Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 130 of 349
Found at i:41459728 original size:3 final size:3
Alignment explanation
Indices: 41459720--41459757 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
41459710 CAAGGATCCT
41459720 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
41459758 TCTCACAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41465186 original size:66 final size:66
Alignment explanation
Indices: 41465052--41465187 Score: 168
Period size: 66 Copynumber: 2.1 Consensus size: 66
41465042 TGATTTATTA
* * * * *
41465052 GAGAGTGTTCGCTTTATGCTTCACTTTTTGGGATATGTTCGACTTTATGAGTCAATTGATGTGTT
1 GAGAGTGTTAGCTTTATGCTTCACTTTATAGGACATGTTCGACTTTATGAGTCAATTGATGTGAT
41465117 G
66 G
* * *
41465118 GAGAGTGTTAGTTTTATGCTTCAC-TTATAGGACATGTTTGACTTTATGAGTCTATTTGGA-GTG
1 GAGAGTGTTAGCTTTATGCTTCACTTTATAGGACATGTTCGACTTTATGAGTC-AATT-GATGTG
41465181 ATG
64 ATG
41465184 GAGA
1 GAGA
41465188 TCCATGTATC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 24 0.40
66 34 0.57
67 2 0.03
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.42
Consensus pattern (66 bp):
GAGAGTGTTAGCTTTATGCTTCACTTTATAGGACATGTTCGACTTTATGAGTCAATTGATGTGAT
G
Found at i:41487479 original size:15 final size:15
Alignment explanation
Indices: 41487461--41487489 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41487451 CCTGTAGAAA
41487461 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
41487476 TTAAATTAAACTAA
1 TTAAATTAAACTAA
41487490 TGGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:41487830 original size:20 final size:20
Alignment explanation
Indices: 41487805--41487870 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
41487795 TGTAAGAGTA
41487805 AAAATGCAATGACAATTACG
1 AAAATGCAATGACAATTACG
* **
41487825 AAAATGTTTATATG--AA-TAAT
1 AAAATG--CA-ATGACAATTACG
41487845 AAAATGCAATGACAATTACG
1 AAAATGCAATGACAATTACG
41487865 AAAATG
1 AAAATG
41487871 TTTATATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 3 0.09
18 1 0.03
19 2 0.06
20 22 0.65
21 2 0.06
22 1 0.03
23 3 0.09
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (20 bp):
AAAATGCAATGACAATTACG
Found at i:41487859 original size:40 final size:40
Alignment explanation
Indices: 41487805--41487885 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
41487795 TGTAAGAGTA
41487805 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
1 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
41487845 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
1 AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
41487885 A
1 A
41487886 TGTACTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (40 bp):
AAAATGCAATGACAATTACGAAAATGTTTATATGAATAAT
Found at i:41492082 original size:46 final size:49
Alignment explanation
Indices: 41491803--41492211 Score: 280
Period size: 48 Copynumber: 8.7 Consensus size: 49
41491793 GGGTATAATA
* * * *
41491803 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAGT--
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TACATCAAGTAG
* * *
41491851 -CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAAAATCGAG--G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-C--TCTACATCAAGTAG
* * * *
41491899 CC-AGCGCCAAGTCCTAGACATGGTCTTACACTAGCTCTCACAT-ATCCGT-G
1 CCGA-TGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCA--AGTAG
* * * *
41491949 CCGATGTCATGTCCCAGACATGGTCTTACACTAACACCT-CTAT-ACGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTAC-ATCAAGTAG
*
41491997 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCAAGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAGTAG
**
41492043 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAGTA-G
* * * **
41492089 CCGATG-TATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTCGATA-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAG-TAG
*
41492135 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CAT-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAA-GTAG
*
41492183 CTGATG-CATGT-CCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
41492212 GGCACAAAAA
Statistics
