Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 79 of 190
Found at i:22829854 original size:33 final size:33
Alignment explanation
Indices: 22829810--22829946 Score: 163
Period size: 33 Copynumber: 4.2 Consensus size: 33
22829800 TTGGAAGGGT
*
22829810 TCATCATCATCATCTCCGTCGTCTTCGTTGTTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
* * * *
22829843 TCATCACCATCATCTCTGTCGTCTTCATCATTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
* *
22829876 TCATCATCATCATCTTCGTCATCTTCGTCGTTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
* * *
22829909 TCATCATCATCA--T-CATCGTCATCGTCATTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
22829939 TCATCATC
1 TCATCATC
22829947 TTCGCCCTCT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 21 0.24
31 1 0.01
33 67 0.75
ACGTcount: A:0.18, C:0.31, G:0.11, T:0.40
Consensus pattern (33 bp):
TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
Found at i:22829877 original size:15 final size:15
Alignment explanation
Indices: 22829867--22829946 Score: 70
Period size: 15 Copynumber: 5.1 Consensus size: 15
22829857 TCTGTCGTCT
22829867 TCATCATTGTCATCA
1 TCATCATTGTCATCA
*
22829882 TCATCATCTTCGTCATCT
1 TCATCA--TT-GTCATCA
* *
22829900 TCGTCGTTGTCATCA
1 TCATCATTGTCATCA
** *
22829915 TCATCATCATCGTCA
1 TCATCATTGTCATCA
*
22829930 TCGTCATTGTCATCA
1 TCATCATTGTCATCA
22829945 TC
1 TC
22829947 TTCGCCCTCT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
15 35 0.71
16 2 0.04
17 2 0.04
18 10 0.20
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (15 bp):
TCATCATTGTCATCA
Found at i:22834278 original size:10 final size:9
Alignment explanation
Indices: 22834218--22834277 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 9
22834208 AAAATCGTTA
22834218 AAAATATATT
1 AAAA-ATATT
22834228 AAAAATCA-T
1 AAAAAT-ATT
22834237 AAAGAATATT
1 AAA-AATATT
22834247 AAAAATAATT
1 AAAAAT-ATT
22834257 AAAAATA-T
1 AAAAATATT
22834265 -AAAATATT
1 AAAAATATT
22834273 AAAAA
1 AAAAA
22834278 AGTATATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 6 0.14
8 2 0.05
9 15 0.34
10 21 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:22834304 original size:10 final size:9
Alignment explanation
Indices: 22834216--22834351 Score: 68
Period size: 9 Copynumber: 14.4 Consensus size: 9
22834206 AAAAAATCGT
22834216 TAAAAATATA
1 TAAAAAT-TA
*
22834226 TTAAAAATCA
1 -TAAAAATTA
22834236 TAAAGAA-TA
1 TAAA-AATTA
*
22834245 TTAAAAATAA
1 -TAAAAATTA
22834255 TTAAAAA-TA
1 -TAAAAATTA
22834264 TAAAATATTA
1 TAAAA-ATTA
*
22834274 -AAAAAGTA
1 TAAAAATTA
**
22834282 TATAATCTTA
1 TA-AAAATTA
22834292 TAAAAATTCA
1 TAAAAATT-A
22834302 TAAAAAATTA
1 T-AAAAATTA
*
22834312 TAAATATTA
1 TAAAAATTA
22834321 TAAAAA--A
1 TAAAAATTA
22834328 TCAAATTAATTA
1 T-AAA--AATTA
22834340 TAAAAA-TA
1 TAAAAATTA
22834348 TAAA
1 TAAA
22834352 TTTTTAAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 17 0.17
9 32 0.32
10 29 0.29
11 17 0.17
12 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:22834312 original size:20 final size:19
Alignment explanation
Indices: 22834216--22834328 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 19
22834206 AAAAAATCGT
* *
22834216 TAAAAATATATTAAAAATCA
1 TAAAAAT-TATAAAAAATTA
* *
22834236 TAAAGAA-TATTAAAAATAA
1 TAAA-AATTATAAAAAATTA
*
22834255 TTAAAAA-TATAAAATATTA
1 -TAAAAATTATAAAAAATTA
* * **
22834274 -AAAAAGTATATAATCTTA
1 TAAAAATTATAAAAAATTA
22834292 TAAAAATTCATAAAAAATTA
1 TAAAAATT-ATAAAAAATTA
*
22834312 TAAATATTATAAAAAAT
1 TAAAAATTATAAAAAAT
22834329 CAAATTAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.06
18 10 0.13
19 37 0.48
20 23 0.30
21 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAAATTATAAAAAATTA
Found at i:22834338 original size:28 final size:29
Alignment explanation
Indices: 22834272--22834351 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
22834262 TATAAAATAT
* * *
22834272 TAAAAAAGTATATAATCTTATAAAAATTCA
1 TAAAAAATTATA-AATATTATAAAAAATCA
22834302 TAAAAAATTATAAATATTATAAAAAATCA
1 TAAAAAATTATAAATATTATAAAAAATCA
** *
22834331 -AATTAATTATAAA-AATATAAA
1 TAAAAAATTATAAATATTATAAA
22834352 TTTTTAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.16
28 11 0.25
29 15 0.34
30 11 0.25
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (29 bp):
TAAAAAATTATAAATATTATAAAAAATCA
Found at i:22834352 original size:19 final size:18
Alignment explanation
Indices: 22834304--22834375 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 18
22834294 AAAATTCATA
22834304 AAAAATTATAAA-TATTAT
1 AAAAA-TATAAATTATTAT
22834322 AAAAA-ATCAAATTAATTAT
1 AAAAATAT-AAATT-ATTAT
22834341 AAAAATATAAATT-TT-T
1 AAAAATATAAATTATTAT
*
22834357 -AAAATATAAAATA-TAT
1 AAAAATATAAATTATTAT
22834373 AAA
1 AAA
22834376 TTAAAAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
15 12 0.26
16 4 0.09
17 7 0.15
18 6 0.13
19 15 0.33
20 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATAAATTATTAT
Found at i:22835112 original size:10 final size:9
Alignment explanation
Indices: 22835099--22835141 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
22835089 AATAAATGAT
22835099 TTTTTATAA
1 TTTTTATAA
*
22835108 TTTTTAT-T
1 TTTTTATAA
22835116 TTTTTAT-A
1 TTTTTATAA
22835124 TTTTTATAA
1 TTTTTATAA
22835133 GTTTTTATA
1 -TTTTTATA
22835142 CGTTTACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 14 0.47
9 8 0.27
10 8 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22835147 original size:18 final size:18
Alignment explanation
Indices: 22835116--22835168 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22835106 AATTTTTATT
**
22835116 TTTTTATATTTTTATAAG
1 TTTTTATACGTTTATAAG
*
22835134 TTTTTATACGTTTACAAG
1 TTTTTATACGTTTATAAG
* *
22835152 TTCTTAAACGTTTATAA
1 TTTTTATACGTTTATAA
22835169 TTTCTTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (18 bp):
TTTTTATACGTTTATAAG
Found at i:22835173 original size:18 final size:18
Alignment explanation
Indices: 22835126--22835174 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
22835116 TTTTTATATT
*
22835126 TTTATAAGTTT-TTATACG
1 TTTATAA-TTTCTTAAACG
* *
22835144 TTTACAAGTTCTTAAACG
1 TTTATAATTTCTTAAACG
22835162 TTTATAATTTCTT
1 TTTATAATTTCTT
22835175 TTTCAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTATAATTTCTTAAACG
Found at i:22835732 original size:2 final size:2
Alignment explanation
Indices: 22835725--22835772 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
22835715 GTACAACCAT
22835725 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22835767 TC TC TC
1 TC TC TC
22835773 CTGTTTTCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22836614 original size:9 final size:9
Alignment explanation
Indices: 22836597--22836633 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22836587 TGAGTTTTCG
22836597 AATTCGAAT
1 AATTCGAAT
*
22836606 AACTCGAAT
1 AATTCGAAT
22836615 AATTCGAAT
1 AATTCGAAT
22836624 AATTCGAAT
1 AATTCGAAT
22836633 A
1 A
22836634 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22836695 original size:21 final size:21
Alignment explanation
Indices: 22836669--22836711 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22836659 ACCCCAAACT
*
22836669 CTCAAACCTTTTTACTT-TTCC
1 CTCAAAAC-TTTTACTTCTTCC
22836690 CTCAAAACTTTTACTTCTTCC
1 CTCAAAACTTTTACTTCTTCC
22836711 C
1 C
22836712 ACATTCCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCAAAACTTTTACTTCTTCC
Found at i:22839477 original size:13 final size:13
Alignment explanation
Indices: 22839459--22839485 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22839449 AAGCTAAAGC
22839459 TACTTTCTGAAGT
1 TACTTTCTGAAGT
22839472 TACTTTCTGAAGT
1 TACTTTCTGAAGT
22839485 T
1 T
22839486 CTTCCATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TACTTTCTGAAGT
Found at i:22840399 original size:18 final size:18
Alignment explanation
Indices: 22840376--22840418 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22840366 ATTGGTTTGG
22840376 TTATTTTACTTAGTAGT-T
1 TTATTTTACTTAGT-GTAT
*
22840394 TTATTTAACTTAGTGTAT
1 TTATTTTACTTAGTGTAT
22840412 TTATTTT
1 TTATTTT
22840419 CACAGGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (18 bp):
TTATTTTACTTAGTGTAT
Found at i:22865941 original size:60 final size:60
Alignment explanation
Indices: 22865868--22865988 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
22865858 GGTTTAGTAA
*
22865868 GTTTGTATGTGCATTAGTTTGCAAAATACCAAGTTCCCGTGAAATTATTCATAATAGCAT
1 GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTCCCGTGAAATTATTCATAATAGCAT
**
22865928 GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTGTCGTGAAATTATTCATAATAGCAT
1 GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTCCCGTGAAATTATTCATAATAGCAT
22865988 G
1 G
22865989 AATGTGAGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (60 bp):
GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTCCCGTGAAATTATTCATAATAGCAT
Found at i:22873516 original size:52 final size:52
Alignment explanation
Indices: 22873438--22873538 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
22873428 CATGCACATA
* *
22873438 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTACTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
*
22873490 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTA
22873539 CGTTTCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
Found at i:22879842 original size:27 final size:27
Alignment explanation
Indices: 22879801--22879871 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 27
22879791 CACTAATGTG
22879801 TTGGCGAGCTGGGGGTTTGCTAGTCCT-T
1 TTGGCGAGCT-GGGGTTTGCTAGT-CTGT
22879829 TTGGCGAGCTGGGGTTTGCTAGTCTGT
1 TTGGCGAGCTGGGGTTTGCTAGTCTGT
22879856 TTGGCGA-CTGGGGTTT
1 TTGGCGAGCTGGGGTTT
22879872 TCCAGGATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 11 0.26
27 21 0.50
28 10 0.24
ACGTcount: A:0.07, C:0.15, G:0.41, T:0.37
Consensus pattern (27 bp):
TTGGCGAGCTGGGGTTTGCTAGTCTGT
Found at i:22881390 original size:50 final size:49
Alignment explanation
Indices: 22881335--22881519 Score: 192
Period size: 50 Copynumber: 3.7 Consensus size: 49
22881325 CATTGAGATT
* * *
22881335 ATGAGAGGTCCCATGTAAGACCATGTGTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
** * * *
22881385 ATGAGAGGTCCCCCGTAAGACCATGTCTTGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GAC
** * *
22881435 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AC
