146 AAAAA
1 AAAAA
10538151 GTTACTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAAAGAA
Found at i:10540587 original size:70 final size:70
Alignment explanation
Indices: 10540511--10540645 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
10540501 TAGTTTATTA
* * * * *
10540511 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
10540576 CTTAG
66 CTTAG
*
10540581 CTAATTAATATGCTGTTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
10540646 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:10541481 original size:43 final size:43
Alignment explanation
Indices: 10541419--10541575 Score: 215
Period size: 43 Copynumber: 3.6 Consensus size: 43
10541409 TATCGAAATG
* * *
10541419 TGATATACGGGCTTTGGGCCTAGTAGGCTATAATGCCGGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
*
10541463 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
* * * *
10541506 TAATATCAGGCCTCGGGCCTAGCAGGCTATAATACCAGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
**
10541549 TGATATCGGGCTTCAAGCCTAGCAGGC
1 TGATATCGGGCTTCGGGCCTAGCAGGC
10541576 GAAATGTCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 93 0.94
44 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
Found at i:10546807 original size:23 final size:24
Alignment explanation
Indices: 10546780--10546838 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
10546770 AATGTTAGAT
10546780 ATTAAATATTTTATT-TAAGTATA
1 ATTAAATATTTTATTATAAGTATA
* *
10546803 ATTAAATA-TTAATTATAATTATA
1 ATTAAATATTTTATTATAAGTATA
*
10546826 ATTATTATATTTT
1 ATTA-AATATTTT
10546839 TTAGGTACGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 3 0.10
25 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTAAATATTTTATTATAAGTATA
Found at i:10552040 original size:3 final size:3
Alignment explanation
Indices: 10552032--10552062 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10552022 GAGGAAAGAT
10552032 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10552063 AGTGTAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10554796 original size:3 final size:3
Alignment explanation
Indices: 10554788--10554855 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
10554778 CTGCACACTA
* * * * *
10554788 ATT ATT ATT ATT ACT ATT ATT GTT GTT GTT ATT ATT AGT ATT -TGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
10554833 ATT ATT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
10554856 AGAAGAGTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.96
4 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10557022 original size:16 final size:16
Alignment explanation
Indices: 10557001--10557032 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10556991 AATTAATTTA
*
10557001 AATTAATTAATTTTCT
1 AATTAAATAATTTTCT
10557017 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
10557033 CAACCCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:10557963 original size:40 final size:41
Alignment explanation
Indices: 10557903--10557993 Score: 157
Period size: 40 Copynumber: 2.2 Consensus size: 41
10557893 TTATGCGAGT
*
10557903 AGGCCGTGTGTGACACAAGGTCGTGTAACAGCCCGTAT-CC
1 AGGCCGTGTGTGACAAAAGGTCGTGTAACAGCCCGTATCCC
*
10557943 AGGCCGTGTGTGACAAAAGGTCGTGTAATAGCCCGTATCCC
1 AGGCCGTGTGTGACAAAAGGTCGTGTAACAGCCCGTATCCC
10557984 AGGCCGTGTG
1 AGGCCGTGTG
10557994 CATCCAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 36 0.75
41 12 0.25
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.21
Consensus pattern (41 bp):
AGGCCGTGTGTGACAAAAGGTCGTGTAACAGCCCGTATCCC
Found at i:10561533 original size:108 final size:108
Alignment explanation
Indices: 10561407--10561622 Score: 378
Period size: 108 Copynumber: 2.0 Consensus size: 108
10561397 TATACCTAAG
*
10561407 CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATTACATAACATATCATTTTCTCC
1 CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATCACATAACATATCATTTTCTCC
10561472 ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
66 ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
* *
10561515 CTTACAATTATCATTCCATAACCAAGCATCATTCAAAGCATATCATATAACATATCATTTTCTCC
1 CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATCACATAACATATCATTTTCTCC
* * *
10561580 ACCATTAAACATTAAATATATTATTTAAGCTACCTAGCAAAAT
66 ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
10561623 AATAACATGA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.31
Consensus pattern (108 bp):
CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATCACATAACATATCATTTTCTCC
ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
Found at i:10562983 original size:16 final size:17
Alignment explanation
Indices: 10562962--10563003 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10562952 CCAAATCCAC
10562962 ATTCAATTTCT-AATTT
1 ATTCAATTTCTCAATTT
* *
10562978 ATTCAATTTTTCATTTT
1 ATTCAATTTCTCAATTT
10562995 ATTCAATTT
1 ATTCAATTT
10563004 AGTCCTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTCAATTTCTCAATTT
Found at i:10564432 original size:21 final size:21
Alignment explanation
Indices: 10564389--10564433 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10564379 GATAATTTTT
*
10564389 TTAAAAAAATATTTAAAATTA
1 TTAAAAAAATATATAAAATTA
*
10564410 TTAAAAAATTAATATAAAA-TA
1 TTAAAAAAAT-ATATAAAATTA
10564431 TTA
1 TTA
10564434 TATTTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAAAATATATAAAATTA
Found at i:10564537 original size:30 final size:30
Alignment explanation
Indices: 10564502--10564563 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 30
10564492 ATTATTAATA
10564502 TATTTAATA-T-AATTTATTATTTTAATAAAT
1 TATTTAATATTCAA-TT-TTATTTTAATAAAT
10564532 TATTTAATATTTCAATTTTATTTTAATAAAT
1 TATTTAATA-TTCAATTTTATTTTAATAAAT
10564563 T
1 T
10564564 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 9 0.31
31 15 0.52
32 3 0.10
33 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TATTTAATATTCAATTTTATTTTAATAAAT
Found at i:10564576 original size:16 final size:16
Alignment explanation
Indices: 10564555--10564588 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
10564545 AATTTTATTT
10564555 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
10564571 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
10564587 TA
1 TA
10564589 TTCTTCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:10564581 original size:30 final size:31
Alignment explanation
Indices: 10564518--10564581 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
10564508 ATATAATTTA
* * *
10564518 TTATTTTAATAAATTATTTAATATTTCAATT
1 TTATTTTAATAAATTATTAAAAATATCAATT
10564549 TTATTTTAATAAATT-TTAAAAATAAT-AATT
1 TTATTTTAATAAATTATTAAAAAT-ATCAATT
10564579 TTA
1 TTA
10564582 AATAATATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (31 bp):
TTATTTTAATAAATTATTAAAAATATCAATT
Found at i:10564641 original size:15 final size:15
Alignment explanation
Indices: 10564621--10564677 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
10564611 ATTCAATATT
10564621 AATATTTTAATAATA
1 AATATTTTAATAATA
*
10564636 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
10564655 AATATATTAATAATA
1 AATATTTTAATAATA
*
10564670 AATGTTTT
1 AATATTTT
10564678 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10564650 original size:19 final size:19
Alignment explanation
Indices: 10564623--10564659 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10564613 TCAATATTAA
*
10564623 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
10564642 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
10564660 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:10565144 original size:101 final size:101
Alignment explanation
Indices: 10565013--10565218 Score: 349
Period size: 101 Copynumber: 2.0 Consensus size: 101
10565003 AGAAAATCTC
* * *
10565013 AAATGTATATTTGCTTTATTGAAAACAACTTTTATGAAATATTTGTAAAAAATCTATCAAATGAC
1 AAATGTATATTTCCTTTATTGAAAACAACTTTTATGAAATATTTATAAAAAATCTATCAAATGAA
*
10565078 GGAAAATATTTTACACAAATTCATCCAAACACTAGG
66 GGAAAATATTTTACACAAATTCATCCAAACACTAAG
* * *
10565114 AAATGTATGTTTCCTTTATTGAAAACAACTTTTATGAAATATTTATAAGAAATCTGTCAAATGAA
1 AAATGTATATTTCCTTTATTGAAAACAACTTTTATGAAATATTTATAAAAAATCTATCAAATGAA
10565179 GGAAAATATTTTACACAAATTCATCCAAACACTAAG