Matches: 297, Mismatches: 36, Indels: 59
0.76 0.09 0.15
Matches are distributed among these distances:
44 12 0.04
45 31 0.10
46 67 0.23
47 51 0.17
48 69 0.23
49 31 0.10
50 33 0.11
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAAGTAG
Found at i:41492194 original size:94 final size:96
Alignment explanation
Indices: 41491803--41492211 Score: 343
Period size: 93 Copynumber: 4.3 Consensus size: 96
41491793 GGGTATAATA
* * * **
41491803 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAGT--CGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATCTCGTACCGATGCCATGTCCCA
* *
41491866 GACATGGTCTTACACT-GACTATCAAAATCGAGG
64 GACATGGTCTTACACTAG-CTCTCATAATCGAGG
* * * * * *
41491899 CC-AGCGCCAAGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGTCATGTCC
1 CCGA-TGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT-CGTACCGATGCCATGTCC
* * *
41491963 CAGACATGGTCTTACACTAACACCTC-T-ATACG-TG
62 CAGACATGGTCTTACACTAGC-TCTCATAAT-CGAGG
* * **
41491997 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCAAGTAGCCGATG-CATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTA-CCGATGCCATGTCCCAG
*
41492059 ACAT-GTCTTACACTAGCT-TACAT-CTCGAGG
65 ACATGGTCTTACACTAGCTCT-CATAATCGAGG
* * *
41492089 CCGATG-TATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCGATACCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCG-TACCGATGCCATGTCCCAG
*
41492152 ACATGGTCTTACACTAGCTCTCATAAT-GTGG
65 ACATGGTCTTACACTAGCTCTCATAATCGAGG
*
41492183 CTGATG-CATGT-CCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
41492212 GGCACAAAAA
Statistics
Matches: 252, Mismatches: 41, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
90 11 0.04
91 16 0.06
92 32 0.13
93 49 0.19
94 38 0.15
95 4 0.02
96 33 0.13
97 3 0.01
98 30 0.12
99 34 0.13
100 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTACCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCATAATCGAGG
Found at i:41495759 original size:21 final size:21
Alignment explanation
Indices: 41495735--41495783 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
41495725 ATGGTGAATC
41495735 CAGCTTCTAAGATGGATCAAT
1 CAGCTTCTAAGATGGATCAAT
* *
41495756 CAGCTTTTGAGATGGATCAAT
1 CAGCTTCTAAGATGGATCAAT
*
41495777 CGGCTTC
1 CAGCTTC
41495784 CTTGGAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (21 bp):
CAGCTTCTAAGATGGATCAAT
Found at i:41498843 original size:35 final size:35
Alignment explanation
Indices: 41498768--41498843 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
41498758 CTTAGCTGGC
*
41498768 GGATTAATCCGCCTAGGCGAAATTGGACCATGCCG
1 GGATCAATCCGCCTAGGCGAAATTGGACCATGCCG
* * **
41498803 AGATCAATCCTCCTAGGCGAAATTGGACTGTGCCG
1 GGATCAATCCGCCTAGGCGAAATTGGACCATGCCG
41498838 GGATCA
1 GGATCA
41498844 TTGTAGTTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (35 bp):
GGATCAATCCGCCTAGGCGAAATTGGACCATGCCG
Found at i:41504662 original size:21 final size:21
Alignment explanation
Indices: 41504636--41504676 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
41504626 TTATGCAATG
41504636 TTTTAAAAATACTAAAATACA
1 TTTTAAAAATACTAAAATACA
*
41504657 TTTTAAAAATGCTAAAATAC
1 TTTTAAAAATACTAAAATAC
41504677 TATCCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
TTTTAAAAATACTAAAATACA
Found at i:41509090 original size:57 final size:56
Alignment explanation
Indices: 41508977--41509090 Score: 124
Period size: 57 Copynumber: 2.0 Consensus size: 56
41508967 TACATTTTGC
* * * *
41508977 AATAGGATTACCAGTCCAAGCTAAATCCTATCCATAGCATATGCTCTAGGGAGCTT
1 AATAGGATTACCAGTCCAAGCTAAATCCAATCCATAACATAAGCTCAAGGGAGCTT
** *
41509033 AATATGGATTACCCA-TCCAAGCTAAATCCAATTTATAACCTAAGCTCAAGAGG-GCTT
1 AATA-GGATTA-CCAGTCCAAGCTAAATCCAATCCATAACATAAGCTCAAG-GGAGCTT
41509090 A
1 A
41509091 CATTAGAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.08
57 39 0.81
58 5 0.10
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (56 bp):
AATAGGATTACCAGTCCAAGCTAAATCCAATCCATAACATAAGCTCAAGGGAGCTT
Found at i:41512892 original size:17 final size:17
Alignment explanation
Indices: 41512849--41512892 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
41512839 CTCGTTGGAA
