Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 97 of 328
Found at i:27063908 original size:19 final size:19
Alignment explanation
Indices: 27063884--27063922 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27063874 TTGTAGATCC
27063884 ACTTACATTCTATGCGTTT
1 ACTTACATTCTATGCGTTT
27063903 ACTTACATTCTATGCGTTT
1 ACTTACATTCTATGCGTTT
27063922 A
1 A
27063923 ATCTGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (19 bp):
ACTTACATTCTATGCGTTT
Found at i:27067021 original size:18 final size:19
Alignment explanation
Indices: 27066998--27067035 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
27066988 TGCAAATGAA
27066998 TCATTTCCATTTTC-TTTT
1 TCATTTCCATTTTCATTTT
27067016 TCATTTCCATTTTCATTTT
1 TCATTTCCATTTTCATTTT
27067035 T
1 T
27067036 GGAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (19 bp):
TCATTTCCATTTTCATTTT
Found at i:27102193 original size:16 final size:18
Alignment explanation
Indices: 27102157--27102193 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
27102147 TTAATTGTTT
*
27102157 GGGATTATTCGATTCATG
1 GGGATTATTCGATTAATG
27102175 GGGATT-TTC-ATTAATG
1 GGGATTATTCGATTAATG
27102191 GGG
1 GGG
27102194 TAATCTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 3 0.17
18 6 0.33
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (18 bp):
GGGATTATTCGATTAATG
Found at i:27113293 original size:17 final size:18
Alignment explanation
Indices: 27113271--27113304 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
27113261 AGTTGAATTG
27113271 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
27113288 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
27113305 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:27114057 original size:10 final size:10
Alignment explanation
Indices: 27114030--27114077 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
27114020 TTAAAATTTA
27114030 AAAGATAAAT
1 AAAGATAAAT
*
27114040 -ACGAATAAAT
1 AAAG-ATAAAT
*
27114050 AAAGATAATT
1 AAAGATAAAT
27114060 AAAGATAAAT
1 AAAGATAAAT
27114070 AAAGATAA
1 AAAGATAA
27114078 GTGAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:27114087 original size:20 final size:19
Alignment explanation
Indices: 27114043--27114089 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
27114033 GATAAATACG
*
27114043 AATAAATAAAGATAATTAA
1 AATAAATAAAGATAATGAA
27114062 AGATAAATAAAGATAAGTGAA
1 A-ATAAATAAAGATAA-TGAA
27114083 AATAAAT
1 AATAAAT
27114090 CCTAAAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.80
21 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (19 bp):
AATAAATAAAGATAATGAA
Found at i:27114741 original size:18 final size:17
Alignment explanation
Indices: 27114710--27114743 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27114700 AATATGTCTT
*
27114710 TTTTTTTCTTTTTTCTC
1 TTTTTTTCTATTTTCTC
27114727 TTTTTTTCTAATTTTCT
1 TTTTTTTCT-ATTTTCT
27114744 AATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTATTTTCTC
Found at i:27114788 original size:24 final size:24
Alignment explanation
Indices: 27114743--27114788 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
27114733 TCTAATTTTC
*
27114743 TAATTTATTTTTTTTAATTTAATT
1 TAATTTATTTTTTTTAACTTAATT
27114767 TAATTTATTTATTTTT-ACTTAA
1 TAATTTATTT-TTTTTAACTTAA
27114789 GAATATATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TAATTTATTTTTTTTAACTTAATT
Found at i:27114898 original size:96 final size:96
Alignment explanation
Indices: 27114774--27114956 Score: 287
Period size: 96 Copynumber: 1.9 Consensus size: 96
27114764 ATTTAATTTA
* * **
27114774 TTTATTTTTACTTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
*
27114839 CCCCGGTTACTCAGCCTAACATACTCCTAATT
66 -CCCGGTTACTCAGCCCAACATACTCCTAATT
*
27114871 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCTTA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
*
27114935 CCTGGTTACTCAGCCCAACATA
66 CCCGGTTACTCAGCCCAACATA
27114957 TTCTTAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 20 0.25
96 50 0.63
97 9 0.11
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (96 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
CCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:27116035 original size:5 final size:5
Alignment explanation
Indices: 27116025--27116097 Score: 57
Period size: 5 Copynumber: 15.4 Consensus size: 5
27116015 AGTAATAAAT
* * * * *
27116025 AATAA AATAA AATAA AGT-- AATAA ATAAAA AAGAA AACAA AA-AT AAT-A
1 AATAA AATAA AATAA AATAA AATAA A-ATAA AATAA AATAA AATAA AATAA
27116072 AATAA AAT-A AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
27116098 ATTAGGTTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
3 2 0.04
4 10 0.18
5 39 0.71
6 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:27116042 original size:25 final size:24
Alignment explanation
Indices: 27116010--27116099 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 24
27116000 ATTAATATCC
*
27116010 AATAAAGTAATAAATAATAAAATAA
1 AATAAAATAATAAATAA-AAAATAA
* *
27116035 AATAAAGTAATAAATAAAAAAGAA
1 AATAAAATAATAAATAAAAAATAA
*
27116059 AACAAAAATAATAAATAAAATAAATAA
1 AA-TAAAATAATAAAT-AAA-AAATAA
27116086 AATAAAATAA-AAAT
1 AATAAAATAATAAAT
27116100 TAGGTTGCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 8 0.14
25 32 0.56
26 10 0.18
27 7 0.12
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (24 bp):
AATAAAATAATAAATAAAAAATAA
Found at i:27119796 original size:10 final size:10
Alignment explanation
Indices: 27119777--27119826 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
27119767 TCAAATTTTA
27119777 AAAGATAAAT
1 AAAGATAAAT
27119787 ACAA-ATAAAT
1 A-AAGATAAAT
27119797 AAAGATAAAT
1 AAAGATAAAT
27119807 AAAGATAAAT
1 AAAGATAAAT
27119817 GAAA-ATAAAT
1 -AAAGATAAAT
27119827 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:27120415 original size:48 final size:48
Alignment explanation
Indices: 27120296--27120521 Score: 278
Period size: 48 Copynumber: 4.7 Consensus size: 48
27120286 ATGAGCTCCT
* ** *
27120296 GTGTAAGACCATGTCTAGGACATGGCATC-GACATTTGAGATAAGAACCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAG-CA-TTGATATGTGAGCCA
* * *
27120345 GTGTAAGACCATGT-TTGAGACATGGCATCATCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTAG-GACATGGCATCAGCATTGATATGTGAGCCA
*
27120393 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGAGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCATTGATATGTGAGCCA
* * * *
27120441 GTGTAAGACCATGTCT-GACACATGGCATCGGCATTGATATGTGTGCTA
1 GTGTAAGACCATGTCTAG-GACATGGCATCAGCATTGATATGTGAGCCA
*
27120489 GTGTAAGACCATGTCTGGGACATGGCATCAGCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCA
27120522 CTGACATGAG
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 126 0.81
49 29 0.19
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCATTGATATGTGAGCCA
Found at i:27120478 original size:96 final size:97
Alignment explanation
Indices: 27120296--27120517 Score: 320
Period size: 96 Copynumber: 2.3 Consensus size: 97
27120286 ATGAGCTCCT
*
27120296 GTGTAAGACCATGTCTAGGACATGGCATCGACATTTGAGATAAGAACCAGTGTAAGACCATGTTT
1 GTGTAAGACCATGTCTAGGACATGGCATCGACATTTGAGATAAGAACCAGTGTAAGACCATGTCT
* * *
27120361 GAGACATGGCATCATCGTTGATATGTGAGCCA
66 GACACATGGCATCAGCATTGATATGTGAGCCA
* * ** *
27120393 GTGTAAGACCATGTCTAGGACATGGCATCGGCA-TTGATATGTGAGCCAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTAGGACATGGCATCGACATTTGAGATAAGAACCAGTGTAAGACCATGTCT
* * *
27120457 GACACATGGCATCGGCATTGATATGTGTGCTA
66 GACACATGGCATCAGCATTGATATGTGAGCCA
*
27120489 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTCTAGGACATGGCATC
27120518 AGCACTGACA
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 80 0.71
97 32 0.29
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (97 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGACATTTGAGATAAGAACCAGTGTAAGACCATGTCT
GACACATGGCATCAGCATTGATATGTGAGCCA
Found at i:27120564 original size:96 final size:96
Alignment explanation
Indices: 27120296--27120553 Score: 252
Period size: 96 Copynumber: 2.7 Consensus size: 96
27120286 ATGAGCTCCT
* * * * * * *
27120296 GTGTAAGACCATGTCTAGGACATGGCATC-GACATTTGAGATAAGAACCAGTGTAAGACCATGTT
1 GTGTAAGACCATGTCTAGGACATGGCATCAG-CA-CTGACATGAGAGCCAGTATAAGACCATATC
* * ** *
27120360 TGAGACATGGCATCATCGTTGATATGTGAGCCA
64 CGACACATGGCATCGGCATTGATATGTGAGCCA
* * * * * * *
27120393 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCACTGACATGAGAGCCAGTATAAGACCATATCCG
* *
27120458 ACACATGGCATCGGCATTGATATGTGTGCTA
66 ACACATGGCATCGGCATTGATATGTGAGCCA
* *
27120489 GTGTAAGACCATGTCTGGGACATGGCATCAGCACTGACATGAGA-CTTC-TTATAAGACCATATC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCACTGACATGAGAGC--CAGTATAAGACCATATC
27120552 CG
64 CG
27120554 GGATATGGCA
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
95 1 0.01
96 104 0.75
97 32 0.23
98 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (96 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCACTGACATGAGAGCCAGTATAAGACCATATCCG
ACACATGGCATCGGCATTGATATGTGAGCCA
Found at i:27126193 original size:48 final size:47
Alignment explanation
Indices: 27126118--27126289 Score: 184
Period size: 48 Copynumber: 3.6 Consensus size: 47
27126108 GTAAGATGCT
* * *
27126118 GATGCCAT-ATCCTAAACATGGTTTTACACTAGCTCTCGTAACAAAGC
1 GATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAACAAAGC
* * *** *
27126165 AGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGTC
1 -GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAAAG-C
* * *
27126214 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAAAG-C
*
27126262 GATGCCATATTCCAAACATGGTCTTACA
1 GATGCCATGTTCCAAACATGGTCTTACA
27126290 TTGGCTCACA
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
48 97 0.96
49 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (47 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAAAGC
Found at i:27126282 original size:96 final size:96
Alignment explanation
Indices: 27126118--27126300 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 96