66 GGAAAATATTTTACACAAATTCATCCAAACACTAAG
10565215 AAAT
1 AAAT
10565219 ATTAACTTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (101 bp):
AAATGTATATTTCCTTTATTGAAAACAACTTTTATGAAATATTTATAAAAAATCTATCAAATGAA
GGAAAATATTTTACACAAATTCATCCAAACACTAAG
Found at i:10566236 original size:32 final size:32
Alignment explanation
Indices: 10566200--10566262 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
10566190 AGATTTAAAA
10566200 TTTAAAGAGGCCTTATTACATCAAAATACCCT
1 TTTAAAGAGGCCTTATTACATCAAAATACCCT
10566232 TTTAAAGAGGCCTTATTACATCAAAATACCC
1 TTTAAAGAGGCCTTATTACATCAAAATACCC
10566263 AAATTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (32 bp):
TTTAAAGAGGCCTTATTACATCAAAATACCCT
Found at i:10566524 original size:34 final size:33
Alignment explanation
Indices: 10566481--10566559 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 33
10566471 TGTATCAGTA
*
10566481 ACAGTTCAGT-TCCAGT-TAGGCCCTTATCCCATT
1 ACAGTTCAGTAT-CAGTGT-GGCCCTTAGCCCATT
*
10566514 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGT-TCAGTATCAGTGTGGCCCTTAGCCCATT
*
10566548 TCAGTGTCAGTA
1 ACAGT-TCAGTA
10566560 ACAATACAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
33 5 0.13
34 32 0.82
35 2 0.05
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTGGCCCTTAGCCCATT
Found at i:10576220 original size:46 final size:46
Alignment explanation
Indices: 10576158--10576326 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
10576148 ATTTCGTAGT
*
10576158 CGATGCATGTCTCAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGC
* * * *
10576204 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
* *
10576250 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT--ATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGA-GGC
*
10576298 CGATGCATGCCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
10576327 AGCACACAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
46 53 0.50
47 27 0.25
48 25 0.24
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:10576284 original size:94 final size:92
Alignment explanation
Indices: 10576158--10576329 Score: 233
Period size: 94 Copynumber: 1.8 Consensus size: 92
10576148 ATTTCGTAGT
* * * * *
10576158 CGATGCATGTCTCAGACATGTCTTACACTGGCT-TACAT-CTCGA-GGCTGATGCATGTCCCAGA
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT--ATGGCCGATGCATGCCCCAGA
10576220 CATGTCTTACACTAGCTCTCATCTCAATGC
63 CATGTCTTACACTAGCTCTCATCTCAATGC
10576250 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGCCCCAGAC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATATGGCCGATGCATGCCCCAGAC
10576315 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
10576330 ACACAAATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 50 0.71
95 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATATGGCCGATGCATGCCCCAGACAT
GTCTTACACTAGCTCTCATCTCAATGC
Found at i:10581559 original size:20 final size:19
Alignment explanation
Indices: 10581530--10581574 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
10581520 AAATGTGGTG
10581530 TTTTTGAAAAACATTTATC
1 TTTTTGAAAAACATTTATC
10581549 TTTTTGAAAAACATTTATC
1 TTTTTGAAAAACATTTATC
10581568 TTTTTGA
1 TTTTTGA
10581575 CAACCCGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (19 bp):
TTTTTGAAAAACATTTATC
Found at i:10581928 original size:34 final size:33
Alignment explanation
Indices: 10581885--10581951 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
10581875 CGTATCAGTA
*
10581885 ACAGTTCAGTTTCAGT-TAGGGCCTTAGCCCATT
1 ACAGTTCAGTATCAGTGT-GGGCCTTAGCCCATT
10581918 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGT-TCAGTATCAGTGTGGGCCTTAGCCCATT
10581952 TTAGTGTCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 5 0.16
34 25 0.81
35 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTGGGCCTTAGCCCATT
Found at i:10582569 original size:20 final size:19
Alignment explanation
Indices: 10582535--10582575 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10582525 ATATTCGTGG
*
10582535 GGCCCACAAGGCCCATTTC
1 GGCCCACAAGGCCCAATTC
*
10582554 GGCCCATCATGGCCCAATTC
1 GGCCCA-CAAGGCCCAATTC
10582574 GG
1 GG
10582576 TCTCAGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.17
Consensus pattern (19 bp):
GGCCCACAAGGCCCAATTC
Found at i:10592472 original size:50 final size:50
Alignment explanation
Indices: 10592397--10592531 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
10592387 CCAACCAAGT
* * *
10592397 ACACGCCTAGGCGCCAAGTGCCTAGCCCGTAGGCTAACATCCCTCTAGAA
1 ACACGTCTAGGCGCCAAGTGCCTAGCCCATAGGCTAACATCCATCTAGAA
*
10592447 ACACGTCTAGGCACCAAGTGCCTAGCCCATAGGCTAACATCCATCTAGAA
1 ACACGTCTAGGCGCCAAGTGCCTAGCCCATAGGCTAACATCCATCTAGAA
* *
10592497 ACACGTCTAGGCGCCAAGTGGCAAGCCCATAGGCT
1 ACACGTCTAGGCGCCAAGTGCCTAGCCCATAGGCT
10592532 TTACATCTGC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.16
Consensus pattern (50 bp):
ACACGTCTAGGCGCCAAGTGCCTAGCCCATAGGCTAACATCCATCTAGAA
Found at i:10596604 original size:50 final size:48
Alignment explanation
Indices: 10596550--10596658 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 48
10596540 TTTATACTAT
** *
10596550 TATATTATTTT-ACATTTTAACAATATATTATTTCATATTATTATTTATTA
1 TATATTATTTTCACAAATT-ACAAT-TATTATTTCACATTATTATTTA-TA
** *
10596600 TATATTATCTTTCACAAATTATTATTATTATTTTACATTATTATTTATA
1 TATATTAT-TTTCACAAATTACAATTATTATTTCACATTATTATTTATA
10596649 TATTATTATT
1 TA-TATTATT
10596659 ATATTTTACT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
49 5 0.10
50 34 0.68
51 6 0.12
52 5 0.10
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (48 bp):
TATATTATTTTCACAAATTACAATTATTATTTCACATTATTATTTATA
Found at i:10596640 original size:33 final size:33
Alignment explanation
Indices: 10596585--10596676 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 33
10596575 TATTATTTCA
* *
10596585 TATTATTATTTATTATATATTATCT-TTCACAAAT
1 TATTATTA-TTATTTTACATTAT-TATTCACAAAT
* * *
10596619 TATTATTATTATTTTACATTATTATTTATATAT
1 TATTATTATTATTTTACATTATTATTCACAAAT
*
10596652 TATTATTA-TATTTTACTTGTATTAT
1 TATTATTATTATTTTACAT-TATTAT
10596677 ATATTTATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 10 0.20
33 32 0.64
34 8 0.16
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (33 bp):
TATTATTATTATTTTACATTATTATTCACAAAT
Found at i:10596641 original size:19 final size:22
Alignment explanation
Indices: 10596594--10596644 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 22
10596584 ATATTATTAT
10596594 TTATTATATATTATCTTTCACAAA
1 TTATTAT-TATTATCTTTCAC-AA
10596618 TTATTATTATTAT-TTT-AC-A
1 TTATTATTATTATCTTTCACAA
10596637 TTATTATT
1 TTATTATT
10596645 TATATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.33
21 2 0.07
22 3 0.11
23 6 0.22
24 7 0.26
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTATTATTATCTTTCACAA
Found at i:10596654 original size:11 final size:11
Alignment explanation
Indices: 10596617--10596713 Score: 62
Period size: 11 Copynumber: 8.6 Consensus size: 11
10596607 TCTTTCACAA
10596617 ATTA-TTAT-T
1 ATTATTTATAT
*
10596626 ATTATTTTACATT
1 ATTA-TTTATA-T
10596639 ATTATTTATAT
1 ATTATTTATAT
10596650 ATTATTATTATAT
1 ATTA-T-TTATAT
*
10596663 TTTACTTGTAT-T
1 ATTA-TT-TATAT
10596675 ATATATTTAT-T
1 AT-TATTTATAT
10596686 AATTATTTATAT
1 -ATTATTTATAT
10596698 A-TA-TTATAT
1 ATTATTTATAT
10596707 ATTATTT
1 ATTATTT
10596714 TTACATATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
9 11 0.15
10 4 0.06
11 22 0.31
12 14 0.20
13 20 0.28
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:10596686 original size:33 final size:32
Alignment explanation
Indices: 10596617--10596697 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 32
10596607 TCTTTCACAA
*
10596617 ATTATTATTATTATTTTACATTATTATTTATAT
1 ATTATTATTA-TATTTTACATTATTATATATAT
* *
10596650 ATTATTATTATATTTTACTTGTATTATATATTT
1 ATTATTATTATATTTTACAT-TATTATATATAT
10596683 ATTAATTATTTATAT
1 ATT-ATTA-TTATAT
10596698 ATATTATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 9 0.21
33 23 0.55
34 4 0.10
35 6 0.14
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (32 bp):
ATTATTATTATATTTTACATTATTATATATAT
Found at i:10613889 original size:46 final size:46
Alignment explanation
Indices: 10613822--10613998 Score: 264
Period size: 46 Copynumber: 3.8 Consensus size: 46
