Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 91 of 362
Found at i:29155978 original size:16 final size:16
Alignment explanation
Indices: 29155959--29155989 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29155949 CTTCTTCACT
29155959 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29155975 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29155990 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29155995 original size:20 final size:20
Alignment explanation
Indices: 29155956--29155995 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29155946 AAACTTCTTC
* *
29155956 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29155976 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29155996 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29156385 original size:108 final size:110
Alignment explanation
Indices: 29156228--29156425 Score: 258
Period size: 108 Copynumber: 1.8 Consensus size: 110
29156218 ATCCTTTTGA
* * * * * *
29156228 AACTTACCATTGCGATGTCTTGATATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATAGTCTTACATGATAGCCTTGCCTT-GGAAACCTCACCAA
29156291 -TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
29156336 AACTTATCAATGCCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTGGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATAGTCTTACATGATAGCCTTGCCTTGGAAACCTCACCAAT
* *
29156401 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTAGCATGGTCTTACA
29156426 CGGTATCCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
107 1 0.01
108 44 0.59
109 7 0.09
110 23 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATAGTCTTACATGATAGCCTTGCCTTGGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:29156435 original size:55 final size:53
Alignment explanation
Indices: 29156197--29156435 Score: 181
Period size: 55 Copynumber: 4.5 Consensus size: 53
29156187 ATTTCCATTA
* * * *
29156197 CTTGTCATGGTCTTACGTGGTATCCTT---TTGAAACTTACC-ATTGCGATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTGAAACTTACCAATTGCCATGC
* * *
29156246 CTTGATATGGTCTTACATGGTAGCCTTGCCTT-ATGAACTCACCAA-TGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTGA--AACTTACCAATTGCCATGC
* * * *
29156299 CTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA-TGCCATGT
1 CTTGA-CATGGTCTTACATGGTATCC-TTGCC-T-T-GAAACTTACCAATTGCCATGC
* * * *
29156354 CTTGACATAGTCTTACATGATTTCCTTGCCTTGGAAACCTTACCAATTTCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTT-GAAA-CTTACCAATTGCCATGC
* *
29156409 CTTGGCATGGTCTTACACGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
29156436 AAACCCTAAT
Statistics
Matches: 147, Mismatches: 27, Indels: 26
0.74 0.14 0.13
Matches are distributed among these distances:
49 23 0.16
51 1 0.01
52 5 0.03
53 40 0.27
54 10 0.07
55 65 0.44
56 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTGAAACTTACCAATTGCCATGC
Found at i:29163547 original size:16 final size:16
Alignment explanation
Indices: 29163528--29163558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29163518 CTTCTTCACT
29163528 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29163544 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29163559 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29163564 original size:20 final size:20
Alignment explanation
Indices: 29163525--29163564 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29163515 AAACTTCTTC
* *
29163525 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29163545 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29163565 TCATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29163936 original size:55 final size:53
Alignment explanation
Indices: 29163796--29164004 Score: 204
Period size: 55 Copynumber: 3.8 Consensus size: 53
29163786 TATCCTTTTG
* * * * *
29163796 AAACTTACCATTGCGATGTCTTGATATGGTCTTACATGGTAGCCTTGTCTTAT-
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATA
* * * *
29163849 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATA
* * * * *
29163903 ATAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA
1 A-AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATA
* * *
29163958 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 AAACTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
29164005 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 41 0.33
54 9 0.07
55 71 0.57
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATA
Found at i:29166528 original size:50 final size:50
Alignment explanation
Indices: 29166412--29166741 Score: 313
Period size: 50 Copynumber: 6.5 Consensus size: 50
29166402 TGAGAACACA
* * * *** * *
29166412 TGTGTAGTACTATGTGGAGGCTACTATGTGTTTAAGACAGTTTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACG
* * * *
29166464 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* ** * * *
29166514 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTT-GGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGG-TCACG
* * * * *
29166565 TGTGTAGTACTGAGTGCAGGCTACTATGCGTACCCGACAGCTT-GGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGG-TCACG
* * *
29166616 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * * *
29166666 TGTGTAGTACTAAGTGCAGGCTACTACATGTAGCAGATTGCTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
29166716 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
29166742 TTCTTATCGG
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
50 119 0.51
51 84 0.36
52 31 0.13
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
Found at i:29166581 original size:51 final size:51
Alignment explanation
Indices: 29166514--29166742 Score: 225
Period size: 51 Copynumber: 4.5 Consensus size: 51
29166504 TTAGGTCGCA
29166514 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
* * *
29166565 TGTGTAGTACTGAGTGCAGGCTACTATGCGTACCCGACAGCTTGGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
* * ** * * ***
29166616 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-TGGTTAGG-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTT-GGATCACG
* * *** * *
29166666 TGTGTAGTACTAAGTGCAGGCTACTA--CATGTAGCAGATTGCTAGG-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCA--TACCCGACAACTTGGATCACG
29166716 TGTGTAGTACTAAGTGCAGGCTACTAT
1 TGTGTAGTACTAAGTGCAGGCTACTAT
29166743 TCTTATCGGA
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
50 71 0.46
51 84 0.54
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
Found at i:29166665 original size:101 final size:100
Alignment explanation
Indices: 29166408--29166741 Score: 310
Period size: 101 Copynumber: 3.3 Consensus size: 100
29166398 ATTGTGAGAA
* * * * * * * *
29166408 CACATGTGTAGTACTATGTGGAGGCTACTATGTGTTTAAGACAGTTTTAGGTCATGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-GTTAGGTCACGTGTGTAGTA
* ** ** *
29166473 TTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
64 CTAAGTGCAGGCTACTACACGTACCAGACAGCTAGGT
* * ** * * ***
29166510 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTT-GGATCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTTAGG-TCACGTGTGTAGTA
* ** * *
29166574 CTGAGTGCAGGCTACTATGCGTACCCGACAGCTTGGAT
64 CTAAGTGCAGGCTACTACACGTACCAGACAGCTAGG-T
* *
29166612 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* * **
29166677 AAGTGCAGGCTACTACATGTAGCAGATTGCTAGGT
66 AAGTGCAGGCTACTACACGTACCAGACAGCTAGGT
29166712 CACATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
29166742 TTCTTATCGG
Statistics
Matches: 186, Mismatches: 43, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
100 31 0.17
101 85 0.46
102 70 0.38
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTACACGTACCAGACAGCTAGGT
Found at i:29167353 original size:21 final size:21
Alignment explanation
Indices: 29167329--29167370 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
29167319 TTATCCAAAT
29167329 CTTGTACTAAGAGATAATTAA
1 CTTGTACTAAGAGATAATTAA
29167350 CTTGTACTAAGAGATAATTAA
1 CTTGTACTAAGAGATAATTAA
29167371 TTTTTAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
CTTGTACTAAGAGATAATTAA
Found at i:29171090 original size:74 final size:75
Alignment explanation
Indices: 29170964--29171115 Score: 270
Period size: 74 Copynumber: 2.0 Consensus size: 75
29170954 TGGTTTAGCC
* * *
29170964 AATAAGTGCAGTTAATTCTTCAAATTCGTCCCTATTCTTCTATTTGACAGTTTTGACCTTTTTTC
1 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
29171029 ACTAAATATT
66 ACTAAATATT
29171039 AATAAGTGCAGTTAATTCTTCAAA-TCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
1 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
29171103 ACTAAATATT
66 ACTAAATATT
29171113 AAT
1 AAT
29171116 TATCTCTTAG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 50 0.68
75 24 0.32
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (75 bp):
AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
ACTAAATATT
Found at i:29175680 original size:48 final size:48
Alignment explanation
Indices: 29175548--29175878 Score: 247
Period size: 48 Copynumber: 6.9 Consensus size: 48
29175538 GGTAAATTGT
* * * * * * *
29175548 CGATGCCATGTCCCAAACATGGTCCTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
* * * * *
29175596 TGATGCCAAGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
* * **
29175644 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGAT-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AT-CAATGC
* * * * * *
29175693 C-TTGCCATGTCCTAGACATGGTCTTACACTAGCGCACCTAACAATG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
* * * * *
29175739 CAATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATAACATTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
* * * ** * * * *
29175787 TGTTTCCATGTTTCAAACATGGTCTTATACTGGCTCTCATATC-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-GC
* * * *
29175835 CGACGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
29175879 CCCAAATGTC
Statistics
Matches: 216, Mismatches: 60, Indels: 13
0.75 0.21 0.04
Matches are distributed among these distances:
46 3 0.01
47 40 0.19
48 168 0.78
49 3 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
Found at i:29175813 original size:95 final size:95
Alignment explanation
Indices: 29175599--29175780 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 95
29175589 TCGAGGCTGA
* * * * ** *
29175599 TGCCAAGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACAT
1 TGCCATGT-CCAAACATGGTCTTACACTAGCGCACCTAACAATGCCAATGCCATGTCCCAGACAT
*
29175664 GGTCTTACACTGGCTCTAATAATGTGATCCT