27126108 GTAAGATGCT
* * * *
27126118 GATGCCATATCCTAAACATGGTTTTACACTAGCTCTCGTAACAAAGCAGATGCCATGTTCCAAAC
1 GATGCCATATCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCAGATGCCATATTCCAAAC
27126183 ATGGTCTTACACTGGCTCACATATTGAGGTC
66 ATGGTCTTACACTGGCTCACATATTGAGGTC
* * * *
27126214 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATATTCCAAAC
1 GATGCCATATCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCAGATGCCATATTCCAAAC
*
27126279 ATGGTCTTACATTGGCTCACAT
66 ATGGTCTTACACTGGCTCACAT
27126301 GTACCCTAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (96 bp):
GATGCCATATCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCAGATGCCATATTCCAAAC
ATGGTCTTACACTGGCTCACATATTGAGGTC
Found at i:27132158 original size:47 final size:46
Alignment explanation
Indices: 27132050--27132314 Score: 175
Period size: 47 Copynumber: 5.7 Consensus size: 46
27132040 ATATACGCAT
* * * *
27132050 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-ACAACTCTT-A-
1 GCTGATGCATGTCCCAGACAGGTCTTACACTGGCTAC-TCTATTAAG
* * * *
27132094 GCCGATGAATGTCTCAGACACGTCTTACACTGGCTATCTCTATTAAG
1 GCTGATGCATGTCCCAGACAGGTCTTACACTGGCTA-CTCTATTAAG
* * * **
27132141 GCTGATGCATGTCTCAGACATGCCTTACACTGGC-ACTC-ATCTCTG
1 GCTGATGCATGTCCCAGACAGGTCTTACACTGGCTACTCTAT-TAAG
* * * *
27132186 TGCCGATGCTATGTCCCAGACATGGTCTTGCACTGGCTA-TCATAGTATG
1 -GCTGATGC-ATGTCCCAGACA-GGTCTTACACTGGCTACTC-TATTAAG
* * **
27132235 GCTGATGCATGTCCCAGACATGGTCTTACACAGGCT-CTCATAATGTG
1 GCTGATGCATGTCCCAGACA-GGTCTTACACTGGCTACTC-TATTAAG
* * * *
27132282 GCCGAAGTATGTCCCAGACATGTCTTACACTGG
1 GCTGATGCATGTCCCAGACAGGTCTTACACTGG
27132315 TGCACAAATC
Statistics
Matches: 179, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
44 31 0.17
45 10 0.06
46 21 0.12
47 92 0.51
48 20 0.11
49 4 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACAGGTCTTACACTGGCTACTCTATTAAG
Found at i:27132244 original size:94 final size:93
Alignment explanation
Indices: 27132012--27132314 Score: 305
Period size: 94 Copynumber: 3.2 Consensus size: 93
27132002 CGATGCCATA
* * * *
27132012 TCCCAAACATGGTCTTACACTAGCTTTCATATACGCATGCTGATGCATGTCCCAGACATGTCTTA
1 TCCCAGACATGGTCTTACACTGGCTATCATATA---AGGCTGATGCATGTCCCAGACATGTCTTA
* * *
27132077 CACTAGCA--CAACTCT-TAGCCGATGAATG
63 CACTGGCACTCATCTCTGTAGCCGATGTATG
* * * * *
27132105 TCTCAGACA-CGTCTTACACTGGCTATCTCTATTAAGGCTGATGCATGTCTCAGACATGCCTTAC
1 TCCCAGACATGGTCTTACACTGGCTATC-ATA-TAAGGCTGATGCATGTCCCAGACATGTCTTAC
27132169 ACTGGCACTCATCTCTGT-GCCGATGCTATG
64 ACTGGCACTCATCTCTGTAGCCGATG-TATG
* *
27132199 TCCCAGACATGGTCTTGCACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGGTCTTAC
1 TCCCAGACATGGTCTTACACTGGCTATCATA-TAAGGCTGATGCATGTCCCAGACAT-GTCTTAC
* * ** * *
27132264 ACAGGCTCTCAT-AATGTGGCCGAAGTATG
64 ACTGGCACTCATCTCTGTAGCCGATGTATG
27132293 TCCCAGACAT-GTCTTACACTGG
1 TCCCAGACATGGTCTTACACTGG
27132315 TGCACAAATC
Statistics
Matches: 175, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
91 33 0.19
92 15 0.09
93 33 0.19
94 56 0.32
95 38 0.22
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (93 bp):
TCCCAGACATGGTCTTACACTGGCTATCATATAAGGCTGATGCATGTCCCAGACATGTCTTACAC
TGGCACTCATCTCTGTAGCCGATGTATG
Found at i:27139694 original size:44 final size:45
Alignment explanation
Indices: 27139590--27139903 Score: 244
Period size: 47 Copynumber: 6.7 Consensus size: 45
27139580 GATATATTGT
* * *
27139590 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--AT-CTCTTAGC
* * *
27139640 TGATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTTAGC
* *
27139684 CGATGCATGTCCCAGACACGTCTTACACTGGCTATC-TCTATTAAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCTCTT-A-GC
* *
27139731 TGATGCATGTCTCAGACATGTCTTACACTGGCACTCATCTCTGT-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCT-TAGC
** * * *
27139777 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGCATGGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCTCTTAGC
* * *
27139825 TGATGCATGTCCCAGACATGGTCTTACACTGGC-TC-TCATAATGTGGC
1 CGATGCATGTCCCAGACAT-GTCTTACACTGGCATCATC-T-CT-TAGC
* *
27139872 CGAAGCATGTCCGAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
27139904 GCACAAATCA
Statistics
Matches: 219, Mismatches: 30, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
43 3 0.01
44 33 0.15
45 7 0.03
46 23 0.11
47 94 0.43
48 39 0.18
49 16 0.07
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTTAGC
Found at i:27139832 original size:94 final size:95
Alignment explanation
Indices: 27139590--27139903 Score: 367
Period size: 94 Copynumber: 3.3 Consensus size: 95
27139580 GATATATTGT
* *
27139590 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGT-GCTGATGCATGTCCCA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-TATA-GCATGGCTGATGCATGTCCCA
* *
27139654 GACATGTCTTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTGGCACTCATCTCTGTAGC
* * ** * *
27139684 CGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCTCTATTAAGGCTGATGCATGTCTCAGAC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGAC
27139748 ATGTCTTACACTGGCACTCATCTCTGT-GC
66 ATGTCTTACACTGGCACTCATCTCTGTAGC
*
27139777 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-ATAGCATGGATGATGCATGTCCCAGA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGA
* ** *
27139841 CATGGTCTTACACTGGCTCTCAT-AATGTGGC
65 CAT-GTCTTACACTGGCACTCATCTCTGTAGC
* *
27139872 CGAAGCATGTCCGAGACAT-GTCTTACACTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC
27139904 GCACAAATCA
Statistics
Matches: 190, Mismatches: 22, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
91 36 0.19
92 16 0.08
93 39 0.21
94 58 0.31
95 41 0.22
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (95 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGAC
ATGTCTTACACTGGCACTCATCTCTGTAGC
Found at i:27139889 original size:141 final size:137
Alignment explanation
Indices: 27139596--27139903 Score: 336
Period size: 141 Copynumber: 2.2 Consensus size: 137
27139586 TTGTCGATGC
* *
27139596 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAGACATGT
1 CATGT-CCAGACAT-GTCTTACACTGGCACTCATATACGCGTGCCGATGCATGTCCCAGACATGT
* * * *
27139661 CTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATT
64 CTTACACTAGCACAACGCATAGACGATGCATGTCCCAGACACGTCTTACACTGGC-ATCTCTAAT
* *
27139726 AAGGCTGATG
128 AAGGCCGAAG
* *
27139736 CATGTCTCAGACATGTCTTACACTGGCACTCATCT-C-TGTGCCGATGCCATGTCCCAGACATGG
1 CATGTC-CAGACATGTCTTACACTGGCACTCATATACGCGTGCCGATG-CATGTCCCAGACAT-G
* * * *
27139799 TCTTACACTGGCTATCATA-GCATGGATGATGCATGTCCCAGACATGGTCTTACACTGGC-TCTC
63 TCTTACACTAGC-A-CA-ACGCATAGACGATGCATGTCCCAGACA-CGTCTTACACTGGCATCTC
**
27139862 ATAATGTGGCCGAAG
124 -TAATAAGGCCGAAG
27139877 CATGTCCGAGACATGTCTTACACTGGC
1 CATGTCC-AGACATGTCTTACACTGGC
27139904 GCACAAATCA
Statistics
Matches: 143, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
137 8 0.06
138 15 0.10
139 32 0.22
140 18 0.13
141 56 0.39
142 14 0.10
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (137 bp):
CATGTCCAGACATGTCTTACACTGGCACTCATATACGCGTGCCGATGCATGTCCCAGACATGTCT
TACACTAGCACAACGCATAGACGATGCATGTCCCAGACACGTCTTACACTGGCATCTCTAATAAG
GCCGAAG
Found at i:27140275 original size:30 final size:30
Alignment explanation
Indices: 27140234--27140291 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27140224 AAATTTACAT
* *
27140234 CTTTGGTAAAATAACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
*
27140264 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
27140292 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:27142076 original size:9 final size:10
Alignment explanation
Indices: 27142019--27142075 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
27142009 TAATAAGTAT
27142019 TTAATAAATTA
1 TTAA-AAATTA
*
27142030 -TAAAAGTTTA
1 TTAAAA-ATTA
* *
27142040 TAAAAAAATA
1 TTAAAAATTA
27142050 TTAAAAATTA
1 TTAAAAATTA
27142060 TTAAAAATTA
1 TTAAAAATTA
*
27142070 TGAAAA
1 TTAAAA
27142076 TATATAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
9 2 0.05
10 31 0.84
11 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:27145069 original size:18 final size:17
Alignment explanation
Indices: 27145046--27145103 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
27145036 TATTAAAAAT
* *
27145046 TAAAAATATGGAAAAGTG
1 TAAAAATAT-AAAAAGTA
27145064 TAAAAATTATAAAAAGTA
1 TAAAAA-TATAAAAAGTA
*
27145082 TAAAAATATATAAAAGTT
1 TAAAAATATA-AAAAGTA
27145100 TAAA
1 TAAA
27145104 TTCTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.11
18 28 0.80
19 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (17 bp):
TAAAAATATAAAAAGTA
Found at i:27145078 original size:10 final size:9
Alignment explanation
Indices: 27144983--27145096 Score: 65
Period size: 9 Copynumber: 12.4 Consensus size: 9
27144973 AAAAGGTTAA
27144983 AAAAATTAT
1 AAAAATTAT
27144992 -AAAATTGAT
1 AAAAATT-AT
*
27145001 AGAAAATCAT
1 A-AAAATTAT
*
27145011 AAAAATTAC
1 AAAAATTAT
*
27145020 AAATATATAT
1 AAAAAT-TAT
* *
27145030 ATAATTTATT
1 AAAAATTA-T
27145040 AAAAA-T-T
1 AAAAATTAT
27145047 AAAAA-TAT
1 AAAAATTAT
* * *
27145055 GGAAAAGTGT
1 -AAAAATTAT
27145065 AAAAATTAT
1 AAAAATTAT
*
27145074 AAAAAGTAT
1 AAAAATTAT
27145083 AAAAATATAT
1 AAAAAT-TAT
27145093 AAAA
1 AAAA
27145097 GTTTAAATTC
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
7 7 0.09
8 7 0.09
9 39 0.49
10 21 0.27
11 5 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:27145754 original size:19 final size:19
Alignment explanation
Indices: 27145730--27145774 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27145720 CATCTACAGT
27145730 AAAAAAAA-ATGAAAACTGA
1 AAAAAAAAGATG-AAACTGA
* *
27145749 AAAAAAAAGTTGAATCTGA
1 AAAAAAAAGATGAAACTGA
27145768 AAAAAAA
1 AAAAAAA
27145775 TTGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (19 bp):
AAAAAAAAGATGAAACTGA
Found at i:27149142 original size:64 final size:63
Alignment explanation
Indices: 27149018--27149174 Score: 287
Period size: 64 Copynumber: 2.5 Consensus size: 63