10613812 GATATTTGGG
* *
10613822 CATCTAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
10613868 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAA
1 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
**
10613914 TGTCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * *
10613960 CGCCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGG
1 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10613999 GCTGGTTACA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (46 bp):
CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:10625548 original size:46 final size:44
Alignment explanation
Indices: 10625496--10625584 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 44
10625486 AGAACAGAAA
*
10625496 TGAGCCATGTAAGCCCATATTA-GAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGCCCATATTATG---TATGGCATTGGAGACAGGAT
*
10625542 TGAGCCATGTAAGTCCATATTATGTATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGCCCATATTATGTATGGCATTGGAGACAGGA
10625585 ATAATTCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 18 0.45
46 21 0.52
47 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
TGAGCCATGTAAGCCCATATTATGTATGGCATTGGAGACAGGAT
Found at i:10629739 original size:25 final size:25
Alignment explanation
Indices: 10629710--10629757 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10629700 TTATAATATG
* * *
10629710 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
10629735 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
10629758 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:10629826 original size:20 final size:20
Alignment explanation
Indices: 10629801--10629859 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
10629791 TAAATATGGT
10629801 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
10629821 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
10629841 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
10629860 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:10629940 original size:23 final size:24
Alignment explanation
Indices: 10629910--10630004 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
10629900 GAGGAAGTGA
10629910 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
10629933 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
10629957 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
10629981 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
10630005 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:10629978 original size:47 final size:49
Alignment explanation
Indices: 10629911--10630004 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
10629901 AGGAAGTGAA
*
10629911 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
10629958 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
10630005 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:10630247 original size:38 final size:38
Alignment explanation
Indices: 10630196--10630357 Score: 223
Period size: 38 Copynumber: 4.4 Consensus size: 38
10630186 CGTTTACAGT
10630196 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
10630234 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
10630265 AAAGGCTT-GGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
10630302 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
10630340 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
10630358 GCATGATTGA
Statistics
Matches: 110, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
30 7 0.06
31 21 0.19
33 1 0.01
35 1 0.01
37 21 0.19
38 46 0.42
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:10630279 original size:30 final size:31
Alignment explanation
Indices: 10630220--10630334 Score: 133
Period size: 31 Copynumber: 3.5 Consensus size: 31
10630210 AGTATTATGA
*
10630220 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAATATGAAAAGGCTTCGGCCCAGT
10630251 AATATGAAATATGAAAAGGCTT-GGCCCAGTATTAT
1 AATATGAAATATGAAAAGGCTTCGGCCCAG-----T
*
10630286 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAATATGAAAAGGCTTCGGCCCAGT
*
10630319 ATTATGAAATATGAAA
1 AATATGAAATATGAAA
10630335 TACGAAAAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
30 7 0.10
31 35 0.49
33 1 0.01
35 1 0.01
37 21 0.29
38 7 0.10
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGT
Found at i:10630280 original size:68 final size:69
Alignment explanation
Indices: 10630196--10630334 Score: 262
Period size: 68 Copynumber: 2.0 Consensus size: 69
10630186 CGTTTACAGT
10630196 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
10630261 ATGA
66 ATGA
*
10630265 AAAGGCTT-GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
10630329 ATGA
66 ATGA
10630333 AA
1 AA
10630335 TACGAAAAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 61 0.88
69 8 0.12
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:10638087 original size:25 final size:25
Alignment explanation
Indices: 10638058--10638105 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10638048 TTATAATATG
* * *
10638058 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
10638083 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
10638106 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:10638174 original size:20 final size:20
Alignment explanation
Indices: 10638149--10638207 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
10638139 TAAATATGGT
10638149 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
10638169 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
10638189 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
10638208 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:10638288 original size:23 final size:24
Alignment explanation
Indices: 10638258--10638352 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
10638248 GAGGAAGTGA
10638258 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
10638281 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
10638305 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
10638329 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
10638353 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:10638326 original size:47 final size:49
Alignment explanation
Indices: 10638259--10638352 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
10638249 AGGAAGTGAA
*
10638259 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
10638306 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
10638353 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:10638595 original size:38 final size:36
Alignment explanation
Indices: 10638544--10638635 Score: 148
Period size: 38 Copynumber: 2.5 Consensus size: 36
10638534 CGTTTACAGT
10638544 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATG-AA-ATGA
10638582 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATGA
*
10638618 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
10638636 GCATGATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
36 7 0.13
37 15 0.29
38 30 0.58
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (36 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAATGA
Found at i:10643340 original size:26 final size:26
Alignment explanation
Indices: 10643311--10643370 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10643301 CCTCTCACAA
*
10643311 GCCATGTAA-CAGGAATCTCACAAAGG
1 GCCAT-TAATCAGGAAGCTCACAAAGG
* *
10643337 GCCATTAATTAGGAAGCTCACAAAGA
1 GCCATTAATCAGGAAGCTCACAAAGG
10643363 GCCTATTA
1 GCC-ATTA
10643371 GGAAGCTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 3 0.10
26 22 0.76
27 4 0.14
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
GCCATTAATCAGGAAGCTCACAAAGG
Found at i:10643374 original size:23 final size:25
Alignment explanation
Indices: 10643321--10643377 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
10643311 GCCATGTAAC
* *
10643321 AGGAATCTCACAAAGGGCCATTAATT
1 AGGAAGCTCACAAAGAGCCA-TAATT
10643347 AGGAAGCTCACAAAGAGCC-T-ATT
1 AGGAAGCTCACAAAGAGCCATAATT
10643370 AGGAAGCT
1 AGGAAGCT
10643378 TATCTGGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 11 0.38
24 1 0.03
26 17 0.59
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (25 bp):
AGGAAGCTCACAAAGAGCCATAATT