* * **
22881484 AAGAAACATCCCATGTAAGACCATGTCTGGGACATG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATG
22881520 TCTTTGACAT
Statistics
Matches: 111, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 32 0.29
50 78 0.70
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGAC
Found at i:22881472 original size:100 final size:104
Alignment explanation
Indices: 22881293--22881479 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 104
22881283 GAGATCCCAT
* **
22881293 GTAAGACCATGTCTAGGACATGGCATTGACATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGACATCA-T-AGATTATGAGAACTCCCATGTAAGACCA
* * *
22881358 TGTGTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
* *
22881399 GTAAGACCATGTCTTGGACATGGCATGGGCA-C-T-GA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGACATCATAGATTATGAGAACTCCCATGTAAGACCATA
*
22881460 TCTGGGATATGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
22881480 GTACAAGAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 40 0.56
101 2 0.03
103 1 0.01
105 1 0.01
106 28 0.39
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (104 bp):
GTAAGACCATGTCTAGGACATGGCATGGACATCATAGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:22881513 original size:49 final size:50
Alignment explanation
Indices: 22881287--22881519 Score: 182
Period size: 50 Copynumber: 4.6 Consensus size: 50
22881277 GGTAAAGAGA
* * * * **
22881287 TCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C--TGACA--A-GAGAAC
* * * * * * **
22881343 TCCCATGTAAGACCATGTGTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAAC
** * * *
22881393 TCCCCCGTAAGACCATGTCTTGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAAC
* * * *
22881443 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAAC
22881491 ATCCCATGTAAGACCATGTCTGGGACATG
1 -TCCCATGTAAGACCATGTCTGGGACATG
22881520 TCTTTGACAT
Statistics
Matches: 149, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 30 0.20
50 78 0.52
53 4 0.03
55 1 0.01
56 33 0.22
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAAC
Found at i:22895427 original size:52 final size:52
Alignment explanation
Indices: 22895343--22895628 Score: 346
Period size: 52 Copynumber: 5.5 Consensus size: 52
22895333 TCTAGCGAGC
* * *
22895343 GATCAGGTTCTGTTATGAGTATATTCCTTACTAAGTTTTGAAATGTGTGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* * * *
22895395 GATCAAGTTCTGTTATGAGTATGTTTCATACTAAGTTTTGAAAAGTGTGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* ** *
22895447 GATTAGGTTCCATTATGATTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* * * *
22895499 GATCAGGTTTTGTTATGATTATATTCCATACTAAGTTTTCAAATGTGTTAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* * ** *
22895551 GATTACGTTCCATTATGAGTATGTTCCATAC-AA-TTTTC-AATAGTATGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAAT-GTGTGAGT
22895601 GATCAGGTT-TCGTTATGAGTATGTTCCA
1 GATCAGGTTCT-GTTATGAGTATGTTCCA
22895629 CAATCGTCAG
Statistics
Matches: 200, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 3 0.01
50 34 0.17
51 2 0.01
52 161 0.81
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (52 bp):
GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
Found at i:22895529 original size:104 final size:104
Alignment explanation
Indices: 22895355--22895628 Score: 383
Period size: 104 Copynumber: 2.7 Consensus size: 104
22895345 TCAGGTTCTG
* * * * *
22895355 TTATGAGTATATTCCTTACTAAGTTTTGAAATGTGTGAGTGATCAAGTTCTGTTATGAGTATGTT
1 TTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGAGTATGTT
* * *
22895420 TCATACTAAGTTTTGAAAAGTGTGAGTGATTAGGTTCCA
66 CCATACTAAGTTTTCAAAAGTGTGAGTGATTACGTTCCA
* * *
22895459 TTATGATTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGATTATATT
1 TTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGAGTATGTT
* *
22895524 CCATACTAAGTTTTCAAATGTGTTAGTGATTACGTTCCA
66 CCATACTAAGTTTTCAAAAGTGTGAGTGATTACGTTCCA
* *
22895563 TTATGAGTATGTTCCATAC-AA-TTTTC-AATAGTATGAGTGATCAGGTTTCGTTATGAGTATGT
1 TTATGAGTATGTTCCATACTAAGTTTTCAAAT-GTGTGAGTGATCAGGTTTTGTTATGAGTATGT
22895625 TCCA
65 TCCA
22895629 CAATCGTCAG
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
101 3 0.02
102 37 0.25
103 2 0.01
104 109 0.72
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (104 bp):
TTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGAGTATGTT
CCATACTAAGTTTTCAAAAGTGTGAGTGATTACGTTCCA
Found at i:22908717 original size:52 final size:52
Alignment explanation
Indices: 22908654--22908871 Score: 276
Period size: 52 Copynumber: 4.2 Consensus size: 52
22908644 CTATTTTCTG
* *
22908654 GTGAGTGATCAGGTTCCATTATGAGTTTGTTCCATACTAAGTTTTCAAAAGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
* * *
22908706 TTGAGTAATCAGGTTCCGTTATGAGTATGTTTCATACTAAGTTTT-AAAATGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAA-GT
* * * * *
22908758 GTAAGTGATCAAGTTCCTTTATGAGTATGTTCCATACTATGTTCTCAAAAGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
* * ** *
22908810 GAGTGTGATCAGGTTTTGTTATGAGTATGTTCTATACTAAGTTTTCAAAAGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
*
22908862 GCGAGTGATC
1 GTGAGTGATC
22908872 GGTAATCTTC
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
51 4 0.03
52 131 0.94
53 4 0.03
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (52 bp):
GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
Found at i:22935254 original size:28 final size:28
Alignment explanation
Indices: 22935217--22935303 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
22935207 ATCTGGTTAT
* *
22935217 TGTATTGGGCTAAGGCCCACGCTATTAC
1 TGTACTGGGCTAAGGCCCACACTATTAC
*
22935245 TGTGCTGGGCTAAGGCCCACACTATTAC
1 TGTACTGGGCTAAGGCCCACACTATTAC
* * * *
22935273 TGTATTGGGATAAGGCCCACATTGTTAC
1 TGTACTGGGCTAAGGCCCACACTATTAC
22935301 TGT
1 TGT
22935304 TTGGGGCTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (28 bp):
TGTACTGGGCTAAGGCCCACACTATTAC
Found at i:22935311 original size:56 final size:56
Alignment explanation
Indices: 22935217--22935323 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
22935207 ATCTGGTTAT
* *
22935217 TGTATTGGGCTAAGGCCCACGCTATTACTGTGCTGGGCT-AAGGCCCACACTATTAC
1 TGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTGAA-GCCCACACTATTAC
* * *
22935273 TGTATTGGGATAAGGCCCACATTGTTACTGT-TTGGGGCTGAAGCCCACACT
1 TGTATTGGGATAAGGCCCACACTATTACTGTGCT-GGGCTGAAGCCCACACT
22935324 GTATTGTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 1 0.02
56 41 0.93
57 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.28
Consensus pattern (56 bp):
TGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTGAAGCCCACACTATTAC
Found at i:22935335 original size:56 final size:56
Alignment explanation
Indices: 22935214--22935335 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 56
22935204 AGTATCTGGT
* * *
22935214 TATTGTATTGGGCTAAGGCCCACGCTATTACTGTGCTGGGCTAAGGCCCACACTAT
1 TATTGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTAAGGCCCACACTAG
* * * *
22935270 TACTGTATTGGGATAAGGCCCACATTGTTACTGT-TTGGGGCTGAA-GCCCACACT-G
1 TATTGTATTGGGATAAGGCCCACACTATTACTGTGCT-GGGCT-AAGGCCCACACTAG
22935325 TATTGTTATTG
1 TATTG-TATTG
22935336 TATAGGGCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
55 5 0.09
56 48 0.87
57 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (56 bp):
TATTGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTAAGGCCCACACTAG
Found at i:22936028 original size:17 final size:17
Alignment explanation
Indices: 22936006--22936039 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22935996 TCCATAGTAT
22936006 TTCAATACATAAATAAA
1 TTCAATACATAAATAAA
22936023 TTCAATACATAAATAAA
1 TTCAATACATAAATAAA
22936040 GTTTTACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (17 bp):
TTCAATACATAAATAAA
Found at i:22936157 original size:40 final size:40
Alignment explanation
Indices: 22936100--22936289 Score: 236
Period size: 40 Copynumber: 4.8 Consensus size: 40
22936090 TAATTATTAA
22936100 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
** *
22936140 TGATTGCACATGTGTGCCCCTATTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
22936180 TGATTGCACATACGTGCCCCTATTTGTACTTCTGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * * * *
22936220 TAATTACACATACATGCCTCTGTTTGTACTTTGATACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
22936260 TAAATGCACTTACGTGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTATTTGTACT
22936290 CTAGTAACCC
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:22936179 original size:20 final size:19
Alignment explanation
Indices: 22936116--22936221 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 19
22936106 CACATACGTG
22936116 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
* *
22936136 CCCCTGA-TTGCACATGT-GTG
1 CCCCT-ATTTGTAC-T-TCGTA
22936156 CCCCTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCG-TA
* * *
22936176 CCCCTGA-TTGCACATACGTG
1 CCCCT-ATTTGTAC-TTCGTA
22936196 CCCCTATTTGTACTTCTGTA
1 CCCCTATTTGTACTTC-GTA
22936216 CCCCTA
1 CCCCTA
22936222 ATTACACATA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
18 1 0.02
19 6 0.09
20 52 0.79
21 6 0.09
22 1 0.02
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (19 bp):
CCCCTATTTGTACTTCGTA
Found at i:22938520 original size:13 final size:13
Alignment explanation
Indices: 22938502--22938528 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22938492 TTTCCCGAAA
22938502 TTATGAATTTATT
1 TTATGAATTTATT
22938515 TTATGAATTTATT
1 TTATGAATTTATT
22938528 T
1 T
22938529 AATGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:22938708 original size:50 final size:50
Alignment explanation
Indices: 22938628--22938863 Score: 364
Period size: 50 Copynumber: 4.7 Consensus size: 50
22938618 ATTTGGGTAA
* *
22938628 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTTGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
22938678 AGAGTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
22938728 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
22938778 AGAGGTCCCCTGTAAGACCATGCCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
22938828 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
22938864 TTTTGCAAGT
Statistics
Matches: 170, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 141 0.83
51 29 0.17
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:22941824 original size:21 final size:22
