Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A06
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: 121513442
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5870000 characters in sequence are not A, C, G, or T
File 172 of 366
Found at i:57684141 original size:39 final size:39
Alignment explanation
Indices: 57683937--57684159 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
57683927 TTGAATGCTG
* * * * * *
57683937 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
57683977 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
57684016 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
57684057 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
57684097 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
57684136 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57684160 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 39 0.25
40 106 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:57684179 original size:79 final size:80
Alignment explanation
Indices: 57684017--57684194 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
57684007 AGATACAAAT
* * * *
57684017 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
57684082 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
57684097 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
57684161 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
57684176 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57684195 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:57688004 original size:39 final size:40
Alignment explanation
Indices: 57687959--57688183 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
57687949 GCTCCTCGTT
* * * *
57687959 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
57687999 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57688038 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
57688078 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
57688118 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57688159 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57688184 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57688192 original size:41 final size:41
Alignment explanation
Indices: 57688115--57688192 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57688105 TTTGTATCTC
* * *
57688115 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57688156 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57688193 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57689939 original size:40 final size:40
Alignment explanation
Indices: 57689856--57690110 Score: 362
Period size: 40 Copynumber: 6.5 Consensus size: 40
57689846 CAACCAAGTA
** *
57689856 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
57689894 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57689934 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
*
57689974 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57690014 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
57690054 CCTTCGGGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57690093 CCTT-GGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57690111 TTATCATCCA
Statistics
Matches: 200, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
38 21 0.10
39 46 0.23
40 131 0.65
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57696871 original size:12 final size:12
Alignment explanation
Indices: 57696854--57696884 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57696844 TCAATAGCTT
57696854 CACACGGCCTAG
1 CACACGGCCTAG
57696866 CACACGGCCTAG
1 CACACGGCCTAG
57696878 CACACGG
1 CACACGG
57696885 GCATGTGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.26, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:57698087 original size:18 final size:18
Alignment explanation
Indices: 57698064--57698131 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
57698054 CTTGGCCCAT
*
57698064 TGCAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAG
* *
57698082 TGCAGTAATAAT-AACAG
1 TGCAGTAACAGTAAACAG
* **
57698099 TACAGTAGTAGTAAACAG
1 TGCAGTAACAGTAAACAG
57698117 TGCAGTAACAGTAAA
1 TGCAGTAACAGTAAA
57698132 TAGTATGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.32
18 27 0.68
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:57698588 original size:53 final size:54
Alignment explanation
Indices: 57698469--57698605 Score: 179
Period size: 53 Copynumber: 2.6 Consensus size: 54
57698459 AATAGACATC
* * *
57698469 TTACCATAAAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAGAACAGTCATT
1 TTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAGAACAGTCATT
* * *
57698523 TTACCACCTAAGGGGAAAACAGTTATTTTACCTCAT-AGGGCAGAACAGTCATT
1 TTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAGAACAGTCATT
**
57698576 TTATCC-CATAAGGGCAAAACAACCATTTTA
1 TTA-CCACATAAGGGCAAAACAGTCATTTTA
57698606 TCGATTAAGG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
53 39 0.55
54 32 0.45
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (54 bp):
TTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAGAACAGTCATT
Found at i:57698607 original size:27 final size:27
Alignment explanation
Indices: 57698478--57698605 Score: 152
Period size: 27 Copynumber: 4.8 Consensus size: 27
57698468 CTTACCATAA
*
57698478 AAGGGCAAAATAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* * *
57698505 AAGGGCAGAACAGTCATTTTACCACCT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* *
57698532 AAGGGGAAAACAGTTATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
57698559 -AGGGCAGAACAGTCATTTTATCC-CAT
1 AAGGGCAAAACAGTCATTTTA-CCTCAT
**
57698585 AAGGGCAAAACAACCATTTTA
1 AAGGGCAAAACAGTCATTTTA
57698606 TCGATTAAGG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
26 20 0.24
27 64 0.76
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCTCAT
Found at i:57702364 original size:38 final size:37
Alignment explanation
Indices: 57702291--57702369 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 37
57702281 TATTACGAAA
* *
57702291 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
* *
57702328 TCTTACCCGGACAAAAATTTCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCTCCACACGAAGTCATCGGG
57702366 TCTT
1 TCTT
57702370 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 12 0.32
38 25 0.68
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:57702566 original size:47 final size:47
Alignment explanation
Indices: 57702488--57702826 Score: 547
Period size: 47 Copynumber: 7.2 Consensus size: 47
57702478 CCCTTCGGGA
* * * * * * *
57702488 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
57702535 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57702582 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57702630 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57702676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57702723 CTTATCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57702771 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57702818 CTTATCACA
1 CTTATCACA
57702827 ATTTAGAATT
Statistics
Matches: 274, Mismatches: 13, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
45 28 0.10
46 11 0.04
47 149 0.54
48 58 0.21
49 28 0.10
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57702784 original size:95 final size:94
Alignment explanation
Indices: 57702488--57702826 Score: 547
Period size: 95 Copynumber: 3.6 Consensus size: 94
57702478 CCCTTCGGGA
* * * * * * * ***
57702488 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
57702553 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
57702582 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCATTAGGCC-TATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57702645 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
57702676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATATATACA
57702741 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
57702771 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
57702827 ATTTAGAATT
Statistics
Matches: 231, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
92 28 0.12
93 11 0.05
94 66 0.29
95 103 0.45
96 23 0.10
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:57706240 original size:39 final size:39
Alignment explanation
Indices: 57706167--57706363 Score: 132
Period size: 40 Copynumber: 4.9 Consensus size: 39
57706157 GAATACATGT
* * * *
57706167 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGC-CTTCGGAACTTAGCCCGGATATAA
* ***
57706207 CACCAGCACGAATGCCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCCTTCGGAACTTAGCCCGGATATAA
* * *
57706246 CACTAGCACGAATGCTCTTCGAAATTTAGCCCGGATTTAGTAA
1 CACCAGCACGAATGC-CTTCGGAACTTAGCCCGGA--TA-TAA
* * * *
57706289 C-TC-GCACCAATGCCTTCAGG-TCTTTGCCCGGATATAA
1 CACCAGCACGAATGCCTTC-GGAACTTAGCCCGGATATAA
* * *
57706326 TCACTAGCTC-AATTGCCTTCGGGACTTAGCCCGGATAT
1 -CACCAGCACGAA-TGCCTTCGGAACTTAGCCCGGATAT
57706364 CATTCAAATG
Statistics
Matches: 120, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 36 0.30
40 65 0.54
41 10 0.08
42 2 0.02
43 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
CACCAGCACGAATGCCTTCGGAACTTAGCCCGGATATAA
Found at i:57706690 original size:29 final size:29
Alignment explanation
Indices: 57706656--57706758 Score: 163
Period size: 29 Copynumber: 3.6 Consensus size: 29
57706646 TAATCAACCA
57706656 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGTACTTTAAACT
57706685 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGTACTTTAAACT
* * *
57706714 CGCACACTTAGTGCCATGCA-TTTCAAGCC
1 CGCACACTTAGTGCCATGTACTTT-AAACT
57706743 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
57706759 ATCTCACAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 3 0.04
29 67 0.96
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTACTTTAAACT
Found at i:57706801 original size:43 final size:43
Alignment explanation
Indices: 57706740--57706928 Score: 360
Period size: 43 Copynumber: 4.4 Consensus size: 43
57706730 TGCATTTCAA
57706740 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
57706783 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
57706826 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
57706869 GCTCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
57706912 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
57706929 TGAAAACCAA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:57708836 original size:28 final size:29