27149008 AATTGAGCTT
*
27149018 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCTAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
27149081 ATGTTGTAATGTATTTAATTTATATAAAAAAATTTATATTGCAAAGTTTGTTCCAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAA-TTATATTGCAAAGTTTGTTCCAATTAGATTA
*
27149145 ATGTTGTAATGTATTTAATTTATATTAAAA
1 ATGTTGTAATGTATTTAATTTATATAAAAA
27149175 GACTAAATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
63 32 0.35
64 59 0.65
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.46
Consensus pattern (63 bp):
ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
Found at i:27149758 original size:72 final size:72
Alignment explanation
Indices: 27149672--27149811 Score: 201
Period size: 72 Copynumber: 1.9 Consensus size: 72
27149662 ATCCGCCCCC
* *
27149672 TGACGAGCCCGAGAAATAGTCATTG-CCCGACAAATCTAGATGATAAGAAGTATCAGCTGAATGT
1 TGACGAGCCCGAGAAATAGTCATTGTCCCG-CAAATCCAGATGATAAGAAGTATCAGCCGAATGT
27149736 GAATGCGA
65 GAATGCGA
** * * *
27149744 TGACGAGCCCGAGAAATTTTCATTGTTCTGCAAATCCGGATGATAAGAAGTATCAGCCGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGTCCCGCAAATCCAGATGATAAGAAGTATCAGCCGAATGTG
27149809 AAT
66 AAT
27149812 ATGATCGCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 58 0.97
73 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (72 bp):
TGACGAGCCCGAGAAATAGTCATTGTCCCGCAAATCCAGATGATAAGAAGTATCAGCCGAATGTG
AATGCGA
Found at i:27152074 original size:150 final size:151
Alignment explanation
Indices: 27151905--27152908 Score: 1472
Period size: 151 Copynumber: 6.6 Consensus size: 151
27151895 TTTTTTTATT
* *
27151905 CCGTGATTTTGGCCTTTTGTTTGTATTTTTAAAATTTTTGGATTTTTATTTTTTAAAATATACTG
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGA-TTTTATTTTTTAAAATATACTA
* *
27151970 TTTTCATATTTTATTTTTTATATTAATTTAGTAAATAATGTTTCAAATGTATTATTTTCGTG-TT
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTT
27152034 TTT-TATTAATTTAGTAAATAA
130 TTTATATTAATTTAGTAAATAA
* **
27152055 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTCCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
* * *
27152120 TTTCATATTTTATTTTTTAATACTATTTTAGTACATAATTTTTAAAATGTATTATTTTCGTGTTT
66 TTTCATATTTTATTTTTT-ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTG-TT
27152185 TTTTATATTAATTTAGTAAATAA
129 TTTTATATTAATTTAGTAAATAA
* * *
27152208 CCGTGATTTTAGCCCTTTGTTTGTATTTTTAAAATTTCTGGATTTTATTTATTTTTTAAAGTATA
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGA---T-TTTATTTTTTAAAATATA
* *
27152273 CTATTTTCATATTTTATTTTTTATACTATTTTTGTACATAATGTTTCAAATGTATTATTTTCGTG
62 CTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTG
27152338 TTTTTTTATATTAATTTAGTAAATAA
127 -TTTTTTATATTAATTTAGTAAATAA
* * *
27152364 TCGTGATTTTAGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
* * *
27152429 TTTCGTATTTTATTTTTTATATTACTTTAGTACATAATGTTTCTAATGTATTATTTTCGTGTTTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
27152494 TTATATTAATTTAGTAAATAA
131 TTATATTAATTTAGTAAATAA
* * * * *
27152515 ACGTGATTTTGGCCATTTGGTTGTATTTTTAAAAATTTTGGATTTTACTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
* *
27152580 TTTCGTATTTTATTTTTTTATATTATTTTAGTAC--AATGTTTCAAATGTATTATTTTCATGGGG
66 TTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTC---GTG
*
27152643 TTTTATATATT--TTTAGTAAATAA
127 TTTTTTATATTAATTTAGTAAATAA
* * *
27152666 CCGTGATTTTGGCCCTTTGTTTGTACTTTTAAAATTTTCGGATTTTGTTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
* * *
27152731 TTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTGTTTTCGTATTTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
27152796 TTATATTAATTTAGTAAATAA
131 TTATATTAATTTAGTAAATAA
* * *
27152817 ACGT-ATTTTGGGCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
*
27152881 TTTC---TTAT-TTTTTTATATTATTTTAGTA
66 TTTCATATTTTATTTTTTATATTATTTTAGTA
27152909 AAAAAAAACT
Statistics
Matches: 785, Mismatches: 53, Indels: 36
0.90 0.06 0.04
Matches are distributed among these distances:
146 20 0.03
147 3 0.00
149 51 0.06
150 181 0.23
151 191 0.24
152 124 0.16
153 70 0.09
156 106 0.14
157 39 0.05
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (151 bp):
CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
TTATATTAATTTAGTAAATAA
Found at i:27152561 original size:151 final size:150
Alignment explanation
Indices: 27151905--27152908 Score: 1454
Period size: 150 Copynumber: 6.6 Consensus size: 150
27151895 TTTTTTTATT
* *
27151905 CCGTGATTTTGGCCTTTTGTTTGTATTTTTAAAATTTTTGGATTTTTATTTTTTAAAATATACTG
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTTGGA-TTTTATTTTTTAAAATATACTA
* *
27151970 TTTTCATATTTTATTTTTTATATTAATTTAGTAAATAATGTTTCAAATGTATTATTTTCGTG-TT
64 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTT
27152034 TTT-TATTAATTTAGTAAATAA
129 TTTATATTAATTTAGTAAATAA
* *
27152055 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTCCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTT-TGGATTTTATTTTTTAAAATATACTAT
* * *
27152120 TTTCATATTTTATTTTTTAATACTATTTTAGTACATAATTTTTAAAATGTATTATTTTCGTGTTT
65 TTTCATATTTTATTTTTT-ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTG-TT
27152185 TTTTATATTAATTTAGTAAATAA
128 TTTTATATTAATTTAGTAAATAA
* *
27152208 CCGTGATTTTAGCCCTTTGTTTGTATTTTTAAAATTTCTGGATTTTATTTATTTTTTAAAGTATA
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTT-TGGA---T-TTTATTTTTTAAAATATA
* *
27152273 CTATTTTCATATTTTATTTTTTATACTATTTTTGTACATAATGTTTCAAATGTATTATTTTCGTG
61 CTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTG
27152338 TTTTTTTATATTAATTTAGTAAATAA
126 -TTTTTTATATTAATTTAGTAAATAA
* * *
27152364 TCGTGATTTTAGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTTGGATTTTATTTTTTAAAATATACTAT
* * *
27152429 TTTCGTATTTTATTTTTTATATTACTTTAGTACATAATGTTTCTAATGTATTATTTTCGTGTTTT
65 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
27152494 TTATATTAATTTAGTAAATAA
130 TTATATTAATTTAGTAAATAA
* * * *
27152515 ACGTGATTTTGGCCATTTGGTTGTATTTTTAAAAATTTTGGATTTTACTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTT-AAAATTTTGGATTTTATTTTTTAAAATATACTAT
* *
27152580 TTTCGTATTTTATTTTTTTATATTATTTTAGTAC--AATGTTTCAAATGTATTATTTTCATGGGG
65 TTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTC---GTG
*
27152643 TTTTATATATT--TTTAGTAAATAA
126 TTTTTTATATTAATTTAGTAAATAA
* *
27152666 CCGTGATTTTGGCCCTTTGTTTGTACTTTTAAAATTTTCGGATTTTGTTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTT-GGATTTTATTTTTTAAAATATACTAT
* * *
27152731 TTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTGTTTTCGTATTTT
65 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
27152796 TTATATTAATTTAGTAAATAA
130 TTATATTAATTTAGTAAATAA
* *
27152817 ACGT-ATTTTGGGCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTT-GGATTTTATTTTTTAAAATATACTAT
*
27152881 TTTC---TTAT-TTTTTTATATTATTTTAGTA
65 TTTCATATTTTATTTTTTATATTATTTTAGTA
27152909 AAAAAAAACT
Statistics
Matches: 786, Mismatches: 48, Indels: 44
0.90 0.05 0.05
Matches are distributed among these distances:
146 20 0.03
147 3 0.00
149 54 0.07
150 186 0.24
151 180 0.23
152 128 0.16
153 70 0.09
156 103 0.13
157 42 0.05
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (150 bp):
CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTGGATTTTATTTTTTAAAATATACTATT
TTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTTT
TATATTAATTTAGTAAATAA
Found at i:27155017 original size:24 final size:26
Alignment explanation
Indices: 27154971--27155019 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
27154961 TTAATTTTTC
*
27154971 ATATTTTAAATAAAAATTTAAAAATT
1 ATATTTTAAATAAAAATTAAAAAATT
*
27154997 ATATTTTTAA-AAAAA-TAAAAAAT
1 ATATTTTAAATAAAAATTAAAAAAT
27155020 ATGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATATTTTAAATAAAAATTAAAAAATT
Found at i:27155070 original size:28 final size:30
Alignment explanation
Indices: 27155015--27155068 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
27155005 AAAAAAATAA
27155015 AAAATATGAAAAAGAAACTCTTTAAAATTC
1 AAAATATGAAAAAGAAACTCTTTAAAATTC
*
27155045 AAAATAT-AAAAATAAA-T-TTTAAAA
1 AAAATATGAAAAAGAAACTCTTTAAAA
27155069 ATATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 7 0.30
28 1 0.04
29 8 0.35
30 7 0.30
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (30 bp):
AAAATATGAAAAAGAAACTCTTTAAAATTC
Found at i:27158018 original size:22 final size:22
Alignment explanation
Indices: 27157990--27158041 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
27157980 ATTGTTTAAT
*
27157990 TAGGGTTTAGGGTTTATTAAAA
1 TAGGGTTTAGGGTTAATTAAAA
* * *
27158012 TATGGTTTATGGTTAATTAAAT
1 TAGGGTTTAGGGTTAATTAAAA
27158034 TAGGGTTT
1 TAGGGTTT
27158042 TATTATTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (22 bp):
TAGGGTTTAGGGTTAATTAAAA
Found at i:27161747 original size:22 final size:22
Alignment explanation
Indices: 27161690--27161751 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
27161680 GAAAATATTA
*
27161690 AGAGAGAATT-TGAGAGATTTT
1 AGAGAGAATTGTGAGAAATTTT
*
27161711 TGAGAG--TTGATTGAGAAATTTT
1 AGAGAGAATTG--TGAGAAATTTT
27161733 AGAGAGAATTGTGAGAAAT
1 AGAGAGAATTGTGAGAAAT
27161752 GTGAGTGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.06
21 5 0.15
22 23 0.70
24 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (22 bp):
AGAGAGAATTGTGAGAAATTTT
Found at i:27162744 original size:2 final size:2
Alignment explanation
Indices: 27162737--27162761 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27162727 TATCCTTAAA
27162737 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27162762 GAGTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27163694 original size:10 final size:9
Alignment explanation
Indices: 27163674--27163699 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27163664 TCCTCTGAAA
27163674 TTTTTTCTT
1 TTTTTTCTT
27163683 TTTTTTCTT
1 TTTTTTCTT
27163692 TTTTTTCT
1 TTTTTTCT
27163700 GTGAATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:27166170 original size:29 final size:29