Alignment explanation
Indices: 22941795--22941845 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22941785 TCTCTCTCGC
*
22941795 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
22941816 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
22941838 TTT-ATTTT
1 TTTCATTTT
22941846 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:22947591 original size:51 final size:51
Alignment explanation
Indices: 22947531--22947665 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 51
22947521 AAAGTGATGG
* *
22947531 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCTGATAGT-TTCAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAAT-AA
* * * ** * * **
22947582 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATAA
22947633 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
22947666 TGAACCGAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 68 0.99
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATAA
Found at i:22947760 original size:45 final size:45
Alignment explanation
Indices: 22947669--22947763 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
22947659 TACTATGTGA
* *
22947669 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTAATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTGAATTCC
*
22947714 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAA-TCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTG-TGAATTCC
22947759 ACCGA
1 ACCGA
22947764 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 42 0.93
46 3 0.07
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTGAATTCC
Found at i:22952762 original size:17 final size:17
Alignment explanation
Indices: 22952742--22952775 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22952732 TTTTTTATAG
22952742 TTAAAATAATTTTTGAA
1 TTAAAATAATTTTTGAA
22952759 TTAAAATAATTTTTGAA
1 TTAAAATAATTTTTGAA
22952776 AATGATGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTAAAATAATTTTTGAA
Found at i:22957676 original size:33 final size:34
Alignment explanation
Indices: 22957621--22957684 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
22957611 TCTCTGATTT
22957621 TCTTTCTTTTTCCTCTCGTGTTTTTACCTCACAC
1 TCTTTCTTTTTCCTCTCGTGTTTTTACCTCACAC
* *
22957655 TCTTTGTTTTT-CTCTCTTGTTTTTACCTCA
1 TCTTTCTTTTTCCTCTCGTGTTTTTACCTCA
22957685 TTCTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.08, C:0.28, G:0.06, T:0.58
Consensus pattern (34 bp):
TCTTTCTTTTTCCTCTCGTGTTTTTACCTCACAC
Found at i:22957702 original size:12 final size:11
Alignment explanation
Indices: 22957685--22957722 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
22957675 TTTTACCTCA
22957685 TTCTTTTCTTT
1 TTCTTTTCTTT
22957696 CTTCTTTTCTATT
1 -TTCTTTTCT-TT
22957709 TTCTTTTCTTT
1 TTCTTTTCTTT
22957720 TTC
1 TTC
22957723 CTTCTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.20
12 18 0.72
13 2 0.08
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:22957734 original size:24 final size:24
Alignment explanation
Indices: 22957685--22957733 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22957675 TTTTACCTCA
*
22957685 TTCTTTTCTTTCTTCTTTTCTATT
1 TTCTTTTCTTTCTTCTTCTCTATT
22957709 TTCTTTTCTTT-TTCCTTCTC-ATT
1 TTCTTTTCTTTCTT-CTTCTCTATT
22957732 TT
1 TT
22957734 TTTCCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (24 bp):
TTCTTTTCTTTCTTCTTCTCTATT
Found at i:22957744 original size:23 final size:22
Alignment explanation
Indices: 22957702--22957748 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
22957692 CTTTCTTCTT
*
22957702 TTCTATTTTCTTTTCTTTTTCC
1 TTCTATTTTCTTTCCTTTTTCC
22957724 TTCTCATTTT-TTTCCTCTTTTCC
1 TTCT-ATTTTCTTTCCT-TTTTCC
22957747 TT
1 TT
22957749 TTGCTCTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (22 bp):
TTCTATTTTCTTTCCTTTTTCC
Found at i:22959443 original size:40 final size:40
Alignment explanation
Indices: 22959379--22959509 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
22959369 TGTTTGGATA
* * * *
22959379 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTG
1 AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
* * *
22959419 AAAAATGCCGCTATAAATCAAGCATTAGCGACTCTTTTTG
1 AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
* *
22959459 AAAAATGTCGCTATACATCGAGCATTAGCGGCACTTTTTG
1 AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
22959499 AAAAATGCCGC
1 AAAAATGCCGC
22959510 AAAAAAATTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
Found at i:22959589 original size:40 final size:39
Alignment explanation
Indices: 22959544--22959652 Score: 121
Period size: 39 Copynumber: 2.7 Consensus size: 39
22959534 AGCTTTAGTG
*
22959544 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATA-GATCTA
1 GCATTAGTGGCGCTTT-TGAAAAACGCCGCTATATG-TCGA
* * * * *
22959584 GCATTAGCGGCGCTTTTCAGAAATGCTGCTATATGTCGA
1 GCATTAGTGGCGCTTTTGAAAAACGCCGCTATATGTCGA
*
22959623 CCATTAGTGGCGCTTATTGAAAAACGCCGC
1 GCATTAGTGGCGCTT-TTGAAAAACGCCGC
22959653 AAAAAAATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
39 29 0.53
40 26 0.47
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (39 bp):
GCATTAGTGGCGCTTTTGAAAAACGCCGCTATATGTCGA
Found at i:22959669 original size:143 final size:145
Alignment explanation
Indices: 22959400--22959813 Score: 451
Period size: 143 Copynumber: 2.8 Consensus size: 145
22959390 TATAGATCGA
* * * * * *
22959400 GCATTAGCGGCGCTTTCTGAAAAATGCCGCTATAAATCAAGCATTAGCGACTCTTTTTGAAAAAT
1 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCGC-TTTTAAAAAAT
* * *
22959465 G-TCGCTATACATCGAGCATTAGCGGCACTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAA-C
65 GCT-GCTATA-GTCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACC
22959528 GCCA-TA-AGCTTTAGTG
128 GCCATTATAGCTTTAGTG
* * *
22959544 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCTAGCATTAGCGGCGCTTTTCAGAAATG
1 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTAAAAAATG
* * *
22959609 CTGCTATATGTCGACCATTAGTGGCGCTTATTGAAAAACGCCGCAAAAAAATTAAGCACAATGCC
66 CTGCTATA-GTCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAA--CC
22959674 GCCATTTTATGTTGAGCTTTAGTG
128 GCCA--TTA---T-AGCTTTAGTG
* * * * * *
22959698 GCATTAGTGGCACTTTTTAAAAAACGTCG-TCATAGGTCGAGCATTAGCGGCGCTTCTTAAAAAA
1 GCATTAGTGGCGCTTTCTGAAAAACGCCGCT-ATAGATCAAGCATTAGCGGCGCTT-TTAAAAAA
* *
22959762 TGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCACAAAAAA
64 TGCTGCTATAG-TCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAA
22959814 TTTAGTAAGA
Statistics
Matches: 227, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
143 62 0.27
144 48 0.21
146 5 0.02
149 2 0.01
153 1 0.00
154 58 0.26
155 51 0.22
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (145 bp):
GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTAAAAAATG
CTGCTATAGTCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACCGCC
ATTATAGCTTTAGTG
Found at i:22959758 original size:40 final size:40
Alignment explanation
Indices: 22959698--22959805 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
22959688 AGCTTTAGTG
* * * *
22959698 GCATTAGTGGCACTTTTTAAAAAACGTCG-TCATAGGTCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCT-ATAGATCGA
* *
22959738 GCATTAGCGGCGCTTCTTAAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
*
22959778 GCATTAGCGGCGCTTTTTGAAAAACGCC
1 GCATTAGCGGCGCTTTTTAAAAAACGCC
22959806 ACAAAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 57 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
Found at i:22959815 original size:154 final size:154
Alignment explanation
Indices: 22959534--22959813 Score: 402
Period size: 154 Copynumber: 1.8 Consensus size: 154
22959524 CAACGCCATA
* * *
22959534 AGCTTTAGTGGCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCTAGCATTAGCGGCGCTT
1 AGCTTTAGTGGCATTAGTGGCACTTTCTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTT
* * * * *
22959599 TTCAGAAATGCTGCTATATGTCGACCATTAGTGGCGCTTATTGAAAAACGCCGCAAAAAAATTAA
66 TTAAAAAATGCCGCTATATGTCGACCATTAGCGGCGCTTATTGAAAAACGCCACAAAAAAATTAA
22959664 GCACAATGCCGCCATTTTATGTTG
131 GCACAATGCCGCCATTTTATGTTG
* * *
22959688 AGCTTTAGTGGCATTAGTGGCACTTTTTAAAAAACGTCG-TCATAGGTCGAGCATTAGCGGCGCT
1 AGCTTTAGTGGCATTAGTGGCACTTTCTAAAAAACGCCGCT-ATAGATCGAGCATTAGCGGCGCT
* *
22959752 TCTTAAAAAATGCCGCTATA-GATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCACAAAAAA
65 T-TTAAAAAATGCCGCTATATG-TCGACCATTAGCGGCGCTTATTGAAAAACGCCACAAAAAA
22959814 TTTAGTAAGA
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
153 1 0.01
154 58 0.53
155 51 0.46
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (154 bp):
AGCTTTAGTGGCATTAGTGGCACTTTCTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTT
TTAAAAAATGCCGCTATATGTCGACCATTAGCGGCGCTTATTGAAAAACGCCACAAAAAAATTAA
GCACAATGCCGCCATTTTATGTTG
Found at i:22960285 original size:15 final size:15
Alignment explanation
Indices: 22960265--22960296 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22960255 AAAGGCTTGT
*
22960265 GGATTATGGGTTTAG
1 GGATTATGGGTTAAG
22960280 GGATTATGGGTTAAG
1 GGATTATGGGTTAAG
22960295 GG
1 GG
22960297 TTGAGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (15 bp):
GGATTATGGGTTAAG
Found at i:22960944 original size:37 final size:37
Alignment explanation
Indices: 22960893--22960966 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
22960883 GAAATTTGAT
*
22960893 ATATGAAAGGTTGATTGCTTTCATTAGATAATTCTAA
1 ATATGAAAGATTGATTGCTTTCATTAGATAATTCTAA
*
22960930 ATATGAGAGATTGATTGCTTTCATTAGATAATTCTAA
1 ATATGAAAGATTGATTGCTTTCATTAGATAATTCTAA
22960967 CTTAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (37 bp):
ATATGAAAGATTGATTGCTTTCATTAGATAATTCTAA
Found at i:22964463 original size:23 final size:24
Alignment explanation
Indices: 22964437--22964499 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 24
22964427 ATAATACTAT
*
22964437 TTTATATACATATGTATATAT-AA
1 TTTATATACAAATGTATATATCAA
* *
22964460 TTTATAT-CAAAT-TAT-TTTCAT
1 TTTATATACAAATGTATATATCAA
22964481 TTTATATACAAATGTATAT
1 TTTATATACAAATGTATAT
22964500 TATTGATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.06
21 11 0.33
22 9 0.27
23 10 0.30
24 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTATATACAAATGTATATATCAA
Found at i:22964516 original size:42 final size:44
Alignment explanation
Indices: 22964435--22964517 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