Alignment explanation
Indices: 57708776--57708837 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
57708766 TTATTACGAA
*
57708776 TCTTACCCGGACATATCTCCCCATTATCG
1 TCTTACCCGGACATATCTCCCCATCATCG
57708805 TCTTACCC-GACA-AT-TCCCCTATCATCGG
1 TCTTACCCGGACATATCTCCCC-ATCATC-G
57708833 TCTTA
1 TCTTA
57708838 AGCTCAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
27 7 0.23
28 10 0.33
29 8 0.27
ACGTcount: A:0.21, C:0.37, G:0.10, T:0.32
Consensus pattern (29 bp):
TCTTACCCGGACATATCTCCCCATCATCG
Found at i:57709059 original size:47 final size:46
Alignment explanation
Indices: 57708993--57709226 Score: 316
Period size: 47 Copynumber: 4.9 Consensus size: 46
57708983 TCGCATTGCT
57708993 TATCACATATATAACACTTTCACATTCAAACATCACATCGGCCATT-GGCC
1 TATCACATATAT-ACACTTTCACATT----CATCACATCGGCCATTAGGCC
57709043 -ATCACATATATA-ACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
57709087 TATCACATATATATACACATTATCACATTACATCACAATCGGCCATTAGGCC
1 TATCAC--ATATATACAC-TT-TCACATT-CATCAC-ATCGGCCATTAGGCC
*
57709139 TTTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
57709185 TTATCACATATATACACTTTCACATTCATCA-ATCGG-CATTAG
1 -TATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
57709227 TACAATAATC
Statistics
Matches: 172, Mismatches: 2, Indels: 25
0.86 0.01 0.13
Matches are distributed among these distances:
43 16 0.09
44 4 0.02
45 11 0.06
46 20 0.12
47 53 0.31
48 10 0.06
49 15 0.09
50 17 0.10
51 6 0.03
52 20 0.12
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (46 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:57709168 original size:98 final size:95
Alignment explanation
Indices: 57708991--57709226 Score: 330
Period size: 98 Copynumber: 2.5 Consensus size: 95
57708981 CATCGCATTG
57708991 CTTATCACATATATA-ACACTTTCACATTCAAACATCAC-ATCGGCCATT-GGCCATCACATATA
1 CTTATCACATATATATACACTTTCACATT---ACATCACAATCGGCCATTAGGCCATCACATATA
57709053 TAACTTTCACATTCATCACATCGGCCATTAGGC
63 TAACTTTCACATTCATCACATCGGCCATTAGGC
*
57709086 C-TATCACATATATATACACATTATCACATTACATCACAATCGGCCATTAGGCCTTTCACATATA
1 CTTATCACATATATATACAC-TT-TCACATTACATCACAATCGGCCATTAGGCC-ATCACATATA
57709150 TACACTTTCACATTCATCACATCGGCCATTAGGC
63 TA-ACTTTCACATTCATCACATCGGCCATTAGGC
57709184 CTTATCAC--ATATATACACTTTCACATT-CAT--CAATCGG-CATTAG
1 CTTATCACATATATATACACTTTCACATTACATCACAATCGGCCATTAG
57709227 TACAATAATC
Statistics
Matches: 132, Mismatches: 1, Indels: 20
0.86 0.01 0.13
Matches are distributed among these distances:
91 6 0.05
92 7 0.05
94 23 0.17
95 22 0.17
96 8 0.06
97 28 0.21
98 32 0.24
99 6 0.05
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (95 bp):
CTTATCACATATATATACACTTTCACATTACATCACAATCGGCCATTAGGCCATCACATATATAA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57719632 original size:41 final size:41
Alignment explanation
Indices: 57719543--57719635 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
57719533 GCGTGTGGCT
* * *
57719543 AGGCCGTATGTGACACACTGTCTGCCCCATAGTGTGCAGTC
1 AGGCCGTGTGTGACACACGGTCTGCCCCATAGCGTGCAGTC
57719584 AGGCCGTGTGTGACACACGGTCTGCCCCATAGCGTGCAGTC
1 AGGCCGTGTGTGACACACGGTCTGCCCCATAGCGTGCAGTC
57719625 AGGCCGTGTGT
1 AGGCCGTGTGT
57719636 CCACTGCACC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (41 bp):
AGGCCGTGTGTGACACACGGTCTGCCCCATAGCGTGCAGTC
Found at i:57728399 original size:40 final size:38
Alignment explanation
Indices: 57728251--57728403 Score: 207
Period size: 38 Copynumber: 4.0 Consensus size: 38
57728241 CACTCGATAC
*
57728251 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
57728289 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
** * *
57728327 ATATCCATGTTAAATCCCGCAGGCTTTGTGCTGGTACT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
57728365 ATATCTGGGCTTAAAGTTCTGCAGGCTTTGTGCTGGTAA
1 ATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAA
57728404 CTGGATTCGG
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
38 77 0.75
39 5 0.05
40 20 0.20
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:57734687 original size:39 final size:39
Alignment explanation
Indices: 57734628--57734743 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
57734618 GCACGTGGCT
* *
57734628 TGCGGACTTCAAGTCCGGATATATTTCTAGCATATAGCC
1 TGCGGACTTCATGTCCGGATATATTTCAAGCATATAGCC
* * *
57734667 TGCGGACCTCATGTCTGGATATATTACAAGCATATAGCC
1 TGCGGACTTCATGTCCGGATATATTTCAAGCATATAGCC
*
57734706 TGCGGACTTCATGTCCGGATATATTTCCAGCATATAGC
1 TGCGGACTTCATGTCCGGATATATTTCAAGCATATAGC
57734744 TTGTGAAAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (39 bp):
TGCGGACTTCATGTCCGGATATATTTCAAGCATATAGCC
Found at i:57737938 original size:80 final size:79
Alignment explanation
Indices: 57737789--57738011 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
57737779 TTGAATGCTG
* * * * * * * * * *
57737789 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCAAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTATGC-GAGCTACTAAAGCCGGGCTAAG-TCCCGAAGGCATT
*
57737853 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * * *
57737869 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-ATGCGAGCTACTAAAGCCGGGCTAAGTCCCGAAGGCATTC
* **
57737934 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
57737949 TCCGGGTTATGTCCCGAAGGCATTATGTGAGCTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTATGCGAGCTACTAAAGCCGGGCTAAGTCCCGAAGGCATT
57738012 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 33 0.28
80 81 0.69
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTATGCGAGCTACTAAAGCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:57737999 original size:39 final size:40
Alignment explanation
Indices: 57737842--57738011 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
57737832 GGACTAAGAT
* * *
57737842 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
57737882 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
57737922 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
57737962 CCGAAGGCATT-ATGTGAGCTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
57738001 CCGAAGGCATT
1 CCGAAGGCATT
57738012 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:57745849 original size:80 final size:79
Alignment explanation
Indices: 57745700--57745922 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
57745690 TTGAATGCTG
* * * * * * * * * *
57745700 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCAAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTATGC-GAGCTACTAAAGCCGGGCTAAG-TCCCGAAGGCATT
*
57745764 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * * *
57745780 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-ATGCGAGCTACTAAAGCCGGGCTAAGTCCCGAAGGCATTC
* **
57745845 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
57745860 TCCGGGTTATGTCCCGAAGGCATTATGTGAGCTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTATGCGAGCTACTAAAGCCGGGCTAAGTCCCGAAGGCATT
57745923 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 33 0.28
80 81 0.69
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTATGCGAGCTACTAAAGCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:57745910 original size:39 final size:40
Alignment explanation
Indices: 57745753--57745922 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
57745743 GGACTAAGAT
* * *
57745753 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
57745793 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
57745833 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
57745873 CCGAAGGCATT-ATGTGAGCTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
57745912 CCGAAGGCATT
1 CCGAAGGCATT
57745923 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:57747822 original size:40 final size:40
Alignment explanation
Indices: 57747592--57747823 Score: 297
Period size: 40 Copynumber: 5.8 Consensus size: 40
57747582 CATTTGAATG
* * * *
57747592 ATATCCGGGCTAAGTCCCGAATGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
57747632 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* *
57747672 TTATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
57747712 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
57747752 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
57747792 ATACCCGGGTTAAGACTCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
57747824 TTGTGGTTAT
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 175 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:57753431 original size:38 final size:38
Alignment explanation
Indices: 57753380--57753494 Score: 185
Period size: 38 Copynumber: 3.0 Consensus size: 38
57753370 CTAGGTTTAG
*
57753380 TCCCGCAGGCTTCGTCCTGGTAATATATCCGGGTTAAA
1 TCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAA
*
57753418 TCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAA
1 TCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAA
* *
57753456 TCCCGCAGGCTTAGTACTGGTACTATATCCGGGCTTAAA
1 TCCCGCAGGCTTCGTACTGGTAATATATCCGGG-TTAAA
57753495 GTTCTGCAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 67 0.93
39 5 0.07
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (38 bp):
TCCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAA
Found at i:57759155 original size:29 final size:28
Alignment explanation
Indices: 57759089--57759181 Score: 127
Period size: 28 Copynumber: 3.3 Consensus size: 28
57759079 AAGTCTACAT
* *
57759089 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
57759117 TA-TTTCATATGGCCCATTAGGCCCAAATC
1 -ACATTCATATGGCCCATTAGGCCC-AATC
57759146 ACATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
57759174 ACA-TCATA
1 ACATTCATA
57759182 GTCATGCAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.09
28 27 0.47
29 26 0.45
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:57761523 original size:18 final size:20
Alignment explanation
Indices: 57761481--57761517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57761471 ATATTTTATG
*
57761481 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
57761500 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
57761518 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:57763635 original size:46 final size:46
Alignment explanation
Indices: 57763583--57763855 Score: 327
Period size: 46 Copynumber: 6.0 Consensus size: 46
57763573 AGTGTGCTCT
* *
57763583 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
57763629 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
57763674 CTGATATGAAA-CATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