Alignment explanation
Indices: 27166138--27166210 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
27166128 CTTTGAGCTC
*
27166138 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
27166167 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
27166196 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
27166211 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:27167532 original size:25 final size:23
Alignment explanation
Indices: 27167497--27167544 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
27167487 ATCCACACTC
27167497 TTTTTTTTTTCATCATTTTCCTT
1 TTTTTTTTTTCATCATTTTCCTT
* *
27167520 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
27167545 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTTTCATCATTTTCCTT
Found at i:27170561 original size:13 final size:13
Alignment explanation
Indices: 27170543--27170568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27170533 TACCATCCAT
27170543 ACCAAAACAATCA
1 ACCAAAACAATCA
27170556 ACCAAAACAATCA
1 ACCAAAACAATCA
27170569 TGAAACATAT
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:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:27175294 original size:17 final size:18
Alignment explanation
Indices: 27175271--27175305 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27175261 AGTTTTGTGA
*
27175271 TTTTTTGACTCTTTGGTC
1 TTTTTGGACTCTTTGGTC
*
27175289 TTTTTGGACTGTTTGGT
1 TTTTTGGACTCTTTGGT
27175306 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.11, G:0.23, T:0.60
Consensus pattern (18 bp):
TTTTTGGACTCTTTGGTC
Found at i:27178958 original size:27 final size:28
Alignment explanation
Indices: 27178918--27178973 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
27178908 ACTTTTAGTG
* *
27178918 TCTAAATTATCCCTAGTAATTTTTTATA
1 TCTAAAATATCCCTAGTAATTTTTAATA
* *
27178946 TCTAAAATA-CCCTATTGATTTTTAATA
1 TCTAAAATATCCCTAGTAATTTTTAATA
27178973 T
1 T
27178974 TACCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (28 bp):
TCTAAAATATCCCTAGTAATTTTTAATA
Found at i:27179023 original size:4 final size:4
Alignment explanation
Indices: 27179014--27179046 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
27179004 GGAACTAGTT
*
27179014 ATAG ATAG ATAG ATAG ATAA ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
27179047 GAAAAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:27179039 original size:16 final size:16
Alignment explanation
Indices: 27179018--27179057 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
27179008 CTAGTTATAG
*
27179018 ATAGATAGATAGATAA
1 ATAGATAGATAGAGAA
27179034 ATAGATAGATAGAGAA
1 ATAGATAGATAGAGAA
*
27179050 AAAGATAG
1 ATAGATAG
27179058 GGTAAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (16 bp):
ATAGATAGATAGAGAA
Found at i:27179126 original size:39 final size:40
Alignment explanation
Indices: 27179058--27179140 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
27179048 AAAAAGATAG
27179058 GGTAAATTAGGGAAAAAAAAGTAAAAAAAAATGGCAAAGTA
1 GGTAAATTAGGG-AAAAAAAGTAAAAAAAAATGGCAAAGTA
**
27179099 GGTAAATTAGGG-AAAAAAGTCGAAAAAAATGGCAAAGTA
1 GGTAAATTAGGGAAAAAAAGTAAAAAAAAATGGCAAAGTA
27179138 GGT
1 GGT
27179141 CGCTTTTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 28 0.70
41 12 0.30
ACGTcount: A:0.55, C:0.04, G:0.25, T:0.16
Consensus pattern (40 bp):
GGTAAATTAGGGAAAAAAAGTAAAAAAAAATGGCAAAGTA
Found at i:27183311 original size:9 final size:9
Alignment explanation
Indices: 27183297--27183357 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
27183287 TTGTTACTAG
27183297 TTTTATTAT
1 TTTTATTAT
27183306 TTTTATT-T
1 TTTTATTAT
27183314 TTATTATTAT
1 TT-TTATTAT
* *
27183324 GTTTATTCT
1 TTTTATTAT
*
27183333 TGTTATGATAAT
1 T-TT-T-ATTAT
27183345 TTTTATTAT
1 TTTTATTAT
27183354 TTTT
1 TTTT
27183358 CTATCATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
8 3 0.07
9 26 0.63
10 5 0.12
11 3 0.07
12 4 0.10
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTATTAT
Found at i:27197237 original size:28 final size:29
Alignment explanation
Indices: 27197180--27197292 Score: 140
Period size: 29 Copynumber: 3.9 Consensus size: 29
27197170 TTTGGGCTGT
27197180 TGGTTTTCCAGATTTTATAGTTTTGCCAC
1 TGGTTTTCCAGATTTTATAGTTTTGCCAC
*
27197209 T-GTTATTCCAGATTTT-TAGTTTTGTCAC
1 TGGTT-TTCCAGATTTTATAGTTTTGCCAC
* * **
27197237 TGGTTTTCCAAATTTTACAAATTTGCCAC
1 TGGTTTTCCAGATTTTATAGTTTTGCCAC
* *
27197266 TAGTTTTCCAGATTTTACAGTTTTGCC
1 TGGTTTTCCAGATTTTATAGTTTTGCC
27197293 GCTCTTCTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.35
29 46 0.65
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (29 bp):
TGGTTTTCCAGATTTTATAGTTTTGCCAC
Found at i:27197262 original size:57 final size:58
Alignment explanation
Indices: 27197180--27197290 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
27197170 TTTGGGCTGT
* * ** *
27197180 TGGTTTTCCAGATTTTATAGTTTTGCCACT-GTTATTCCAGATTTT-TAGTTTTGTCAC
1 TGGTTTTCCAAATTTTACAAATTTGCCACTAGTT-TTCCAGATTTTACAGTTTTGTCAC
27197237 TGGTTTTCCAAATTTTACAAATTTGCCACTAGTTTTCCAGATTTTACAGTTTTG
1 TGGTTTTCCAAATTTTACAAATTTGCCACTAGTTTTCCAGATTTTACAGTTTTG
27197291 CCGCTCTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 37 0.79
58 10 0.21
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (58 bp):
TGGTTTTCCAAATTTTACAAATTTGCCACTAGTTTTCCAGATTTTACAGTTTTGTCAC
Found at i:27200390 original size:49 final size:49
Alignment explanation
Indices: 27200212--27200405 Score: 212
Period size: 49 Copynumber: 3.9 Consensus size: 49
27200202 TCTATTGTGA
* * * *
27200212 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTT
* * ** *
27200263 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGATGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG-T-T
*
27200313 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
* * *
27200362 GGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
27200406 TAGCTTCGGC
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 40 0.33
50 40 0.33
51 36 0.30
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
Found at i:27202089 original size:34 final size:34
Alignment explanation
Indices: 27202051--27202117 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
27202041 AAGCATGAAT
* *
27202051 TTTGCTACT-AAGTTGATCTGTTATAAGCATATTA
1 TTTGCTACTGAA-TTGAACTGTCATAAGCATATTA
*
27202085 TTTGCTACTGTATTGAACTGTCATAAGCATATT
1 TTTGCTACTGAATTGAACTGTCATAAGCATATT
27202118 GATGGCTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (34 bp):
TTTGCTACTGAATTGAACTGTCATAAGCATATTA
Found at i:27202126 original size:34 final size:34
Alignment explanation
Indices: 27202063--27202132 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
27202053 TGCTACTAAG
* * *
27202063 TTGATCTGTTATAAGCATATTATTTGCTACTGTA
1 TTGAACTGTCATAAGCATATTATTGGCTACTGTA
27202097 TTGAACTGTCATAAGCATATTGA-TGGCTACTGTA
1 TTGAACTGTCATAAGCATATT-ATTGGCTACTGTA
27202131 TT
1 TT
27202133 AATTTGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (34 bp):
TTGAACTGTCATAAGCATATTATTGGCTACTGTA
Found at i:27203741 original size:39 final size:39
Alignment explanation
Indices: 27203690--27203768 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
27203680 TATTATTAAG
*
27203690 TATAGTTATTATTTATTTTGATTTAAAATTCATTTTTAT
1 TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
*
27203729 TATAGTTGTTATTTATTTTGATTTAAAATTCATATTTAT
1 TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
27203768 T
1 T
27203769 TATTGGATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (39 bp):
TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
Found at i:27203798 original size:19 final size:19
Alignment explanation
Indices: 27203762--27203803 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
27203752 TAAAATTCAT
* *
27203762 ATTTATTTATTGGATATAG
1 ATTTATGTATTGGATATAA
27203781 ATTTATGTA-TGGAGTATAA
1 ATTTATGTATTGGA-TATAA
27203800 ATTT
1 ATTT
27203804 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (19 bp):
ATTTATGTATTGGATATAA
Found at i:27204122 original size:21 final size:21
Alignment explanation
Indices: 27204098--27204138 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27204088 GTTATACAAA
* *
27204098 AATATTAAAAATATATATTAG
1 AATACTAAAAATAAATATTAG
*
27204119 AATACTAAAATTAAATATTA
1 AATACTAAAAATAAATATTA
27204139 TAATGTTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AATACTAAAAATAAATATTAG
Found at i:27204231 original size:14 final size:14
Alignment explanation
Indices: 27204193--27204221 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27204183 TAATAACATA
27204193 ATAAATTA-TTAAT
1 ATAAATTATTTAAT
27204206 ATAAATTATTTAAT
1 ATAAATTATTTAAT
27204220 AT
1 AT
27204222 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAATTATTTAAT
Found at i:27204402 original size:2 final size:2
Alignment explanation
Indices: 27204395--27204435 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
27204385 CACATATGTA
27204395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27204436 ATTTAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27207024 original size:23 final size:23
Alignment explanation
Indices: 27206959--27207049 Score: 69
Period size: 23 Copynumber: 3.8 Consensus size: 23
27206949 AACAAGTACT
*
27206959 ATATATAAA-ATAAAAATTATATATA
1 ATATATAAATTTAAAAATTA-A-A-A
* * *
27206984 ATTATATGAAATTAAAAAATTCAAT
1 A-TATAT-AAATTTAAAAATTAAAA
*
27207009 ATATATAAATTTAAAAAATAAAA
1 ATATATAAATTTAAAAATTAAAA
*
27207032 ATATTTAAA-TTAAAAATT
1 ATATATAAATTTAAAAATT
27207050 GATCAGGGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.15
23 21 0.40
24 5 0.09
25 2 0.04
26 6 0.11
27 4 0.08
28 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (23 bp):
ATATATAAATTTAAAAATTAAAA
Found at i:27212660 original size:25 final size:26
Alignment explanation
Indices: 27212606--27212660 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
27212596 ATGATTTATA
**
27212606 ACATCAAACATTAAGTCATTTTGCAAG
1 ACATCAAACAAGAAGTCA-TTTGCAAG