22964425 ATATAATACT
* *
22964435 ATTTTATATACATATGTATATATAATTTATATCAAATTATTTTC
1 ATTTTATATACAAATGTATATATAATTGATATCAAATTATTTTC
*
22964479 ATTTTATATACAAATGTATAT-T-ATTGATATCACATTATT
1 ATTTTATATACAAATGTATATATAATTGATATCAAATTATT
22964518 GTATTTTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 15 0.42
43 1 0.03
44 20 0.56
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (44 bp):
ATTTTATATACAAATGTATATATAATTGATATCAAATTATTTTC
Found at i:22969194 original size:49 final size:48
Alignment explanation
Indices: 22969066--22969243 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 48
22969056 GGGAATGAGA
* * **
22969066 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGC-ATGGCACCGACATGA-AAC
** *
22969116 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGATATGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGG-CACCGACATGAAAC
* * * *
22969165 TCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACAAGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCACCG-ACATGAAAC
*
22969213 ATCCCATGTAAGACCATGTTTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
22969244 TTTGGCATGT
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 7 0.06
49 60 0.55
50 41 0.38
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGCACCGACATGAAAC
Found at i:22970657 original size:43 final size:43
Alignment explanation
Indices: 22970610--22970733 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
22970600 AAAGTGATGT
* * * *
22970610 TAAAGGTCATGGTCCTTAGCGGTGT-TTATGATAAAAGCGCCAC
1 TAAAGGTCATGCTCTTTAGCGGCGTGTT-TGATAAAAGCACCAC
*
22970653 TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGCACCGC
1 TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGCACCAC
* * * *
22970696 TAAAGGTCATGCTCTTTAGCAGCCTTTTTCATAAAAGC
1 TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGC
22970734 GTCGTTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 69 0.97
44 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGCACCAC
Found at i:22970700 original size:86 final size:86
Alignment explanation
Indices: 22970547--22970715 Score: 198
Period size: 86 Copynumber: 2.0 Consensus size: 86
22970537 GGGTGTTATA
* * * * * * * *
22970547 GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGTAGCGATTGTGATAAAAGTGATGTTA
1 GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCAGCGATTGTGATAAAAGTCACGCTA
*
22970612 AAGGTCATGGTCCTTAGCGGT
66 AAGGTCATGCTCCTTAGCGGT
* *
22970633 GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCGGCG-TGTTTGATAAAAG-CACCGC
1 GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCAGCGAT-TGTGATAAAAGTCA-CGC
*
22970696 TAAAGGTCATGCTCTTTAGC
64 TAAAGGTCATGCTCCTTAGC
22970716 AGCCTTTTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 2 0.03
86 67 0.97
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (86 bp):
GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCAGCGATTGTGATAAAAGTCACGCTA
AAGGTCATGCTCCTTAGCGGT
Found at i:22974796 original size:20 final size:19
Alignment explanation
Indices: 22974763--22974801 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
22974753 TTATTGACAA
**
22974763 AATTTTGATTTGGTTCTGTG
1 AATTTTGACATGGTT-TGTG
22974783 AATTTTGACATGGTTTGTG
1 AATTTTGACATGGTTTGTG
22974802 GGTTTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.51
Consensus pattern (19 bp):
AATTTTGACATGGTTTGTG
Found at i:22977298 original size:50 final size:49
Alignment explanation
Indices: 22977153--22977337 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 49
22977143 ACCAGGTTCA
* * * *
22977153 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATA-
1 CATAGTAGCCTGCACATAGTACTACACACGTGACC--TATCATTCTGGTAC
** *
22977202 CAT-GTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TAT-TGGTAC
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-CCTATCAT-TCTGGTAC
*
22977250 GCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTAC
1 -CATAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCTGGTAC
* *
22977300 ACGTAGTAGCCTGCACATAGTACTATACACGTGACCTA
1 -CATAGTAGCCTGCACATAGTACTACACACGTGACCTA
22977338 GAAACTTCAC
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
47 4 0.04
48 29 0.26
49 11 0.10
50 69 0.61
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCTGGTAC
Found at i:22977518 original size:16 final size:16
Alignment explanation
Indices: 22977493--22977524 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22977483 ATCCAGTCCA
22977493 AAAATAACATTTTTGC
1 AAAATAACATTTTTGC
*
22977509 AAAATTACATTTTTGC
1 AAAATAACATTTTTGC
22977525 CCCTAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATAACATTTTTGC
Found at i:22978765 original size:4 final size:4
Alignment explanation
Indices: 22978756--22978786 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
22978746 AACTAAGTAA
22978756 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
22978787 AATAGAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22981135 original size:10 final size:10
Alignment explanation
Indices: 22981111--22981139 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
22981101 TTAAACTAAG
22981111 TAAAAATAAA
1 TAAAAATAAA
22981121 T-AAAATAAA
1 TAAAAATAAA
22981130 TAAAAATAAA
1 TAAAAATAAA
22981140 ACTTTACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:22981993 original size:21 final size:21
Alignment explanation
Indices: 22981947--22982023 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
22981937 TACAGGCTGC
* **
22981947 TCACACGGGCGCGTGTCCCCT
1 TCACACGGGCGTGTGTGGCCT
* *
22981968 CCACAGGGGCGTGTGTGGCCT
1 TCACACGGGCGTGTGTGGCCT
* *
22981989 TCACACGAGCATGTGTGGCCT
1 TCACACGGGCGTGTGTGGCCT
* *
22982010 TTACATGGGCGTGT
1 TCACACGGGCGTGT
22982024 AGACTCCCAC
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.13, C:0.30, G:0.34, T:0.23
Consensus pattern (21 bp):
TCACACGGGCGTGTGTGGCCT
Found at i:22983327 original size:27 final size:27
Alignment explanation
Indices: 22983297--22983351 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22983287 AAAAGTGTAA
*
22983297 AATTGTAGTTAAATTGTGAAATATTAT
1 AATTGAAGTTAAATTGTGAAATATTAT
22983324 AATTGAAGTTAAATTGTGAAATATTAT
1 AATTGAAGTTAAATTGTGAAATATTAT
22983351 A
1 A
22983352 TGGATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (27 bp):
AATTGAAGTTAAATTGTGAAATATTAT
Found at i:22985502 original size:16 final size:16
Alignment explanation
Indices: 22985481--22985564 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
22985471 AAAAATTATG
22985481 TTTTCTATCCTTCTAA
1 TTTTCTATCCTTCTAA
22985497 TTTTCTATCCCTTC-AA
1 TTTTCTAT-CCTTCTAA
* *
22985513 TTTTCCATCCTTCTAG
1 TTTTCTATCCTTCTAA
*
22985529 TTTGCTATCCCTT-T-A
1 TTTTCTAT-CCTTCTAA
* *
22985544 TTTTTTCATCTTTCTAA
1 TTTTCT-ATCCTTCTAA
22985561 TTTT
1 TTTT
22985565 ATTTCCACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
15 12 0.22
16 28 0.52
17 14 0.26
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTCTATCCTTCTAA
Found at i:22985523 original size:32 final size:32
Alignment explanation
Indices: 22985481--22985564 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
22985471 AAAAATTATG
*
22985481 TTTTCTATCCTTCTAATTTTCTATCCCTTCAA
1 TTTTCCATCCTTCTAATTTTCTATCCCTTCAA
* * * *
22985513 TTTTCCATCCTTCTAGTTTGCTATCCCTTTAT
1 TTTTCCATCCTTCTAATTTTCTATCCCTTCAA
* *
22985545 TTTTTCATCTTTCTAATTTT
1 TTTTCCATCCTTCTAATTTT
22985565 ATTTCCACCC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.57
Consensus pattern (32 bp):
TTTTCCATCCTTCTAATTTTCTATCCCTTCAA
Found at i:22987266 original size:152 final size:152
Alignment explanation
Indices: 22987062--22987734 Score: 927
Period size: 152 Copynumber: 4.3 Consensus size: 152
22987052 AACATGTTCG
* * * * *
22987062 TATTTCAGCCCTTTGTTCCTATTTTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTT
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTT
* * *
22987127 CTAATTTTATTATTTTACATTATTTTAGTAGATTATGTTTGAAATGTGTTCATTTAGTGTGTTTT
65 CTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTT
**
22987192 TTATTTAAATTAAAAAAAACCCT
130 TTAAATAAATTAAAAAAAACCCT
*
22987215 TATTTCGGCCCTTTGTTTGTATTTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTC
* * *
22987280 TAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTGTTAATTTACTGTGTTTTT
66 TAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTT
*
22987345 TAAATAAATT-AAAAAAATCCT
131 TAAATAAATTAAAAAAAACCCT
* * * *
22987366 TATTTTGGCTCTTTATTCGTATTTTTTTCCCCGAATTTTATTACTTTAAAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCCGGATTTTATTACTTTAAAAAAATATATTATTTT
* *
22987431 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTATGTTTT
65 CTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTT
* * *
22987496 TTAAATAAATTTAAAAAAATCTT
130 TTAAATAAATTAAAAAAAACCCT
* *
22987519 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAA-ATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AA-AAAAATATATTATTT
* * *
22987583 TCTACTTTTATTATTTTATATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTGT
64 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTT
*
22987648 TTTAAATAAATTTTAAAAAAAAACCTT
129 TTTAAATAAA--TT-AAAAAAAACCCT
*
22987675 TATTTCGGCTCGGCCCTTTGTTCGTATTTTTTCCCCGGATTTTATTACTTTCAATAAAAA
1 TA-TT----TCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AA-AAAAA
22987735 ACACACTTAA
Statistics
Matches: 468, Mismatches: 40, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
151 34 0.07
152 232 0.50
153 133 0.28
154 5 0.01
155 2 0.00
156 12 0.03
157 2 0.00
161 48 0.10
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (152 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTC
TAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAGTGTGTTTTT
TAAATAAATTAAAAAAAACCCT
Found at i:22988357 original size:125 final size:125
Alignment explanation
Indices: 22988136--22988409 Score: 462
Period size: 125 Copynumber: 2.2 Consensus size: 125
22988126 CGTTTACGTA
22988136 CTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
* * * * * *
22988200 ATTGCTTCTAGCAGGATGCTGTTTGATAAGAATTTGTGAAATCGCTG-CCTCGTGGATGCG
66 ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCAC-GCCCTCGTGGACGCG
*
22988260 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
22988325 ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCG
66 ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCG
22988385 CTTTTGCTACAGTAGGTCCTGGAAA
1 CTTTTGCTACAGTAGGTCCTGGAAA