57763720 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
57763766 GTGACATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
57763812 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
57763856 TCATGTCAAA
Statistics
Matches: 201, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 43 0.21
46 157 0.78
47 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:57763739 original size:91 final size:91
Alignment explanation
Indices: 57763583--57763855 Score: 352
Period size: 91 Copynumber: 3.0 Consensus size: 91
57763573 AGTGTGCTCT
* * * * * *
57763583 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAG
1 CTGATATGAAA-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
57763648 ACCATGGTTGAAAGATACCATGGCA-C
65 ACCATGGTTGAAAGATACCATGGCAGC
* * *
57763674 CTGATATGAAACATGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAA-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
57763739 ACCATGGTTGAAAGATACCATGGCAGC
65 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
57763766 GTGACATG-AAATGAATATGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAA
1 CTGATATGAAAATG--TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAA
* * *
57763830 GACCATAGTTGAAAGACACTATGGCA
64 GACCATGGTTGAAAGATACCATGGCA
57763856 TCATGTCAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
90 3 0.02
91 82 0.52
92 74 0.47
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (91 bp):
CTGATATGAAAATGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAGC
Found at i:57763871 original size:137 final size:136
Alignment explanation
Indices: 57763598--57763878 Score: 361
Period size: 137 Copynumber: 2.1 Consensus size: 136
57763588 ATGAAATGTG
* **
57763598 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* * * * *
57763663 TACCATGGCACCTGATATGAAACATGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 TACCATGGCACATGACATGAAACATGTAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
57763728 AAATAAA
130 AAATAAA
* * * *
57763735 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATATGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* * *
57763800 TACCATGGCAACATGACA-GAAA-ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC
66 TACCATGGC-ACATGACATGAAACAT--GTAAGACCATAGTTGAAAGACACCATGGCAACATGAC
57763863 -AAAGATAAA
128 GAAA-ATAAA
57763872 TAAGACC
1 TAAGACC
57763879 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
136 4 0.03
137 83 0.66
138 38 0.30
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAGACCATGGTTGAAAGA
TACCATGGCACATGACATGAAACATGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGAA
AATAAA
Found at i:57768035 original size:27 final size:27
Alignment explanation
Indices: 57768004--57768181 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57767994 TAAATTGTAC
57768004 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
57768031 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
57768057 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* *
57768085 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGATTATGT
*
57768113 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* *
57768140 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
57768167 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57768182 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:57768118 original size:82 final size:81
Alignment explanation
Indices: 57768005--57768160 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
57767995 AAATTGTACA
* * *
57768005 GCACTAAGTGTGCGATTTGATTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57768069 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57768086 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57768151 TGCGAGTTGA
65 TGCGAATTGA
57768161 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57768172 original size:82 final size:81
Alignment explanation
Indices: 57768001--57768181 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57767991 GATTAAATTG
* * *
57768001 TACAGCACTAAGTGTGCGATTTGATTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57768066 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57768082 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57768146 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57768164 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57768182 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57776056 original size:27 final size:27
Alignment explanation
Indices: 57776025--57776202 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57776015 TAAATTGTAC
57776025 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57776052 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57776078 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57776106 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57776134 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57776161 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57776188 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57776203 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57776139 original size:82 final size:81
Alignment explanation
Indices: 57776026--57776181 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57776016 AAATTGTACA
* *
57776026 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57776090 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57776107 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57776172 TGCGAGTTGA
65 TGCGAATTGA
57776182 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57776193 original size:82 final size:81
Alignment explanation
Indices: 57776022--57776202 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57776012 GATTAAATTG
* *
57776022 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57776087 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57776103 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57776167 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57776185 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57776203 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57811685 original size:27 final size:27
Alignment explanation
Indices: 57811633--57811741 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 27
57811623 CATTGCTGCT
* * *
57811633 AGAACAGATAA-TGTGACTGAGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
57811659 AGAATAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
57811686 AGAACAGAT-ATATGTGGCAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
* * * *
57811713 AGATCAGATAAATATGGCATAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
57811740 AG
1 AG
57811742 GATGCTTCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
26 12 0.17
27 58 0.82
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:57811714 original size:54 final size:53
Alignment explanation
Indices: 57811633--57811741 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 53
57811623 CATTGCTGCT
* * * *
57811633 AGAACAGATAATGTGACTGAGTCACCAGAAT-AGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAG-ATCAGATAAATATGGCAGAGCCACC
* *
57811686 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATATGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAAATATGGCAGAGCCACC
57811740 AG
1 AG
57811742 GATGCTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 12 0.25
54 36 0.75
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGAGCCACCAGATCAGATAAATATGGCAGAGCCACC
Found at i:57812613 original size:123 final size:123
Alignment explanation
Indices: 57812394--57812644 Score: 493
Period size: 123 Copynumber: 2.0 Consensus size: 123
57812384 AGCGATTATG
57812394 TTTAGATCCAGTCACTCCACTTGTCCAAGCCTTCGATCAGCAGCTTTAGATCCCACTATTATCAA
1 TTTAGATCCAGTCACTCCACTTGTCCAAGCCTTCGATCAGCAGCTTTAGATCCCACTATTATCAA
57812459 AATAAAACAGTTATAACACCCTTTAGAGCTACATGCCCAAATCGACAGCCCCCTAACC
66 AATAAAACAGTTATAACACCCTTTAGAGCTACATGCCCAAATCGACAGCCCCCTAACC
57812517 TTTAGATCCAGTCACTCCACTTGTCCAAGCCTTCGATCAGCAGCTTTAGATCCCACTATTATCAA
1 TTTAGATCCAGTCACTCCACTTGTCCAAGCCTTCGATCAGCAGCTTTAGATCCCACTATTATCAA
*
57812582 AATAAAACAGTTATAACACCCTTTAGAGCTACATGCCCAAATCGATAGCCCCCTAACC
66 AATAAAACAGTTATAACACCCTTTAGAGCTACATGCCCAAATCGACAGCCCCCTAACC
57812640 TTTAG
1 TTTAG
57812645 GGGTTTCAGC
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 127 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (123 bp):
TTTAGATCCAGTCACTCCACTTGTCCAAGCCTTCGATCAGCAGCTTTAGATCCCACTATTATCAA
AATAAAACAGTTATAACACCCTTTAGAGCTACATGCCCAAATCGACAGCCCCCTAACC
Found at i:57813304 original size:24 final size:24
Alignment explanation
Indices: 57813269--57813369 Score: 150
Period size: 24 Copynumber: 4.2 Consensus size: 24
57813259 CCAACACTGT
* *
57813269 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
57813293 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
57813317 TAC-CCCTTATCAACTCCTAAATCC
1 T-CTCCCTTATCAACTCCTAAATCC
*
57813341 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
57813365 TCTCC
1 TCTCC
57813370 TGACAGACTT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
24 70 0.99
25 1 0.01
ACGTcount: A:0.25, C:0.42, G:0.02, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:57819662 original size:26 final size:26
Alignment explanation
Indices: 57819632--57819742 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
57819622 AGCATTGCTG
* *
57819632 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
57819658 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
57819685 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
57819712 CCAGATTAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
57819739 CCAG
1 CCAG
57819743 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.17
27 62 0.81
28 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:57821147 original size:24 final size:24
Alignment explanation
Indices: 57821107--57821182 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
57821097 CCAACACTGT
*
57821107 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
57821131 TCTTCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
57821155 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
57821179 TCTC
1 TCTC
57821183 TTGACAGACT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.24, C:0.39, G:0.03, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:57841785 original size:5 final size:5
Alignment explanation
Indices: 57841775--57841807 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
57841765 TATATACTTA