27212633 ACATCAAACAAGAAGTCA-TTGCAAG
1 ACATCAAACAAGAAGTCATTTGCAAG
27212658 ACA
1 ACA
27212661 AAACTTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 10 0.38
27 16 0.62
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (26 bp):
ACATCAAACAAGAAGTCATTTGCAAG
Found at i:27218473 original size:22 final size:19
Alignment explanation
Indices: 27218445--27218484 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
27218435 AATAATATCA
27218445 TTGATATATATATATTTTTAAT
1 TTGATAT-T-TAT-TTTTTAAT
27218467 TTGATATTTATTTTTTAA
1 TTGATATTTATTTTTTAA
27218485 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 1 0.06
22 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTGATATTTATTTTTTAAT
Found at i:27218482 original size:20 final size:22
Alignment explanation
Indices: 27218445--27218488 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
27218435 AATAATATCA
*
27218445 TTGATATATATATATTTTTAAT
1 TTGATATATATATATTTTAAAT
*
27218467 TTGATAT-T-TATTTTTTAAAT
1 TTGATATATATATATTTTAAAT
27218487 TT
1 TT
27218489 TAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTGATATATATATATTTTAAAT
Found at i:27218740 original size:17 final size:17
Alignment explanation
Indices: 27218718--27218754 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27218708 AAGAACATTT
27218718 AAAATTAATATTAAA-TA
1 AAAATTAA-ATTAAACTA
27218735 AAAATTAAATTAAACTA
1 AAAATTAAATTAAACTA
27218752 AAA
1 AAA
27218755 TAAAAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAATTAAACTA
Found at i:27218755 original size:16 final size:16
Alignment explanation
Indices: 27218717--27218755 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27218707 TAAGAACATT
27218717 TAAAATTAATATTAAA
1 TAAAATTAATATTAAA
27218733 TAAAAATTAA-ATTAAA
1 T-AAAATTAATATTAAA
27218749 CTAAAAT
1 -TAAAAT
27218756 AAAAATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATTAATATTAAA
Found at i:27223198 original size:132 final size:132
Alignment explanation
Indices: 27222958--27223209 Score: 416
Period size: 132 Copynumber: 1.9 Consensus size: 132
27222948 TACAATGTAA
* * * *
27222958 TAAATTGAACTAAGTAGTATAAAATTAAAAATTTAAAATAATTTATTATCAAACTAAATTTATAA
1 TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
*
27223023 TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATTACTTGTATCTCTGCAATTATTATCAA
66 TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATCACTTGTATCTCTGCAATTATTATCAA
27223088 AC
131 AC
* * *
27223090 TAAATTGAACTAAGTAGTCCAAAACTAGAAATTTAGAATAAATTATTATCAAACTAAAATTATAA
1 TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
27223155 TTTATTCACAAAATCCTATTAACATGCTCCTAA-CCAATCACTTGTATCTCTGCAA
66 TTTATTCACAAAATCCTATTAACATGCTCC-AACCCAATCACTTGTATCTCTGCAA
27223210 GCTCAAGCAA
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
132 109 0.98
133 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.35
Consensus pattern (132 bp):
TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATCACTTGTATCTCTGCAATTATTATCAA
AC
Found at i:27232868 original size:5 final size:6
Alignment explanation
Indices: 27232850--27232876 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
27232840 ATGAGGAAGA
27232850 GGAGGG GGAGGG GGAGGG GGAGGG GGA
1 GGAGGG GGAGGG GGAGGG GGAGGG GGA
27232877 CGAAGAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (6 bp):
GGAGGG
Found at i:27249014 original size:26 final size:26
Alignment explanation
Indices: 27248973--27249169 Score: 207
Period size: 26 Copynumber: 7.2 Consensus size: 26
27248963 CATGATATTC
27248973 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
27248999 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
27249025 TTATCATGATTATCATGGAACATTTACCTAACTCA
1 TTATCATG------A---AACATTTACCTAACCCA
* *
27249060 TTATCATTG-AATATTTACCTAATCCA
1 TTATCA-TGAAACATTTACCTAACCCA
* *
27249086 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
27249112 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27249138 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
27249164 TTATCA
1 TTATCA
27249170 ATTTGTATCA
Statistics
Matches: 143, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.01
26 119 0.83
35 20 0.14
36 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:27249044 original size:35 final size:35
Alignment explanation
Indices: 27248998--27249066 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
27248988 TACCTAACCC
*
27248998 ATTATCATGGAATATTTACCTAA-TCCATTATCATG
1 ATTATCATGGAACATTTACCTAACT-CATTATCATG
27249033 ATTATCATGGAACATTTACCTAACTCATTATCAT
1 ATTATCATGGAACATTTACCTAACTCATTATCAT
27249067 TGAATATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (35 bp):
ATTATCATGGAACATTTACCTAACTCATTATCATG
Found at i:27249049 original size:61 final size:61
Alignment explanation
Indices: 27248973--27249145 Score: 220
Period size: 61 Copynumber: 3.0 Consensus size: 61
27248963 CATGATATTC
*
27248973 TTATCATGAAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGA
1 TTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGA
* *
27249034 TTATCATGGAACATTTACCTAACTCATTATCATTGAATATTTACCTAAT-C-----C---A
1 TTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGA
* * * *
27249086 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATG
1 TTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATG
27249146 GAACATTTAC
Statistics
Matches: 94, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
52 44 0.47
53 1 0.01
55 1 0.01
58 1 0.01
60 1 0.01
61 46 0.49
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.36
Consensus pattern (61 bp):
TTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGA
Found at i:27249571 original size:29 final size:28
Alignment explanation
Indices: 27249539--27249607 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
27249529 AAAAATCAAT
*
27249539 AAAAATTATTAAATTT-TAAAAAAGTT-AA
1 AAAAATT-TAAAATTTATAAAAAA-TTGAA
*
27249567 AAAAATTTAAAATTTATTAAAAATTAGAA
1 AAAAATTTAAAATTTATAAAAAATT-GAA
27249596 AAAAATTGTAAA
1 AAAAATT-TAAA
27249608 TACTGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 13 0.37
29 9 0.26
30 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAAATTTAAAATTTATAAAAAATTGAA
Found at i:27249974 original size:7 final size:7
Alignment explanation
Indices: 27249964--27250006 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
27249954 TGAATCAATT
27249964 TTTATAA
1 TTTATAA
27249971 TTTATAA
1 TTTATAA
27249978 TTTATAA
1 TTTATAA
27249985 TTTAT-A
1 TTTATAA
27249991 TTT-T--
1 TTTATAA
27249995 TTTATAA
1 TTTATAA
27250002 TTTAT
1 TTTAT
27250007 TTGCTTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 3 0.09
5 2 0.06
6 4 0.12
7 24 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TTTATAA
Found at i:27250679 original size:6 final size:6
Alignment explanation
Indices: 27250671--27250720 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
27250661 ACACGATTTT
* *
27250671 CCCTTT CCCTTC CCCTTT CCCTT- CCCTTC CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
27250718 CCC
1 CCC
27250721 CATCTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCCTTC
Found at i:27250703 original size:23 final size:23
Alignment explanation
Indices: 27250669--27250719 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
27250659 CAACACGATT
* *
27250669 TTCCCTTTCCCTTCCCCTTTCCC
1 TTCCCTTCCCCTTCCCCTTCCCC
27250692 TTCCCTTCCCCTTCCCCTTCCCC
1 TTCCCTTCCCCTTCCCCTTCCCC
27250715 TTCCC
1 TTCCC
27250720 CCATCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCCCTTCCCCTTCCCCTTCCCC
Found at i:27254170 original size:17 final size:18
Alignment explanation
Indices: 27254132--27254171 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
27254122 TAAAATTATT
*
27254132 TAAAATTAATATTAAATA
1 TAAAATTAATATTAAAAA
27254150 -AAAATTAA-ATTAAAAA
1 TAAAATTAATATTAAAAA
27254166 TAAAAT
1 TAAAAT
27254172 ATCATATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATTAATATTAAAAA
Found at i:27256013 original size:26 final size:25
Alignment explanation
Indices: 27255984--27256064 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
27255974 GAAGTTTGTC
27255984 ATAATTATAAATTTAAAAATTTAAAA
1 ATAATTATAAATTTAAAAATTT-AAA
* *
27256010 ATAATTAT-AATTTAATAGAAGTTATA
1 ATAATTATAAATTTAA-A-AATTTAAA
* *
27256036 ATAATTACATATTTAAAAATAATTAAA
1 ATAATTATAAATTTAAAAAT--TTAAA
27256063 AT
1 AT
27256065 TTAAATTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 9 0.20
26 19 0.43
27 16 0.36
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAATTATAAATTTAAAAATTTAAA
Found at i:27256068 original size:17 final size:18
Alignment explanation
Indices: 27256035--27256069 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27256025 TAGAAGTTAT
*
27256035 AATAATTACATATTTAAA
1 AATAATTACAAATTTAAA
27256053 AATAATTA-AAATTTAAA
1 AATAATTACAAATTTAAA
27256070 TTACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAATTACAAATTTAAA
Found at i:27257085 original size:19 final size:18
Alignment explanation
Indices: 27257052--27257092 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
27257042 CTTTAGAATC
*
27257052 TTTTATGAAATTTTATAA
1 TTTTATGAAATTTTAAAA
*
27257070 TTTTATAGATATTTTAAAA
1 TTTTAT-GAAATTTTAAAA
27257089 TTTT
1 TTTT
27257093 GAAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTATGAAATTTTAAAA
Found at i:27258749 original size:17 final size:17
Alignment explanation
Indices: 27258727--27258765 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27258717 ACTTTATTGT
27258727 ATTTATTAATT-AATATA
1 ATTTATT-ATTAAATATA
*
27258744 ATTTATTATTAAATTTA
1 ATTTATTATTAAATATA
27258761 ATTTA
1 ATTTA
27258766 ATAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTAAATATA
Found at i:27258878 original size:2 final size:2
Alignment explanation
Indices: 27258871--27258905 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27258861 TTTATATGTG
27258871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27258906 GAATATGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27265722 original size:28 final size:27