22988410 TTGAGAGGAT
Statistics
Matches: 140, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
124 21 0.15
125 119 0.85
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
CTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCG
Found at i:22993420 original size:43 final size:43
Alignment explanation
Indices: 22993358--22993601 Score: 283
Period size: 43 Copynumber: 5.7 Consensus size: 43
22993348 CAATGTCACA
* *
22993358 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* * *
22993401 ACTAAAGGTCATGCTCTTTAGCGGCGCTTATTCCACAAACGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* * * *
22993444 GGTAAAGGTCATGTTCTTTAGTGGCGCTTATCTCAAAAACGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* *
22993487 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCTACAATCGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* * * * * * * ** *
22993530 GCTATAGATCTTG-ACTTTTAGTGGCGCTTTTCTCGTAAGCGCC
1 GCTAAAGGTCATGTTC-TTTAGCGGCGCTTATCCCACAAACGCC
22993573 GCTAAAGGTCATGTTCTTTAGCGGCGCTT
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTT
22993602 TTTCCAAAAA
Statistics
Matches: 165, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 163 0.99
44 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (43 bp):
GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
Found at i:22993611 original size:129 final size:129
Alignment explanation
Indices: 22993358--22993601 Score: 330
Period size: 129 Copynumber: 1.9 Consensus size: 129
22993348 CAATGTCACA
*
22993358 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGGTCATGCTCTTTAGC
1 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGATCATGCTCTTTAGC
* *
22993423 GGCGCTTATTCCACAAACGCCGGTAAAGGTCATGTTCTTTAGTGGCGCTTATCTCAAAAACGCC
66 GGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCTCAAAAACGCC
* * * * * * *
22993487 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCTACAATCGCCGCTATAGATCTTGACT-TTTAG
1 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGATCATG-CTCTTTAG
* ** *
22993551 TGGCGCTT-TTCTCGTAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
65 CGGCGCTTATTC-CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
22993602 TTTCCAAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 3 0.03
129 94 0.95
130 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (129 bp):
GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGATCATGCTCTTTAGC
GGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCTCAAAAACGCC
Found at i:22993632 original size:86 final size:86
Alignment explanation
Indices: 22993394--22993663 Score: 244
Period size: 86 Copynumber: 3.1 Consensus size: 86
22993384 CTTATCCCAC
* * * * * * * **
22993394 AAACGCCACTAAAGGTCATGCTCTTTAGCGGCGCTTATTCCACAAA-CGCCGGTAAAGGTCATG-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTA-TCCAAAAATCACCGCTATAGATCGCGA
* *
22993457 TTCTTTAGTGGCGCTTATCTCAA
65 CT-TTTAGTGGCGCTTTTCTCAA
* * * **
22993480 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCTACAATCGCCGCTATAGATCTTGAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCAAAAATCACCGCTATAGATCGCGAC
**
22993545 TTTTAGTGGCGCTTTTCTCGT
66 TTTTAGTGGCGCTTTTCTCAA
* * *
22993566 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAAAAAT-ACCG-TAATAGATGGCG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTATCCAAAAATCACCGCT-ATAGATCGCG
* *
22993629 ACTTTTAGCGACGCTTTT-TCGAA
64 ACTTTTAGTGGCGCTTTTCTC-AA
*
22993652 AAACGCCACTAA
1 AAACGCCGCTAA
22993664 TTTTGGAATT
Statistics
Matches: 152, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
85 8 0.05
86 134 0.88
87 10 0.07
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCAAAAATCACCGCTATAGATCGCGAC
TTTTAGTGGCGCTTTTCTCAA
Found at i:22999521 original size:25 final size:25
Alignment explanation
Indices: 22999493--22999571 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
22999483 ATTAATTAAA
*
22999493 TTATGTAAGTTATGTATTATATAAG
1 TTATGTAAGTTATATATTATATAAG
* *
22999518 TTATGTAAGTTACATATTATGTAAG
1 TTATGTAAGTTATATATTATATAAG
* * * *
22999543 CTATGTAAGTTGTATTTTATGTAAG
1 TTATGTAAGTTATATATTATATAAG
22999568 TTAT
1 TTAT
22999572 TTATTATGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATATATTATATAAG
Found at i:22999548 original size:41 final size:40
Alignment explanation
Indices: 22999492--22999596 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 40
22999482 TATTAATTAA
*
22999492 ATTATGTAAGTTATGTA-TTATATAAGTTATGTAAGTTACAT
1 ATTATGTAAGCTATGTAGTTATAT--GTTATGTAAGTTACAT
* * **
22999533 ATTATGTAAGCTATGTAAGTTGTATTTTATGTAAGTTATTT
1 ATTATGTAAGCTATGT-AGTTATATGTTATGTAAGTTACAT
22999574 ATTATGTAAGCTATGTAAGTTAT
1 ATTATGTAAGCTATGT-AGTTAT
22999597 GTATTATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 50 0.89
42 1 0.02
43 5 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (40 bp):
ATTATGTAAGCTATGTAGTTATATGTTATGTAAGTTACAT
Found at i:22999563 original size:66 final size:65
Alignment explanation
Indices: 22999492--22999830 Score: 306
Period size: 66 Copynumber: 5.3 Consensus size: 65
22999482 TATTAATTAA
* **
22999492 ATTATGTAAGTTATGTATTATATAAGTTATGTAAGTTACATATTATGTAAGCTATGTAAGTTGTA
1 ATTATGTAAGCTATGTATTATAT-AGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTA
22999557 T
65 T
* * * * * *
22999558 TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAGCTATGTCATAGACT
1 ATTATGTAAGCTATGTATTATAT-AGTTATGTAAGTTATGTATTATGTAAGCTATGT-A-AG--T
22999623 T-T-T
61 TGTAT
* * *
22999626 -TTATGTAAG-T-TG---TAT-T--TTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATAT
1 ATTATGTAAGCTATGTATTATATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTAT
* * * *
22999682 ATCATGTAAGCTATGTAAGTTGTAT-TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGT
1 ATTATGTAAGCTATGT-A-TTATATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGT
*
22999746 GT
64 AT
* * * *
22999748 ATTATGTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTATTATGTATGTTATGTAAGTTGTG
1 ATTATGTAAGCTATGTATTAT-ATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTA
22999813 T
65 T
**
22999814 AGAATGTAAGCTATGTA
1 ATTATGTAAGCTATGTA
22999831 AGTTATGTGA
Statistics
Matches: 229, Mismatches: 26, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
54 2 0.01
55 1 0.00
56 3 0.01
57 9 0.04
58 28 0.12
59 2 0.01
61 1 0.00
62 3 0.01
64 5 0.02
65 4 0.02
66 155 0.68
67 10 0.04
68 3 0.01
69 1 0.00
70 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (65 bp):
ATTATGTAAGCTATGTATTATATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTAT
Found at i:22999581 original size:25 final size:25
Alignment explanation
Indices: 22999553--22999836 Score: 113
Period size: 25 Copynumber: 10.8 Consensus size: 25
22999543 CTATGTAAGT
*
22999553 TGTATTTTATGTAAGTTATTTATTA
1 TGTATGTTATGTAAGTTATTTATTA
* * *
22999578 TGTAAGCTATGTAAGTTATGTATTA
1 TGTATGTTATGTAAGTTATTTATTA
* * * *
22999603 TATAAGCTATGTCATAGACTTTTTTATGTAA
1 TGTATGTTATGT-A-AG--TTATTTAT-T-A
*
22999634 GTTGTATTTTATGTAAGTTATTTATTA
1 --TGTATGTTATGTAAGTTATTTATTA
* * * * *
22999661 TGTAAGCTACGTAAGTTATATATCA
1 TGTATGTTATGTAAGTTATTTATTA
* *
22999686 TGTAAGCTATGTAAGTTGTATTTTATGTA
1 TGTATGTTATGTAAG-T-TA-TTTAT-TA
* * * * *
22999715 AGTTATTTATTATGTAAGCTATGTAAGT-
1 TG-TA--TGTTATGTAAGTTAT-TTATTA
* * * *
22999743 TGTGTATTATGTAAGCTATGTATTA
1 TGTATGTTATGTAAGTTATTTATTA
*
22999768 TGT-TAGTTATGTAAGTTATGTATTA
1 TGTAT-GTTATGTAAGTTATTTATTA
* * **
22999793 TGTATGTTATGTAAGTTGTGTAGAA
1 TGTATGTTATGTAAGTTATTTATTA
* *
22999818 TGTAAGCTATGTAAGTTAT
1 TGTATGTTATGTAAGTTAT
22999837 GTGAGTTATA
Statistics
Matches: 199, Mismatches: 41, Indels: 38
0.72 0.15 0.14
Matches are distributed among these distances:
24 3 0.02
25 137 0.69
26 3 0.02
27 6 0.03
28 6 0.03
29 17 0.09
30 7 0.04
31 3 0.02
32 9 0.05
33 8 0.04
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (25 bp):
TGTATGTTATGTAAGTTATTTATTA
Found at i:22999642 original size:83 final size:83
Alignment explanation
Indices: 22999544--22999697 Score: 272
Period size: 83 Copynumber: 1.9 Consensus size: 83
22999534 TTATGTAAGC
* * *
22999544 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATATAAG
22999609 CTATGTCATAGACTTTTT
66 CTATGTCATAGACTTTTT
*
22999627 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATATAAG
22999692 CTATGT
66 CTATGT
22999698 AAGTTGTATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (83 bp):
TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATATAAG
CTATGTCATAGACTTTTT
Found at i:22999763 original size:149 final size:149
Alignment explanation
Indices: 22999493--22999763 Score: 470
Period size: 149 Copynumber: 1.8 Consensus size: 149
22999483 ATTAATTAAA
* * *
22999493 TTATGTAAGTTATGTATTATATAAGTTATGTAAGTTACATATTATGTAAGCTATGTAAGTTGTAT
1 TTATGTAAGTTATGTATTATATAAGCTACGTAAGTTACATATCATGTAAGCTATGTAAGTTGTAT
22999558 TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAGCTATGTCATAGACT
66 TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAGCTATGTCATAGACT
22999623 TTTTTATGTAAGTTGTATT
131 TTTTTATGTAAGTTGTATT
* * *
22999642 TTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATGTAAGCTATGTAAGTTGTAT
1 TTATGTAAGTTATGTATTATATAAGCTACGTAAGTTACATATCATGTAAGCTATGTAAGTTGTAT
* *
22999707 TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTGTATTATGTAAGCTATGT
66 TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAGCTATGT
22999764 ATTATGTTAG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 114 1.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (149 bp):
TTATGTAAGTTATGTATTATATAAGCTACGTAAGTTACATATCATGTAAGCTATGTAAGTTGTAT
TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAGCTATGTCATAGACT
TTTTTATGTAAGTTGTATT
Found at i:22999804 original size:41 final size:41
Alignment explanation
Indices: 22999585--22999805 Score: 182
Period size: 41 Copynumber: 5.4 Consensus size: 41
22999575 TTATGTAAGC
*
22999585 TATGTAAGTTATGTATTATATAAGCTATGTCATAGACTT-T-T-T
1 TATGTAAGTTATGTATTATGTAAGCTATGT-A-AG--TTGTGTAT
* * * * * * *
22999627 TATGTAAGTTGTATTTTATGTAAGTTAT-TTA-TTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGT-A-T
* * * * *
22999668 TACGTAAGTTATATATCATGTAAGCTATGTAAGTTGTATTT
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
*
22999709 TATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTGTAT
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
* * * *
22999750 TATGTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