* *
41512849 CAACCCTATCGCCAGAG
1 CAACCCTATTGCCAAAG
41512866 CAACCCTATTGCCAAAG
1 CAACCCTATTGCCAAAG
41512883 CAACCCTATT
1 CAACCCTATT
41512893 ATTGGAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.32, C:0.39, G:0.11, T:0.18
Consensus pattern (17 bp):
CAACCCTATTGCCAAAG
Found at i:41515168 original size:42 final size:43
Alignment explanation
Indices: 41515121--41515206 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
41515111 AGGGTAAATC
*
41515121 CAACAACCCAAGTTTATCTTCTCC-TTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
*
41515163 CAACAACCCATGATTATCTTCTCCTTTTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCC-TTTTTTTAAATTCTTTTTT
41515207 TTAAGATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 22 0.55
44 18 0.45
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.51
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
Found at i:41519757 original size:56 final size:56
Alignment explanation
Indices: 41519671--41519790 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
41519661 ACAAGGGATG
41519671 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
41519727 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
41519783 ATGGGCAA
1 ATGGGCAA
41519791 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:41521054 original size:79 final size:81
Alignment explanation
Indices: 41520918--41521100 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
41520908 TCGAATGATG
* *
41520918 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
41520982 TGTGCGGGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
41520997 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
41521059 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
41521077 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41521101 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:41521116 original size:40 final size:40
Alignment explanation
Indices: 41520919--41521102 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
41520909 CGAATGATGT
* * * *
41520919 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
41520959 CCGGACTAAGAT-CCGAAGGCATTTGTGCGGGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
41520999 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41521037 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41521078 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41521103 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:41521124 original size:79 final size:79
Alignment explanation
Indices: 41520971--41521135 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
41520961 GGACTAAGAT
* * **
41520971 CCGAAGGCATTTGTGCGGGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
41521036 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41521050 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
41521113 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41521129 CCGAAGG
1 CCGAAGG
41521136 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41526546 original size:13 final size:13
Alignment explanation
Indices: 41526528--41526554 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41526518 AATGGTGCCA
41526528 TCTTAATGCTCAT
1 TCTTAATGCTCAT
41526541 TCTTAATGCTCAT
1 TCTTAATGCTCAT
41526554 T
1 T
41526555 TGATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (13 bp):
TCTTAATGCTCAT
Found at i:41528217 original size:14 final size:14
Alignment explanation
Indices: 41528198--41528241 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
41528188 CCGTTAGATT
41528198 AAATTCATTAAAAA
1 AAATTCATTAAAAA
* **
41528212 AAATTCATTAGATT
1 AAATTCATTAAAAA
41528226 AAATTCATTAAAAA
1 AAATTCATTAAAAA
41528240 AA
1 AA
41528242 GAATAACAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (14 bp):
AAATTCATTAAAAA
Found at i:41528223 original size:28 final size:30
Alignment explanation
Indices: 41528154--41528241 Score: 135
Period size: 32 Copynumber: 2.9 Consensus size: 30
41528144 AAGAATAACA
41528154 ATCCATTAGATTAAATTCATTAAAAAATAAT
1 ATCCATTAGATTAAATTCATTAAAAAA-AAT
*
41528185 AATCCGTTAGATTAAATTCATTAAAAAAAAT