Found at i:10643455 original size:26 final size:26
Alignment explanation
Indices: 10643414--10643474 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
10643404 ATAAGAGCCA
** *
10643414 TAATCAGGAAGTTCAC-AAAGAACTTT
1 TAATCAGGAACCTCACGAAA-AACCTT
*
10643440 TAATCAGGAACCTCACGAAAAGCCTT
1 TAATCAGGAACCTCACGAAAAACCTT
10643466 TAATCAGGA
1 TAATCAGGA
10643475 GCTCTGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (26 bp):
TAATCAGGAACCTCACGAAAAACCTT
Found at i:10643609 original size:65 final size:63
Alignment explanation
Indices: 10643517--10643704 Score: 232
Period size: 65 Copynumber: 2.9 Consensus size: 63
10643507 CTAGCCATAT
* *
10643517 CAGGACGCTCACAAAGAGCTGCGTTTGTATCTGCAACATATGCAGGATCACAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGTGTTTGT-TC-GCAATATATGCAGGATCACAACCGATCATAAAA
* * * * *
10643582 TAGGATGCTCATAAAGAGATGTGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAA
1 CAGGACGCTCACAAAGAGCTGTGTTTGT-T-CGCAATATATGCAGGATCACAACCGATCATAAAA
* * * * *
10643647 CAGGACACTCACAAAGAGCTGTGGTAGTTCGCAATACATGCAGGATCACTACCGATCA
1 CAGGACGCTCACAAAGAGCTGTGTTTGTTCGCAATATATGCAGGATCACAACCGATCA
10643705 GAATGTTCGT
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
63 27 0.26
64 1 0.01
65 76 0.72
66 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (63 bp):
CAGGACGCTCACAAAGAGCTGTGTTTGTTCGCAATATATGCAGGATCACAACCGATCATAAAA
Found at i:10644650 original size:30 final size:31
Alignment explanation
Indices: 10644611--10644672 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
10644601 ATTATTAATT
*
10644611 AATTATCAT-CTTTTATTTTTTTTCACTTTCC
1 AATTATCATCCTTTTATTTATTTT-ACTTTCC
* *
10644642 AATT-TCATCCTTTTCTTTATTTTATTTTCC
1 AATTATCATCCTTTTATTTATTTTACTTTCC
10644672 A
1 A
10644673 TGGATGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (31 bp):
AATTATCATCCTTTTATTTATTTTACTTTCC
Found at i:10645692 original size:17 final size:17
Alignment explanation
Indices: 10645670--10645702 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10645660 ATTTTATAAA
10645670 ATAATATTTTAATTAAG
1 ATAATATTTTAATTAAG
*
10645687 ATAATATTTTATTTAA
1 ATAATATTTTAATTAA
10645703 TAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
ATAATATTTTAATTAAG
Found at i:10649638 original size:33 final size:33
Alignment explanation
Indices: 10649596--10649660 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
10649586 GTTCTGCAGC
10649596 TTATAGCACTCAGATTTAATGTGTCCATTCTTT
1 TTATAGCACTCAGATTTAATGTGTCCATTCTTT
10649629 TTATAGCACTCAGATTTAATGTGTCCATTCTT
1 TTATAGCACTCAGATTTAATGTGTCCATTCTT
10649661 CTTACAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (33 bp):
TTATAGCACTCAGATTTAATGTGTCCATTCTTT
Found at i:10652632 original size:50 final size:50
Alignment explanation
Indices: 10652573--10652671 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
10652563 CAAATATATA
*
10652573 AGAAAACTACAAAACCTATGATAGATACATGTTCAAATCCGACACATCCG
1 AGAAAACTACAAAAACTATGATAGATACATGTTCAAATCCGACACATCCG
10652623 AGAAAACTACAAAAACTATGATAGATACATGTTCAAATCCGACACATCC
1 AGAAAACTACAAAAACTATGATAGATACATGTTCAAATCCGACACATCC
10652672 AAGTTCAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.20
Consensus pattern (50 bp):
AGAAAACTACAAAAACTATGATAGATACATGTTCAAATCCGACACATCCG
Found at i:10656786 original size:30 final size:29
Alignment explanation
Indices: 10656750--10656806 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10656740 TTGTAGAGCT
*
10656750 GTTCTTGAAACAACAATTGTTCTAAACATA
1 GTTCTTGAAA-AACAATTATTCTAAACATA
**
10656780 GTTCTTGAAATGCAATTATTCTAAACA
1 GTTCTTGAAAAACAATTATTCTAAACA
10656807 AAAGTTATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (29 bp):
GTTCTTGAAAAACAATTATTCTAAACATA
Found at i:10663153 original size:31 final size:31
Alignment explanation
Indices: 10663088--10663161 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
10663078 GCGTGTTAAA
* *
10663088 AAATATTATTTATAGTATTCAACAATTATAT
1 AAATATTATTTATAATATTCAACAAATATAT
*
10663119 AAATATTATTT-TAATATATGATACAAATAT-T
1 AAATATTATTTATAATAT-TCA-ACAAATATAT
*
10663150 AAATGTTATTTA
1 AAATATTATTTA
10663162 ATTGTGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.14
31 24 0.67
32 7 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (31 bp):
AAATATTATTTATAATATTCAACAAATATAT
Found at i:10664124 original size:47 final size:47
Alignment explanation
Indices: 10664050--10664144 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
10664040 TCATCTTTCA
10664050 ATTTGTCAAGGATTATTTATTAGAGGGTTGATTAGAGCTATTAATTG
1 ATTTGTCAAGGATTATTTATTAGAGGGTTGATTAGAGCTATTAATTG
* * *
10664097 ATTTGTTAAGTATTATTTCTT-GAAGGGTTGATTAGAGCTATTAATTG
1 ATTTGTCAAGGATTATTTATTAG-AGGGTTGATTAGAGCTATTAATTG
10664144 A
1 A
10664145 GTTTTTGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (47 bp):
ATTTGTCAAGGATTATTTATTAGAGGGTTGATTAGAGCTATTAATTG
Found at i:10664170 original size:47 final size:47
Alignment explanation
Indices: 10664073--10664172 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
10664063 TATTTATTAG
* **
10664073 AGGGTTGATTAGAGCTATTAATTGATTTGTTAAGTATTATTTCTTGA
1 AGGGTTGATTAGAGCTATTAATTGATTTGTTAAGTATTATATCTCAA
* *
10664120 AGGGTTGATTAGAGCTATTAATTGAGTTT-TT-GGTCTTTATATCTCAA
1 AGGGTTGATTAGAGCTATTAATTGA-TTTGTTAAGT-ATTATATCTCAA
10664167 AGGGTT
1 AGGGTT
10664173 TAATTGGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 2 0.04
47 41 0.89
48 3 0.07
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (47 bp):
AGGGTTGATTAGAGCTATTAATTGATTTGTTAAGTATTATATCTCAA
Found at i:10664280 original size:19 final size:19
Alignment explanation
Indices: 10664257--10664305 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
10664247 TTATTTATTT
10664257 AATTTTTTATTA-TT-TTGA
1 AATTTTTTATTAGTTCTT-A
10664275 ATATTTGTTT-TTAGTTCTTA
1 A-ATTT-TTTATTAGTTCTTA
10664295 AATTTTTTATT
1 AATTTTTTATT
10664306 TTAGTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 7 0.27
21 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (19 bp):
AATTTTTTATTAGTTCTTA
Found at i:10664662 original size:18 final size:20
Alignment explanation
Indices: 10664641--10664680 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10664631 AAAAAGATCG
10664641 AAAAG-TACAAAAAAAA-AA
1 AAAAGATACAAAAAAAAGAA
*
10664659 AAAAGATGCAAAAAAAAGAA
1 AAAAGATACAAAAAAAAGAA
10664679 AA
1 AA
10664681 GAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 4 0.21
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAAGATACAAAAAAAAGAA
Found at i:10666995 original size:15 final size:15
Alignment explanation
Indices: 10666975--10667004 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10666965 CTACTACATA
*
10666975 TATTATTCTCATTAT
1 TATTATTATCATTAT
10666990 TATTATTATCATTAT
1 TATTATTATCATTAT
10667005 AATTTAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATCATTAT
Found at i:10667460 original size:63 final size:63
Alignment explanation
Indices: 10667383--10667509 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
10667373 TTAAAACGAA
10667383 GGCAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATCTTGCTGGGTTGCAATTTCCC
1 GGCAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATCTTGCTGGGTTGCAATTTCCC
10667446 GGCAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATCTTGCTGGGTTGCAATTTCCC
1 GGCAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATCTTGCTGGGTTGCAATTTCCC
10667509 G
1 G
10667510 TTTGTTCAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (63 bp):
GGCAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATCTTGCTGGGTTGCAATTTCCC
Found at i:10667639 original size:129 final size:127
Alignment explanation
Indices: 10667446--10667754 Score: 442
Period size: 129 Copynumber: 2.4 Consensus size: 127
10667436 GCAATTTCCC
* *
10667446 GGCAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATCTTGCTGGGTTGCAATTTCCCGT
1 GGCAATGTTCGATGTTTAGGAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGT
* * *
10667511 TTGTTCAAAATAATCGAATAGTCCTTTGGAATTTCCCTCATGTTTTAAAAATTCTTTAAAACGAA
66 TTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATGTCTTAAAAATTC--TAAAAC-AA
* *
10667576 GGCAATGTTTGATGTTTGGGAATTCGGGGAATC-TGCCCTATCGTGCTGGGTTGCAATTTCCCGT
1 GGCAATGTTCGATGTTTAGGAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGT
* **