65 GGTCTTACACTAGCTCTAATAATGTGATCCT
* *
29175695 TGCCATGTCCTAGACATGGTCTTACACTAGCGCACCTAACAATG-CAATGCCATGTCCCGGACAT
1 TGCCATGTCC-AAACATGGTCTTACACTAGCGCACCTAACAATGCCAATGCCATGTCCCAGACAT
*
29175759 GGTCTTACACTAGCTCTCATAA
65 GGTCTTACACTAGCTCTAATAA
29175781 CATTGTTGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
95 40 0.54
96 34 0.46
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
TGCCATGTCCAAACATGGTCTTACACTAGCGCACCTAACAATGCCAATGCCATGTCCCAGACATG
GTCTTACACTAGCTCTAATAATGTGATCCT
Found at i:29182273 original size:48 final size:48
Alignment explanation
Indices: 29182221--29182502 Score: 228
Period size: 48 Copynumber: 5.9 Consensus size: 48
29182211 GTAAACTACT
* * *
29182221 GATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
29182269 GATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCC
** * * * * * * *
29182317 CTTGCTATGTCCTAGACATGGTCTTACACTAG-TGCACCTAACAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCGAGGCC
* * * * ****
29182365 GATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATAAC-ATTATT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-GGCC
* * * * *
29182413 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
29182461 GACGCCACGTCCCAGACATGGTCTTACACTAGCACACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
29182503 ACCCAAATGT
Statistics
Matches: 178, Mismatches: 50, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
47 3 0.02
48 173 0.97
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:29185072 original size:42 final size:44
Alignment explanation
Indices: 29185000--29185194 Score: 171
Period size: 48 Copynumber: 4.2 Consensus size: 44
29184990 TAATCCAACT
*
29185000 ATGGTCTTACA-GAAGTCACATATC-G-ATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATCAGCATGCCATGTCCCAGAC
*
29185041 ATGGTCTTACACGAAATCACATATCGATGCCAATGCCATGTCCCATAC
1 ATGGTCTTACACGAAATCACATATC-A-G-C-ATGCCATGTCCCAGAC
** *
29185089 ATGGTCTTACACGGGATCATATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATC-A-G-C-ATGCCATGTCCCAGAC
* ** * *
29185137 ATGGTCTTACATGGGATCACATATCGATGAAATGTCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATC-A-G-CATGCCATGTCCCAGAC
*
29185184 ATTGTCTTACA
1 ATGGTCTTACA
29185195 AGGGATCACA
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
41 11 0.08
42 12 0.09
45 1 0.01
47 25 0.19
48 86 0.64
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGAAATCACATATCAGCATGCCATGTCCCAGAC
Found at i:29185194 original size:47 final size:48
Alignment explanation
Indices: 29185025--29185204 Score: 272
Period size: 48 Copynumber: 3.8 Consensus size: 48
29185015 TCACATATCG
**
29185025 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
* *
29185073 ATGCCATGTCCCATACATGGTCTTACACGGGATCATATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
* *
29185121 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG-AA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
* * *
29185168 ATGTCATGTCCCAGACATTGTCTTACAAGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACA
29185205 ATGCCATAGC
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 35 0.29
48 86 0.71
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
Found at i:29185228 original size:37 final size:37
Alignment explanation
Indices: 29185187--29185268 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
29185177 CCCAGACATT
*
29185187 GTCTTACAAGGGATCACAATGCCATAGCCCAGCTATG
1 GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
* * * *
29185224 GTCTTACATGTCATTACGATGCCATAGCCCAGCTATG
1 GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
*
29185261 GTGTTACA
1 GTCTTACA
29185269 CGTACTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (37 bp):
GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
Found at i:29188246 original size:30 final size:30
Alignment explanation
Indices: 29188212--29188272 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
29188202 GTATGTGCAC
*
29188212 TATCAATCACAATGGGTTATAAACAATTAT
1 TATCAATCACAATGGGTAATAAACAATTAT
*
29188242 TATCAATCATAATGGGTAATAAACAATTAT
1 TATCAATCACAATGGGTAATAAACAATTAT
29188272 T
1 T
29188273 TCCACAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (30 bp):
TATCAATCACAATGGGTAATAAACAATTAT
Found at i:29195828 original size:40 final size:40
Alignment explanation
Indices: 29195795--29196066 Score: 440
Period size: 40 Copynumber: 6.8 Consensus size: 40
29195785 GGATATAGCC
*
29195795 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
29195835 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
29195875 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
29195915 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
29195955 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
29195995 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
29196035 ACTAGAACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
29196067 TTATCATCCG
Statistics
Matches: 219, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 217 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:29200338 original size:48 final size:48
Alignment explanation
Indices: 29200273--29200745 Score: 802
Period size: 48 Copynumber: 9.9 Consensus size: 48
29200263 TATATATGTG
*
29200273 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
29200321 TGCGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
29200369 TGCGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
29200417 TGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
29200465 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
29200513 TGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
29200561 TGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
29200609 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
29200657 CGTGGTAAAGTCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
29200705 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
29200746 GTGTGTATAT
Statistics
Matches: 402, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 402 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:29200927 original size:37 final size:37
Alignment explanation
Indices: 29200886--29200986 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
29200876 GGAAATATAT
*
29200886 TCCGGGTAAGACCCGATGACTACTTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29200923 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29200960 TCCGGGTAAGACCCGATAACTACGTGT
1 TCCGGGTAAGACCCGATGACTACGTGT
29200987 AGGGACTATT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:29207666 original size:40 final size:39
Alignment explanation
Indices: 29207610--29207835 Score: 345
Period size: 40 Copynumber: 5.8 Consensus size: 39
29207600 CGGATATAGC
*
29207610 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
29207649 AGTTCGCACAAATGCCTT-GGGACTTAGCCCGGAATTAGT
1 A-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
29207688 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 -ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
29207728 A---GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
29207764 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 -ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
29207804 CACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 -ACTCGCACAAATGCCTTCGGGACTTAGCCCG
29207836 TTATCATCCG
Statistics
Matches: 174, Mismatches: 5, Indels: 15
0.90 0.03 0.08
Matches are distributed among these distances:
36 35 0.20
37 1 0.01
39 35 0.20
40 103 0.59
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:29207774 original size:76 final size:77
Alignment explanation
Indices: 29207610--29207835 Score: 357
Period size: 76 Copynumber: 2.9 Consensus size: 77
29207600 CGGATATAGC
* * *
29207610 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTT-GGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-AT--TAGCTAGCACAAATGCCTTCGGGACTT
29207674 AGCCCGGAATTAGTA
63 AGCCCGGAATTAGTA
29207689 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG-TAGCACAAATGCCTTCGGGACTTAGC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGCTAGCACAAATGCCTTCGGGACTTAGC
29207753 CCGGAATTAGTA
66 CCGGAATTAGTA
29207765 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG---CTAGCACAAATGCCTTCGGGACTT
29207830 AGCCCG
63 AGCCCG
29207836 TTATCATCCG
Statistics
Matches: 140, Mismatches: 2, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
75 14 0.10
76 63 0.45
78 2 0.01
79 32 0.23
80 29 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (77 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGCTAGCACAAATGCCTTCGGGACTTAGC
CCGGAATTAGTA
Found at i:29207833 original size:116 final size:115
Alignment explanation
Indices: 29207617--29207835 Score: 377
Period size: 116 Copynumber: 1.9 Consensus size: 115
29207607 AGCACTCGCT
**
29207617 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTGGGACTTAGCCCGGA
*
29207682 ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCA
66 ATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCA
29207732 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTT-GGGACTTAGCCCG
*
29207796 GAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
64 GAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
29207836 TTATCATCCG
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
114 1 0.01
115 46 0.47
116 51 0.52
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (115 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTGGGACTTAGCCCGGA
ATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCA
Found at i:29212381 original size:49 final size:50
Alignment explanation
Indices: 29212310--29212555 Score: 266
Period size: 49 Copynumber: 5.0 Consensus size: 50
29212300 TGATCTATTG
* * * *
29212310 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * *
29212360 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * * * * * * **
29212409 CTTCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGG
1 -TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
*
29212460 TTAGGTCG--TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * * *
29212508 TT-GGTCGCATGTGTAGTACTAAGTACAGGCTACAATGTGTACCAGATA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
29212556 GCTTTCGCTA
Statistics
Matches: 161, Mismatches: 31, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
47 5 0.03
48 36 0.22
49 74 0.46
50 9 0.06
51 37 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