Alignment explanation
Indices: 27265659--27265728 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
27265649 ATAGTGAGTC
27265659 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
27265686 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
27265714 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27265729 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:27268750 original size:54 final size:54
Alignment explanation
Indices: 27268690--27268798 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
27268680 ATTGTGTGAG
27268690 TGTGGCTGATTGTTCGTTCCCTCTAATCTGGACTCTGCGTTTTCGGTAAGTGGC
1 TGTGGCTGATTGTTCGTTCCCTCTAATCTGGACTCTGCGTTTTCGGTAAGTGGC
27268744 TGTGGCTGATTGTTCGTTCCCTCTAATCTGGACTCTGCGTTTTCGGTAAGTGGC
1 TGTGGCTGATTGTTCGTTCCCTCTAATCTGGACTCTGCGTTTTCGGTAAGTGGC
27268798 T
1 T
27268799 TTTTGTCTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.11, C:0.22, G:0.28, T:0.39
Consensus pattern (54 bp):
TGTGGCTGATTGTTCGTTCCCTCTAATCTGGACTCTGCGTTTTCGGTAAGTGGC
Found at i:27269875 original size:34 final size:34
Alignment explanation
Indices: 27269827--27269930 Score: 165
Period size: 34 Copynumber: 3.1 Consensus size: 34
27269817 GCATTTCTGT
27269827 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
1 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
*
27269861 TACTAATACTGTAAAGGGCTATGGCCCACACTGA
1 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
* *
27269895 TAATGATACTGTAATGGGCTATGGCCCTA-ACTGA
1 TACTGATACTGTAAAGGGCTATGGCCC-ACACTGA
27269929 TA
1 TA
27269931 TTGGACTGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
34 64 0.98
35 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (34 bp):
TACTGATACTGTAAAGGGCTATGGCCCACACTGA
Found at i:27275930 original size:17 final size:17
Alignment explanation
Indices: 27275878--27275932 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
27275868 ATATCAACAT
*
27275878 ATTCATACCCTATAATC
1 ATTCATACCTTATAATC
* * **
27275895 ATTCTTA--TTTTTTTC
1 ATTCATACCTTATAATC
27275910 ATTCATACCTTATAATC
1 ATTCATACCTTATAATC
27275927 ATTCAT
1 ATTCAT
27275933 CCATACATAT
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
15 10 0.37
17 17 0.63
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTCATACCTTATAATC
Found at i:27281062 original size:40 final size:40
Alignment explanation
Indices: 27281002--27281272 Score: 371
Period size: 40 Copynumber: 6.8 Consensus size: 40
27280992 GAAATTTCCA
* * **
27281002 TGAAAGCACATACGTGCCCCTGTTTGTACTTCAGTATGCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
27281042 TGAATGCACATACGTGCCCCTATTTATACTTCGGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
27281082 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACGCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
27281122 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
27281162 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGCCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
27281202 TAAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
27281242 TGAATGCACATATGTGCCCCTATTTGTACTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTT
27281273 TGAAACCCCA
Statistics
Matches: 205, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 205 1.00
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:27281098 original size:20 final size:20
Alignment explanation
Indices: 27281075--27281262 Score: 87
Period size: 20 Copynumber: 9.4 Consensus size: 20
27281065 TTATACTTCG
27281075 GTGCCCCTGAATGCACATAT
1 GTGCCCCTGAATGCACATAT
** * *
27281095 GTGCCCCTGTTTGTACTTCA-
1 GTGCCCCTGAATGCACAT-AT
* * *
27281115 GTACGCCTGAATGCACATAC
1 GTGCCCCTGAATGCACATAT
** * *
27281135 GTGCCCCTGTTTGTAC-TTT
1 GTGCCCCTGAATGCACATAT
*
27281154 GGTGCCCCTGAATGCACATAC
1 -GTGCCCCTGAATGCACATAT
** * *
27281175 GTGCCCCTGTTTGTAC-TTT
1 GTGCCCCTGAATGCACATAT
* * *
27281194 GGTGCCCTTAAATGCACATAC
1 -GTGCCCCTGAATGCACATAT
* * * **
27281215 GTGCCCCT-ATTTGTACTTCG
1 GTGCCCCTGA-ATGCACATAT
*
27281235 GTACCCCTGAATGCACATAT
1 GTGCCCCTGAATGCACATAT
27281255 GTGCCCCT
1 GTGCCCCT
27281263 ATTTGTACTT
Statistics
Matches: 113, Mismatches: 47, Indels: 16
0.64 0.27 0.09
Matches are distributed among these distances:
19 4 0.04
20 105 0.93
21 4 0.04
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.31
Consensus pattern (20 bp):
GTGCCCCTGAATGCACATAT
Found at i:27281140 original size:80 final size:80
Alignment explanation
Indices: 27281002--27281272 Score: 409
Period size: 80 Copynumber: 3.4 Consensus size: 80
27280992 GAAATTTCCA
* *
27281002 TGAAAGCACATACGTGCCCCTGTTTGTACTTCAGTATGCCTGAATGCACATACGTGCCCCTATTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTATTT
*
27281067 ATACTTCGGTGCCCC
66 GTACTTCGGTGCCCC
* *
27281082 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTGTTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTATTT
*
27281147 GTACTTTGGTGCCCC
66 GTACTTCGGTGCCCC
** * *
27281162 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGC-CCTTAAATGCACATACGTGCCCCTATT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCC-TGAATGCACATACGTGCCCCTATT
*
27281226 TGTACTTCGGTACCCC
65 TGTACTTCGGTGCCCC
* *
27281242 TGAATGCACATATGTGCCCCTATTTGTACTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTT
27281273 TGAAACCCCA
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 2 0.01
80 172 0.99
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTATTT
GTACTTCGGTGCCCC
Found at i:27290216 original size:27 final size:27
Alignment explanation
Indices: 27290185--27290260 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
27290175 CGTACCTGGA
27290185 CCCTTAAT-TGATAAAATGACTATTTTG
1 CCCTT-ATGTGATAAAATGACTATTTTG
* * *
27290212 CCCTTATGTGGTAAAATGATTATTTTT
1 CCCTTATGTGATAAAATGACTATTTTG
* * *
27290239 ACCTTATGTGGTAAAATAACTA
1 CCCTTATGTGATAAAATGACTA
27290261 AAATGCCCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACTATTTTG
Found at i:27300233 original size:50 final size:50
Alignment explanation
Indices: 27300157--27300397 Score: 292
Period size: 50 Copynumber: 4.9 Consensus size: 50
27300147 TGATGCTAGG
*
27300157 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTC
* *
27300207 GAGATATGAGAGCTAGTGTAATACCATGTTTGGGACATGGCATTAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTC
* *
27300257 AAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGC-CTC
* * * * * **
27300307 GATAGATGAGAGCAAATGTAAGACCATGTCTGGGACATGGCATC-GAAT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTC
** * * *
27300355 TTGATATGTGAGCCAGTGTAAGACCATG-TTAGGACATGGCATC
1 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC
27300398 GGCACCTTTC
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
47 13 0.08
48 21 0.13
49 1 0.01
50 130 0.78
51 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTC
Found at i:27309780 original size:21 final size:22
Alignment explanation
Indices: 27309744--27309787 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
27309734 TTTCTTCACA
*
27309744 ATCATAAGTCATACATCATCAT
1 ATCATAAGTCAAACATCATCAT
27309766 ATCAT-AGTCAAACATCATCAT
1 ATCATAAGTCAAACATCATCAT
27309787 A
1 A
27309788 AAGTCCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (22 bp):
ATCATAAGTCAAACATCATCAT
Found at i:27310359 original size:24 final size:24
Alignment explanation
Indices: 27310307--27310362 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27310297 TAGCATGCGT
*
27310307 ATATATATCATCATCCCTTTGTAC
1 ATATCTATCATCATCCCTTTGTAC
27310331 ATATCTATCATCATCCCTTTGTAC
1 ATATCTATCATCATCCCTTTGTAC
27310355 ATATCTAT
1 ATATCTAT
27310363 TTCATAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.43
Consensus pattern (24 bp):
ATATCTATCATCATCCCTTTGTAC
Found at i:27311078 original size:2 final size:2
Alignment explanation
Indices: 27311071--27311108 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27311061 TCCACATGGC
27311071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27311109 CAATTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27314084 original size:19 final size:18
Alignment explanation
Indices: 27314050--27314085 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27314040 TCGGTTTAAT
*
27314050 TAAACACAACGTTTTTCC
1 TAAACACAACGATTTTCC
27314068 TAAACACAAACGATTTTC
1 TAAACAC-AACGATTTTC
27314086 TTTAAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.31
Consensus pattern (18 bp):
TAAACACAACGATTTTCC
Found at i:27317917 original size:22 final size:22
Alignment explanation
Indices: 27317889--27317932 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27317879 AGTTTAATTT
27317889 AATTTGATAGTTAAATATTGAA
1 AATTTGATAGTTAAATATTGAA
27317911 AATTTGATAGTTAAATATTGAA
1 AATTTGATAGTTAAATATTGAA
27317933 CACATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
AATTTGATAGTTAAATATTGAA
Found at i:27322724 original size:25 final size:23
Alignment explanation
Indices: 27322671--27322724 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
27322661 AAAAAAGAAG
* * *
27322671 GAAAAGAATAAAAAGGAAGAAAC
1 GAAAAGAAAAAAAAAGAAGAAAA
27322694 GAAAAAGAAAAAACAAAGAAGAAAAA
1 G-AAAAGAAAAAA-AAAGAAG-AAAA
27322720 GAAAA
1 GAAAA
27322725 TGGAGATGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 10 0.40
25 10 0.40
26 4 0.16
ACGTcount: A:0.76, C:0.04, G:0.19, T:0.02
Consensus pattern (23 bp):
GAAAAGAAAAAAAAAGAAGAAAA
Found at i:27324861 original size:31 final size:31
Alignment explanation
Indices: 27324812--27324872 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
27324802 ATTTAAATAA
* * *
27324812 TAAAAATAATATTTTAAAATTTAATTTTAAT
1 TAAAAATAATAATATAAAAATTAATTTTAAT
* *
27324843 TAAAAATATTAATATAAAAATTATTTTTAA
1 TAAAAATAATAATATAAAAATTAATTTTAA
27324873 ATATTTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TAAAAATAATAATATAAAAATTAATTTTAAT
Found at i:27326488 original size:30 final size:30
Alignment explanation
Indices: 27326453--27326673 Score: 135
Period size: 30 Copynumber: 7.3 Consensus size: 30