10667640 TTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTCTAAATTCTAAAACAA
66 TTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATGTCTTAAAAATTCTAAAACAA
* * * *
10667702 GGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTGCCCTA-CTGTGCTGGGTT
1 GGCAATGTTCGATGTTTAGGAATTCGGGGAATCGTGCCCTATC-GTGCTGGGTT
10667755 CGATTTTTTT
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
126 30 0.19
127 23 0.14
129 78 0.48
130 30 0.19
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (127 bp):
GGCAATGTTCGATGTTTAGGAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCCGT
TTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATGTCTTAAAAATTCTAAAACAA
Found at i:10673938 original size:64 final size:64
Alignment explanation
Indices: 10673859--10674039 Score: 281
Period size: 64 Copynumber: 2.8 Consensus size: 64
10673849 CATTCATAAT
* * **
10673859 ACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGTATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAAATAAACATC
*
10673923 ACATCTAGTTGGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAAATAAACATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAAATAAACATC
* * * *
10673987 ATATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCTTAATCATTTG
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTG
10674040 GTATAAGCAT
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 107 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAAATAAACATC
Found at i:10674257 original size:86 final size:85
Alignment explanation
Indices: 10674112--10674282 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 85
10674102 ATCGTTAAAT
* *
10674112 TTACAGATCTTATCTCCCTAAGCAGTGCGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAG
1 TTACAGATCTTATCTCCCTAAGCAGTGCGGAGCAGATCAAAGACAGTGAACCTTAACCCCCTAAG
* *
10674177 TAGTAGGGTAACAGGTTGAA
66 CAGTAGGGTAACAGGCTGAA
* *
10674197 TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGGCAGTGAACCTTAACCCCCTAA
1 TTACAGATCTTATCTCCCTAAGCAGT-GCGGAGCAGATCAAAGACAGTGAACCTTAACCCCCTAA
10674262 GCAGTAGGGTAACAGGCTGAA
65 GCAGTAGGGTAACAGGCTGAA
10674283 GATTGTAGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 26 0.33
86 53 0.67
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (85 bp):
TTACAGATCTTATCTCCCTAAGCAGTGCGGAGCAGATCAAAGACAGTGAACCTTAACCCCCTAAG
CAGTAGGGTAACAGGCTGAA
Found at i:10674493 original size:44 final size:43
Alignment explanation
Indices: 10674443--10674836 Score: 133
Period size: 44 Copynumber: 9.0 Consensus size: 43
10674433 TTAAAGTTTT
*
10674443 AGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGG
1 AGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
** * * * * **
10674486 AGTTGGAGCGGCTCGAAGCCAC-AAT-TCGTATCTCCTTGAAGTTCC
1 AG-TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAA-ATGG
*
10674531 AGTGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
1 AGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
* * * * * * **
10674574 CACTGGAG-AGGCTCGAAGCCAC-CAT-TCGTATCTCCTTGAAGTTCC
1 -AGTGGAGTA-GATCGAAGCTACAAATCTC-T-TCTCCCTGAA-ATGG
* * * *
10674619 AGCGGAGTAGATTGAAGCTGCAAATCTTTTCTCCCTGAAATGG
1 AGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
* * * * * **
10674662 CACTGGAG-AGGCTCGAAGCCAC-AAT-TCGTATCTCCTTGAAGTTCT
1 -AGTGGAGTA-GATCGAAGCTACAAATCTC-T-TCTCCCTGAA-ATGG
* * * * * *
10674707 A-TTGAGTAGATCAAATCTATAAATCTCTTCTCCATGAAATGAC
1 AGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG-G
* * * * *** * * **
10674750 ACTGGAG-AGACTCGAAGCCACCATTCAGATCTCCTTGAAGTTTC
1 AGTGGAGTAGA-TCGAAGCTACAAATCTCTTCTCCCTGAA-ATGG
**
10674794 AACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
1 AGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
10674837 CACTAGAGCA
Statistics
Matches: 239, Mismatches: 85, Indels: 54
0.63 0.22 0.14
Matches are distributed among these distances:
42 6 0.03
43 42 0.18
44 169 0.71
45 19 0.08
46 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (43 bp):
AGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGG
Found at i:10675014 original size:88 final size:88
Alignment explanation
Indices: 10674418--10675023 Score: 770
Period size: 88 Copynumber: 6.9 Consensus size: 88
10674408 GTTAAAATCA
* * * *
10674418 ACAATTCGTATCTCCTTAAAGTTTTAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
10674483 TGG-AGTTGGAGCGGCTCGAAGCC
66 TGGCA-CTGGAGCGGCTCGAAGCC
* * *
10674506 ACAATTCGTATCTCCTTGAAGTTCCAGTGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
10674571 TGGCACTGGAGAGGCTCGAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
* * * * *
10674594 ACCATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATTGAAGCTGCAAATCTTTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
10674659 TGGCACTGGAGAGGCTCGAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
** * * * *
10674682 ACAATTCGTATCTCCTTGAAG-TTCTA-TTGAGTAGATCAAATCTATAAATCTCTTCTCCATGAA
1 ACAATTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
* * *
10674745 ATGACACTGGAGAGACTCGAAGCC
65 ATGGCACTGGAGCGGCTCGAAGCC
* *
10674769 ACCATTCAG-ATCTCCTTGAAGTTTCAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
1 ACAATTC-GTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
* * ** * *
10674833 ATGGCACTAGAGCAGGTTAAAATCA
65 ATGGCACTGGAGC-GGCTCGAAGCC
* * *
10674858 ACAATTCGTATCTCCTTGAAGTTTTAGCGGAGTAGATAGAGGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
**
10674923 TGGCGTTGGAGCGGCTCGAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
* * *
10674946 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGCAGATTGATGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
**
10675011 TGGCTTTGGAGCG
66 TGGCACTGGAGCG
10675024 ATCAAAACTA
Statistics
Matches: 451, Mismatches: 60, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
87 71 0.16
88 307 0.68
89 73 0.16
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTGGAGCGGCTCGAAGCC
Found at i:10675162 original size:89 final size:88
Alignment explanation
Indices: 10675039--10675778 Score: 392
Period size: 89 Copynumber: 8.4 Consensus size: 88
10675029 AACTAAAAAC
* * * *
10675039 CTTATCTCCTTGAAATTGTAGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
*
10675104 TGGAGCAGACTGAAGATAGCAAAT
66 TGGAGCAGATTGAAGATA-CAAAT
* * * ** *
10675128 CTTATTTCCCTAAAGTTACAGTGGAATAGATTGAAGCTATAAATCAC-AGATCTTATCTCTCTGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-------TCACTAG-TCTTATCTCCCTGA
* * * *
10675192 AGTTGCAATAGAGTAGA-TCAA-A-ACAAAT
58 AGTTGCAGTGGAGCAGATTGAAGATACAAAT
* * * * * *
10675220 CTTATCTCTCTGAAATTACAGT--AG-AG-TTAAAG-CTA-TAAGCCTTATC-CCATTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTC-ACT-AGTCTTATCTCC-CTGAAGTTG
* **
10675278 CAGTGG-GACAGGTTGAA-ATTATGAAT
63 CAGTGGAG-CAGATTGAAGA-TACAAAT
* * * * * *
10675304 CTTATCTCCCTAAAGTTGCAATGGAGTAGATTAAAG---CTA---TAATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
* * *
10675363 TGGAGCAGGTTGAAGTTACAAGT
66 TGGAGCAGATTGAAGATACAAAT
* * * * * * * * *
10675386 CTCATCTCCCTGAAGTTACAGTGGAGCAAAATGAAGAT-AGCGAATCTGATCTCTCTGAAGTTAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TCA-CTAGTCTTATCTCCCTGAAGTTGC
* * * * *
10675450 AGTAGAGAAGATTAAAGCTATAAAT
64 AGTGGAGCAGATTGAAGATACAAAT
* * * * * *
10675475 CCTATAC-CTCTGAAGTTGCAGTAGG-TCAGA-TCAAATCTACCATGGTGAATCTTATCTCCCTG
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGTC-A-C----T-AGTCTTATCTCCCTG
* * ** *
10675537 AAGTTGTAGTGGAGTAGATTGAAGCCACAAAC
57 AAGTTGCAGTGGAGCAGATTGAAGATACAAAT
* * * * * *
10675569 CTTATCCCCCTGAAGTTGCAGTGGGGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
* * **
10675634 TGGAACAGACTGAAGATAGTGAAT
66 TGGAGCAGATTGAAGATA-CAAAT
* * *
10675658 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
* *
10675723 TAGAGCAGACTGAAGATAGCAAAT
66 TGGAGCAGATTGAAGATA-CAAAT
* **
10675747 CTTATCTCTCTGAAGTTGCAGTAAAGCAGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
10675779 AAAGCTATAA
Statistics
Matches: 497, Mismatches: 110, Indels: 88
0.72 0.16 0.13
Matches are distributed among these distances:
80 3 0.01
81 21 0.04
82 64 0.13
83 3 0.01
84 21 0.04
85 1 0.00
86 5 0.01
87 3 0.01
88 49 0.10
89 196 0.39
90 4 0.01
92 23 0.05
93 5 0.01
94 60 0.12
95 8 0.02
96 31 0.06
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGATACAAAT
Found at i:10675408 original size:44 final size:44
Alignment explanation
Indices: 10675270--10675999 Score: 383
Period size: 44 Copynumber: 16.4 Consensus size: 44
10675260 CTTATCCCAT
* * **
10675270 TGAAGTTGCAGTGG-GACAGGTTGAAATTATGAATCTTATCTCCC
1 TGAAGTTGCAGTGGAG-CAGATTGAAGTTACAAATCTTATCTCCC
* * * * * *
10675314 TAAAGTTGCAATGGAGTAGATTAAAG---C---TATAATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * *
10675352 TGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTCATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * * * * *
10675396 TGAAGTTACAGTGGAGCAAAATGAAGATAGCGAATCTGATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
* * * * * * * *
10675441 TGAAGTTACAGTAGAGAAGATTAAAGCTATAAATCCTATAC-CTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTAT-CTCCC
* * *
10675485 TGAAGTTGCAGTAGG-TCAGA-TCAAATCTACCATGGTGAATCTTATCTCCC
1 TGAAGTTGCAGT-GGAGCAGATTGAAGT-TA-CA-----AATCTTATCTCCC
* * ** * *
10675535 TGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * *
10675579 TGAAGTTGCAGTGGGGCAGGTCGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * **
10675623 TGAAGTTGCAGTGGAACAGACTGAAGATAGTGAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
* *
10675668 TGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * *
10675712 TGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCC
** * * * * *
10675757 TGAAGTTGCAGTAAAGCAGATTAAAGCTATAAATCCTATAC-CTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTAT-CTCCC
* * * * *
10675801 TGAAGTTGCAGTAGG-TCGGA-TCAAATCTACCATGGTGGATCTTATCTCCC
1 TGAAGTTGCAGT-GGAGCAGATTGAAGT-TA-CA-----AATCTTATCTCCC
* * * ** * *
10675851 TGAAGTCGTC-GCGGAGTAGATTGAAGCCACAAACCTTATCCCCC
1 TGAAGTTG-CAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * *
10675895 TGAAGTTGCAGTGGGGCAGGTCGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
* * * * * *
10675939 TAAAGTTGTAGTAGAGCAGATTGAAGATA-ATGAATCTTATTTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACA--AATCTTATCTCCC
*
10675984 TGAAGTTGCAATGGAG
1 TGAAGTTGCAGTGGAG
10676000 TGGATAGAAG
Statistics
Matches: 508, Mismatches: 140, Indels: 75
0.70 0.19 0.10
Matches are distributed among these distances:
38 29 0.06
41 1 0.00
43 8 0.02
44 273 0.54
45 137 0.27
49 10 0.02
50 43 0.08
51 7 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCC
Found at i:10675681 original size:133 final size:134
Alignment explanation
Indices: 10675519--10675768 Score: 351
Period size: 133 Copynumber: 1.9 Consensus size: 134
10675509 ATCTACCATG
* *
10675519 GTGAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAG
1 GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAG
* * * * *
10675584 TTGCAGTGGGGCAG-GTCGAAGTTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGA
66 TTGCAGTAGAGCAGACT-GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGA
10675647 AGATA
130 AGATA
* ** ** *
10675652 GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
1 GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAG
*
10675717 TTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGT
66 TTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGT
10675769 AAAGCAGATT
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
133 75 0.74
134 26 0.26
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (134 bp):
GTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAG
TTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAA
GATA
Found at i:10675804 original size:89 final size:89
Alignment explanation
Indices: 10675522--10675814 Score: 266
Period size: 89 Copynumber: 3.3 Consensus size: 89
10675512 TACCATGGTG
* * * ** * ** * *
10675522 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCA-CAAACCTTATCCCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
*** * ** *
10675586 GCAGTGGGGCAGGTCGAAGTTACA
66 GCAGTAAAGCAGATTAAAGCTACA
* * * **
10675610 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGTGAATCTTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
** * * *
10675675 GCAGTGGAGCAGGTTGAAGTTACA
66 GCAGTAAAGCAGATTAAAGCTACA
* * * *
10675699 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
*
10675764 GCAGTAAAGCAGATTAAAGCTATA
66 GCAGTAAAGCAGATTAAAGCTACA
*
10675788 AATCCTATAC-CTCTGAAGTTGCAGTAG
1 AATCCTAT-CTCCCTGAAGTTGCAGTAG
10675815 GTCGGATCAA
Statistics
Matches: 176, Mismatches: 27, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
88 35 0.20
89 140 0.80
90 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (89 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTAAAGCAGATTAAAGCTACA
Found at i:10675804 original size:133 final size:133
Alignment explanation
Indices: 10675522--10675812 Score: 320
Period size: 133 Copynumber: 2.2 Consensus size: 133
10675512 TACCATGGTG
* * *
10675522 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTG
* * * * * * *
10675587 CAGTGGGGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATA
66 CAGTAGAGCAGCTCGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGACTAAAGATA
*
10675652 GTG
131 GTA
* * ** ** *
10675655 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTG
* *
10675720 CAGTAGAGCAGACT-GAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGT-AAAGCAGATTAAAG
66 CAGTAGAGCAG-CTCGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGAAA-CAGACTAAAG
*
10675783 CTA-TA
128 ATAGTA
*
10675788 AATCCTATAC-CTCTGAAGTTGCAGT
1 AATCCTAT-CTCCCTGAAGTTGCAGT
10675813 AGGTCGGATC
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
133 96 0.72
134 37 0.28
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (133 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTG
CAGTAGAGCAGCTCGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGACTAAAGATA
GTA
Found at i:10675825 original size:316 final size:315
Alignment explanation
Indices: 10675039--10675999 Score: 1165
Period size: 316 Copynumber: 3.1 Consensus size: 315
10675029 AACTAAAAAC
* * * * *
10675039 CTTATCTCCTTGAAATTGTAGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
* * * * * *
10675104 TGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTACAGTGGAA-TAGATTGAAGCTAT
66 TGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTACAGT-AAAGAAGATTAAAGCTAT
* *
10675168 AAATCACAGATCTTATCTCTCTGAAGTTGCAATAGAGT-AGATCAAA---A-CA-----AATCTT
130 AAATC-C---T-ATA-C-CTCTGAAGTTGCAGTAG-GTCAGATCAAATCTACCATGGTGAATCTT
* * ** * * * * **
10675223 ATCTCTCTGAAATTACAGT--AG-AG-TTAAAGCTATAAGCCTTATCCCATTGAAGTTGCAGTGG
187 ATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGG
* * * * * * * *
10675284 GACAGGTTGAAATTATGAA-TCTTATCTCCCTAAAGTTGCAATGGAGTAGATTAAAGCTAT--A-
252 GGCAGGTCGAAGTTA-CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATATGAAT
* * *
10675345 ---ATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTCATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
* * * * *
10675407 TGGAGCAAAATGAAGATAGCGAATCTGATCTCTCTGAAGTTACAGTAGAGAAGATTAAAGCTATA
66 TGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAAAGAAGATTAAAGCTATA
10675472 AATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAATCTACCATGGTGAATCTTATCTCCCTG
131 AATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAATCTACCATGGTGAATCTTATCTCCCTG
10675537 AAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTCG
196 AAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTCG
* * *
10675602 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGTGAAT
261 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-TGAAT
10675658 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
10675723 TAGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCTATA
66 TGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAAAGAAGATTAAAGCTATA
* *
10675788 AATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGTGGATCTTATCTCCCTG
131 AATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAATCTACCATGGTGAATCTTATCTCCCTG
* * *
10675853 AAGTCGTCGCGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTCG
196 AAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTCG
* *
10675918 AAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGATTGAAGATAATGAAT
261 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAT-ATGAAT
* * *