Found at i:29219397 original size:49 final size:50
Alignment explanation
Indices: 29219336--29219557 Score: 227
Period size: 49 Copynumber: 4.5 Consensus size: 50
29219326 CAAGGTCACG
* *
29219336 TGTGTAGTACTAAGTGCAGGCCACTACGTGTACCGGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* * * * * * * *
29219385 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCGCA
* * **
29219436 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCG--
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* * * *
29219484 TGTGTAGTAATAAGTGAAGGCTACTACATGTACTGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* *
29219533 TATGTAGTACTAAGTGCAAGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
29219558 GTGCGTACTA
Statistics
Matches: 138, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
47 5 0.04
48 34 0.25
49 55 0.40
50 7 0.05
51 37 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
Found at i:29222033 original size:29 final size:28
Alignment explanation
Indices: 29222001--29222057 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 28
29221991 CAAGATAAAC
29222001 TGATTTGGCTTCGGGCCATGCATATCAGT
1 TGATTTGGCTTCGGGCCATG-ATATCAGT
29222030 TGATTTGGCTTCGGGCCATGATATCAGT
1 TGATTTGGCTTCGGGCCATGATATCAGT
29222058 ATTTCGGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (28 bp):
TGATTTGGCTTCGGGCCATGATATCAGT
Found at i:29224607 original size:56 final size:56
Alignment explanation
Indices: 29224514--29224724 Score: 298
Period size: 56 Copynumber: 3.8 Consensus size: 56
29224504 GAAGAATATG
*
29224514 TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * * *
29224570 TGACATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACGTTTAATATGT
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * *
29224626 TGGCATCAATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* *
29224682 TGGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACC
29224725 CAATCTGGGA
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 2 0.01
56 134 0.99
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
Found at i:29224652 original size:112 final size:111
Alignment explanation
Indices: 29224508--29224721 Score: 331
Period size: 112 Copynumber: 1.9 Consensus size: 111
29224498 TACCTGGAAG
*
29224508 AATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGA
1 AATATGTGGCATCAATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGA
*
29224573 CATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACGTTT
66 CATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACGTTT
* *
29224619 AATATGTTGGCATCAATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTT
1 AATATG-TGGCATCAATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGTT
* * * *
29224683 GGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAG
64 GACATCGATATGTGATTCCGATATATGTGTACGAGTAAG
29224722 ACCCAATCTG
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
111 8 0.09
112 85 0.91
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (111 bp):
AATATGTGGCATCAATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGA
CATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACGTTT
Found at i:29224742 original size:112 final size:111
Alignment explanation
Indices: 29224507--29224755 Score: 324
Period size: 112 Copynumber: 2.2 Consensus size: 111
29224497 ATACCTGGAA
29224507 GAATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTG
1 GAATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTG
* * *
29224572 ACATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACGTT
66 ACATCGATATGTGATTCCGATATATGTGTACGAGTAAGCCCACGTG
* * * *
29224618 TAATATGTTGGCATCAATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
1 GAATATG-TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * * *
29224682 TGGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAGACCCAATC-TG
64 TGACATCGATATGTGATTCCGATATATGTGTACGAGTAAG-CCC-A-CGTG
*
29224732 GGATA-GTGGCATCGATATGTGACT
1 GAATATGTGGCATCGATATGTGACT
29224756 AAATGTAAGA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
111 8 0.07
112 100 0.85
113 4 0.03
114 5 0.04
115 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (111 bp):
GAATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTG
ACATCGATATGTGATTCCGATATATGTGTACGAGTAAGCCCACGTG
Found at i:29230245 original size:47 final size:47
Alignment explanation
Indices: 29230194--29230431 Score: 383
Period size: 47 Copynumber: 5.1 Consensus size: 47
29230184 TTAGGATTTT
*
29230194 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
29230241 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
29230288 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
29230335 ATGTGATGAATGTGAGCATGCATATGTGTGATAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
29230381 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
29230426 ATGTGA
1 ATGTGA
29230432 AATATATATA
Statistics
Matches: 181, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 30 0.17
47 126 0.70
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:29230247 original size:22 final size:22
Alignment explanation
Indices: 29230219--29230341 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
29230209 ACATGCATAT
29230219 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
29230241 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
29230265 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * *
29230288 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
29230312 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
29230335 ATGTGAT
1 ATGTGAT
29230342 GAATGTGAGC
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:29230455 original size:141 final size:139
Alignment explanation
Indices: 29230194--29230481 Score: 366
Period size: 141 Copynumber: 2.0 Consensus size: 139
29230184 TTAGGATTTT
* *
29230194 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* * *
29230259 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATATGTGATAAGG
66 TGCA-ATATGTGATAAAGCCGAATGGCCAATGTGATGAATATGAGCATG-ATATATGTGATAAAG
29230324 CCGAATGGCCA
129 CCGAATGGCCA
* * *
29230335 ATGTGATGAATGTGAGCATGCATATGTGTGATAA-GCCGAATGGCCAATGTGGTGAATATGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* * * * *
29230399 TGC-ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG-TATATGTGGTA
66 TGCAATATGTGATAAAGCCGAATGGCCAATGTG--AT-GA-ATATGAG-CATGATATATGTGATA
*
29230462 AAGCCGAATGGTCA
126 AAGCCGAATGGCCA
29230476 ATGTGA
1 ATGTGA
29230482 AATATATATA
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
138 26 0.20
140 32 0.25
141 61 0.48
142 6 0.05
143 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.27
Consensus pattern (139 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
TGCAATATGTGATAAAGCCGAATGGCCAATGTGATGAATATGAGCATGATATATGTGATAAAGCC
GAATGGCCA
Found at i:29230467 original size:50 final size:50
Alignment explanation
Indices: 29230402--29230536 Score: 245
Period size: 50 Copynumber: 2.7 Consensus size: 50
29230392 ATGAACATGC
29230402 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
29230452 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
*
29230502 ATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
29230537 GACAGTCGAT
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
49 1 0.01
50 82 0.99
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
Found at i:29230703 original size:37 final size:37
Alignment explanation
Indices: 29230596--29230703 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
29230586 GGAAATATAT
*
29230596 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
29230632 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29230669 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29230704 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 11 0.16
37 57 0.84
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29232373 original size:40 final size:40
Alignment explanation
Indices: 29231972--29232363 Score: 606
Period size: 40 Copynumber: 9.8 Consensus size: 40
29231962 GAGAATTGAG
29231972 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
29232012 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29232052 AGTGATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29232092 AGTGATATATCTGGGCTAAGTCCCAAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
29232132 AGTGATGTATCCGGACTAGGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
29232172 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
29232212 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29232252 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
**
29232292 AGTGATATATCCGTGG-TAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCG-GGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29232332 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
29232364 ATCATGCTGG
Statistics
Matches: 321, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 317 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:29233977 original size:79 final size:81
Alignment explanation
Indices: 29233868--29234050 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
29233858 TACTCGTTCA
* *
29233868 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
29233931 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
29233948 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
29234011 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
29234027 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29234051 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:29234050 original size:40 final size:40
Alignment explanation
Indices: 29233847--29234050 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
29233837 CGGAATTTAA
** *
29233847 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29233887 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29233927 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29233966 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29234006 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29234046 CCGGA
1 CCGGA
29234051 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29239938 original size:47 final size:47
Alignment explanation
Indices: 29239887--29240078 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
29239877 TTAGGATTTT
29239887 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29239934 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