*
22999791 TATGTATGTTATGTA
1 TATGTAAGTTATGTA
22999806 AGTTGTGTAG
Statistics
Matches: 143, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 1 0.01
41 109 0.76
42 25 0.17
43 4 0.03
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (41 bp):
TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
Found at i:22999821 original size:41 final size:41
Alignment explanation
Indices: 22999694--22999830 Score: 118
Period size: 41 Copynumber: 3.3 Consensus size: 41
22999684 CATGTAAGCT
* * * * * *
22999694 ATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCT-
1 ATGTAAGTTATGTATTATGTAAGCTATGTATTATGTTAG-TA
* *
22999735 ATGTAAGTTGTGTATTATGTAAGCTATGTATTATGTTAGTT
1 ATGTAAGTTATGTATTATGTAAGCTATGTATTATGTTAGTA
* * *
22999776 ATGTAAGTTATGTATTATGTATGTTATGTAAGT-TGTGTAG-A
1 ATGTAAGTTATGTATTATGTAAGCTATGT-ATTATGT-TAGTA
*
22999817 ATGTAAGCTATGTA
1 ATGTAAGTTATGTA
22999831 AGTTATGTGA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.01
41 76 0.93
42 5 0.06
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (41 bp):
ATGTAAGTTATGTATTATGTAAGCTATGTATTATGTTAGTA
Found at i:22999952 original size:37 final size:37
Alignment explanation
Indices: 22999905--22999976 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
22999895 TAAGTTGTGA
22999905 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAT
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAT
*
22999942 AAGTTGTGTATTATGTAAGTTATTTAAGTTATGTA
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTA
22999977 TTATGAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (37 bp):
AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAT
Found at i:23000444 original size:31 final size:31
Alignment explanation
Indices: 23000409--23000470 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
23000399 TATATTAGAA
23000409 TTATTGAAA-AAAACATTATAATAAAAATATT
1 TTATT-AAATAAAACATTATAATAAAAATATT
* * * *
23000440 TTATTAAATTAAACTTTATAGTTAAAATATT
1 TTATTAAATAAAACATTATAATAAAAATATT
23000471 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
TTATTAAATAAAACATTATAATAAAAATATT
Found at i:23000835 original size:15 final size:16
Alignment explanation
Indices: 23000800--23000833 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
23000790 AACTTTTCAA
23000800 TTTAAAAAAAATATTT
1 TTTAAAAAAAATATTT
23000816 TTTAAAAAATAA-ATTT
1 TTTAAAAAA-AATATTT
23000832 TT
1 TT
23000834 AATAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAAAAAATATTT
Found at i:23001488 original size:9 final size:9
Alignment explanation
Indices: 23001474--23001504 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23001464 GTTAAACAAA
23001474 TCGAGTTAT
1 TCGAGTTAT
*
23001483 TCGAGTTAA
1 TCGAGTTAT
23001492 TCGAGTTAT
1 TCGAGTTAT
23001501 TCGA
1 TCGA
23001505 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23001602 original size:9 final size:9
Alignment explanation
Indices: 23001555--23001609 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
23001545 TGAGTTTTCG
23001555 AATTCGAAT
1 AATTCGAAT
*
23001564 AACTCGAAT
1 AATTCGAAT
*
23001573 AACTCGAAT
1 AATTCGAAT
23001582 AATTCGAAT
1 AATTCGAAT
23001591 AATTCGAAT
1 AATTCGAAT
*
23001600 AATTCAAAT
1 AATTCGAAT
23001609 A
1 A
23001610 TCAAACTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23003031 original size:15 final size:15
Alignment explanation
Indices: 23003011--23003048 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
23003001 TAATTATTTA
23003011 AAAAAATTATTTTTG
1 AAAAAATTATTTTTG
* *
23003026 AAAAAAATATTTTTT
1 AAAAAATTATTTTTG
23003041 AAAAAATT
1 AAAAAATT
23003049 TTAAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAAAATTATTTTTG
Found at i:23005015 original size:22 final size:25
Alignment explanation
Indices: 23004964--23005016 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 25
23004954 TTTTGATGAT
23004964 TAAATTATTGTTATTAAATATGCTTG
1 TAAATTATTGTTATT-AATATGCTTG
23004990 -AAATTATTG-TATT-ATAT-CTTG
1 TAAATTATTGTTATTAATATGCTTG
23005011 TAAATT
1 TAAATT
23005017 GGATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.15
22 9 0.35
24 4 0.15
25 9 0.35
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (25 bp):
TAAATTATTGTTATTAATATGCTTG
Found at i:23011518 original size:20 final size:19
Alignment explanation
Indices: 23011495--23011559 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
23011485 AAGCTCAAAC
23011495 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
23011515 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
23011535 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
23011555 GAGCT
1 GAGCT
23011560 GCGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:23013621 original size:20 final size:20
Alignment explanation
Indices: 23013593--23013631 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23013583 TTTAACAATT
*
23013593 TATAGTTTT-TTAGATTTTTA
1 TATACTTTTATTA-ATTTTTA
23013613 TATACTTTTATTAATTTTT
1 TATACTTTTATTAATTTTT
23013632 GAATGGTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TATACTTTTATTAATTTTTA
Found at i:23016762 original size:43 final size:43
Alignment explanation
Indices: 23016694--23017004 Score: 359
Period size: 43 Copynumber: 7.4 Consensus size: 43
23016684 GGTTTTGGAA
* * * *
23016694 ACAAACGCCGCTAAAGAGCAAGACCTTTAGCAGCACTTTTTCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* * * *
23016737 AAAAACGCCGCTAAAGAGCTGGACCTTTAGCTGCGCTTTTGCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* *
23016780 ACAAATGCCGCTAAAGAGCAGGACCTTTAGCGGTGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
*
23016823 ACAAACGCAGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* * * * * *
23016866 AAAAACACAGCTAAAGAGCCGGACTTTTAGCGGTGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* *
23016909 ACAAGCCCCGCTAAA-A--A-G-CC---AGACGGCGCTTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAG-CGGCGC-TTTTCCC
* *
23016946 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
23016989 ACAAACGCCGCTAAAG
1 ACAAACGCCGCTAAAG
23017005 GTCATGAAAA
Statistics
Matches: 227, Mismatches: 31, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
35 2 0.01
36 5 0.02
37 20 0.09
38 2 0.01
39 1 0.00
40 1 0.00
41 1 0.00
42 3 0.01
43 186 0.82
44 4 0.02
45 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
Found at i:23016985 original size:80 final size:79
Alignment explanation
Indices: 23016853--23017003 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
23016843 GGACCTTTAG
* * * ** *
23016853 CGGCGCTTTTCCCAAAAACACAGCTAAAGAGCCGGACTTTTAGCGGTGCTTTTCCCACAAGCCCC
1 CGGCGCTTTTCCCAAAAACACAGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACCCC
23016918 GCTAAAAAGCCAGA
66 GCTAAAAAGCCAGA
* * * *
23016932 CGGCGCTTTTTCCCACAAACGCCGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACGC
1 CGGCGC-TTTTCCCAAAAACACAGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACCC
23016997 CGCTAAA
65 CGCTAAA
23017004 GGTCATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 6 0.10
80 55 0.90
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (79 bp):
CGGCGCTTTTCCCAAAAACACAGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACCCC
GCTAAAAAGCCAGA
Found at i:23018534 original size:9 final size:9
Alignment explanation
Indices: 23018517--23018553 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23018507 TAAGTTTTCG
23018517 AATTCGAAT
1 AATTCGAAT
*
23018526 AACTCGAAT
1 AATTCGAAT
23018535 AATTCGAAT
1 AATTCGAAT
23018544 AATTCGAAT
1 AATTCGAAT
23018553 A
1 A
23018554 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23023082 original size:9 final size:9
Alignment explanation
Indices: 23023068--23023093 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23023058 CAATAATGGT
23023068 TGTAACCTC
1 TGTAACCTC
23023077 TGTAACCTC
1 TGTAACCTC
23023086 TGTAACCT
1 TGTAACCT
23023094 GTTTGTGAAA
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:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (9 bp):
TGTAACCTC
Found at i:23023241 original size:4 final size:4
Alignment explanation
Indices: 23023232--23023261 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
23023222 ATAATGTCGT
23023232 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AG
1 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AG
23023262 AGAGAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:23025882 original size:21 final size:21
Alignment explanation
Indices: 23025858--23025938 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
23025848 CCAAACCCCT
23025858 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCTTAAATCCC
*
23025879 AACCCTTAAACCAT-AATCCC
1 AACCCTTAAACCTTAAATCCC
* * * * *
23025899 TAATCCATAATCCCTAAAT-TC
1 -AACCCTTAAACCTTAAATCCC
23025920 ATACTCCTTAAACCTTAAA
1 A-AC-CCTTAAACCTTAAA
23025939 ATATGAACTC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
20 7 0.15
21 25 0.54
22 14 0.30
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCCTTAAACCTTAAATCCC
Found at i:23025906 original size:14 final size:14
Alignment explanation
Indices: 23025889--23025915 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23025879 AACCCTTAAA
23025889 CCATAATCCCTAAT
1 CCATAATCCCTAAT
23025903 CCATAATCCCTAA
1 CCATAATCCCTAA
23025916 ATTCATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:23026152 original size:15 final size:15
Alignment explanation
Indices: 23026132--23026188 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
23026122 CCTAATGCAT
23026132 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
23026147 CTAACCCTCT-AACCC
1 CTAACCC-CTAAACCC
* * *
23026162 CTAAACCTTAAATCC
1 CTAACCCCTAAACCC
*
23026177 C-AACCCTTAAAC
1 CTAACCCCTAAAC
23026189 TATAATCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 10 0.29
15 23 0.66
16 2 0.06
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:23026168 original size:8 final size:7
Alignment explanation
Indices: 23026132--23026165 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
23026122 CCTAATGCAT
23026132 CTAACCC
1 CTAACCC
23026139 CTAAACCC
1 CT-AACCC
23026147 CTAACCC
1 CTAACCC
23026154 TCTAACCC
1 -CTAACCC
23026162 CTAA
1 CTAA
23026166 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:23026224 original size:299 final size:292
Alignment explanation
Indices: 23025705--23026590 Score: 1168
Period size: 299 Copynumber: 3.0 Consensus size: 292