10675974 CTTATTTCCTTGAAGTTGCAATGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
10676000 TGGATAGAAG
Statistics
Matches: 565, Mismatches: 66, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
295 2 0.00
296 24 0.04
297 1 0.00
298 2 0.00
299 2 0.00
300 2 0.00
302 2 0.00
303 110 0.19
305 21 0.04
307 2 0.00
308 4 0.01
309 77 0.14
310 1 0.00
312 1 0.00
316 313 0.55
317 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (315 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAAAGAAGATTAAAGCTATA
AATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAATCTACCATGGTGAATCTTATCTCCCTG
AAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTCG
AAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATATGAAT
Found at i:10675990 original size:183 final size:183
Alignment explanation
Indices: 10675656--10675993 Score: 405
Period size: 183 Copynumber: 1.8 Consensus size: 183
10675646 AAGATAGTGA
* * * ** ** *
10675656 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTCGCAGCGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGC
* * *
10675721 AGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCTA
66 AGTAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAAAGCAGATTAAAGATA
10675786 TAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGTGG
131 TAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGTGG
*
10675839 ATCTTATCTCCCTGAAGTCGTC-GCGGAGTAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTG
1 ATCTTATCTCCCTGAAGTCG-CAGCGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTG
* * * * * * * *
10675903 CAGTGGGGCAG-GTCGAAGTTA-CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGATTGAAGA
65 CAGTAGAGCAGACT-GAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAAAGCAGATTAAAGA
* * *
10675966 TAATGAATCTTATTTCCT-TGAAGTTGCA
129 T-ATAAATCCTA-TACCTCTGAAGTTGCA
10675994 ATGGAGTGGA
Statistics
Matches: 128, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
182 37 0.29
183 86 0.67
184 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (183 bp):
ATCTTATCTCCCTGAAGTCGCAGCGGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAGTTGC
AGTAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAAAGCAGATTAAAGATA
TAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGTGG
Found at i:10677454 original size:11 final size:11
Alignment explanation
Indices: 10677425--10677465 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
10677415 TGCTACTGTT
10677425 TTATTATTCATCA
1 TTATTATT--TCA
*
10677438 TCATTATTTCA
1 TTATTATTTCA
10677449 TTATTATTTCA
1 TTATTATTTCA
10677460 TTATTA
1 TTATTA
10677466 GTTATTCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 19 0.73
13 7 0.27
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTATTTCA
Found at i:10677546 original size:15 final size:15
Alignment explanation
Indices: 10677526--10677555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10677516 CTACTACATA
*
10677526 TATTATTCTCATTAT
1 TATTATTATCATTAT
10677541 TATTATTATCATTAT
1 TATTATTATCATTAT
10677556 AATTTAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATCATTAT
Found at i:10678087 original size:130 final size:130
Alignment explanation
Indices: 10677893--10678212 Score: 459
Period size: 130 Copynumber: 2.5 Consensus size: 130
10677883 AAGTTATTCG
* *
10677893 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTAGGAATTCGGGGAATTGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATC
* *
10677958 GTGCTGGATTGCAATTTCCCGTTTGTTCAAAATAATCGAATAGTCCTTTGGAATTTCACTCATGT
66 GTGCTGGATTACAATTTCCCGTTTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATGT
* * *
10678023 TTTAAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGGAATTCAGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATC
* *
10678088 GTGCTGGGTTACAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGATTACAATTTCCCGTTTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATGT
* * * * * * *
10678153 CTTCAAAATTC--TAAAAC-AAGGTAATGTTCAATGTCTAGAAATTC-GAGAAATCGTGCCCTA
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTAGGAATTCAG-GGAATCGTGCCCTA
10678213 CTGTGCTAGG
Statistics
Matches: 171, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
126 1 0.01
127 34 0.20
128 6 0.04
130 130 0.76
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTAGGAATTCAGGGAATCGTGCCCTATC
GTGCTGGATTACAATTTCCCGTTTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATGT
Found at i:10679385 original size:47 final size:47
Alignment explanation
Indices: 10679321--10679421 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 47
10679311 GTAATAAATC
* * * **
10679321 GCCACTTAATAATATTGTGGACAAGCCACCACTTTTTTAGATAAACT
1 GCCACTTAAGAAAATTGTGGACAAGCCAACACTTTTGCAGATAAACT
10679368 GCCACTTAAGAAAATTGTGGACAAGCCAACACTTTTGCAGATAAACT
1 GCCACTTAAGAAAATTGTGGACAAGCCAACACTTTTGCAGATAAACT
10679415 GCCACTT
1 GCCACTT
10679422 CTTCCTCCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (47 bp):
GCCACTTAAGAAAATTGTGGACAAGCCAACACTTTTGCAGATAAACT
Found at i:10679574 original size:2 final size:2
Alignment explanation
Indices: 10679567--10679607 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10679557 TTATTTACAC
10679567 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10679608 CAATATTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10680783 original size:129 final size:128
Alignment explanation
Indices: 10680631--10680889 Score: 491
Period size: 129 Copynumber: 2.0 Consensus size: 128
10680621 GAATGAAAAG
10680631 ATGGAACAAAAGAGTGTTCTTCATCTTGTCTAGGTTCAATGAACATCACATAAGGTAAGGATGAA
1 ATGGAACAAAAGAGTGTTCTTCATCTTGTCTAGGTTCAATGAACATCACATAAGGTAAGGATGAA
10680696 GAGAATGGTATGTTGAGGGGATAAAGAAGCAAAAAGGGGATCATGGGAGTGAAAAAGGGGCTTA
66 GAGAATGGTATGTTGA-GGGATAAAGAAGCAAAAAGGGGATCATGGGAGTGAAAAAGGGGCTTA
10680760 ATGGAACAAAAGAGTGTTCTTCATCTTGTCTAGGTTCAATGAACATCACATAAGGTAAGGATGAA
1 ATGGAACAAAAGAGTGTTCTTCATCTTGTCTAGGTTCAATGAACATCACATAAGGTAAGGATGAA
* *
10680825 GAGAATGGTATGTTGAGGGATAAAGGAGCAAAAAGGGGATCATGGGAGTGAAAAAGGGGTTTA
66 GAGAATGGTATGTTGAGGGATAAAGAAGCAAAAAGGGGATCATGGGAGTGAAAAAGGGGCTTA
10680888 AT
1 AT
10680890 AAGGGAAGGT
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
128 47 0.37
129 81 0.63
ACGTcount: A:0.38, C:0.09, G:0.30, T:0.23
Consensus pattern (128 bp):
ATGGAACAAAAGAGTGTTCTTCATCTTGTCTAGGTTCAATGAACATCACATAAGGTAAGGATGAA
GAGAATGGTATGTTGAGGGATAAAGAAGCAAAAAGGGGATCATGGGAGTGAAAAAGGGGCTTA
Found at i:10683501 original size:25 final size:25
Alignment explanation
Indices: 10683467--10683518 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10683457 GAAATATTAG
10683467 ATAATGTTGCACCAATTCTAAAGAA
1 ATAATGTTGCACCAATTCTAAAGAA
10683492 ATAATGTTGCACCAATTCTAAAGAA
1 ATAATGTTGCACCAATTCTAAAGAA
10683517 AT
1 AT
10683519 CTCAAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (25 bp):
ATAATGTTGCACCAATTCTAAAGAA
Found at i:10687007 original size:26 final size:26
Alignment explanation
Indices: 10686977--10687038 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
10686967 GAGCTATTAT
*
10686977 CAGTAAGCTCCTTCTGAGCTGATGAA
1 CAGTAAGCTCCTTCTAAGCTGATGAA
10687003 CAGTAAGCTCCTTCTAAGCTGATGAA
1 CAGTAAGCTCCTTCTAAGCTGATGAA
10687029 CAGTAAGCTC
1 CAGTAAGCTC
10687039 TATTGAACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (26 bp):
CAGTAAGCTCCTTCTAAGCTGATGAA
Found at i:10695445 original size:2 final size:2
Alignment explanation
Indices: 10695438--10695468 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10695428 TCATGACATG
10695438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10695469 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10696616 original size:19 final size:19
Alignment explanation
Indices: 10696592--10696630 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10696582 GATTTGGCGG
10696592 TTAAGAGTATCTAAGTCAT
1 TTAAGAGTATCTAAGTCAT
10696611 TTAAGAGTATCTAAGTCAT
1 TTAAGAGTATCTAAGTCAT
10696630 T
1 T
10696631 CTCCTCCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAAGAGTATCTAAGTCAT
Found at i:10697939 original size:55 final size:55
Alignment explanation
Indices: 10697835--10697942 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
10697825 TTCTCCTACG
** *
10697835 CCGTGTTAATTTAACAGGTTTGCCCATGGTTGCTTGGCACGTACATGTCGCACAC