27326443 ACCTTATTTT
27326453 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATATAATTATTTTATTA
27326483 TATATTATTTATATTAT-T-ATTA-TTTATTA
1 TATATTA--TATATTATATAATTATTTTATTA
* * *
27326512 TATATTAT-TTTTCACA-AATTATTATTATTT
1 TATATTATATATT-ATATAATTATT-TTATTA
* *
27326542 TACATTAT-TATTTATATATTATTATTATTTTTA
1 TATATTATATA-TTATATA--ATTATT-TTATTA
27326575 CTTATATTATATATT-TATTAATTA-TTTA-TA
1 --TATATTATATATTATA-TAATTATTTTATTA
**
27326605 TATATTATATATTAT-T--TT-TTACATATA
1 TATATTATATATTATATAATTATTTTAT-TA
*
27326632 TACTTTTATATTATATATTATAATTATTTTATTA
1 TA-TATTATA-TAT-TA-TATAATTATTTTATTA
27326666 TATATTAT
1 TATATTAT
27326674 TATGTCATTT
Statistics
Matches: 148, Mismatches: 16, Indels: 51
0.69 0.07 0.24
Matches are distributed among these distances:
25 4 0.03
26 3 0.02
27 7 0.05
28 23 0.16
29 19 0.13
30 30 0.20
31 7 0.05
32 10 0.07
33 20 0.14
34 8 0.05
35 15 0.10
36 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TATATTATATATTATATAATTATTTTATTA
Found at i:27326543 original size:89 final size:91
Alignment explanation
Indices: 27326450--27326674 Score: 232
Period size: 94 Copynumber: 2.5 Consensus size: 91
27326440 TTAACCTTAT
27326450 TTTTATATTATATATTATATAATTATTTTATTATATATTATTTATATTATT-ATTATTTATTATA
1 TTTTATATTATATATTATATAATTATTTTATTATATATTATTTAT-TTATTAATTATTTA-TATA
* *
27326514 TATTAT-TTTTCACAAATTA-TTAT-TA-
64 TATTATATATT-ACAAATTACATATATAC
* * *
27326539 TTTTACATTAT-TATTTATATATTATTATTATTTTTACTTATATTATATATTTATTAATTATTTA
1 TTTTATATTATATA-TTATATA--ATTATT-TTATTA--TATATTATTTATTTATTAATTATTTA
****
27326603 TATATATTATATATTATTTTTTACATATATAC
60 TATATATTATATATTACAAATTACATATATAC
27326635 TTTTATATTATATA-T-TATAATTATTTTATTATATATTATT
1 TTTTATATTATATATTATATAATTATTTTATTATATATTATT
27326675 ATGTCATTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
88 2 0.02
89 25 0.22
91 11 0.10
92 11 0.10
93 19 0.17
94 29 0.26
95 3 0.03
96 10 0.09
97 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (91 bp):
TTTTATATTATATATTATATAATTATTTTATTATATATTATTTATTTATTAATTATTTATATATA
TTATATATTACAAATTACATATATAC
Found at i:27326685 original size:24 final size:22
Alignment explanation
Indices: 27326536--27326724 Score: 88
Period size: 21 Copynumber: 9.0 Consensus size: 22
27326526 CAAATTATTA
* * *
27326536 TTATTTTACATTATTATTTA-T
1 TTATTATATATTATTATTCATT
* *
27326557 ATATTAT-TATTATT-TTTACTT
1 TTATTATATATTATTATTCA-TT
*
27326578 ATATTATATATTTATTAATT-A-T
1 TTATTATATA-TTATT-ATTCATT
27326600 TTA-TATATATTATATATT-ATT
1 TTATTATATATTAT-TATTCATT
*
27326621 TT-TTACATA-TA-TACTT--TT
1 TTATTATATATTATTA-TTCATT
* *
27326639 ATATTATATATTATAATT-ATT
1 TTATTATATATTATTATTCATT
27326660 TTATTATATATTATTATGTCA-T
1 TTATTATATATTATTAT-TCATT
* *
27326682 TT-TT-TATATTATTCTACATTT
1 TTATTATATATTATTATTCA-TT
27326703 TTATCTATATATTATTA-TCATT
1 TTAT-TATATATTATTATTCATT
27326725 AAAGATTTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 41
0.71 0.07 0.22
Matches are distributed among these distances:
18 5 0.04
19 14 0.11
20 30 0.23
21 51 0.38
22 12 0.09
23 9 0.07
24 10 0.08
25 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (22 bp):
TTATTATATATTATTATTCATT
Found at i:27326694 original size:3 final size:3
Alignment explanation
Indices: 27326446--27326676 Score: 101
Period size: 3 Copynumber: 74.3 Consensus size: 3
27326436 ATTTTTAACC
* *
27326446 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* **
27326490 TT- TATA TTA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTA TTA
1 TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA
* *
27326536 TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA TTT TTA CTTA -TA
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA -TTA TTA
27326581 TTA TATA TTTA TTAA TTA TT- TATA TATA TTA TATA TTA TT- TT- TTA
1 TTA T-TA -TTA TT-A TTA TTA T-TA T-TA TTA T-TA TTA TTA TTA TTA
* *
27326626 CATA TATA CTT- TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA TATA
1 -TTA T-TA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA
27326670 TTA TTA T
1 TTA TTA T
27326677 GTCATTTTTT
Statistics
Matches: 178, Mismatches: 18, Indels: 64
0.68 0.07 0.25
Matches are distributed among these distances:
2 23 0.13
3 104 0.58
4 49 0.28
5 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:27327013 original size:39 final size:38
Alignment explanation
Indices: 27326946--27327022 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
27326936 ATATTTGATA
* *
27326946 TTTTATATATTATTTTTCTAAATCAATATATTTTATATT
1 TTTTATATATTATTATTCTAAATAAATATATTTT-TATT
*
27326985 TTTTATATAATTATTATTCT-TATAAATATATTTTTATT
1 TTTTATAT-ATTATTATTCTAAATAAATATATTTTTATT
27327023 ATATGTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 4 0.12
39 20 0.59
40 10 0.29
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (38 bp):
TTTTATATATTATTATTCTAAATAAATATATTTTTATT
Found at i:27327024 original size:17 final size:17
Alignment explanation
Indices: 27326979--27327036 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
27326969 CAATATATTT
27326979 TATA-TTTTTTATATAA
1 TATATTTTTTTATATAA
*
27326995 T-TATTATTCTTATA-AA
1 TATATT-TTTTTATATAA
**
27327011 TATATTTTTATTATATGT
1 TATATTTTT-TTATATAA
27327029 TATATTTT
1 TATATTTT
27327037 AAATTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 2 0.06
16 7 0.21
17 16 0.48
18 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATATTTTTTTATATAA
Found at i:27334495 original size:82 final size:82
Alignment explanation
Indices: 27334396--27334820 Score: 715
Period size: 82 Copynumber: 5.2 Consensus size: 82
27334386 TAGACGGGGA
*
27334396 GCAGATCCAAGATGACAGATCTTATCTCTCTATATTCGACGGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
*
27334461 ATCTGACCTTCATCAGG
66 ATCTGACCTTCATCGGG
* *
27334478 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGAAGCAGATTGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
27334543 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
*
27334560 GCAGATCCAAGATGACAGATTTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
*
27334625 ATCTAACCTTCATCGGG
66 ATCTGACCTTCATCGGG
* *
27334642 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGAAGGGGAGCAGATCGAAGACATAGTAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
27334707 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
* * * *
27334724 GTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGAAGCAGATTGAAGACGTAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
* * *
27334789 ATTTGACCTTCATTGAG
66 ATCTGACCTTCATCGGG
27334806 GCAGATCCAAGATGA
1 GCAGATCCAAGATGA
27334821 TTTGGCATCT
Statistics
Matches: 321, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 321 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (82 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
ATCTGACCTTCATCGGG
Found at i:27336217 original size:2 final size:2
Alignment explanation
Indices: 27336204--27336237 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
27336194 AATCTAACCC
*
27336204 TA TA TA TT TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27336238 TGTTATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:27336296 original size:23 final size:26
Alignment explanation
Indices: 27336261--27336485 Score: 102
Period size: 26 Copynumber: 8.8 Consensus size: 26
27336251 ATTTTTAACC
*
27336261 TTATTTTTATATTATATATTACATA-A
1 TTATTATT-TATTATATATTACATATA
**
27336287 TTA-T-TTTATTATATATTATTTATA
1 TTATTATTTATTATATATTACATATA
* *
27336311 TTATTATTTATTATATATTATTTTTCACAAA
1 TTATTATTTATTATATATTA-----CATATA
* * * *
27336342 TTATTA-TTATTTTACATTATTATTTA
1 TTATTATTTATTATATATTA-CATATA
* *
27336368 TATATTA-TTATTATATTTTTACTTATA
1 T-TATTATTTATTATA-TATTACATATA
* *
27336395 TTATATATTTATTATTTATT-TATATA
1 TTAT-TATTTATTATATATTACATATA
* *
27336421 -TATTATATATTAT-TTTTACATATA
1 TTATTATTTATTATATATTACATATA
27336445 -TACTT-TTATATTATATATT--ATA-A
1 TTA-TTATT-TATTATATATTACATATA
27336468 TTA-T-TTTATTATATATTA
1 TTATTATTTATTATATATTA
27336486 TTATGTCATT
Statistics
Matches: 154, Mismatches: 27, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
21 11 0.07
22 3 0.02
23 18 0.12
24 28 0.18
25 13 0.08
26 31 0.20
27 21 0.14
28 10 0.06
30 11 0.07
31 8 0.05
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATTATTTATTATATATTACATATA
Found at i:27336303 original size:30 final size:30
Alignment explanation
Indices: 27336268--27336486 Score: 122
Period size: 28 Copynumber: 7.3 Consensus size: 30
27336258 ACCTTATTTT
*
27336268 TATATTATATATTACATAATTATTTTATTA
1 TATATTATATATTATATAATTATTTTATTA
*
27336298 TATA-T-TAT-TTATATTATTA-TTTATTA
1 TATATTATATATTATATAATTATTTTATTA
* * *
27336324 TATATTAT-TTTTCACA-AATTATTATTATTT
1 TATATTATATATT-ATATAATTATT-TTATTA
*
27336354 TACATTAT-TATT-TAT-A-TATTATTATTA
1 TATATTATATATTATATAATTATT-TTATTA
* * *
27336381 TATTTTTACTTATATTATATATTTATTAT-TTA
1 TA-TATTA--TATATTATATAATTATTTTATTA
*
27336413 TTTA-TATATATTATAT-ATTATTTTTACATATA
1 TATATTATATATTATATAATTA-TTTT--AT-TA
*
27336445 TACTTTTATATTATATATTATAATTATTTTATTA
1 TA-TATTATA-TAT-TA-TATAATTATTTTATTA
27336479 TATATTAT
1 TATATTAT
27336487 TATGTCATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 47
0.68 0.09 0.22
Matches are distributed among these distances:
26 11 0.08
27 26 0.18
28 28 0.19
29 4 0.03
30 22 0.15
31 6 0.04
32 10 0.07
33 7 0.05
34 12 0.08
35 5 0.03
36 2 0.01
37 7 0.05
38 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TATATTATATATTATATAATTATTTTATTA
Found at i:27336349 original size:53 final size:51
Alignment explanation
Indices: 27336292--27336487 Score: 172
Period size: 50 Copynumber: 3.8 Consensus size: 51
27336282 CATAATTATT
* *
27336292 TTATTATATATTATTTATATTATTATTTATTATATATTATTTTTCACA-A-A
1 TTATTATATATTATATATATTATTATATATTATATATTATTTTT-ACATATA
* * *
27336342 TTATTAT-TATTTTACATTATTATTTATATATTAT-TATTATATTTTTACTTATA
1 TTATTATATATTATATA-TATTA-TTATATATTATATA-T-TATTTTTACATATA
* *
27336395 TTATATATTTATTATTTAT-TTA-TATATATTATATATTATTTTTACATATA
1 TTAT-TATATATTATATATATTATTATATATTATATATTATTTTTACATATA