57841775 TTTAT TTTAT TTTAT TTTAT TTTAT TTTGAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TT
57841808 CTCCTTAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:57861731 original size:46 final size:47
Alignment explanation
Indices: 57861678--57861804 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 47
57861668 TTGGGCATCT
57861678 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-GTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTGGTCC
* * *
57861724 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACT--G-GTCC
*
57861771 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57861805 GCGGGTTACA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 2 0.03
46 26 0.39
47 29 0.43
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTGGTCC
Found at i:57864920 original size:37 final size:37
Alignment explanation
Indices: 57864870--57864948 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
57864860 TTATTACGAA
* * * *
57864870 GTCTTACTCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
57864907 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
57864944 GTCTT
1 GTCTT
57864949 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:57865336 original size:143 final size:141
Alignment explanation
Indices: 57865069--57865351 Score: 467
Period size: 143 Copynumber: 2.0 Consensus size: 141
57865059 CTTCGGGACT
* * * * *
57865069 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACTT
1 TATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
57865134 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
57865199 CCATTAGGCCC
131 CCATTAGGCCC
* * *
57865210 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCTCATATATACAC
1 TATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
57865275 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
57865340 GGCCATTAGGCC
129 GGCCATTAGGCC
57865352 TTACTATCAT
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
141 8 0.06
142 1 0.01
143 122 0.93
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (141 bp):
TATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCC
Found at i:57865352 original size:47 final size:47
Alignment explanation
Indices: 57865067--57865354 Score: 441
Period size: 47 Copynumber: 6.1 Consensus size: 47
57865057 CCCTTCGGGA
* * * * * *
57865067 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57865114 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57865161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57865208 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57865257 CCTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57865304 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57865351 CTTA
1 CTTA
57865355 CTATCATTTC
Statistics
Matches: 222, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 176 0.79
49 46 0.21
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57870647 original size:40 final size:39
Alignment explanation
Indices: 57870571--57870649 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
57870561 ATTGTTCTGA
* * *
57870571 GATTGCATCCGGGTTAGAGACCCGCTGGCTTCATGCTGG
1 GATTGCATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
* *
57870610 GATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAATGCTGG
1 GATTGCATCCGGG-TTAAAGACCCGCAGGCTTAATGCTGG
57870650 TGAATTAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 12 0.35
40 22 0.65
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.28
Consensus pattern (39 bp):
GATTGCATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
Found at i:57873883 original size:13 final size:13
Alignment explanation
Indices: 57873865--57873890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57873855 TGGATTTGAT
57873865 GAATAGAATTTTC
1 GAATAGAATTTTC
57873878 GAATAGAATTTTC
1 GAATAGAATTTTC
57873891 AGACAGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
GAATAGAATTTTC
Found at i:57884003 original size:24 final size:23
Alignment explanation
Indices: 57883943--57884078 Score: 77
Period size: 22 Copynumber: 5.8 Consensus size: 23
57883933 AGTCATGATC
57883943 GGTAAGCTCT-TACTGAGCTGATAAGA
1 GGTAAGCTCTAT-C-GAGCTGA-AA-A
* * *
57883969 AGTAAGTTCTATTGAGCTGAAAA
1 GGTAAGCTCTATCGAGCTGAAAA
* *
57883992 TGGTAAGCTCTATCGAGTTG-AAC
1 -GGTAAGCTCTATCGAGCTGAAAA
* *
57884015 GGTAAGCTCTATCGAGTTG-AAC
1 GGTAAGCTCTATCGAGCTGAAAA
* *
57884037 GGTAAGCTCCAAT-GAGTTGAAACA
1 GGTAAGCT-CTATCGAGCTGAAA-A
57884061 -GTAAGCTCT-TACGAGCTG
1 GGTAAGCTCTAT-CGAGCTG
57884079 TGGTGAGTCC
Statistics
Matches: 91, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.01
22 37 0.41
23 20 0.22
24 17 0.19
25 7 0.08
26 8 0.09
27 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (23 bp):
GGTAAGCTCTATCGAGCTGAAAA
Found at i:57884021 original size:22 final size:22
Alignment explanation
Indices: 57883993--57884069 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
57883983 AGCTGAAAAT
57883993 GGTAAGCTCTATCGAGTTGAAC
1 GGTAAGCTCTATCGAGTTGAAC
57884015 GGTAAGCTCTATCGAGTTGAAC
1 GGTAAGCTCTATCGAGTTGAAC
*
57884037 GGTAAGCTCCAAT-GAGTTGAAAC
1 GGTAAGCT-CTATCGAGTTG-AAC
*
57884060 AGTAAGCTCT
1 GGTAAGCTCT
57884070 TACGAGCTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 37 0.74
23 13 0.26
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (22 bp):
GGTAAGCTCTATCGAGTTGAAC
Found at i:57891100 original size:30 final size:30
Alignment explanation
Indices: 57891054--57891113 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57891044 TTCCCGAGCC
57891054 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
57891084 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
57891114 CTTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:57893391 original size:50 final size:50
Alignment explanation
Indices: 57893271--57893603 Score: 405
Period size: 50 Copynumber: 6.6 Consensus size: 50
57893261 GTTGTGAGAA
* * * ***
57893271 CACATGTGTAGTACTATGTGCAGGTTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGT
* * * * *
57893323 CACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * * * * ***
57893373 CGCATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCCAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
* *
57893424 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
*
57893474 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* *
57893524 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
*
57893574 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
57893604 TGCTTACCAT
Statistics
Matches: 239, Mismatches: 41, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
50 168 0.70
51 38 0.16
52 33 0.14
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:57893547 original size:151 final size:151
Alignment explanation
Indices: 57893271--57893603 Score: 434
Period size: 151 Copynumber: 2.2 Consensus size: 151
57893261 GTTGTGAGAA
* * * * *
57893271 CACATGTGTAGTACTATGTGCAGGTTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACATGTGTAGTA
* * * *
57893336 TTAAGTGTAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGCAGTACTAAGTGCAGGCTAC
65 CTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGTGCAGTACTAAGTGCAGGCTAC
* * *
57893401 TATGCGTACCCGATAGCTTCCAT
130 TACGCGTACCAGATAG-TTACAT
* *
57893424 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGG-TTAGGTCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACATGTGTAGTAC
* * *
57893488 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGTGCAGTACTAAGTGCAGGCTACT
* * * **
57893553 ACGTGTTCCAGATTGTTAGGT
131 ACGCGTACCAGATAGTTACAT
*
57893574 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
57893604 TGCTTACCAT
Statistics
Matches: 156, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
150 31 0.20
151 87 0.56
153 38 0.24
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGTGCAGTACTAAGTGCAGGCTACT
ACGCGTACCAGATAGTTACAT
Found at i:57896886 original size:51 final size:48
Alignment explanation
Indices: 57896700--57896886 Score: 205
Period size: 50 Copynumber: 3.8 Consensus size: 48
57896690 GCCGAAGCTA
* * *
57896700 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-ACAG
*
57896749 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CA-CAG
** ** * *
57896799 TCTAATACATGTAGTAGCCTGCACTTAGTACTACACAGGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
*
57896847 TTTTCGGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
57896887 TGCAACCTCA
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 38 0.32
50 40 0.34
51 35 0.30
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
Found at i:57896895 original size:101 final size:99
Alignment explanation
Indices: 57896711--57896897 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
57896701 CTGGTACGCA
* * *
57896711 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACAGGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
**
57896776 GTACTACACACGTGACCTCACCATCTAATACATG
66 GTACTACACACGCAACCTCACCATCTAATACATG
* *
57896810 TAGTAGCCTGCACTTAGTACTACACAGGTGATC-ACAGTTTTCGGGTACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACAGGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
57896874 TTAGTACTACACATGCAACCTCAC
63 TTAGTACTACACACGCAACCTCAC
57896898 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACAGGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCAACCTCACCATCTAATACATG
Found at i:57899080 original size:15 final size:15
Alignment explanation
Indices: 57899024--57899088 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
57899014 ATAAAGATAA
*
57899024 AAAGAAAACC-GAAT
1 AAAGAAATCCAGAAT
57899038 AAAGAAATCCA-AGAT
1 AAAGAAATCCAGA-AT
* *
57899053 AGA-AAACCCAGAAT
1 AAAGAAATCCAGAAT
57899067 AAAGAAATCCAGAAT
1 AAAGAAATCCAGAAT
57899082 AAAGAAA
1 AAAGAAA
57899089 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 20 0.48
15 22 0.52
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAAGAAATCCAGAAT
Found at i:57910564 original size:32 final size:32
Alignment explanation
Indices: 57910528--57910595 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
57910518 ACAGTCTCAA
* *
57910528 TTGGGCCTAGCACATCTCAGAATCAATATCAG
1 TTGGGCCTAGCACATATCAGAACCAATATCAG
* *
57910560 TTGGGCCTAGCCCATATCAGAACCAGTATCAG
1 TTGGGCCTAGCACATATCAGAACCAATATCAG
57910592 TTGG
1 TTGG
57910596 AACTAGCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (32 bp):
TTGGGCCTAGCACATATCAGAACCAATATCAG
Found at i:57910602 original size:32 final size:32
Alignment explanation
Indices: 57910534--57910606 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