1 CCGTGTTAATTTAACAGGTTTGCCCATGGTTGCAAGGCACGGACATGTCGCACAC
* * * * *
10697890 CCGTGTTAATTTGACAGGTTTGGCGATGGGTT-CAAGGCACGGGCGTGTCGCAC
1 CCGTGTTAATTTAACAGGTTTGCCCAT-GGTTGCAAGGCACGGACATGTCGCAC
10697943 GCCTATGCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 40 0.91
56 4 0.09
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.29
Consensus pattern (55 bp):
CCGTGTTAATTTAACAGGTTTGCCCATGGTTGCAAGGCACGGACATGTCGCACAC
Found at i:10702643 original size:24 final size:24
Alignment explanation
Indices: 10702616--10702662 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10702606 TTTAGATAAT
10702616 TTTGTGTTTACGTTTTTAGGGTTC
1 TTTGTGTTTACGTTTTTAGGGTTC
* *
10702640 TTTGTTTTTAGGTTTTTAGGGTT
1 TTTGTGTTTACGTTTTTAGGGTT
10702663 TAGTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.04, G:0.26, T:0.62
Consensus pattern (24 bp):
TTTGTGTTTACGTTTTTAGGGTTC
Found at i:10704421 original size:39 final size:40
Alignment explanation
Indices: 10704368--10704454 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 40
10704358 CGTTTGAATG
* *
10704368 AAAAACACCGCTAAAGAACGAGCATTAGC--GGCGATTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCAGGGC-ATTTTT
* * *
10704407 AAAAACGCCACTAAAGATCGAGTATTAGCAGGGCTTTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCAGGGCATTTTT
10704447 AAAAACGC
1 AAAAACGC
10704455 TGCTATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.61
40 13 0.32
41 3 0.07
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCAGGGCATTTTT
Found at i:10704626 original size:40 final size:40
Alignment explanation
Indices: 10704573--10704675 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
10704563 TTAACGGCTT
10704573 TTTTTTAAAAACGCCGCTAAAGAT-CGAGT-ATTAGCGGCGC
1 TTTTTTAAAAACGCCGCTAAAGATAC-A-TCATTAGCGGCGC
* *
10704613 TTTTTTAAAAACGCCGCTATATG-TACATCTTTAGCGGCGC
1 TTTTTTAAAAACGCCGCTA-AAGATACATCATTAGCGGCGC
* *
10704653 TTTTTGAAAAACGCCGCAAAAGA
1 TTTTTTAAAAACGCCGCTAAAGA
10704676 ATTTTGCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 3 0.06
40 48 0.89
41 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTTTTAAAAACGCCGCTAAAGATACATCATTAGCGGCGC
Found at i:10704729 original size:41 final size:41
Alignment explanation
Indices: 10704683--10704768 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
10704673 AGAATTTTGC
10704683 AAAACACCGCGAGCTTTTAGTGGCTTTAGTGGCGCTTTTTA
1 AAAACACCGCGAGCTTTTAGTGGCTTTAGTGGCGCTTTTTA
*
10704724 AAAACACCGTGAGCTTTTAGTGGCTTTAGTGGCGCTTTTTA
1 AAAACACCGCGAGCTTTTAGTGGCTTTAGTGGCGCTTTTTA
10704765 AAAA
1 AAAA
10704769 ACGCTGCTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
AAAACACCGCGAGCTTTTAGTGGCTTTAGTGGCGCTTTTTA
Found at i:10705048 original size:22 final size:22
Alignment explanation
Indices: 10705023--10705067 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10705013 GAGTTATTAT
* *
10705023 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
10705045 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
10705067 T
1 T
10705068 GGTTTAATGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:10705066 original size:15 final size:15
Alignment explanation
Indices: 10705028--10705062 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10705018 ATTATTTTAA
*
10705028 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
10705043 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
10705057 GGTTTA
1 GGTTTA
10705063 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:10705385 original size:14 final size:15
Alignment explanation
Indices: 10705368--10705400 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10705358 TATGGATTAT
*
10705368 GGTTTAAGGGTT-GG
1 GGTTTAAAGGTTAGG
10705382 GGTTTAAAGGTTAGG
1 GGTTTAAAGGTTAGG
10705397 GGTT
1 GGTT
10705401 AGGAGTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAAGGTTAGG
Found at i:10705445 original size:7 final size:7
Alignment explanation
Indices: 10705435--10705475 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
10705425 GTTTTAAGAT
10705435 TTTAGGG
1 TTTAGGG
*
10705442 TTTAGAG
1 TTTAGGG
10705449 TTTAGGG
1 TTTAGGG
*
10705456 ATTAGTGG
1 TTTAG-GG
10705464 TTTAGGG
1 TTTAGGG
10705471 TTTAG
1 TTTAG
10705476 ATTAATTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:10705445 original size:15 final size:14
Alignment explanation
Indices: 10705435--10705476 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
10705425 GTTTTAAGAT
10705435 TTTAGGGTTTAGAG
1 TTTAGGGTTTAGAG
* *
10705449 TTTAGGGATTAGTGG
1 TTTAGGGTTTAG-AG
10705464 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
10705477 TTAATTAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:10705788 original size:18 final size:19
Alignment explanation
Indices: 10705747--10705789 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10705737 AGATTTTAAA
*
10705747 AAAAACATTGATAAATAAT
1 AAAAACATTGATAAACAAT
10705766 AAAAACATTGAT-AACAATT
1 AAAAACATTGATAAACAA-T
10705785 AAAAA
1 AAAAA
10705790 TGAAATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAACATTGATAAACAAT
Found at i:10705806 original size:19 final size:19
Alignment explanation
Indices: 10705784--10705820 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10705774 TGATAACAAT
10705784 TAAAAATGAAATACAAAAA
1 TAAAAATGAAATACAAAAA
*
10705803 TAAAAATGAAATATAAAA
1 TAAAAATGAAATACAAAA
10705821 TGGAGATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
TAAAAATGAAATACAAAAA
Found at i:10708760 original size:23 final size:23
Alignment explanation
Indices: 10708734--10708780 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10708724 TTGGTTGATA
10708734 TAATTTTCAGGTAGTTGTTTCTT
1 TAATTTTCAGGTAGTTGTTTCTT
10708757 TAATTTTCAGGTAGTTGTTTCTT
1 TAATTTTCAGGTAGTTGTTTCTT
10708780 T
1 T
10708781 TCTTCCTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
TAATTTTCAGGTAGTTGTTTCTT
Found at i:10711985 original size:12 final size:12
Alignment explanation
Indices: 10711968--10711995 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10711958 AATTTAAATG
10711968 TATTAAATTACA
1 TATTAAATTACA
10711980 TATTAAATTACA
1 TATTAAATTACA
10711992 TATT
1 TATT
10711996 GAATCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTAAATTACA
Found at i:10712317 original size:43 final size:43
Alignment explanation
Indices: 10712216--10712352 Score: 179
Period size: 43 Copynumber: 3.2 Consensus size: 43
10712206 GGTCTTGTTC
* * * * *
10712216 TTTAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAGGTCA-GCTC
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGGTT
* *
10712258 TATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAGTCATGGTT
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGGTT
*
10712301 TTTAGCGACGTTTGTGGGGAAAGCGCCGCTAAAGGTCAT-GTT
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGGTT
10712343 CTTTAGCGGC
1 -TTTAGCGGC
10712353 ATTTTTTTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
42 36 0.44
43 46 0.56
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGGTT
Found at i:10714371 original size:31 final size:31
Alignment explanation
Indices: 10714333--10714420 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
10714323 AAACAATGAA
*
10714333 TTAACGACAATGACCT-AAATGAGAATAGTTT
1 TTAACGACAATG-CCTAAAATGAAAATAGTTT
* *
10714364 TTAACGACAGTGCGTAAAATGAAAATAGTTT
1 TTAACGACAATGCCTAAAATGAAAATAGTTT
* **
10714395 TTGACCG-TGATGCCTAAAATGAAAAT
1 TT-AACGACAATGCCTAAAATGAAAAT
10714421 TTTTATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
30 2 0.04
31 42 0.89
32 3 0.06
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (31 bp):
TTAACGACAATGCCTAAAATGAAAATAGTTT
Found at i:10719270 original size:10 final size:10
Alignment explanation
Indices: 10719238--10719318 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
10719228 TTAAATTCTA
10719238 AAAGATAAAT
1 AAAGATAAAT
*
10719248 ACAA-TTAAAT
1 A-AAGATAAAT
*
10719258 AAAGATAATT
1 AAAGATAAAT
10719268 AAAGATAAAT
1 AAAGATAAAT
*
10719278 AAGGATAAAT
1 AAAGATAAAT
10719288 AAAGATAAA-
1 AAAGATAAAT
*
10719297 AGCTAGGATAAAT
1 A---AAGATAAAT
10719310 AAAGATAAA
1 AAAGATAAA
10719319 AGCTAAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 3 0.05
10 44 0.77
11 2 0.04
12 7 0.12
13 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Done.