* * *
27336445 -TACTTTTATATTATATATTATAATTATTTTATTATATATTATT
1 TTA-TTATATATTATATA-TATTATTA-TATATTATATATTATT
27336488 ATGTCATTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
49 18 0.15
50 29 0.25
51 26 0.22
52 12 0.10
53 23 0.19
54 4 0.03
55 6 0.05
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (51 bp):
TTATTATATATTATATATATTATTATATATTATATATTATTTTTACATATA
Found at i:27336427 original size:58 final size:61
Alignment explanation
Indices: 27336266--27336489 Score: 198
Period size: 58 Copynumber: 3.7 Consensus size: 61
27336256 TAACCTTATT
*
27336266 TTTATATTATATATTACATAATTATTTTATTATATATTATT-TATATTATTATTTATTATATATT
1 TTTATATTATATATT--ATAATTATTTTATTATATA-TATTATATATTATTA-TTA-CATATA-T
27336330 A-
60 AC
* * * * * * *
27336331 TTT-T-TCACAAATTATTATTATTTTACATTAT-TAT-TTATATATTATTATTATATTTTTAC
1 TTTATATTATATATTATAATTATTTT--ATTATATATATTATATATTATTATTACATATATAC
*
27336390 -TTATATTATATATT-T-ATTA-TTTATTTATATATATTATATATTATTTTTACATATATAC
1 TTTATATTATATATTATAATTATTTTA-TTATATATATTATATATTATTATTACATATATAC
27336448 TTTTATATTATATATTATAATTATTTTATTATATATTATTAT
1 -TTTATATTATATATTATAATTATTTTATTATATA-TATTAT
27336490 GTCATTTTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 32
0.74 0.07 0.18
Matches are distributed among these distances:
55 1 0.01
56 4 0.03
57 6 0.05
58 29 0.22
59 6 0.05
60 25 0.19
61 22 0.17
62 13 0.10
63 21 0.16
64 1 0.01
65 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (61 bp):
TTTATATTATATATTATAATTATTTTATTATATATATTATATATTATTATTACATATATAC
Found at i:27336463 original size:60 final size:60
Alignment explanation
Indices: 27336267--27336489 Score: 201
Period size: 61 Copynumber: 3.6 Consensus size: 60
27336257 AACCTTATTT
*
27336267 TTATATTATATATTACATAATTATTTTATTATATATTATT-TATATTATTATTTA-TTATATA-
1 TTATATTATATATT--ATAATTATTTTATTATATA-TATTATATATTATTA-TTACATATATAC
* * * * * * *
27336328 TTATTTTTCACAAATTATTATTATTTTACATTAT-TAT-TTATATATTATTATTATATTTTTAC
1 TTA-TATT-ATATATTATAATTATTTT--ATTATATATATTATATATTATTATTACATATATAC
*
27336390 TTATATTATATATT-T-ATTA-TTTATTTATATATATTATATATTATTTTTACATATATAC
1 TTATATTATATATTATAATTATTTTA-TTATATATATTATATATTATTATTACATATATAC
27336448 TTTTATATTATATATTATAATTATTTTATTATATATTATTAT
1 --TTATATTATATATTATAATTATTTTATTATATA-TATTAT
27336490 GTCATTTTTT
Statistics
Matches: 132, Mismatches: 14, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
55 1 0.01
56 4 0.03
57 6 0.05
58 25 0.19
59 1 0.01
60 24 0.18
61 32 0.24
62 19 0.14
63 20 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (60 bp):
TTATATTATATATTATAATTATTTTATTATATATATTATATATTATTATTACATATATAC
Found at i:27336722 original size:23 final size:21
Alignment explanation
Indices: 27336673--27336724 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
27336663 ATCATTAATT
*
27336673 ACTTATTTTATATTATTCTAA
1 ACTTATTTTATATTATTATAA
27336694 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATAT-TATTATA-A
27336718 A-TTATTT
1 ACTTATTT
27336725 CATTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
ACTTATTTTATATTATTATAA
Found at i:27336849 original size:17 final size:17
Alignment explanation
Indices: 27336784--27336849 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
27336774 TCTAAACCAA
*
27336784 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
27336800 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
27336819 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
27336834 TATATATTATATTTTA
1 TATATATTATATTTTA
27336850 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.17
16 9 0.22
17 10 0.25
18 5 0.12
19 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:27338326 original size:19 final size:19
Alignment explanation
Indices: 27338289--27338388 Score: 168
Period size: 19 Copynumber: 5.3 Consensus size: 19
27338279 CAAGATTACA
27338289 ATATCATATCTTCAAGATTGC
1 ATATCATATC-T-AAGATTGC
27338310 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
27338329 ATATCATATCTAAGATTG-
1 ATATCATATCTAAGATTGC
27338347 -TATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
27338365 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
27338384 ATATC
1 ATATC
27338389 CTTAAAGATT
Statistics
Matches: 77, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.22
19 49 0.64
20 1 0.01
21 10 0.13
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:27338357 original size:36 final size:37
Alignment explanation
Indices: 27338280--27338388 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 37
27338270 TTAAATCTCC
*
27338280 AAGATTACAATATCATATCTTCAAGATTGCATATCATATCT
1 AAGATTGC-ATATCATATC-T-AAGATTG-ATATCATATCT
27338321 AAGATTGCATATCATATCTAAGATTG-TATCATATCT
1 AAGATTGCATATCATATCTAAGATTGATATCATATCT
27338357 AAGATTGCATATCATATCTAAGATTGCATATC
1 AAGATTGCATATCATATCTAAGATTG-ATATC
27338389 CTTAAAGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
36 36 0.55
38 11 0.17
39 1 0.02
40 10 0.15
41 7 0.11
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (37 bp):
AAGATTGCATATCATATCTAAGATTGATATCATATCT
Found at i:27342543 original size:11 final size:11
Alignment explanation
Indices: 27342527--27342569 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27342517 GTTTTAATTA
27342527 AATAAAATATT
1 AATAAAATATT
*
27342538 AAT-AAATATCC
1 AATAAAATAT-T
27342549 AATTAAAATATT
1 AA-TAAAATATT
27342561 AATAAAATA
1 AATAAAATA
27342570 ATATTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 12 0.44
12 3 0.11
13 6 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27354358 original size:27 final size:27
Alignment explanation
Indices: 27354312--27354393 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
27354302 CAACTTGATA
* *
27354312 TGGCCCTTCTTCTTGTAGTAGCCACAT
1 TGGCCCTTCTTTTTGCAGTAGCCACAT
27354339 TGGCCCTTCTTTTTGCAGTAGCCACAT
1 TGGCCCTTCTTTTTGCAGTAGCCACAT
27354366 TGGCCCTTCTTTTTGCAGTAGCCACAT
1 TGGCCCTTCTTTTTGCAGTAGCCACAT
27354393 T
1 T
27354394 TTTTGCCTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (27 bp):
TGGCCCTTCTTTTTGCAGTAGCCACAT
Found at i:27354773 original size:31 final size:31
Alignment explanation
Indices: 27354738--27354801 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
27354728 TAGACTCACC
27354738 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
1 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
*
27354769 TTCGGTTATTTTAAACGTGTAGAGATGTTGT
1 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
27354800 TT
1 TT
27354802 TAACACTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (31 bp):
TTCGGTTATTCTAAACGTGTAGAGATGTTGT
Found at i:27355523 original size:25 final size:25
Alignment explanation
Indices: 27355478--27355528 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
27355468 AGCTAATCAG
*
27355478 AGTTTAAGTGAGAAACTAAAAACAA
1 AGTTTAAGTGAGAAACGAAAAACAA
* *
27355503 AGTTTAATTGAGAGAA-GAAAACCAA
1 AGTTTAAGTGAGA-AACGAAAAACAA
27355528 A
1 A
27355529 AAACTTGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.20
Consensus pattern (25 bp):
AGTTTAAGTGAGAAACGAAAAACAA
Found at i:27358254 original size:7 final size:7
Alignment explanation
Indices: 27358242--27358269 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27358232 TCATAAGTCA
27358242 ATTTGAT
1 ATTTGAT
27358249 ATTTGAT
1 ATTTGAT
27358256 ATTTGAT
1 ATTTGAT
27358263 ATTTGAT
1 ATTTGAT
27358270 GCAACACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
ATTTGAT
Found at i:27362473 original size:12 final size:12
Alignment explanation
Indices: 27362456--27362496 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
27362446 TCCAGCGCAC
27362456 TATTTTTTTCTT
1 TATTTTTTTCTT
27362468 TATTTTTTTCCTT
1 TATTTTTTT-CTT
*
27362481 T-TTCTTTTC-T
1 TATTTTTTTCTT
27362491 TATTTT
1 TATTTT
27362497 AACAAGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 2 0.08
11 4 0.16
12 15 0.60
13 4 0.16
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (12 bp):
TATTTTTTTCTT
Found at i:27372866 original size:22 final size:19
Alignment explanation
Indices: 27372840--27372887 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
27372830 ATGCAATCTT
27372840 AGATATGATACAATCTTAGA
1 AGATATGAT-CAATCTTAGA
27372860 TATGATATG--CAATCTTAGA
1 -A-GATATGATCAATCTTAGA
27372879 AGATATGAT
1 AGATATGAT
27372888 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
AGATATGATCAATCTTAGA
Found at i:27372885 original size:17 final size:19
Alignment explanation
Indices: 27372828--27372878 Score: 88
Period size: 17 Copynumber: 2.8 Consensus size: 19
27372818 ATAATCTTCA
27372828 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
27372847 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
27372864 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
27372879 AGATATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.57
19 13 0.43
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:27372904 original size:22 final size:22
Alignment explanation
Indices: 27372828--27372901 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 22
27372818 ATAATCTTCA
27372828 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
27372847 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
27372864 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
27372886 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
27372902 GATTTAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 17 0.36
19 10 0.21
22 8 0.17
23 12 0.26
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:27380174 original size:93 final size:93
Alignment explanation
Indices: 27380062--27380233 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27380052 CGCCCATAAG
* *
27380062 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27380127 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
27380155 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27380220 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27380234 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Done.