29239981 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
29240028 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
29240073 ATGTGA
1 ATGTGA
29240079 AATATATATA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 25 0.19
47 110 0.81
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:29239940 original size:22 final size:22
Alignment explanation
Indices: 29239912--29239987 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
29239902 ACATGCATAT
29239912 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
29239934 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
29239958 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
29239981 ATGTGAT
1 ATGTGAT
29239988 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:29240036 original size:25 final size:25
Alignment explanation
Indices: 29239961--29240036 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
29239951 ATGCATATAT
29239961 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
29239986 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
29240008 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
29240033 GTGA
1 GTGA
29240037 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:29242472 original size:37 final size:37
Alignment explanation
Indices: 29242413--29242551 Score: 230
Period size: 37 Copynumber: 3.8 Consensus size: 37
29242403 AGCTCAGACG
* *
29242413 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29242450 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29242487 TAATCTCCACACGTAGTCATC-GGTCTTA-CCGGAC-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29242521 AAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
29242552 GGAATATATT
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
34 20 0.21
35 13 0.14
36 8 0.08
37 55 0.57
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29242537 original size:71 final size:74
Alignment explanation
Indices: 29242414--29242551 Score: 237
Period size: 71 Copynumber: 1.9 Consensus size: 74
29242404 GCTCAGACGA
*
29242414 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
29242479 CCCGGACAT
66 CCCGGACAT
*
29242488 AATCTCCACACGTAGTCATC-GGTCTTA-CCGGAC-AAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
29242550 CC
66 CC
29242552 GGAATATATT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
71 31 0.50
72 6 0.10
73 7 0.11
74 18 0.29
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (74 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
CCCGGACAT
Found at i:29242839 original size:50 final size:50
Alignment explanation
Indices: 29242704--29242850 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
29242694 CATCGCCTAC
* *
29242704 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
29242754 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
29242804 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
29242851 TCACCACATT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 6 0.06
50 86 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:29242860 original size:45 final size:47
Alignment explanation
Indices: 29242809--29242997 Score: 280
Period size: 45 Copynumber: 4.1 Consensus size: 47
29242799 TATATATATT
* * *
29242809 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
29242854 CCACATTGGCCATTC-GCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
29242900 TCACATTGGCCATTCGGCCTTATCACATATATGCA--TTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
29242945 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
29242992 TCACAT
1 TCACAT
29242998 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
44 5 0.04
45 58 0.44
46 34 0.26
47 34 0.26
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:29242881 original size:23 final size:23
Alignment explanation
Indices: 29242855--29242971 Score: 68
Period size: 23 Copynumber: 5.1 Consensus size: 23
29242845 TCATATTCAC
29242855 CACATTGGCCATTCGCCTTATCA
1 CACATTGGCCATTCGCCTTATCA
* * *
29242878 CACATAT-G-CATGCTCACAT-TCA
1 CACAT-TGGCCATTCGC-CTTATCA
29242900 TCACATTGGCCATTCGGCCTTATCA
1 -CACATTGGCCATTC-GCCTTATCA
* * *
29242925 CATATAT-G-CATTC-ACAT-TCA
1 CACAT-TGGCCATTCGCCTTATCA
29242945 TCACATTGGCCATTCGGCCTTATCA
1 -CACATTGGCCATTC-GCCTTATCA
29242970 CA
1 CA
29242972 TATATGCATG
Statistics
Matches: 68, Mismatches: 12, Indels: 27
0.64 0.11 0.25
Matches are distributed among these distances:
20 4 0.06
21 7 0.10
22 14 0.21
23 19 0.28
24 16 0.24
25 8 0.12
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (23 bp):
CACATTGGCCATTCGCCTTATCA
Found at i:29242914 original size:91 final size:91
Alignment explanation
Indices: 29242809--29242997 Score: 274
Period size: 91 Copynumber: 2.1 Consensus size: 91
29242799 TATATATATT
* *
29242809 TCACATTGACCATTCGGCTTTACCACATATGCATG-TTCATATTCACCACATTGGCCATTC-GCC
1 TCACATTGACCATTCGGCCTTACCACATAT--ATGATTCACATTCACCACATTGGCCATTCGGCC
29242872 TTATCACACATATGCATGCTCACATTCA
64 TTATCACACATATGCATGCTCACATTCA
* * *
29242900 TCACATTGGCCATTCGGCCTTATCACATATATGCATTCACATTCATCACATTGGCCATTCGGCCT
1 TCACATTGACCATTCGGCCTTACCACATATATG-ATTCACATTCACCACATTGGCCATTCGGCCT
* *
29242965 TATCACATATATGCATGTTCACATTCA
65 TATCACACATATGCATGCTCACATTCA
29242992 TCACAT
1 TCACAT
29242998 AAAATCCTAA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
89 3 0.03
91 50 0.57
92 35 0.40
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (91 bp):
TCACATTGACCATTCGGCCTTACCACATATATGATTCACATTCACCACATTGGCCATTCGGCCTT
ATCACACATATGCATGCTCACATTCA
Found at i:29242926 original size:22 final size:22
Alignment explanation
Indices: 29242899--29242972 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
29242889 GCTCACATTC
29242899 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
29242921 ATCACATATATG-CATTC-ACATT
1 ATCACAT-T-GGCCATTCGGCCTT
29242943 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29242966 ATCACAT
1 ATCACAT
29242973 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
21 1 0.02
22 23 0.56
23 16 0.39
24 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29253553 original size:16 final size:17
Alignment explanation
Indices: 29253524--29253555 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29253514 AAGGTCACTT
29253524 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
29253541 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
29253556 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:29253791 original size:43 final size:44
Alignment explanation
Indices: 29253723--29253871 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 44
29253713 ATACCCCTGA
* ** *
29253723 TATGGTCTTACATGGGATCATATATCGATGCCGATAGCCCA-AC
1 TATGGTCTTACACGAAATCACATATCGATGCCGATAGCCCAGAC
** *
29253766 TATGGTCTTACACGATGTCTCATATCGATGCCG-T-GTCCCAGAC
1 TATGGTCTTACACGAAATCACATATCGATGCCGATAG-CCCAGAC
* *
29253809 -ATGGTATTACACGAAATCACATATCGATGCC-ATATCCCAGA-
1 TATGGTCTTACACGAAATCACATATCGATGCCGATAGCCCAGAC
29253850 TATGGTCTTACACGAAATCACA
1 TATGGTCTTACACGAAATCACA
29253872 CATAACCCTA
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 59 0.66
43 29 0.33
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TATGGTCTTACACGAAATCACATATCGATGCCGATAGCCCAGAC
Found at i:29262552 original size:13 final size:13
Alignment explanation
Indices: 29262534--29262569 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
29262524 TTATCATGTT
29262534 TATTATAATTGGA
1 TATTATAATTGGA
29262547 TATTATAATTGGA
1 TATTATAATTGGA
29262560 TATTAATAAT
1 TATT-ATAAT
29262570 GACAGCATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (13 bp):
TATTATAATTGGA
Found at i:29272718 original size:15 final size:15
Alignment explanation
Indices: 29272698--29272740 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
29272688 AAGCCAATGG
29272698 GTTTTCTT-TCTTCTT
1 GTTTTCTTATCTT-TT
29272713 GTTTTCTTATCTTTT
1 GTTTTCTTATCTTTT
*
29272728 GTTCTCTTA-CTTT
1 GTTTTCTTATCTTT
29272741 CTTCGTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.05, C:0.19, G:0.07, T:0.70
Consensus pattern (15 bp):
GTTTTCTTATCTTTT
Found at i:29276479 original size:47 final size:47
Alignment explanation
Indices: 29276401--29277139 Score: 1118
Period size: 47 Copynumber: 15.6 Consensus size: 47
29276391 CCCTTCGGGA
* * * * * *
29276401 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29276448 CCTGTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29276495 ATCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29276542 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29276591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29276638 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29276685 CTCATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29276732 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29276779 CTTATTACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29276826 CTTGTCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29276875 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29276922 CTTATCACATATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29276971 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29277020 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29277067 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29277114 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
29277140 CACAATTATC
Statistics
Matches: 641, Mismatches: 45, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
47 460 0.72
49 181 0.28
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29276670 original size:143 final size:143
Alignment explanation
Indices: 29276401--29277139 Score: 1211
Period size: 143 Copynumber: 5.2 Consensus size: 143
29276391 CCCTTCGGGA
* * * * *
29276401 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
29276464 ACTTTCACATTCATCACATCGGTCATTAGGCATCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29276529 TCGGCCATTAGGC
131 TCGGCCATTAGGC
29276542 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
29276607 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29276672 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * * * * *
29276685 CTCATCAC--ATATATACACTTTCACATTCATCACATCGACTATTAGGCCTCATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
29276748 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
29276813 TCGACCATTAGGC
131 TCGGCCATTAGGC
* *
29276826 CTTGTCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
29276891 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