23025695 AATATATTTG
*
23025705 ATTTATTATTATCTCTTTTACAATTATTTAAGAACATATTTAAAATATAAATTAAAAAATAATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
* * * *
23025770 ATCTAAACTCAAAACCTTAACCCGACCCGTGAATCCCTAAACCTTAAATCCTTAA-CTCTTAACC
66 ATCTAAAC-CAAAACCCTAACTCGACCCCTGAATCCCT-AA-CTT-AA-CCCTAATCTC-TAACC
* *
23025834 CATAACGTCTAACCCCAAACCC-CTAACCCTTAAACCTTAAATCCCAACCCTTAAACCATAATCC
125 C----C-T-TAACCCCTAACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACCATAATCA
* *
23025898 CTAATCCATAATCCCTAAATTCATACTCCTTAAACCTTAAAATATGAACTCCTAAACCGGCCTTA
184 CTAATCCATAATCCCTAAATCCATACTCCTTAAACCTTAAAATATGAACTCCTAAACCAGCCTTA
* *
23025963 AATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAA
249 AATCTTAAATAAATCATATACCCTAAACAAAAAACCCTAAACAA
23026007 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAAATAATT
23026072 AATCTAAATCCAAAACCCTAACTCGACCCCTGAATCCCTAACTTTTAACCCCTAATGCATCTAAC
65 AATCTAAA-CCAAAACCCTAACTCGACCCCTGAATCCCTAAC--TTAA-CCCTAAT-C-TCTAAC
* * *
23026137 CCCTAAACCCCTAACCCTCTAACCCCTAAACCTTAAATCCCAACCCTTAAACTATAATCACTAAT
124 CCCTTAACCCCTAACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACCATAATCACTAAT
* *
23026202 CCAGAATCCCTAAATCCATACT-CTCTAAACCTTAAAATATGAACTCCTAAACCAACCTTAAATC
189 CCATAATCCCTAAATCCATACTCCT-TAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATC
23026266 TTAAATAAATCATATACCCTAAACAAAAAACCCTAAACAA
253 TTAAATAAATCATATACCCTAAACAAAAAACCCTAAACAA
* *
23026306 ATTTATTATTATCTCTTTTACAATTATATAAGAAAATATTTAAAATATAAATT-CAAAA-AATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
* * * * * * *
23026369 ATCTACACGCCCAAAATCCTAACTCAAGCCCTAAATCCCT-A---AACCCTAAATCCCTAA-CTC
66 ATCTA-A--ACCAAAACCCTAACTCGACCCCTGAATCCCTAACTTAACCCT-AATCTCTAACCCC
* * * *
23026429 TTAATCCCTAA-CGTCTAACCCTTAAACCTTAAATCTCAACCCTTAAACCATAATCTCTAATCCA
127 TTAACCCCTAACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACCATAATCACTAATCCA
* * *
23026493 TAATCCCTAAA-CCATACTCCCTAAAACTTAAAATA-GTAACTCCTAAACTAGCCTTAAATCTTA
192 TAATCCCTAAATCCATACTCCTTAAACCTTAAAATATG-AACTCCTAAACCAGCCTTAAATCTTA
23026556 AATAAATCATATACCCTAAACAAAAAACCCTAAAC
256 AATAAATCATATACCCTAAACAAAAAACCCTAAAC
23026591 TATAGTGATA
Statistics
Matches: 531, Mismatches: 38, Indels: 45
0.86 0.06 0.07
Matches are distributed among these distances:
286 1 0.00
287 79 0.15
288 59 0.11
289 11 0.02
290 4 0.01
291 5 0.01
292 5 0.01
296 10 0.02
297 6 0.01
298 39 0.07
299 192 0.36
300 1 0.00
301 1 0.00
302 61 0.11
303 47 0.09
304 8 0.02
305 2 0.00
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (292 bp):
ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
ATCTAAACCAAAACCCTAACTCGACCCCTGAATCCCTAACTTAACCCTAATCTCTAACCCCTTAA
CCCCTAACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACCATAATCACTAATCCATAAT
CCCTAAATCCATACTCCTTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATCTTAAATAA
ATCATATACCCTAAACAAAAAACCCTAAACAA
Found at i:23026417 original size:7 final size:8
Alignment explanation
Indices: 23026397--23026425 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23026387 CTAACTCAAG
23026397 CCCTAAAT
1 CCCTAAAT
23026405 CCCTAAA-
1 CCCTAAAT
23026412 CCCTAAAT
1 CCCTAAAT
23026420 CCCTAA
1 CCCTAA
23026426 CTCTTAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (8 bp):
CCCTAAAT
Found at i:23026417 original size:15 final size:15
Alignment explanation
Indices: 23026397--23026439 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
23026387 CTAACTCAAG
23026397 CCCTAAATCCCTAAA
1 CCCTAAATCCCTAAA
23026412 CCCTAAATCCCT-AA
1 CCCTAAATCCCTAAA
* *
23026426 CTCTTAATCCCTAA
1 CCCTAAATCCCTAA
23026440 CGTCTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.26
Consensus pattern (15 bp):
CCCTAAATCCCTAAA
Found at i:23026436 original size:14 final size:14
Alignment explanation
Indices: 23026397--23026440 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
23026387 CTAACTCAAG
23026397 CCCTAAATCCCTAAA
1 CCCTAAATCCCT-AA
23026412 CCCTAAATCCCTAA
1 CCCTAAATCCCTAA
* *
23026426 CTCTTAATCCCTAA
1 CCCTAAATCCCTAA
23026440 C
1 C
23026441 GTCTAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (14 bp):
CCCTAAATCCCTAA
Found at i:23026452 original size:21 final size:20
Alignment explanation
Indices: 23026408--23026502 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 20
23026398 CCTAAATCCC
* *
23026408 TAAACCCTAAATCCCTAACTCT
1 TAAACCCT-AA-CTCTAACCCT
*
23026430 TAATCCCTAACGTCTAACCCT
1 TAAACCCTAAC-TCTAACCCT
* *
23026451 TAAACCTTAAATCTCAACCCT
1 TAAACCCTAACTCT-AACCCT
* * *
23026472 TAAACCATAATCTCTAATCCA
1 TAAACCCTAA-CTCTAACCCT
*
23026493 TAATCCCTAA
1 TAAACCCTAA
23026503 ACCATACTCC
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 4 0.07
21 44 0.76
22 10 0.17
ACGTcount: A:0.37, C:0.34, G:0.01, T:0.28
Consensus pattern (20 bp):
TAAACCCTAACTCTAACCCT
Found at i:23026493 original size:14 final size:14
Alignment explanation
Indices: 23026472--23026517 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
23026462 TCTCAACCCT
*
23026472 TAAACCATAATCTC
1 TAAACCATAATCCC
*
23026486 TAATCCATAATCCC
1 TAAACCATAATCCC
*
23026500 TAAACCATACTCCC
1 TAAACCATAATCCC
23026514 TAAA
1 TAAA
23026518 ACTTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:23026925 original size:41 final size:41
Alignment explanation
Indices: 23026866--23027062 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
23026856 AAAATATTTC
* *
23026866 TAGCGGCGCTT-TTCCAAAAATGCCACTAAAGCCCCCAGCAT
1 TAGCGGCGCTTCTT-CAAAAACGCCGCTAAAGCCCCCAGCAT
23026907 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCCAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCCAGCAT
* * *
23026948 TAGCGGCGATTCTTCAAAAACGCCGCTAAAACCCCCAGAAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCCAGCAT
*
23026989 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTCAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCCAGCAT
*
23027030 TAGCGGCGCCTT-TTCAAAAACGCCCCTAAAGCC
1 TAGCGGCG-CTTCTTCAAAAACGCCGCTAAAGCC
23027063 ACGAAAGGTA
Statistics
Matches: 144, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 139 0.97
42 5 0.03
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCCAGCAT
Found at i:23032079 original size:45 final size:45
Alignment explanation
Indices: 23032028--23032195 Score: 192
Period size: 45 Copynumber: 3.7 Consensus size: 45
23032018 ATCAACACCA
* * *
23032028 GTACATAGTCCCTATTGTATGTATATGGCATGATAGCCAAGACCG
1 GTACATAGTACCTATTGTATGTATATGGCATGATAGCCAACACTG
* * * *
23032073 GTACATAGTACCTATTTTATTTATATGGCATGAAAACCAACACTG
1 GTACATAGTACCTATTGTATGTATATGGCATGATAGCCAACACTG
* * * **
23032118 GTAAATAGTATCTGTTGTATGTATACAGCATGATAGCCAACACTG
1 GTACATAGTACCTATTGTATGTATATGGCATGATAGCCAACACTG
* * * *
23032163 GTACATACTACTTGTTGTATTTATATGGCATGA
1 GTACATAGTACCTATTGTATGTATATGGCATGA
23032196 AATTTGGCAC
Statistics
Matches: 100, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 100 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (45 bp):
GTACATAGTACCTATTGTATGTATATGGCATGATAGCCAACACTG
Found at i:23032216 original size:90 final size:90
Alignment explanation
Indices: 23032014--23032232 Score: 249
Period size: 90 Copynumber: 2.4 Consensus size: 90
23032004 GTTAAAGTAA
* ** * ** *
23032014 GAAAATCAACACCAGTACATAGTCCCTATTGTATGTATATGGCATGATAGCCAAGACCGGTACAT
1 GAAAACCAACACCAGTACATAGTATCTGTTGTATGTATACAGCATGATAGCCAACACCGGTACAT
* *
23032079 AGTACCTATTTTATTTATATGGCAT
66 ACTACCTATTGTATTTATATGGCAT
** * *
23032104 GAAAACCAACACTGGTAAATAGTATCTGTTGTATGTATACAGCATGATAGCCAACACTGGTACAT
1 GAAAACCAACACCAGTACATAGTATCTGTTGTATGTATACAGCATGATAGCCAACACCGGTACAT
* *
23032169 ACTACTTGTTGTATTTATATGGCAT
66 ACTACCTATTGTATTTATATGGCAT
***** *
23032194 GAAATTTGGCACCAGTACATAGTATTTGTTGTATGTATA
1 GAAAACCAACACCAGTACATAGTATCTGTTGTATGTATA
23032233 TTCTAATTAT
Statistics
Matches: 105, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
90 105 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (90 bp):
GAAAACCAACACCAGTACATAGTATCTGTTGTATGTATACAGCATGATAGCCAACACCGGTACAT
ACTACCTATTGTATTTATATGGCAT
Found at i:23035938 original size:16 final size:17
Alignment explanation
Indices: 23035911--23035945 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
23035901 AGAGAGTTGA
23035911 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
23035928 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
23035944 GA
1 GA
23035946 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:23040011 original size:20 final size:20
Alignment explanation
Indices: 23039986--23040023 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23039976 ACCCCCTTTA
23039986 TTAACATAAA-AATTTAAATT
1 TTAACA-AAATAATTTAAATT
23040006 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
23040024 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAACAAAATAATTTAAATT
Found at i:23046688 original size:16 final size:15
Alignment explanation
Indices: 23046653--23046690 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
23046643 TAAGAGAGTT
23046653 GAGA-GAGAGGGTGA
1 GAGATGAGAGGGTGA
23046667 GAGATGAGAGGGATGA
1 GAGATGAGAGGG-TGA
*
23046683 GGGATGAG
1 GAGATGAG
23046691 GGATGATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 7 0.33
16 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.55, T:0.11
Consensus pattern (15 bp):
GAGATGAGAGGGTGA
Found at i:23047732 original size:17 final size:17
Alignment explanation
Indices: 23047710--23047742 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23047700 CACTAACATT
*
23047710 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
23047727 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
23047743 GCTCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:23047777 original size:43 final size:42
Alignment explanation
Indices: 23047730--23047859 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
23047720 GACAATAAAA
*
23047730 ATGCAACGACAATGCTCACTAACAAAATGAAAATTACAGTTAC
1 ATGCAACGACAATG-TCACTAATAAAATGAAAATTACAGTTAC
* * * * * *
23047773 ATGCAATG-C-ATG-AAC-ATTAAAATG-CAATGACAGTAAAC
1 ATGCAACGACAATGTCACTAATAAAATGAAAATTACAGT-TAC
* *
23047811 ATGCAACGACAATGTTCACTAATAAGATGAAAATTACAGCTAC
1 ATGCAACGACAATG-TCACTAATAAAATGAAAATTACAGTTAC
23047854 ATGCAA
1 ATGCAA
23047860 TGCTTGAATA
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
37 8 0.12
38 16 0.25
39 3 0.05
40 3 0.05
41 3 0.05
42 3 0.05
43 22 0.34
44 7 0.11