57910524 TCAATTGGGC
* * * **
57910534 CTAGCACATCTCAGAATCAATATCAGTTGGGC
1 CTAGCCCATATCAGAACCAATATCAGTTGGAA
*
57910566 CTAGCCCATATCAGAACCAGTATCAGTTGGAA
1 CTAGCCCATATCAGAACCAATATCAGTTGGAA
57910598 CTAGCCCAT
1 CTAGCCCAT
57910607 TTCAATATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (32 bp):
CTAGCCCATATCAGAACCAATATCAGTTGGAA
Found at i:57919109 original size:71 final size:71
Alignment explanation
Indices: 57918979--57919113 Score: 180
Period size: 71 Copynumber: 1.9 Consensus size: 71
57918969 TAAAATTTTG
* * * * * * * *
57918979 TTTTGGATAGTATGTTAACCATAATTAAACAACATTTTGTAGTCAATTTGGATAGCAATCTAACA
1 TTTTGGACACTATATTAACCACAATCAAACAACATTTTGAAGTCAATTTGGACAACAATCTAACA
57919044 ATAACT
66 ATAACT
* *
57919050 TTTTGGACACTATATTAACCACAATCGAACAACATTTTGAAGTCAATTTGGGCAACAATCTAAC
1 TTTTGGACACTATATTAACCACAATCAAACAACATTTTGAAGTCAATTTGGACAACAATCTAAC
57919114 CACGATTTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (71 bp):
TTTTGGACACTATATTAACCACAATCAAACAACATTTTGAAGTCAATTTGGACAACAATCTAACA
ATAACT
Found at i:57921228 original size:42 final size:42
Alignment explanation
Indices: 57921182--57921301 Score: 131
Period size: 38 Copynumber: 3.0 Consensus size: 42
57921172 GTACATGGGA
* * *
57921182 TCTCACATCGATGCCATATCCGAGATATGGTCTTATACGAAT
1 TCTCACATCGACGCCATATCCCAGATATGGTCTTACACGAAT
** * *
57921224 TCTCATTTCGACGCCATGTCCCAGACATGGTCTTACACG-A-
1 TCTCACATCGACGCCATATCCCAGATATGGTCTTACACGAAT
* *
57921264 --TCATATCAACGCCATATCCCAGATATGGTCTTACACGA
1 TCTCACATCGACGCCATATCCCAGATATGGTCTTACACGA
57921302 TAACTCATAC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
38 33 0.50
41 1 0.02
42 32 0.48
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
TCTCACATCGACGCCATATCCCAGATATGGTCTTACACGAAT
Found at i:57925864 original size:15 final size:15
Alignment explanation
Indices: 57925832--57925860 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57925822 ATTTCCTATG
57925832 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
57925847 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
57925861 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:57927036 original size:43 final size:42
Alignment explanation
Indices: 57926988--57927156 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
57926978 TAGGGTTTTT
*
57926988 GATATGTGTTCTCATGTAAGACCATGTCTGGGACGTTGGCATC
1 GATATGTGATC-CATGTAAGACCATGTCTGGGACGTTGGCATC
* * * * **
57927031 GATATGTGATTACGTGGAAGACCATGTCTGGGACATCCGCATC
1 GATATGTGA-TCCATGTAAGACCATGTCTGGGACGTTGGCATC
* * *
57927074 G-TATTTGATCCATGTAAGACCCTGTCTGGGATAG-TGGCATC
1 GATATGTGATCCATGTAAGACCATGTCTGGGA-CGTTGGCATC
* * * *
57927115 GATATGAGATAGCATGTAAGACCACGTTTGGGACGTTGGCAT
1 GATATGTGAT-CCATGTAAGACCATGTCTGGGACGTTGGCAT
57927157 TGTACTATAT
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
41 25 0.26
42 13 0.13
43 59 0.60
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
GATATGTGATCCATGTAAGACCATGTCTGGGACGTTGGCATC
Found at i:57928604 original size:43 final size:43
Alignment explanation
Indices: 57928543--57928630 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
57928533 TTAGTTTAAT
57928543 GTGCAGATTGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCG
1 GTGCAGATTGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCG
57928586 GTGCAGATTGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCG
1 GTGCAGATTGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCG
57928629 GT
1 GT
57928631 CTCGGGACCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (43 bp):
GTGCAGATTGTGACAGCCCTAAAGTGACCCTAGTCAGAAAGCG
Found at i:57930441 original size:40 final size:41
Alignment explanation
Indices: 57930382--57930533 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
57930372 CATTTGAATG
* * *
57930382 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
57930422 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
57930462 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
57930502 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
57930534 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:57930545 original size:80 final size:80
Alignment explanation
Indices: 57930382--57930553 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
57930372 CATTTGAATG
* * * * *
57930382 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
57930447 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
57930462 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
57930526 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
57930542 ATATCC-GGCTAA
1 ATATCCGGGCTAA
57930554 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:57932192 original size:8 final size:8
Alignment explanation
Indices: 57932176--57932219 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
57932166 GTAAAACGTC
57932176 AAAAGGCTG
1 AAAA-GCTG
57932185 AAAAGCTG
1 AAAAGCTG
57932193 AAAAG-TCG
1 AAAAGCT-G
*
57932201 AAAAGGTG
1 AAAAGCTG
57932209 AAAAGCTG
1 AAAAGCTG
57932217 AAA
1 AAA
57932220 TGTGGGTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 1 0.03
8 26 0.81
9 5 0.16
ACGTcount: A:0.52, C:0.09, G:0.27, T:0.11
Consensus pattern (8 bp):
AAAAGCTG
Found at i:57932215 original size:24 final size:25
Alignment explanation
Indices: 57932168--57932219 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
57932158 TTTTAGATGT
57932168 AAAACGTCAAAAGGCTGAAAAGCTG
1 AAAACGTCAAAAGGCTGAAAAGCTG
57932193 AAAA-GTCGAAAAGG-TGAAAAGCTG
1 AAAACGTC-AAAAGGCTGAAAAGCTG
57932217 AAA
1 AAA
57932220 TGTGGGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.25, T:0.12
Consensus pattern (25 bp):
AAAACGTCAAAAGGCTGAAAAGCTG
Found at i:57956774 original size:70 final size:70
Alignment explanation
Indices: 57956687--57956829 Score: 207
Period size: 70 Copynumber: 2.0 Consensus size: 70
57956677 TCATTTCAAC
* ***
57956687 ATTTACAGATTAGTAATGGTT-AGGTGTGGGCGGTGTGGTTTCCAAGGGAGTGATCCAAGGAAGT
1 ATTTACAGATTAGTAATGGTTCA-GTGTAGGCGGTACAGTTTCCAAGGGAGTGATCCAAGGAAGT
57956751 CTGGTT
65 CTGGTT
* * *
57956757 ATTTACATATTAGTAATGGTTCAGTGTAGGCGGTACAGTTTCCAATGGAGTGATCTAAGGAAGTC
1 ATTTACAGATTAGTAATGGTTCAGTGTAGGCGGTACAGTTTCCAAGGGAGTGATCCAAGGAAGTC
57956822 TGGTT
66 TGGTT
57956827 ATT
1 ATT
57956830 CTTTGTAGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 64 0.98
71 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (70 bp):
ATTTACAGATTAGTAATGGTTCAGTGTAGGCGGTACAGTTTCCAAGGGAGTGATCCAAGGAAGTC
TGGTT
Found at i:57959173 original size:45 final size:45
Alignment explanation
Indices: 57959062--57959174 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
57959052 AGTGCCATGG
* * * *
57959062 TGTCTTTCAACTATTGTCTTACTTATTCTAGTCTTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
*
57959107 TATCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
57959152 TGTCTTTCAACCATGGTCTTATT
1 TGTCTTTCAACCATGGTCTTATT
57959175 CATTTTCCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (45 bp):
TGTCTTTCAACCATGGTCTTATTTATTCTAGTATTGATGCCATAA
Found at i:57959257 original size:45 final size:44
Alignment explanation
Indices: 57959062--57959308 Score: 166
Period size: 45 Copynumber: 5.5 Consensus size: 44
57959052 AGTGCCATGG
*
57959062 TGTCTTTCAACTATTGTCTTACTT-ATTCTAGTC-TTGATGCCATAA
1 TGTCTTTCAACTATGGTCTTA-TTCATT-TA-TCATTGATGCCATAA
* * *
57959107 TATCTTTCAACCATGGTCTTATTTATTCTAGT-ATTGATGCCATAA
1 TGTCTTTCAACTATGGTCTTATTCATT-TA-TCATTGATGCCATAA
* *
57959152 TGTCTTTCAACCATGGTCTTATTCATTT-TCCATTG-TGTCCCCATAG
1 TGTCTTTCAACTATGGTCTTATTCATTTAT-CATTGATG---CCATAA
* * *
57959198 TGTCTTTAAACTATGGTCTTATTTC-TTTGATTATTGATCCCATAA
1 TGTCTTTCAACTATGGTCTTA-TTCATTT-ATCATTGATGCCATAA
* * * * **
57959243 CGTCTTTCAGCTATGTTCTTACTCGATAGAATCA-TGATGCCATAA
1 TGTCTTTCAACTATGGTCTTATTC-AT-TTATCATTGATGCCATAA
** *
57959288 CATCTTTCAGCTATGGTCTTA
1 TGTCTTTCAACTATGGTCTTA
57959309 CTCAATAGAA
Statistics
Matches: 166, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 9 0.05
45 114 0.69
46 31 0.19
47 7 0.04
48 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (44 bp):
TGTCTTTCAACTATGGTCTTATTCATTTATCATTGATGCCATAA
Found at i:57959309 original size:45 final size:45
Alignment explanation
Indices: 57959231--57959445 Score: 250
Period size: 45 Copynumber: 4.8 Consensus size: 45
57959221 TCTTTGATTA
* *
57959231 TTGATCCCATAACGTCTTTCAGCTATGTTCTTACTCGATAGAATC
1 TTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
57959276 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCAATAGAATC
1 TTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * * * * * * * *
57959321 GTGATACCATAATGCCTTTTAGCTATGGTTTTAGTCGATATAATT
1 TTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
57959366 TTGATGCCATAACATCTTTCAGCTATGGTCTTACTCGAGAGAATT
1 TTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
57959411 TTGATGTCATAATGTCTTTCAGCTATAGTCTTACT
1 TTGATGCCATAACGTCTTTCAGCTATGGTCTTACT
57959446 TATTTCTGGT
Statistics
Matches: 140, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 140 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
Found at i:57965784 original size:29 final size:29
Alignment explanation
Indices: 57965742--57965799 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
57965732 TGAAAGTAGA
57965742 TTCATCAAGGTTTGTTTACATAATTTATT
1 TTCATCAAGGTTTGTTTACATAATTTATT
57965771 TTCATCAAGGTTTGTTTACATAATTTATT
1 TTCATCAAGGTTTGTTTACATAATTTATT
57965800 CACTATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (29 bp):
TTCATCAAGGTTTGTTTACATAATTTATT
Found at i:57966633 original size:40 final size:40
Alignment explanation
Indices: 57966589--57966850 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
57966579 GCTCCTCGTT
* *
57966589 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57966629 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
57966669 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57966708 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57966747 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
57966786 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
57966827 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57966851 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57972473 original size:35 final size:35
Alignment explanation
Indices: 57972427--57972499 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
57972417 TTGTCTAAAT
*
57972427 ACATAGGCTATCACTTTTCCTTCTTGCATAAGTAC
1 ACATAGGCTATCAATTTTCCTTCTTGCATAAGTAC
*
57972462 ACATAGGCTATCAATTTTCCTTCTTGCATTAGTAC
1 ACATAGGCTATCAATTTTCCTTCTTGCATAAGTAC