29276956 TATCGGCCATTAGGC
129 CATCGGCCATTAGGC
29276971 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
29277036 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
29277101 TCGACCATTAGGC
131 TCGGCCATTAGGC
29277114 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
29277140 CACAATTATC
Statistics
Matches: 559, Mismatches: 33, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
141 148 0.26
142 1 0.00
143 273 0.49
145 137 0.25
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:29277029 original size:22 final size:22
Alignment explanation
Indices: 29277001--29277076 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
29276991 TTTCACATTC
29277001 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
29277023 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
29277047 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29277070 ATCACAT
1 ATCACAT
29277077 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29294477 original size:43 final size:43
Alignment explanation
Indices: 29294424--29294591 Score: 273
Period size: 43 Copynumber: 3.9 Consensus size: 43
29294414 GCTAGTATTA
* *
29294424 TATTCAGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
29294467 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
*
29294510 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
29294553 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
29294592 AATGATATGT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:29295021 original size:43 final size:44
Alignment explanation
Indices: 29294908--29295021 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
29294898 TTGATTTGAT
* * * *
29294908 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
1 TATTCGGGCC-TCGAGCCTAGCAGGCTATAAAGTCGGTAAGATAC
*
29294953 TATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGTCGGTGAA-AT-C
1 TATTCGGGC-CTCGAGCCTAGCAGGCTATAAAGTCGGT-AAGATAC
29294997 -ATATCGGGCCTCGAGCCTAGCAGGC
1 TAT-TCGGGCCTCGAGCCTAGCAGGC
29295022 GAAATGCCTG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
43 17 0.28
44 7 0.12
45 34 0.57
46 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTCGAGCCTAGCAGGCTATAAAGTCGGTAAGATAC
Found at i:29300033 original size:14 final size:16
Alignment explanation
Indices: 29300012--29300058 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
29300002 TTCACCCCTA
29300012 TCTTTCTTTTC-CTTC
1 TCTTTCTTTTCTCTTC
29300027 T-TTTC-TTTCTCTTC
1 TCTTTCTTTTCTCTTC
*
29300041 TCTTGTCTTTTCTATTC
1 TCTT-TCTTTTCTCTTC
29300058 T
1 T
29300059 TCCCTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 9 0.33
15 3 0.11
16 2 0.07
17 9 0.33
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (16 bp):
TCTTTCTTTTCTCTTC
Found at i:29300059 original size:10 final size:9
Alignment explanation
Indices: 29300012--29300059 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
29300002 TTCACCCCTA
29300012 TCTTTCTTT
1 TCTTTCTTT
*
29300021 TCCTTCTTT
1 TCTTTCTTT
29300030 TCTTTCTCTT
1 TCTTTCT-TT
29300040 CTCTTGTCTTT
1 -TCTT-TCTTT
29300051 TCTATTCTT
1 TCT-TTCTT
29300060 CCCTCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 14 0.42
10 9 0.27
11 7 0.21
12 3 0.09
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (9 bp):
TCTTTCTTT
Found at i:29308897 original size:41 final size:41
Alignment explanation
Indices: 29308840--29308922 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
29308830 TAAATAAAGT
29308840 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
1 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
*
29308881 ATGAGTCAAATATGTGTAGATGCTCTCATAACTAATTTCTA
1 ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
29308922 A
1 A
29308923 CTAATGATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (41 bp):
ATGAGTCAAATATGTGTAGATACTCTCATAACTAATTTCTA
Found at i:29310947 original size:17 final size:18
Alignment explanation
Indices: 29310911--29310947 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29310901 TTCAAGCATG
*
29310911 TATTTAATTCTTATTAGC
1 TATTTAATTCTTACTAGC
29310929 TATTTAATTCTT-CTAGC
1 TATTTAATTCTTACTAGC
29310946 TA
1 TA
29310948 CTAGAATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (18 bp):
TATTTAATTCTTACTAGC
Found at i:29313432 original size:9 final size:9
Alignment explanation
Indices: 29313418--29313444 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
29313408 CAATTCTCAA
29313418 ATGTTCATT
1 ATGTTCATT
29313427 ATGTTCATT
1 ATGTTCATT
29313436 ATGTTCATT
1 ATGTTCATT
29313445 TTTATCTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (9 bp):
ATGTTCATT
Found at i:29326357 original size:43 final size:42
Alignment explanation
Indices: 29326264--29326414 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 42
29326254 GGTTACCAAG
* *
29326264 ATGTGATTACATGTATGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
*
29326306 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* *** * * * *
29326350 ATATGATTTTGTGTAAGACCCTGTCTTGGACAGTGGCATCAAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-GT
*
29326393 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
29326415 ATTTGGGATG
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 87 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:29328116 original size:12 final size:12
Alignment explanation
Indices: 29328095--29328126 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
29328085 CGTGAGTGTG
*
29328095 GCTAGCCCATGT
1 GCTAGGCCATGT
29328107 GCTAGGCCATGT
1 GCTAGGCCATGT
29328119 GCTAGGCC
1 GCTAGGCC
29328127 GTGCCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.22
Consensus pattern (12 bp):
GCTAGGCCATGT
Found at i:29332574 original size:21 final size:20
Alignment explanation
Indices: 29332550--29332588 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
29332540 AAACTTGTAT
29332550 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
29332571 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
29332589 AAACTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:29336041 original size:27 final size:26
Alignment explanation
Indices: 29335993--29336052 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
29335983 GCGAGGCTGC
*
29335993 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
29336020 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
29336046 TAGATAT
1 CAGATAT
29336053 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:29336870 original size:54 final size:54
Alignment explanation
Indices: 29336796--29336914 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
29336786 GGGGCAAAAT
* * *
29336796 GGTAATTTTACCCCACAAGGGCATCTTGGTAATTCT-TCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGCATCTTGGTAATTCTAT-CCTACAGGGGTATTTC
* * * *
29336850 GGTATTTCTACCCTATAAGGGTATTTTGGTAATTCTATTCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGCATCTTGGTAATTCTATCCTACAGGGGTATTTC
*
29336904 GTTAATTCTAC
1 GGTAATTCTAC
29336915 AACTTATCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (54 bp):
GGTAATTCTACCCTATAAGGGCATCTTGGTAATTCTATCCTACAGGGGTATTTC
Found at i:29336913 original size:27 final size:27
Alignment explanation
Indices: 29336796--29336914 Score: 114
Period size: 27 Copynumber: 4.4 Consensus size: 27
29336786 GGGGCAAAAT
* * * *
29336796 GGTAATTTTACCCCACAAGGGCATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
*
29336823 GGTAATTCTTCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
29336850 GGTATTTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
**
29336877 GGTAATTCTATTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29336904 GTTAATTCTAC
1 GGTAATTCTAC
29336915 AACTTATCCA
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
26 2 0.03
27 71 0.97
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:29343610 original size:31 final size:32
Alignment explanation
Indices: 29343561--29343621 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
29343551 CGAAGTCACT
*
29343561 AGATATAGATATTGTGGCGAGGCCACCAGAAC
1 AGATATAGATATTGTGGCGAAGCCACCAGAAC
*
29343593 AGATATATATA-TGTGGCGAAGCCACCAGA
1 AGATATAGATATTGTGGCGAAGCCACCAGA
29343622 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (32 bp):
AGATATAGATATTGTGGCGAAGCCACCAGAAC
Found at i:29344432 original size:27 final size:27
Alignment explanation
Indices: 29344338--29344455 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
29344328 AGGGCAAAAT
* * * *
29344338 GGTAATTTTACCCCACAAGGGGATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
29344365 GATAATTCTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
29344392 GGTATTTC-ACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
29344418 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
29344445 GGTAATTCTAC
1 GGTAATTCTAC
29344456 AACTTATCTA
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
26 22 0.30
27 52 0.70
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:29345621 original size:23 final size:23
Alignment explanation
Indices: 29345591--29345635 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
29345581 TCGAAAGTTC
29345591 AATATACCTTCACAATTAACATT
1 AATATACCTTCACAATTAACATT
29345614 AATATACCTTCACAATTAACAT
1 AATATACCTTCACAATTAACAT
29345636 CAAAATCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (23 bp):
AATATACCTTCACAATTAACATT
Found at i:29347051 original size:14 final size:14
Alignment explanation
Indices: 29347032--29347061 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
29347022 GTACCAGGAT
29347032 AAAGCTCAATAGCA
1 AAAGCTCAATAGCA
29347046 AAAGCTCAATAGCA
1 AAAGCTCAATAGCA
29347060 AA
1 AA
29347062 CTCAACTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAGCTCAATAGCA
Found at i:29352444 original size:12 final size:12
Alignment explanation
Indices: 29352429--29352454 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29352419 GTAATGGACA
29352429 TTGGACATTTAT
1 TTGGACATTTAT
29352441 TTGGACATTTAT
1 TTGGACATTTAT
29352453 TT
1 TT
29352455 TGGTGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:29366466 original size:18 final size:18
Alignment explanation
Indices: 29366443--29366487 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
29366433 CCTTGTATTT
29366443 TCTCGATTTAAGCCTAAA
1 TCTCGATTTAAGCCTAAA
29366461 TCTCGATTTAAGCCTAAA
1 TCTCGATTTAAGCCTAAA
*
29366479 TCTTGATTT
1 TCTCGATTT
29366488 CCTTGATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTCGATTTAAGCCTAAA
Found at i:29375058 original size:49 final size:47