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (42 bp):
ATGCAACGACAATGTCACTAATAAAATGAAAATTACAGTTAC
Found at i:23047795 original size:38 final size:39
Alignment explanation
Indices: 23047747--23047867 Score: 93
Period size: 38 Copynumber: 3.0 Consensus size: 39
23047737 GACAATGCTC
*
23047747 ACTAACAAAATGAAAATTACAGTTACATGCAATGCATGA
1 ACTAATAAAATGAAAATTACAGTTACATGCAATGCATGA
* * * * * *
23047786 AC-ATTAAAATG-CAATGACAGTAAACATGCAACGACAATGTTC
1 ACTAATAAAATGAAAATTACAGT-TACATGCAATG-C-ATG--A
* * *
23047828 ACTAATAAGATGAAAATTACAGCTACATGCAATGCTTGA
1 ACTAATAAAATGAAAATTACAGTTACATGCAATGCATGA
23047867 A
1 A
23047868 TACTACAGCT
Statistics
Matches: 59, Mismatches: 16, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
37 8 0.14
38 16 0.27
39 4 0.07
40 3 0.05
41 2 0.03
42 3 0.05
43 16 0.27
44 7 0.12
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (39 bp):
ACTAATAAAATGAAAATTACAGTTACATGCAATGCATGA
Found at i:23047830 original size:81 final size:81
Alignment explanation
Indices: 23047695--23047867 Score: 267
Period size: 81 Copynumber: 2.1 Consensus size: 81
23047685 GTATTGTCCC
23047695 CAATGCACT-AACATTAAAATGCAATGACAATAAAAATGCAACGACAATGCTCACTAACAAAATG
1 CAATGCA-TGAACATTAAAATGCAATGACAATAAAAATGCAACGACAATGCTCACTAACAAAATG
*
23047759 AAAATTACAGTTACATG
65 AAAATTACAGCTACATG
* * * * *
23047776 CAATGCATGAACATTAAAATGCAATGACAGTAAACATGCAACGACAATGTTCACTAATAAGATGA
1 CAATGCATGAACATTAAAATGCAATGACAATAAAAATGCAACGACAATGCTCACTAACAAAATGA
23047841 AAATTACAGCTACATG
66 AAATTACAGCTACATG
*
23047857 CAATGCTTGAA
1 CAATGCATGAA
23047868 TACTACAGCT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (81 bp):
CAATGCATGAACATTAAAATGCAATGACAATAAAAATGCAACGACAATGCTCACTAACAAAATGA
AAATTACAGCTACATG
Found at i:23052809 original size:50 final size:50
Alignment explanation
Indices: 23052686--23052878 Score: 192
Period size: 50 Copynumber: 3.7 Consensus size: 50
23052676 GGTAAAGAAA
* *
23052686 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCATTGAGACTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG---CATCGAG---ATGAGAGG
*
23052742 TCCCATC-TAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGG
1 TCCCA-CGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
* * * **
23052792 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA-CTGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATC-GAGATGAGAGG
* * **
23052842 TCCCAAGTAAGACCATATCTGGGATGTGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
23052879 GTATAGGAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 2 0.02
50 79 0.66
53 6 0.05
56 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
Found at i:23052877 original size:100 final size:104
Alignment explanation
Indices: 23052692--23052878 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 104
23052682 GAAATCCCAT
* * ** *
23052692 GTAAGACCATGTCTGGGACATGGCATTGGAATCATTGAGACTATGAGAGGTCCCATCTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATTGG-AGCACT-AGACTATGAGAACTCCCAACTAAGACCA
* *
23052757 TGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCCCC
64 TATCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCCC
*
23052798 GTAAGACCATGTCTGGGACATGGCA-TGG-GCACT-GA-TATGAGAACTCCCAAGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATTGGAGCACTAGACTATGAGAACTCCCAACTAAGACCATA
**
23052859 TCTGGGATGTGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
23052879 GTATAGGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
101 2 0.03
103 3 0.04
105 3 0.04
106 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATTGGAGCACTAGACTATGAGAACTCCCAACTAAGACCATA
TCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCCC
Found at i:23052926 original size:49 final size:50
Alignment explanation
Indices: 23052681--23052927 Score: 176
Period size: 50 Copynumber: 4.8 Consensus size: 50
23052671 ATTTGGGTAA
* * * *
23052681 AGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCATTGAGACTATG
1 AGAACTCCCAAGTAAGACCATGTCTGGGACATGGCATTGG---CACT--GA-TAGG
** ** * * *
23052737 AGAGGTCCCATCTAAGACCATGTCTGGGACATGGCGTTGGCA-TCGAGATG
1 AGAACTCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCACT-GATAGG
** ** * *
23052787 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAACTCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGG
* ** *
23052837 AGAACTCCCAAGTAAGACCATATCTGGGATGTGGCATTGGCAGT-ATAGG
1 AGAACTCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGG
* * * *
23052886 A-AACATCCCATGTAATACCATGCCTGGGACATGGCTTTGGCA
1 AGAAC-TCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCA
23052928 TGTTATTATT
Statistics
Matches: 160, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
48 3 0.02
49 35 0.22
50 80 0.50
51 3 0.02
52 1 0.01
53 2 0.01
56 36 0.22
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAACTCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGG
Found at i:23055574 original size:22 final size:23
Alignment explanation
Indices: 23055531--23055587 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
23055521 GATCAGGAAA
*
23055531 TGCTCCTGTAATATCCCAAAAAT
1 TGCTACTGTAATATCCCAAAAAT
*
23055554 TGCTACTGTAATACCCCAAAAAT
1 TGCTACTGTAATATCCCAAAAAT
* *
23055577 TACTACAGTAA
1 TGCTACTGTAA
23055588 GAAAGTAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.28
Consensus pattern (23 bp):
TGCTACTGTAATATCCCAAAAAT
Found at i:23062667 original size:55 final size:50
Alignment explanation
Indices: 23062600--23062785 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 50
23062590 AGAGATTCAG
* * * *
23062600 TGTAAGATCATGTATGGGACATGGCATTGGCATCATTGAGACTTGAGAGGTCCCA
1 TGTAAGACCATGTCTAGGACATGGCATTGGCA-C--CGAGA--TGAGAGGTCCCA
* *
23062655 TGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * * **
23062705 CGTAAGACCATGTCTAGGACATGGCATTGGCA--GTACAGGAAACATCCCA
1 TGTAAGACCATGTCTAGGACATGGCATTGGCACCG-AGATGAGAGGTCCCA
* *
23062754 TGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TGTAAGACCATGTCTAGGACATGGCATTGGCA
23062786 TGTTATTATC
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.34
50 41 0.36
52 4 0.04
54 1 0.01
55 28 0.25
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
Found at i:23062778 original size:49 final size:49
Alignment explanation
Indices: 23062650--23062785 Score: 157
Period size: 49 Copynumber: 2.8 Consensus size: 49
23062640 ACTTGAGAGG
* * * * **
23062650 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-CGACAGGAAACA
**
23062700 TCCCCCGTAAGACCATGTCTAGGACATGGCATTGGCA-GTACAGGAAACA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACG-ACAGGAAACA
* *
23062749 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
23062786 TGTTATTATC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 38 0.52
50 34 0.47
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACGACAGGAAACA
Found at i:23066275 original size:21 final size:21
Alignment explanation
Indices: 23066249--23066291 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
23066239 GAACATGAGA
23066249 TAGTAAAGCTCCCAGGATCTT
1 TAGTAAAGCTCCCAGGATCTT
23066270 TAGTAAAGCTCCCAGGATCTT
1 TAGTAAAGCTCCCAGGATCTT
23066291 T
1 T
23066292 CATTTTGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (21 bp):
TAGTAAAGCTCCCAGGATCTT
Found at i:23067077 original size:21 final size:21
Alignment explanation
Indices: 23067039--23067078 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23067029 TTCTGGTATG
**
23067039 GATGCATTTGACTTTGTTGTC
1 GATGCATTTGACGGTGTTGTC
*
23067060 GATGCATTTGAGGGTGTTG
1 GATGCATTTGACGGTGTTG
23067079 ATCGTAGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.42
Consensus pattern (21 bp):
GATGCATTTGACGGTGTTGTC
Found at i:23068396 original size:17 final size:16
Alignment explanation
Indices: 23068365--23068398 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23068355 AAATATAATG
23068365 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
23068381 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
23068398 A
1 A
23068399 TGCCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:23069709 original size:56 final size:51
Alignment explanation
Indices: 23069643--23069925 Score: 232
Period size: 50 Copynumber: 5.7 Consensus size: 51
23069633 ATTTGGGTAA
* * *
23069643 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGACATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACATC--CGAG---ATG
*
23069699 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCGAGATG
* *
23069749 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCAT-CGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCGAGATG
* * * * *
23069799 AGAGGTCCC-------ACCATGTCTAGGACATGGCATGGGCA-CCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCGAGATG
** * * ** *
23069842 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTAGTAC-A-A-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACA-TCCGAGATG
* **
23069891 AAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
23069926 TTTGGCATGT
Statistics
Matches: 191, Mismatches: 25, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
43 34 0.18
49 31 0.16
50 81 0.42
51 1 0.01
52 1 0.01
53 3 0.02
55 1 0.01
56 39 0.20
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCGAGATG
Found at i:23069752 original size:50 final size:50
Alignment explanation
Indices: 23069696--23069932 Score: 240
Period size: 50 Copynumber: 4.9 Consensus size: 50
23069686 CATTGAGATT
23069696 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * *
23069746 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
23069796 ATGAGAGGTCCC-------ACCATGTCTAGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * * * *
23069839 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AG
* * ** *
23069888 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23069933 TGTTATTATC
Statistics
Matches: 152, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
43 34 0.22
49 38 0.25
50 80 0.53
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:23071473 original size:27 final size:27
Alignment explanation
Indices: 23071443--23071496 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23071433 CTGGGATCCC
23071443 CAACATGAATATTCAACATTATACTAA
1 CAACATGAATATTCAACATTATACTAA
23071470 CAACATGAATATTCAACATTATACTAA
1 CAACATGAATATTCAACATTATACTAA
23071497 GTGTTCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (27 bp):
CAACATGAATATTCAACATTATACTAA
Done.