57972497 ACA
1 ACA
57972500 CCCTAATCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (35 bp):
ACATAGGCTATCAATTTTCCTTCTTGCATAAGTAC
Found at i:57974704 original size:47 final size:45
Alignment explanation
Indices: 57974599--57974759 Score: 182
Period size: 47 Copynumber: 3.4 Consensus size: 45
57974589 GTGACCTAGC
* * *
57974599 GTAAGACCATGTCTAGGACATGGCATCGACATTGAGATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGAC-TAGAGAT-ATAGC-AGT
*
57974647 GTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATAATAGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACTA-GAGAT-ATAG-CAGT
*
57974693 GTAAGACCATGTCTGGGACATGGCATTGACTAGAGATATGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACTAGAGATAT-AG-CAGT
*
57974740 GTAAGACCATGTATGGGACA
1 GTAAGACCATGTCTGGGACA
57974760 GGGCGTCAGT
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 26 0.26
47 58 0.59
48 14 0.14
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (45 bp):
GTAAGACCATGTCTGGGACATGGCATCGACTAGAGATATAGCAGT
Found at i:57980235 original size:39 final size:39
Alignment explanation
Indices: 57980118--57980378 Score: 302
Period size: 39 Copynumber: 6.6 Consensus size: 39
57980108 GCTCCTCGTT
* *
57980118 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57980158 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
57980198 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
57980237 CAAATGCCTTCGGGCTTAGCCC-GAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
57980275 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
57980314 CCAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
57980355 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
57980379 CATCATTCAA
Statistics
Matches: 201, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
38 38 0.19
39 90 0.45
40 61 0.30
41 12 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:57980294 original size:77 final size:79
Alignment explanation
Indices: 57980118--57980378 Score: 304
Period size: 77 Copynumber: 3.3 Consensus size: 79
57980108 GCTCCTCGTT
* *
57980118 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
57980181 GGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
*
57980198 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCC-GA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
57980261 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * **
57980275 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACCAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
57980339 ATATT-GTCACTTAGCA
65 A-ATTAGTAAC-TCGCA
57980355 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
57980379 CATCATTCAA
Statistics
Matches: 162, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
76 2 0.01
77 62 0.38
78 25 0.15
79 50 0.31
80 23 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:58000585 original size:48 final size:48
Alignment explanation
Indices: 58000514--58000840 Score: 311
Period size: 48 Copynumber: 6.8 Consensus size: 48
58000504 AATTACCATT
* * * *
58000514 CCATGTCCTAGACATGGTCTTACACTAGCTCACATGTCGA-GGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCCGATG
** * *
58000562 CCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTCAAT-GTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCCGATG
* * * * *
58000610 CCATGTCCCAGACATGGTCTTACTCTAGCTCTCGTAACATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCGATG
* * * * *
58000658 CCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCCGATG
* * * * *
58000706 CCATGTCCCAGACATAGTCTTACACTGGCTCTCATAACATTGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCGATG
* * * * *
58000754 CCATGTCCCAAACATGGTCTTACACTGGCCCTCATAAT-ATGGTCGTTG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCCGATG
* * *
58000802 CCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
58000841 CCCAAATGTA
Statistics
Matches: 230, Mismatches: 43, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
47 5 0.02
48 223 0.97
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCGATG
Found at i:58000678 original size:96 final size:93
Alignment explanation
Indices: 58000514--58000830 Score: 368
Period size: 96 Copynumber: 3.3 Consensus size: 93
58000504 AATTACCATT
* * ** * *
58000514 CCATGTCCTAGACATGGTCTTACACTAGCTCACATGTCGA-GGCCAATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAC-ATTGCCAATGCCATGTCCCAAACATG
*
58000578 GTCTTACACTAGCTCTTGTC-TCAATGTCGATG
65 GTCTTACACTGGCTC---TCAT-AATGTCGATG
* * * * *
58000610 CCATGTCCCAGACATGGTCTTACTCTAGCTCTCGTAACATTGTCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATTGCCAATGCCATGTCCCAAACATGG
58000675 TCTTACACTGGCTCTCATAATGTGGCTGATG
66 TCTTACACTGGCTCTCATAATGT--C-GATG
* *
58000706 CCATGTCCCAGACATAGTCTTACACTGGCTCTCATAACATTGCCAATGCCATGTCCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATTGCCAATGCCATGTCCCAAACATGG
* *
58000771 TCTTACACTGGCCCTCATAATATGGTCGTTG
66 TCTTACACTGGCTCTCAT-A-AT-GTCGATG
*
58000802 CCATGTCCTAGACATGGTCTTACACTAGC
1 CCATGTCCCAGACATGGTCTTACACTAGC
58000831 ACACATATCA
Statistics
Matches: 189, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
93 7 0.04
94 1 0.01
95 2 0.01
96 173 0.92
97 2 0.01
98 2 0.01
99 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATTGCCAATGCCATGTCCCAAACATGG
TCTTACACTGGCTCTCATAATGTCGATG
Found at i:58000774 original size:144 final size:144
Alignment explanation
Indices: 58000514--58000827 Score: 371
Period size: 144 Copynumber: 2.2 Consensus size: 144
58000504 AATTACCATT
* * * * * ** *
58000514 CCATGTCCTAGACATGGTCTTACACTAGCTCACAT-GTCGAGGCCAATGCCATGTCCCAGACATG
1 CCATGTCCTAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCCATGTCCCAGACATA
** ** * * * * *
58000578 GTCTTACACTAGCTCTTGTCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTC
65 GTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCCCTC
* *
58000643 GTAACATTGTCGATG
130 ATAACATGGTCGATG
58000658 CCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACATA
1 CCATG-TCCTAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACATA
* * *
58000722 GTCTTACACTGGCTCTCATAACATTGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCCCTC
65 GTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCCCTC
* *
58000787 ATAATATGGTCGTTG
130 ATAACATGGTCGATG
*
58000802 CCATGTCCTAGACATGGTCTTACACT
1 CCATGTCCTAAACATGGTCTTACACT
58000828 AGCACACATA
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
143 3 0.02
144 135 0.95
145 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (144 bp):
CCATGTCCTAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACATAG
TCTTACACTAGCTCTCATAACAATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCCCTCA
TAACATGGTCGATG
Found at i:58004283 original size:45 final size:45
Alignment explanation
Indices: 58004152--58004313 Score: 132
Period size: 45 Copynumber: 3.6 Consensus size: 45
58004142 TCAAAGAGTG
* * * * * * * *
58004152 CCATGGTGTCTTTCAACCATGGTGTTATTTA-TTCTCGTCTTAATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTC-CATCGTGATC
* *
58004197 CCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCATCGTGTTC
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCATCGTGATC
* * *
58004242 CCATAGTGGCTTTCAACTATGGTCTTATTTC-TTT-GATTCGTGATG
1 CCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTCCA-TCGTGATC
** *
58004287 CCATAACGTCTTTCAGCTATGGTCTTA
1 CCATAGTGTCTTTCAACTATGGTCTTA
58004314 CTTGACAGAA
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.01
45 90 0.93
46 6 0.06
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.43
Consensus pattern (45 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCATCGTGATC
Found at i:58004376 original size:44 final size:45
Alignment explanation
Indices: 58004282--58004451 Score: 234
Period size: 45 Copynumber: 3.8 Consensus size: 45
58004272 CTTTGATTCG
* * **
58004282 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTTGACAGAATCG
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
* *
58004327 TGATGCCATAACGTCTTTCAGCTAT-GTCTTAGTCGATATAATTT
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
**
58004371 TGATGCCATAATTTCTTTCAGCTATGGTCTTACTCGATAGAATTT
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
* * *
58004416 TGATGTCATAACGTCTTTTAGCTATAGTCTTACTCG
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCG
58004452 TTTATTGTAT
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 36 0.33
45 73 0.67
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
Found at i:58004397 original size:89 final size:90
Alignment explanation
Indices: 58004282--58004447 Score: 253
Period size: 89 Copynumber: 1.9 Consensus size: 90
58004272 CTTTGATTCG
*
58004282 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTTGACAGAATCGTGATGCCATAACGTCTTTCA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGACAGAATCGTGATGCCATAACGTCTTTCA
58004347 GCTAT-GTCTTAGTCGATATAATTT
66 GCTATAGTCTTAGTCGATATAATTT
** * ** * *
58004371 TGATGCCATAATTTCTTTCAGCTATGGTCTTACTCGATAGAATTTTGATGTCATAACGTCTTTTA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGACAGAATCGTGATGCCATAACGTCTTTCA
58004436 GCTATAGTCTTA
66 GCTATAGTCTTA
58004448 CTCGTTTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
89 62 0.91
90 6 0.09
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (90 bp):
TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGACAGAATCGTGATGCCATAACGTCTTTCA
GCTATAGTCTTAGTCGATATAATTT
Found at i:58009287 original size:28 final size:28
Alignment explanation
Indices: 58009230--58009382 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
58009220 TAAATGGTGC
* *
58009230 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
58009257 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
58009285 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
58009313 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * * *
58009341 AGCACTAGGTGTTCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
58009368 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58009383 GACTTAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 36 0.32
28 78 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:58009364 original size:83 final size:83
Alignment explanation
Indices: 58009230--58009382 Score: 227
Period size: 83 Copynumber: 1.8 Consensus size: 83
58009220 TAAATGGTGC
* *
58009230 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
58009295 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * * *
58009313 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTTCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