Alignment explanation
Indices: 29374887--29375060 Score: 195
Period size: 51 Copynumber: 3.5 Consensus size: 47
29374877 AATACACCTA
* * *
29374887 TGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTTGA-TCGCATG
* * * *
29374937 TGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TT-GATCGCATG
*
29374988 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGATCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTGATCGCATG
29375037 TGTAGTACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
29375061 TGCGTATCAG
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
49 33 0.31
50 31 0.29
51 38 0.36
52 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (47 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTGATCGCATG
Found at i:29377045 original size:45 final size:45
Alignment explanation
Indices: 29376981--29377069 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
29376971 ACATTAAATC
29376981 ACTTAAAATAAAAATTATGTTACCTTATTTACACATGAACTTACA
1 ACTTAAAATAAAAATTATGTTACCTTATTTACACATGAACTTACA
29377026 ACTTAAAATAAAAATTATGTTACCTTATTTACACATGAACTTAC
1 ACTTAAAATAAAAATTATGTTACCTTATTTACACATGAACTTAC
29377070 CTCGTATGCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (45 bp):
ACTTAAAATAAAAATTATGTTACCTTATTTACACATGAACTTACA
Found at i:29385187 original size:18 final size:18
Alignment explanation
Indices: 29385172--29385234 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
29385162 TGCAGTAACT
29385172 GTAAATAGTACAGTAATA
1 GTAAATAGTACAGTAATA
*
29385190 GT-AATAGTGCAGTAATA
1 GTAAATAGTACAGTAATA
* * * *
29385207 GTAAACAATGCAGTAACA
1 GTAAATAGTACAGTAATA
29385225 GTAAATAGTA
1 GTAAATAGTA
29385235 TGCAAGTCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 16 0.43
18 21 0.57
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.25
Consensus pattern (18 bp):
GTAAATAGTACAGTAATA
Found at i:29385197 original size:17 final size:17
Alignment explanation
Indices: 29385175--29385210 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
29385165 AGTAACTGTA
29385175 AATAGTACAGTAATAGT
1 AATAGTACAGTAATAGT
*
29385192 AATAGTGCAGTAATAGT
1 AATAGTACAGTAATAGT
29385209 AA
1 AA
29385211 ACAATGCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (17 bp):
AATAGTACAGTAATAGT
Found at i:29385586 original size:27 final size:27
Alignment explanation
Indices: 29385555--29385963 Score: 371
Period size: 27 Copynumber: 15.1 Consensus size: 27
29385545 ACATAGGGGT
* *
29385555 AAAACAATCATCTTACCATAAAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
* *
29385582 AAAACAATCATTTTACCACATGAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
* * *
29385609 ATAACAATTATTTTACC-TCATAAGAGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
**
29385636 AAAACAATCATTTTACC-TCATAAAAGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
* *
29385663 AAAACAACCATTTTACCCTATAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
** *
29385690 AAAACAATCATTTTACCCCATAAGGGA
1 AAAACAATCATTTTACCATATAAGGGC
* * * **
29385717 AAAATAGTCATTTTTCCCCATAA-GGC
1 AAAACAATCATTTTACCATATAAGGGC
* * *
29385743 AAAATAGTCATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
29385770 AAAACAATCATTTTACC-TCATAAGGGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
* * *
29385797 AAAATAGTCATTTTACCATATAAGGTC
1 AAAACAATCATTTTACCATATAAGGGC
* *
29385824 AAAATAGTCATTTTACC-TCATAAGGGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
* * *
29385851 AAAATAGTCATTTTACCTTATAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
* * * * * *
29385878 AAAATAGTCATCTAACCCTATAAGGGA
1 AAAACAATCATTTTACCATATAAGGGC
*
29385905 AAAACAATTATTTTACC-TCATAAGGGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
* *
29385932 AACACAATCATTTTACCACATAAAGGGC
1 AAAACAATCATTTTACCATAT-AAGGGC
29385960 AAAA
1 AAAA
29385964 TAGTAATTTT
Statistics
Matches: 327, Mismatches: 45, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
26 25 0.08
27 290 0.89
28 12 0.04
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAACAATCATTTTACCATATAAGGGC
Found at i:29392901 original size:46 final size:48
Alignment explanation
Indices: 29392848--29393165 Score: 207
Period size: 46 Copynumber: 6.7 Consensus size: 48
29392838 TTTGTGTGAG
29392848 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAT
*
29392894 CTAGTGTAAGACCATGTCTGGGACATGGCATCAG---CATTGA-GACGAGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATGA-GA-T
* * * *** * *
29392941 GCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGTCTCGGGACGTA-AG
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATG-AGAT
* * * *
29392988 CCAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTACGA-GATGAG-T
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAT
* * *
29393033 C-AGTGTAAGACCATGTCTAGGACATGGCATTGG-CACAGTTATGCGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TTAT--GAGAT
* * * ** * *
29393082 CTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCTCGAAGATGATAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAT
* * *
29393131 CCAGTGTCAGACCATGTCTGGAACATGGCATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
29393166 GCCTTACCCA
Statistics
Matches: 216, Mismatches: 32, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
44 10 0.05
45 23 0.11
46 59 0.27
47 31 0.14
48 20 0.09
49 37 0.17
50 31 0.14
51 4 0.02
52 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAT
Found at i:29405476 original size:6 final size:6
Alignment explanation
Indices: 29405465--29405504 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
29405455 ATGAATAAAC
*
29405465 TTATGT TTATGT TTATGT TTATGT TTATGG TTATGT TTAT
1 TTATGT TTATGT TTATGT TTATGT TTATGT TTATGT TTAT
29405505 TATGTCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.65
Consensus pattern (6 bp):
TTATGT
Found at i:29411989 original size:24 final size:24
Alignment explanation
Indices: 29411943--29411989 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
29411933 TTCTATTAGT
*
29411943 TTTTAGGCTTTTGGGTTTGGGTTG
1 TTTTAGGCTTTTGGGTTTAGGTTG
*
29411967 TTTTGGGCTTTTAGGG-TTAGGTT
1 TTTTAGGCTTTT-GGGTTTAGGTT
29411990 AGATGGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.06, C:0.04, G:0.36, T:0.53
Consensus pattern (24 bp):
TTTTAGGCTTTTGGGTTTAGGTTG
Found at i:29412491 original size:95 final size:94
Alignment explanation
Indices: 29412384--29412614 Score: 309
Period size: 95 Copynumber: 2.4 Consensus size: 94
29412374 AAATTGTAGT
* * * *
29412384 TTCAATCTGATCCACTACAACTTCAAGGATATAGGAGTTGTACCTTTATCTTGCTTCACTGCAAC
1 TTCAATCTGATCCACTACAACTTCAGGGATATAGGAGTTGTACCTTCATCTTGCTCCACTACAAC
* *
29412449 TTCAGGGAGATAAGATTCGCCTATAATAAA
66 TTCAAGGAGATAAGATTAG-CTATAATAAA
* * * * *
29412479 TTCAATCCGATCCACTACAACTTCAGGGATATAAGAGTTTTAGCTTCATCTTGCTCCACTACAAT
1 TTCAATCTGATCCACTACAACTTCAGGGATATAGGAGTTGTACCTTCATCTTGCTCCACTACAAC
29412544 TTCAAGGAGATAAGATTAGCTATAATAAA
66 TTCAAGGAGATAAGATTAGCTATAATAAA
* * * * *
29412573 TTCAATCTGACCCACTGCAACTTTAGGGGTATAGGATTTGTA
1 TTCAATCTGATCCACTACAACTTCAGGGATATAGGAGTTGTA
29412615 GTTGTAGCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 44 0.38
95 73 0.62
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (94 bp):
TTCAATCTGATCCACTACAACTTCAGGGATATAGGAGTTGTACCTTCATCTTGCTCCACTACAAC
TTCAAGGAGATAAGATTAGCTATAATAAA
Found at i:29412748 original size:94 final size:93
Alignment explanation
Indices: 29412628--29412898 Score: 321
Period size: 94 Copynumber: 2.9 Consensus size: 93
29412618 GTAGCTTTAT
* *
29412628 TCCAACTCACTGCAACTTCAGAGGTATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAG
1 TCCAACTCACTGCAACTTCAG-GGTATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTTAA
29412693 GGAGATAAGATTCGCTATAATAAATTCAA
65 GGAGATAAGATTCGCTATAATAAATTCAA
* * * * *
29412722 TCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCATCCTGCTCTACAGCAAATTTAA
1 TCCAACTCACTGCAACTTC-AGGGTATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTTAA
* **
29412787 GGAGATTAGATTCGCTATGGTAAATTCAA
65 GGAGATAAGATTCGCTATAATAAATTCAA
* * * * * * *
29412816 TCCAATTTACTACAACTTC-GTAGGTATAAGATTTGTAGTTTCATCTTACTCCACTGCAACTTTA
1 TCCAACTCACTGCAACTTCAG--GGTATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTTA
*
29412880 TA-GAGATAAGATTTGCTAT
64 -AGGAGATAAGATTCGCTAT
29412899 TTTAACTTTG
Statistics
Matches: 149, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
92 1 0.01
94 145 0.97
95 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (93 bp):
TCCAACTCACTGCAACTTCAGGGTATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTTAAG
GAGATAAGATTCGCTATAATAAATTCAA
Found at i:29412758 original size:144 final size:144
Alignment explanation
Indices: 29412491--29412759 Score: 405
Period size: 144 Copynumber: 1.9 Consensus size: 144
29412481 CAATCCGATC
* * *
29412491 CACTACAACTTCAGGGATATAAGAGTTTTAGCTTCATCTTGCTCCACTACAATTTCAAGGAGATA
1 CACTACAACTTCAGGGATATAAGAATTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATA
** * * *
29412556 AGATTAGCTATAATAAATTCAATCTGACCCACTGCAACTTTAGGGGTATAGGATTTGTAGTTGTA
66 AGATTAGCTATAATAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGTTGTA
29412621 GCTTTATTCCAACT
131 GCTTTATTCCAACT
* * * *
29412635 CACTGCAACTTCAGAGG-TATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 CACTACAACTTCAG-GGATATAAGAATTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGAT
*
29412699 AAGATTCGCTATAATAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAG
65 AAGATTAGCTATAATAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAG
29412760 CTTCATCCTG
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
144 109 0.98
145 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (144 bp):
CACTACAACTTCAGGGATATAAGAATTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATA
AGATTAGCTATAATAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGTTGTA
GCTTTATTCCAACT
Found at i:29412851 original size:238 final size:238
Alignment explanation
Indices: 29412396--29412855 Score: 599
Period size: 238 Copynumber: 1.9 Consensus size: 238
29412386 CAATCTGATC
* * *
29412396 CACTACAACTTCAAGGATATAGGAGTTGTACCTTTATCTTGCTTCACTGCAACTTCAGGGAGATA
1 CACTACAACTTCAAGGATATAGGAATTGTACCTTCATCTTGCTCCACTGCAACTTCAGGGAGATA
* * * *
29412461 AGATTCGCCTATAATAAATTCAATCCGATCCACTACAACTTCAGGGATATAAGAGTTTTAGCTTC
66 AGATTCGCCTATAATAAATTCAATCCAACCCACTACAACTTCAGGGATATAAGAATTGTAGCTTC
* ** *
29412526 ATCTTGCTCCACTACAATTTCAAGGAGATAAGATTAGCTATAATAAATTCAATCTGACCCACTGC
131 ATCCTGCTCCACTACAATTTCAAGGAGATAAGATTAGCTATAATAAATTCAATCCAACCCACTAC
*
29412591 AACTTTAGGGGTATAGGATTTGTAGTTGTAGCTTTATTCCAACT
196 AACTTTA-GGGTATAAGATTTGTAGTTGTAGCTTTATTCCAACT
* *
29412635 CACTGCAACTTCAGAGG-TATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 CACTACAACTTCA-AGGATATAGGAATTGTACCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* *
29412699 AAGATTCG-CTATAATAAATTCAATCCAACCCACTGCAACTTCAAGGG-TATAGGAATTGTAGCT
65 AAGATTCGCCTATAATAAATTCAATCCAACCCACTACAACTTC-AGGGATATAAGAATTGTAGCT
* * * ** ***
29412762 TCATCCTGCTCTAC-AGCAAATTT-AAGGAGATTAGATTCGCTATGGTAAATTCAATCCAATTTA
129 TCATCCTGCTCCACTA-C-AATTTCAAGGAGATAAGATTAGCTATAATAAATTCAATCCAACCCA
29412825 CTACAACTTCGTA-GGTATAAGATTTGTAGTT
192 CTACAACTT--TAGGGTATAAGATTTGTAGTT
29412856 TCATCTTACT
Statistics
Matches: 191, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
237 1 0.01
238 113 0.59
239 72 0.38
240 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (238 bp):
CACTACAACTTCAAGGATATAGGAATTGTACCTTCATCTTGCTCCACTGCAACTTCAGGGAGATA
AGATTCGCCTATAATAAATTCAATCCAACCCACTACAACTTCAGGGATATAAGAATTGTAGCTTC
ATCCTGCTCCACTACAATTTCAAGGAGATAAGATTAGCTATAATAAATTCAATCCAACCCACTAC
AACTTTAGGGTATAAGATTTGTAGTTGTAGCTTTATTCCAACT
Found at i:29415448 original size:13 final size:13
Alignment explanation
Indices: 29415418--29415442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29415408 GGCCAAGTCT
29415418 GTGTGCTTAGGCA
1 GTGTGCTTAGGCA
29415431 GTGTGCTTAGGC
1 GTGTGCTTAGGC
29415443 CATGTGGCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.40, T:0.32
Consensus pattern (13 bp):
GTGTGCTTAGGCA
Found at i:29424926 original size:21 final size:21
Alignment explanation
Indices: 29424900--29424947 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
29424890 TGATCCCATA
* *
29424900 TTTCTTTTAGCTCTTGAAGAT
1 TTTCTTTTAACTCCTGAAGAT
29424921 TTTCTTTTAACTCCTGAAGAT
1 TTTCTTTTAACTCCTGAAGAT
29424942 TATTCT
1 T-TTCT
29424948 GAATTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (21 bp):
TTTCTTTTAACTCCTGAAGAT
Found at i:29426527 original size:12 final size:12
Alignment explanation
Indices: 29426510--29426534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29426500 TTATTAAATG
29426510 AATTAAAAGCCA
1 AATTAAAAGCCA
29426522 AATTAAAAGCCA
1 AATTAAAAGCCA
29426534 A
1 A
29426535 GTTTTTTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:29430958 original size:40 final size:39
Alignment explanation
Indices: 29430895--29430980 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
29430885 TAACGACTTA
29430895 TCGGCTAAAATGGCAATTAGTGTG-AGATTCGAAATAGCT
1 TCGGCTAAAATGGCAATTAGTGTGCA-ATTCGAAATAGCT
* * * *
29430934 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCAATTAGTGTGCAATTCGAAATAGCT
29430974 TCGGCTA
1 TCGGCTA
29430981 TATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 10 0.24
40 30 0.73
41 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCAATTAGTGTGCAATTCGAAATAGCT
Found at i:29436411 original size:12 final size:12
Alignment explanation
Indices: 29436394--29436418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29436384 TTATTAAATG
29436394 AATTAAAAGCCA
1 AATTAAAAGCCA
29436406 AATTAAAAGCCA
1 AATTAAAAGCCA
29436418 A
1 A
29436419 TTTTTGTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:29440389 original size:27 final size:26
Alignment explanation
Indices: 29440343--29440402 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
29440333 GCGGGGCTGC
29440343 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGA-A
* * *
29440370 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
29440396 CAGATAT
1 CAGATAT
29440403 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:29440447 original size:71 final size:67
Alignment explanation
Indices: 29440370--29440511 Score: 178
Period size: 67 Copynumber: 2.1 Consensus size: 67
29440360 TCACCAGATA
* * *
29440370 CAGATATTGTGGCTAGGTCACCAGAACAGATATATATATGTGGCGAA-ACCACCAGATTGCAGCG
1 CAGATATTGTGACGAAGTCACCAGAACAG----ATATATGTGGC-AAGACCACCAGATTGCAGCG
*
29440434 AGGCTGC
61 AGACTGC
* *
29440441 CAGATATTGTGACGAAGTCACTAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGACT
1 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCAAGACCACCAGATTGCAGCGAGACT
29440506 GC
66 GC
29440508 CAGA
1 CAGA
29440512 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
66 2 0.03
67 37 0.58
71 25 0.39
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCAAGACCACCAGATTGCAGCGAGACT
GC
Found at i:29441261 original size:53 final size:53
Alignment explanation
Indices: 29441143--29441285 Score: 171
Period size: 53 Copynumber: 2.7 Consensus size: 53
29441133 GGCAAAATGG
* * * *
29441143 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA-AGGGGTATTTCGA
** * *
29441197 TGTTTCTACCCTACAAGGGTATTTCGATAATTCTATCTCT-AGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCCTAAGGGGTATTTCGA
* *
29441250 TAATTCTACCCTACATGGGTATTTTGGTAATTCTAC
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC
29441286 AACTTATCCA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.56
54 29 0.39
55 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (53 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAAGGGGTATTTCGA
Found at i:29441282 original size:27 final size:27
Alignment explanation
Indices: 29441141--29441285 Score: 159
Period size: 27 Copynumber: 5.4 Consensus size: 27
29441131 GGGGCAAAAT
* * *
29441141 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
29441168 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
29441195 GGTGTTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
29441222 GATAATTCTA-TCT-CTAGGGGTATTTC
1 GGTAATTCTACCCTAC-AAGGGTATTTC
* * *
29441248 GATAATTCTACCCTACATGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
29441275 GGTAATTCTAC
1 GGTAATTCTAC
29441286 AACTTATCCA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 22 0.22
27 75 0.76
28 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:29444704 original size:40 final size:40
Alignment explanation
Indices: 29444648--29444828 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
29444638 CATTTGAATG
29444648 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG-TTT
29444689 -TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGTTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGTTT
* * * *
29444728 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-TGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGT-TT
* * * * * * *
29444768 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGTTT
* *
29444808 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
29444829 AAACTTGGGT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.12
40 106 0.88
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGTTT
Found at i:29452818 original size:40 final size:40
Alignment explanation
Indices: 29452734--29452841 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
29452724 TGAATGATAT
* * * * *
29452734 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAC
29452774 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAC
* * *
29452814 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
29452842 TTGTGGTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 57 0.97
41 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAC
Found at i:29458863 original size:38 final size:38
Alignment explanation
Indices: 29458815--29458938 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
29458805 GGCATGAAGG
* * * *
29458815 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
29458853 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** **
29458891 CCCGGATATTTTACCAGCACGAAGCCTGCTGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGC-GGGATTTAA
29458930 GCCCGGATA
1 -CCCGGATA
29458939 CACATCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 59 0.80
39 7 0.09
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:29463854 original size:26 final size:27
Alignment explanation
Indices: 29463825--29463878 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
29463815 TCACACAAGT
*
29463825 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
29463851 TAGTCATTTAACACTCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
29463878 T
1 T
29463879 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:29463910 original size:27 final size:27
Alignment explanation
Indices: 29463880--29463956 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
29463870 GGGCAAAATG
*
29463880 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTTTACCCTACAAGGGTATCTCA
* *
29463907 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATCTCA
29463934 GT-ATTTCTACCCTACAAGGGTAT
1 GTAATTT-TACCCTACAAGGGTAT
29463957 TTCGATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.09
27 41 0.91
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATCTCA
Found at i:29463957 original size:27 final size:27
Alignment explanation
Indices: 29463883--29463997 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
29463873 CAAAATGGTA
* *
29463883 ATTT-TACCCCACAAGGGTATCTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
*
29463909 AATTT-TACCCTACAGGGGTATTTCAGT
1 -ATTTCTACCCTACAAGGGTATTTCAGT
29463936 ATTTCTACCCTACAAGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCAG-T
* * * * *
29463963 AATTCTATCCTATAAGGGCATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
*
29463990 AATTCTAC
1 ATTTCTAC
29463998 AACTTATCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
26 5 0.07
27 70 0.92
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCAGT
Found at i:29463986 original size:54 final size:54
Alignment explanation
Indices: 29463883--29463997 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
29463873 CAAAATGGTA
* * *
29463883 ATTT-TACCCCACAAGGGTATCTCAGTAATTTTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGCATTTCAGT
* * * * *
29463936 ATTTCTACCCTACAAGGGTATTTC-GATAATTCTATCCTATAAGGGCATTTCGGT
1 ATTTCTACCCCACAAGGGTATCTCAG-TAATTCTACCCTACAAGGGCATTTCAGT
*
29463990 AATTCTAC
1 ATTTCTAC
29463998 AACTTATCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
53 5 0.10
54 46 0.90
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGCATTTCAGT
Found at i:29476051 original size:40 final size:39
Alignment explanation
Indices: 29475996--29476156 Score: 200
Period size: 40 Copynumber: 4.1 Consensus size: 39
29475986 GATGATAATT
* *
29475996 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-TATCC