58009377 TGTGCG
65 TGTGCG
58009383 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 38 0.61
84 24 0.39
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:58017485 original size:43 final size:43
Alignment explanation
Indices: 58017417--58017502 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
58017407 ATCACATGTA
58017417 TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTTGGATGC
* **
58017460 TCGCATCCATAATGAAGTCGGACCTCTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTTGGATGC
58017503 CATATATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTTGGATGC
Found at i:58027354 original size:43 final size:43
Alignment explanation
Indices: 58027293--58027378 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
58027283 ATCACATGTA
58027293 TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
* * * * *
58027336 TCGCATCTATAATGAACTCGGACCTCTTAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
58027379 CACATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCTCTCAACAAGCTCGGATGC
Found at i:58029632 original size:17 final size:17
Alignment explanation
Indices: 58029610--58029644 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58029600 GGAAAAATAA
58029610 GTCATTTTGGTCATTTG
1 GTCATTTTGGTCATTTG
58029627 GTCATTTTGGTCATTTG
1 GTCATTTTGGTCATTTG
58029644 G
1 G
58029645 CCTTGTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.26, T:0.51
Consensus pattern (17 bp):
GTCATTTTGGTCATTTG
Found at i:58029644 original size:8 final size:9
Alignment explanation
Indices: 58029610--58029642 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
58029600 GGAAAAATAA
58029610 GTCATTTTG
1 GTCATTTTG
58029619 GTCA-TTTG
1 GTCATTTTG
58029627 GTCATTTTG
1 GTCATTTTG
58029636 GTCATTT
1 GTCATTT
58029643 GGCCTTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (9 bp):
GTCATTTTG
Found at i:58035420 original size:37 final size:37
Alignment explanation
Indices: 58035361--58035432 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
58035351 AGCTCAGACG
*
58035361 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* *
58035398 AAATCTTCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
58035433 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:58035694 original size:98 final size:95
Alignment explanation
Indices: 58035578--58035760 Score: 269
Period size: 98 Copynumber: 1.9 Consensus size: 95
58035568 GCACATCGCC
* *
58035578 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATA-TTCACATT
*
58035643 -GACCATTTAGCTTTACCACATATGCATATCTCA
63 AG-CCATTCAGCTTTACCACATATGCATATCTCA
* *
58035676 TACATACTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTCACATTAGC
1 TACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTCACATTAGC
*
58035741 CATTCGGCTTTACCACATAT
66 CATTCAGCTTTACCACATAT
58035761 ATGCATGTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
95 27 0.35
96 7 0.09
98 44 0.56
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (95 bp):
TACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTCACATTAGC
CATTCAGCTTTACCACATATGCATATCTCA
Found at i:58035706 original size:48 final size:48
Alignment explanation
Indices: 58035578--58035761 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
58035568 GCACATCGCC
*
58035578 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* ** *
58035628 TATATATTTCACATT-GACCATTTAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
58035676 TACATACTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
58035724 TACATA-TTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
58035762 TGCATGTTCA
Statistics
Matches: 121, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
47 32 0.26
48 47 0.39
49 2 0.02
50 40 0.33
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:58035783 original size:47 final size:47
Alignment explanation
Indices: 58035731--58035924 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
58035721 TCATACATAT
* * * *
58035731 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
58035778 CCACATTGGCCATTCGGCCTTATCACACATATGCATGGTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
58035825 TCACATTGGCCATTCGGCCTTATCACCTATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
58035872 TCACATTGGTCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58035919 TCACAT
1 TCACAT
58035925 AAAATTCCTA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58048611 original size:129 final size:127
Alignment explanation
Indices: 58048380--58048639 Score: 439
Period size: 129 Copynumber: 2.0 Consensus size: 127
58048370 ACCTCTAATT
*
58048380 AAATTCCTTCTATTTTTGGTGATTTTTGAAAAATCACGACACTGATACTGTTCAAAACAGTTTTA
1 AAATTCCTTCTATTTTTGGTGATTTTTGAAAAATCACGACACTGATACTGTCCAAAACAGTTTTA
*
58048445 ATGCTAATTTCACTCTTTCACACATTCTTTGTACTAACCTCATTTTAACTTATATATATATCAC
66 ATGCTAATTTCACTCTTTCACACATTATTTGTACTAACCTCATTTTAAC-T-TATATATATCAC
* * * *
58048509 AAATTCCTTCTATTTTTTGTGATTTTTTAAAAATTACGTCACTGATACTGTCCAAAACAGTTTTA
1 AAATTCCTTCTATTTTTGGTGATTTTTGAAAAATCACGACACTGATACTGTCCAAAACAGTTTTA
*
58048574 ATGCTAATTTCACTCTTTCACACATTATTTGTGCTAACCTCATTTTAACTTATATATATCAC
66 ATGCTAATTTCACTCTTTCACACATTATTTGTACTAACCTCATTTTAACTTATATATATCAC
58048636 AAAT
1 AAAT
58048640 CATTTTCACT
Statistics
Matches: 124, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
127 16 0.13
128 1 0.01
129 107 0.86
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (127 bp):
AAATTCCTTCTATTTTTGGTGATTTTTGAAAAATCACGACACTGATACTGTCCAAAACAGTTTTA
ATGCTAATTTCACTCTTTCACACATTATTTGTACTAACCTCATTTTAACTTATATATATCAC
Found at i:58056115 original size:40 final size:40
Alignment explanation
Indices: 58056064--58056286 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
58056054 TTGAATGCTG
* * * * *
58056064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* *
58056104 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
58056144 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
58056184 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
58056224 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
58056263 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58056287 TGAACGAGGA
Statistics
Matches: 166, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 123 0.74
41 8 0.05
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:58056306 original size:79 final size:80
Alignment explanation
Indices: 58056064--58056321 Score: 234
Period size: 80 Copynumber: 3.2 Consensus size: 80
58056054 TTGAATGCTG
* * * * * * ** *
58056064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGTTCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* ** ** *
58056128 CGTGCGAGTTGTTAAA
65 TGAACGAGGAGCTAAA
** *
58056144 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** ** *
58056209 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * *
58056224 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
58056288 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
58056303 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58056322 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 86 0.56
81 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGGAGCTAAA
Found at i:58060560 original size:40 final size:40
Alignment explanation
Indices: 58060463--58060648 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
58060453 TTGAATGATG
* * * * *
58060463 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
58060503 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58060543 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58060583 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
58060624 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
58060649 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58060655 original size:40 final size:40
Alignment explanation
Indices: 58060463--58060681 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
58060453 TTGAATGATG
* * * * * *
58060463 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
58060503 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58060543 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAA
58060583 TCCGGGTTAAG-TCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTTC-CGAAGGCATTTGTGCGAGTTACTA-AA
* * ** *
58060624 -CCGGGCTATGTTCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTA-CTAAA
*
58060663 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTTCCGAAGG
58060682 TACGTGATTT
Statistics
Matches: 151, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 17 0.11
40 123 0.81
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58068498 original size:78 final size:81
Alignment explanation
Indices: 58068377--58068560 Score: 225
Period size: 78 Copynumber: 2.3 Consensus size: 81
58068367 TTGAATGATG
*
58068377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCAT
58068440 TTGTGCGAGATACTA-A
65 TTGTGCGAGATACTATA
* * * * **
58068456 TCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
*
58068519 TGTGCGAGTTACTATA
66 TGTGCGAGATACTATA
* * *
58068535 ACCGGACTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58068561 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
77 1 0.01
78 49 0.55
79 25 0.28
80 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:58068522 original size:40 final size:40
Alignment explanation
Indices: 58068377--58068560 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
58068367 TTGAATGATG
* * * *
58068377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
58068417 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58068456 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58068495 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
58068536 -CCGGACTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58068561 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 23 0.18
39 23 0.18
40 70 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58068578 original size:80 final size:77
Alignment explanation
Indices: 58068430--58068593 Score: 195
Period size: 80 Copynumber: 2.1 Consensus size: 77
58068420 GGACTAAGAT
* ** **
58068430 CCGAAGGCATTTGTGCGAGATACTAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGATACTAAACCGGACTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
58068495 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
* *
58068508 CCGAAGGCATTTGTGCGAGTTACTATAACCGGACTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGATACTA-AACCGGACTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