29476036 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
* *
29476076 GGGCTATGTCCCGAAGGCATTTGTACGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
* **
29476116 GGGCTATGTCCCGAAGGCA-TTAAGCGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCC
29476155 GG
1 GG
29476157 TTAAATCCCG
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.02
39 17 0.15
40 90 0.82
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCC
Found at i:29488044 original size:17 final size:17
Alignment explanation
Indices: 29488022--29488055 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29488012 CACAAACATG
*
29488022 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
29488039 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
29488056 TATATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:29497166 original size:40 final size:40
Alignment explanation
Indices: 29497104--29497361 Score: 380
Period size: 40 Copynumber: 6.5 Consensus size: 40
29497094 AAGCCAAGTA
* * * *
29497104 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
29497143 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29497183 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29497223 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
29497263 CCTTCGGGACTTAGCCGGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
29497303 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-AGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-CAAATG
29497343 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
29497362 TTATCATCCA
Statistics
Matches: 204, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.07
40 190 0.93
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29498639 original size:17 final size:17
Alignment explanation
Indices: 29498617--29498650 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29498607 ACATGAGAGC
* *
29498617 CTTTCTTTTTTTTTCTT
1 CTTTCTTCTCTTTTCTT
29498634 CTTTCTTCTCTTTTCTT
1 CTTTCTTCTCTTTTCTT
29498651 TTTTTCATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTCTTCTCTTTTCTT
Found at i:29505214 original size:40 final size:40
Alignment explanation
Indices: 29505177--29505367 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
29505167 GGTTATAGCT
* * * *
29505177 ACTTGCTCGAATGCCTTCGGGACATAGTCCGGATATAGTA
1 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
29505217 ACTTGCACCAATGCCTTCGGGACTTAACCCGGATATAGTA
1 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
29505257 ACTCGAACAAATGGCTTCGGGACTTAGCCCGGATATAGTA
1 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
29505297 AC-TCCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTC
1 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
* *
29505336 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTTGCACAAATGCCTTCGGGACTTAGCCCGG
29505368 TTATCATCCA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 98 0.75
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:29505347 original size:79 final size:80
Alignment explanation
Indices: 29505186--29505367 Score: 251
Period size: 79 Copynumber: 2.3 Consensus size: 80
29505176 TACTTGCTCG
* * * *
29505186 AATGCCTTCGGGACATAGTCCGGATATAGTAACTTGCACCAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCCACAAATGCCTTCGGGACTTAACCCGGAT
*
29505251 ATAGTAACTCGAACA
66 ATAGTAACTAGAACA
* *
29505266 AATGGCTTCGGGACTTAGCCCGGATATAGTAAC-TCCACAAATGCCTTCGGGACTTAGCCCGGA-
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCCACAAATGCCTTCGGGACTTAACCCGGAT
* **
29505329 ACTAGTCACTAGCGCA
66 A-TAGTAACTAGAACA
29505345 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
29505368 TTATCATCCA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGAACA
Found at i:29506653 original size:11 final size:10
Alignment explanation
Indices: 29506623--29506661 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
29506613 ACATGAGAGC
29506623 CTTTCTTTTT
1 CTTTCTTTTT
*
29506633 TTTTCTTTTT
1 CTTTCTTTTT
29506643 CTTTCTCTTTT
1 CTTTCT-TTTT
29506654 CTTT-TTTT
1 CTTTCTTTT
29506662 CATCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:29507465 original size:117 final size:117
Alignment explanation
Indices: 29507259--29507507 Score: 426
Period size: 117 Copynumber: 2.1 Consensus size: 117
29507249 GTGAGGATAG
* **
29507259 TTGTCGATGCAAAAACTTGAAAACAATAAAATAAAATATGATAGTGATAAACTGGGATCCTTAAC
1 TTGTCGATGCAATAACTTGAAAACAATAAAATAAAATATGATAGTGATAAACTGGGATCCCCAAC
* *
29507324 ATGAATCTTCAGCAGAATACTAAATGTTTACTAGGTATAAAAGTGTAGGTGA
66 ATGAATCTTCAGCAGAATACTAAATGCTCACTAGGTATAAAAGTGTAGGTGA
*
29507376 TTGTCGATGCAATAACTTGAAAATAATAAAATAAAATATGATAGTGATAAACTGGGATCCCCAAC
1 TTGTCGATGCAATAACTTGAAAACAATAAAATAAAATATGATAGTGATAAACTGGGATCCCCAAC
*
29507441 ATGAATCTTCAGCAGAATACTAAATGCTCACTGGGTATAAAAGTGTAGGTGA
66 ATGAATCTTCAGCAGAATACTAAATGCTCACTAGGTATAAAAGTGTAGGTGA
*
29507493 TTGTCGATGTAATAA
1 TTGTCGATGCAATAA
29507508 AATTCAATGT
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 124 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (117 bp):
TTGTCGATGCAATAACTTGAAAACAATAAAATAAAATATGATAGTGATAAACTGGGATCCCCAAC
ATGAATCTTCAGCAGAATACTAAATGCTCACTAGGTATAAAAGTGTAGGTGA
Found at i:29512176 original size:57 final size:58
Alignment explanation
Indices: 29512073--29512190 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
29512063 ATAAAAATAG
* *
29512073 TGAAAATGGAGAAATAAGAAACATTTTGAAATGAATATGTTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGATTTTCTCCAAAATAAAAA
* ** *
29512131 TGAAAATGGAGAAAT-TGAATTATTTGGAAATGAA-AGTGATTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATAAGAAACATTTGGAAATGAATA-TGATTTTCTCCAAAATAAAAA
29512188 TGA
1 TGA
29512191 CCAGGGAATG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 37 0.70
58 15 0.28
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (58 bp):
TGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGATTTTCTCCAAAATAAAAA
Found at i:29521232 original size:58 final size:58
Alignment explanation
Indices: 29521144--29521260 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
29521134 AGAGCTTAAA
29521144 TTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGTGGC
1 TTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGTGGC
29521202 TTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGTGGC
1 TTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGTGGC
29521260 T
1 T
29521261 ATTGAGCCGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (58 bp):
TTATGATTTGATTAGATCATGTTTTAAGCAAATCAAAATCATGCTCTTTGTGTGTGGC
Found at i:29521483 original size:39 final size:40
Alignment explanation
Indices: 29521375--29521559 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
29521365 TCGAATGATG
* * * * *
29521375 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCTGAAGGCATTTGTGC-GAGTTACTAAA
* * *
29521415 TCCGGACTAAGATCC-GAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCTGAAGGCATTTGTGCGAGTTACTAAA
*
29521455 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
*
29521494 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-AA
* * *
29521535 -CCGGGCTATGTCCCGAAAGCATTTG
1 TCCGGGCTAAGTCCTGAAGGCATTTG
29521560 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29521581 original size:79 final size:78
Alignment explanation
Indices: 29521412--29521592 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 78
29521402 CTAAGTGACC
* * * *
29521412 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAAGCAT
**
29521477 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * *
29521491 AAATCCGGGTTAAG-TCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAAG
1 ATATCC-GGTTAAGATCC-GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAAG
*
29521554 CATTTGAACGAG-TAGCT
62 CATTGGAACGAGTTA-CT
29521571 ATATCCGGTTAA-ATTCCGAAGG
1 ATATCCGGTTAAGA-TCCGAAGG
29521593 TACGTGATTC
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
78 5 0.06
79 52 0.62
80 27 0.32
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAAGCATT
GGAACGAGTTACT
Found at i:29523352 original size:17 final size:17
Alignment explanation
Indices: 29523330--29523362 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29523320 GTACATGTGT
*
29523330 AAAATATTGTGTTTTTC
1 AAAATATTATGTTTTTC
29523347 AAAATATTATGTTTTT
1 AAAATATTATGTTTTT
29523363 TTTTTCTTTT
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:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
AAAATATTATGTTTTTC
Found at i:29524045 original size:18 final size:17
Alignment explanation
Indices: 29524024--29524075 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
29524014 CGCTTACCTT
*
29524024 TGTATGCAAACCTTTATA
1 TGTATGCAAACC-CTATA
*
29524042 TGTATGTAAACCCTATA
1 TGTATGCAAACCCTATA
* *
29524059 TGTATACGAACCCTATA
1 TGTATGCAAACCCTATA
29524076 CGCATGGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (17 bp):
TGTATGCAAACCCTATA
Found at i:29524060 original size:17 final size:18
Alignment explanation
Indices: 29524024--29524063 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
29524014 CGCTTACCTT
*
29524024 TGTATGCAAACCTTTATA
1 TGTATGCAAACCTCTATA
*
29524042 TGTATGTAAACC-CTATA
1 TGTATGCAAACCTCTATA
29524059 TGTAT
1 TGTAT
29524064 ACGAACCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (18 bp):
TGTATGCAAACCTCTATA
Found at i:29524535 original size:25 final size:24
Alignment explanation
Indices: 29524507--29524594 Score: 65
Period size: 23 Copynumber: 3.8 Consensus size: 24
29524497 CAAAGGCTTT
* *
29524507 AAAATGTATGCCACACATGCTTCAC
1 AAAAT-TACGCCACACAGGCTTCAC
*
29524532 AAAA-TACGCCACACGGGCTTCAC
1 AAAATTACGCCACACAGGCTTCAC
* * * *
29524555 AAAA-TATGCAACAAAGGCTTTAC
1 AAAATTACGCCACACAGGCTTCAC
* *
29524578 ATAA-TACACCACACAGG
1 AAAATTACGCCACACAGG
29524595 TGATCACGAT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
23 46 0.92
25 4 0.08
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (24 bp):
AAAATTACGCCACACAGGCTTCAC
Found at i:29524542 original size:23 final size:23
Alignment explanation
Indices: 29524516--29524594 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
29524506 TAAAATGTAT
*
29524516 GCCACACATGCTTCACAAAATAC
1 GCCACACAGGCTTCACAAAATAC
* *
29524539 GCCACACGGGCTTCACAAAATAT
1 GCCACACAGGCTTCACAAAATAC
* * * *
29524562 GCAACAAAGGCTTTACATAATAC
1 GCCACACAGGCTTCACAAAATAC
*
29524585 ACCACACAGG
1 GCCACACAGG
29524595 TGATCACGAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.16
Consensus pattern (23 bp):
GCCACACAGGCTTCACAAAATAC
Done.