58068572 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
58068587 CCGAAGG
1 CCGAAGG
58068594 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 24 0.33
79 24 0.33
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAAACCGGACTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:58101775 original size:10 final size:10
Alignment explanation
Indices: 58101760--58101791 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
58101750 ATTATTAACA
58101760 TAATGAATTT
1 TAATGAATTT
58101770 TAATGAATTT
1 TAATGAATTT
*
58101780 TAATTAATTT
1 TAATGAATTT
58101790 TA
1 TA
58101792 TAATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (10 bp):
TAATGAATTT
Found at i:58101795 original size:32 final size:31
Alignment explanation
Indices: 58101759--58101821 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
58101749 AATTATTAAC
*
58101759 ATAATGAATTTTAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATGAATTTTAATT-ATTTT
* * *
58101791 ATAATAAATTTTGATTAATTTTGATTATTTT
1 ATAATAAATTTTAATGAATTTTAATTATTTT
58101822 CGACAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (31 bp):
ATAATAAATTTTAATGAATTTTAATTATTTT
Found at i:58101800 original size:22 final size:22
Alignment explanation
Indices: 58101770--58101812 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
58101760 TAATGAATTT
*
58101770 TAATGAATTTTAATTAATTTTA
1 TAATAAATTTTAATTAATTTTA
*
58101792 TAATAAATTTTGATTAATTTT
1 TAATAAATTTTAATTAATTTT
58101813 GATTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TAATAAATTTTAATTAATTTTA
Found at i:58101810 original size:10 final size:10
Alignment explanation
Indices: 58101760--58101821 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
58101750 ATTATTAACA
*
58101760 TAATGAATTT
1 TAATTAATTT
*
58101770 TAATGAATTT
1 TAATTAATTT
58101780 TAATTAATTTT
1 TAATTAA-TTT
*
58101791 ATAATAAATTT
1 -TAATTAATTT
*
58101802 TGATTAATTT
1 TAATTAATTT
*
58101812 TGATT-ATTT
1 TAATTAATTT
58101821 T
1 T
58101822 CGACAGATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 5 0.11
10 29 0.63
11 6 0.13
12 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (10 bp):
TAATTAATTT
Found at i:58106724 original size:27 final size:27
Alignment explanation
Indices: 58106686--58106781 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
58106676 ATTATGCCTT
*
58106686 TGTGCCAATCATATTTACCTGTGGCTA
1 TGTGCCGATCATATTTACCTGTGGCTA
* * * *
58106713 TGTGCCTATCATATTTA-TTGATGACTT
1 TGTGCCGATCATATTTACCTG-TGGCTA
* **
58106740 TGTGTCGATCATATTTACCCATGGCTA
1 TGTGCCGATCATATTTACCTGTGGCTA
*
58106767 TGTGCCGATTATATT
1 TGTGCCGATCATATT
58106782 ACCGTTGCTG
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
TGTGCCGATCATATTTACCTGTGGCTA
Found at i:58107092 original size:27 final size:27
Alignment explanation
Indices: 58107025--58107092 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
58107015 TGTTACTGAG
* * ** *
58107025 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
58107051 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
58107078 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
58107093 CTTATGCTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:58107877 original size:19 final size:19
Alignment explanation
Indices: 58107850--58107892 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
58107840 TAATAGCTTG
*
58107850 AAGGCTTGCGAAAATTATA
1 AAGGTTTGCGAAAATTATA
58107869 AAGGTTTGCGAAAATTATA
1 AAGGTTTGCGAAAATTATA
58107888 AAGGT
1 AAGGT
58107893 ATAAAATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (19 bp):
AAGGTTTGCGAAAATTATA
Found at i:58111925 original size:34 final size:33
Alignment explanation
Indices: 58111879--58111975 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 33
58111869 TCTGATATGG
58111879 TACTGAATTGGGCTAAGGCCCACACTGTTATTGC
1 TACTGAA-TGGGCTAAGGCCCACACTGTTATTGC
* * *
58111913 TACTGTAATGGGCTAAGGCCTACATTGATATTGC
1 TACTG-AATGGGCTAAGGCCCACACTGTTATTGC
*
58111947 TACTGATATGGGCTTAA-GCCCAGACTGTT
1 TACTGA-ATGGGC-TAAGGCCCACACTGTT
58111976 CAGCACTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 1 0.02
34 47 0.89
35 5 0.09
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (33 bp):
TACTGAATGGGCTAAGGCCCACACTGTTATTGC
Found at i:58113757 original size:7 final size:7
Alignment explanation
Indices: 58113745--58113834 Score: 81
Period size: 7 Copynumber: 12.3 Consensus size: 7
58113735 ATTTTAAGTG
58113745 AGGGTTT
1 AGGGTTT
58113752 AGGGTTT
1 AGGGTTT
58113759 AGGGTTTT
1 AGGG-TTT
*
58113767 AGTGTTTT
1 AG-GGTTT
*
58113775 AGTGTTT
1 AGGGTTT
58113782 AGGGTTT
1 AGGGTTT
**
58113789 AAGTTTTT
1 -AGGGTTT
58113797 AGGGTTT
1 AGGGTTT
*
58113804 AGGTTTT
1 AGGGTTT
*
58113811 AAGGTTT
1 AGGGTTT
58113818 AGGGTTTT
1 AGGG-TTT
*
58113826 AAGGTTT
1 AGGGTTT
58113833 AG
1 AG
58113835 AGACAGAAGT
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
7 43 0.66
8 21 0.32
9 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (7 bp):
AGGGTTT
Found at i:58113773 original size:15 final size:15
Alignment explanation
Indices: 58113745--58113834 Score: 96
Period size: 15 Copynumber: 6.1 Consensus size: 15
58113735 ATTTTAAGTG
58113745 AGGG-TTTAGGGTTT
1 AGGGTTTTAGGGTTT
*
58113759 AGGGTTTTAGTGTTTT
1 AGGGTTTTAG-GGTTT
*
58113775 AGTG-TTTAGGGTTT
1 AGGGTTTTAGGGTTT
* *
58113789 AAGTTTTTAGGGTTT
1 AGGGTTTTAGGGTTT
*
58113804 A-GGTTTTAAGGTTT
1 AGGGTTTTAGGGTTT
*
58113818 AGGGTTTTAAGGTTT
1 AGGGTTTTAGGGTTT
58113833 AG
1 AG
58113835 AGACAGAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
14 21 0.33
15 36 0.56
16 7 0.11
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (15 bp):
AGGGTTTTAGGGTTT
Found at i:58114389 original size:68 final size:68
Alignment explanation
Indices: 58114306--58114442 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
58114296 TACCAAAACA
58114306 TCCTTGATCTTTCCTTTAGGATATGCTAATGATCGATCAACTAGTTGAAGTGTTAGAGTAGTGGG
1 TCCTTGATCTTTCCTTTAGGATATGCTAATGATCGATCAACTAGTTGAAGTGTTAGAGTAGTGGG
58114371 TCT
66 TCT
58114374 TCCTTGATCTTTCCTTTAGGATATGCTAATGATCGATCAACTAGTTGAAGTGTTAGAGTAGTGGG
1 TCCTTGATCTTTCCTTTAGGATATGCTAATGATCGATCAACTAGTTGAAGTGTTAGAGTAGTGGG
58114439 TCT
66 TCT
58114442 T
1 T
58114443 TCTTCACCTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (68 bp):
TCCTTGATCTTTCCTTTAGGATATGCTAATGATCGATCAACTAGTTGAAGTGTTAGAGTAGTGGG
TCT
Found at i:58116773 original size:16 final size:18
Alignment explanation
Indices: 58116738--58116774 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
58116728 AGTAATCCCT
*
58116738 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
58116756 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
58116772 ATG
1 ATG
58116775 TATGAATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:58130192 original size:27 final size:27
Alignment explanation
Indices: 58130108--58130319 Score: 187
Period size: 27 Copynumber: 7.9 Consensus size: 27
58130098 TTACCCTACA
** **
58130108 GGGGTATTTCGGTAATTTTACAAA-TT
1 GGGGTATTTTAGTAATTTTACAAACCG
** **
58130134 GGGGTATTCGA-TAATTTTACAAACTA
1 GGGGTATTTTAGTAATTTTACAAACCG
* **
58130160 GAGGTATTTT-GATAATTTTTTAAACCG
1 GGGGTATTTTAG-TAATTTTACAAACCG
*
58130187 GGGGTATTTTAGTAATTTTACAAATCG
1 GGGGTATTTTAGTAATTTTACAAACCG
* ** *
58130214 GGGGTGTTTCGGTAGTTTTACAAACCG
1 GGGGTATTTTAGTAATTTTACAAACCG
**
58130241 GGGGTATTTTAGTAATTTTACAAACTA
1 GGGGTATTTTAGTAATTTTACAAACCG
*
58130268 GGGGTATTTCAGTAATTTTACAAACCG
1 GGGGTATTTTAGTAATTTTACAAACCG
* **
58130295 AGAGGTATTTCGGTAATTTTACAAA
1 -GGGGTATTTTAGTAATTTTACAAA
58130320 TCGAGGGTTT
Statistics
Matches: 150, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
25 12 0.08
26 16 0.11
27 99 0.66
28 23 0.15
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGGTATTTTAGTAATTTTACAAACCG
Found at i:58130207 original size:54 final size:54
Alignment explanation
Indices: 58130107--58130319 Score: 209
Period size: 54 Copynumber: 4.0 Consensus size: 54
58130097 TTTACCCTAC
* * ** **
58130107 AGGGGTATTTCGGTAATTTTACAAA-TTGGGGTATTCGA-TAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTTAGTAATTTTACAAACT
* **
58130159 AGAGGTATTTTGATAATTTTTTAAACCGGGGGTATTTTAGTAATTTTACAAA-T
1 AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTTAGTAATTTTACAAACT
* * * * *
58130212 CGGGGGTGTTTCGGTAGTTTTACAAACCGGGGGTATTTTAGTAATTTTACAAACT
1 -AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTTAGTAATTTTACAAACT
* * **
58130267 AGGGGTA-TTTCAGTAATTTTACAAACCGAGAGGTATTTCGGTAATTTTACAAA
1 AGGGGTATTTTGA-TAATTTTACAAACCG-GGGGTATTTTAGTAATTTTACAAA
58130320 TCGAGGGTTT
Statistics
Matches: 129, Mismatches: 26, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
52 20 0.16
53 12 0.09
54 75 0.58
55 22 0.17
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTTGATAATTTTACAAACCGGGGGTATTTTAGTAATTTTACAAACT
Found at i:58130257 original size:81 final size:80
Alignment explanation
Indices: 58130106--58130319 Score: 243
Period size: 81 Copynumber: 2.6 Consensus size: 80
58130096 TTTTACCCTA
* * * * *
58130106 CAGGGGTATTTCGGTAATTTTACAAAT-TGGGGTATTCGATAATTTTACAAACTAGAGGTATTTT
1 CAGGGGTATTTCAGTAATTTTACAAATCGGGGGTTTTCGGTAATTTTACAAACCAGAGGTATTTT
**
58130170 GATAATTTTTTAAAC
66 GATAATTTTACAAAC
* * * * *
58130185 CGGGGGTATTTTAGTAATTTTACAAATCGGGGGTGTTTCGGTAGTTTTACAAACCGGGGGTATTT
1 CAGGGGTATTTCAGTAATTTTACAAATCGGGGGT-TTTCGGTAATTTTACAAACCAGAGGTATTT
58130250 T-AGTAATTTTACAAAC
65 TGA-TAATTTTACAAAC
* * *
58130266 TAGGGGTATTTCAGTAATTTTACAAACCGAGAGGTATTTCGGTAATTTTACAAA
1 CAGGGGTATTTCAGTAATTTTACAAATCG-GGGGT-TTTCGGTAATTTTACAAA
58130320 TCGAGGGTTT
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 24 0.21
80 6 0.05
81 61 0.54
82 21 0.19
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (80 bp):
CAGGGGTATTTCAGTAATTTTACAAATCGGGGGTTTTCGGTAATTTTACAAACCAGAGGTATTTT
GATAATTTTACAAAC
Found at i:58131822 original size:40 final size:40
Alignment explanation
Indices: 58131539--58131810 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
58131529 GAGAATTGAG
*
58131539 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
58131579 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
58131619 AGTGATGTATCCGGACTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
58131659 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
58131699 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
58131739 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
58131779 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
58131811 ATCATGCTGG
Statistics
Matches: 213, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Done.