1 -ATCCATTAGATTAAATTCATTAAAAAAAAT
41528216 -T-CATTAGATTAAATTCATTAAAAAAA
1 ATCCATTAGATTAAATTCATTAAAAAAA
41528242 GAATAACAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 24 0.44
29 1 0.02
31 3 0.06
32 26 0.48
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (30 bp):
ATCCATTAGATTAAATTCATTAAAAAAAAT
Found at i:41531275 original size:24 final size:24
Alignment explanation
Indices: 41531243--41531288 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
41531233 GCCACTGTAT
*
41531243 CTCAAATTTTTGCGGCGTTTTTAG
1 CTCAAATTTTTGCGGCATTTTTAG
*
41531267 CTCAAATTTTTGTGGCATTTTT
1 CTCAAATTTTTGCGGCATTTTT
41531289 CCCCAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.50
Consensus pattern (24 bp):
CTCAAATTTTTGCGGCATTTTTAG
Found at i:41531295 original size:23 final size:24
Alignment explanation
Indices: 41531245--41531295 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
41531235 CACTGTATCT
* * *
41531245 CAAATTTTTGCGGCGTTTTTAGCT
1 CAAATTTTTGCGGCATTTTTACCC
*
41531269 CAAATTTTTGTGGCATTTTT-CCC
1 CAAATTTTTGCGGCATTTTTACCC
41531292 CAAA
1 CAAA
41531296 AACGCCACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (24 bp):
CAAATTTTTGCGGCATTTTTACCC
Found at i:41531532 original size:8 final size:8
Alignment explanation
Indices: 41531467--41531531 Score: 82
Period size: 8 Copynumber: 8.5 Consensus size: 8
41531457 AATATTAAAA
41531467 TTTTAAGT
1 TTTTAAGT
41531475 TTTTAAGT
1 TTTTAAGT
41531483 TTTTAAGT
1 TTTTAAGT
41531491 TTTTAA-T
1 TTTTAAGT
*
41531498 TTTTAATT
1 TTTTAAGT
*
41531506 TTTTTA-T
1 TTTTAAGT
*
41531513 TTTTAAAT
1 TTTTAAGT
41531521 TTTTAA-T
1 TTTTAAGT
41531528 TTTT
1 TTTT
41531532 TTGAAGATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
7 18 0.34
8 35 0.66
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.71
Consensus pattern (8 bp):
TTTTAAGT
Found at i:41531532 original size:16 final size:15
Alignment explanation
Indices: 41531467--41531531 Score: 94
Period size: 15 Copynumber: 4.3 Consensus size: 15
41531457 AATATTAAAA
41531467 TTTTAAGTTTTTAAGT
1 TTTTAAGTTTTTAA-T
41531483 TTTTAAGTTTTTAAT
1 TTTTAAGTTTTTAAT
* *
41531498 TTTTAATTTTTTTAT
1 TTTTAAGTTTTTAAT
*
41531513 TTTTAAATTTTTAAT
1 TTTTAAGTTTTTAAT
41531528 TTTT
1 TTTT
41531532 TTGAAGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
15 31 0.69
16 14 0.31
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTAAGTTTTTAAT
Found at i:41531533 original size:23 final size:24
Alignment explanation
Indices: 41531467--41531533 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
41531457 AATATTAAAA
* * *
41531467 TTTTAAGTTTTTAAGTTTTTAAGT
1 TTTTAAATTTTTAATTTTTTTAGT
41531491 TTTT-AATTTTTAATTTTTTTA-T
1 TTTTAAATTTTTAATTTTTTTAGT
41531513 TTTTAAATTTTTAATTTTTTT
1 TTTTAAATTTTTAATTTTTTT
41531534 GAAGATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.13
23 30 0.77
24 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTAAATTTTTAATTTTTTTAGT
Found at i:41531835 original size:35 final size:35
Alignment explanation
Indices: 41531798--41531874 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
41531788 TATATTGAAT
41531798 AAATATAAATATTTATGTATGCAATATATAAATATA
1 AAAT-TAAATATTTATGTATGCAATATATAAATATA
41531834 AAATTAAATATTTATGTATGCAATATATAAATATA
1 AAATTAAATATTTATGTATGCAATATATAAATATA
41531869 AAATTA
1 AAATTA
41531875 TGTTATATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (35 bp):
AAATTAAATATTTATGTATGCAATATATAAATATA
Found at i:41532001 original size:15 final size:15
Alignment explanation
Indices: 41531983--41532014 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41531973 TAAAATAATA
*
41531983 ATTTAGATTTATCTT
1 ATTTAGATTTATATT
41531998 ATTTAGATTTATATT
1 ATTTAGATTTATATT
41532013 AT
1 AT
41532015 AAAAAAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTAGATTTATATT
Found at i:41532163 original size:21 final size:22
Alignment explanation
Indices: 41532119--41532170 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
41532109 CTAAAAACTC
41532119 AAACCAT-AAACTCTAAATCAT
1 AAACCATAAAACTCTAAATCAT
* *
41532140 AAACCATAAAACT-TACATCCT
1 AAACCATAAAACTCTAAATCAT
*
41532161 AAACCCTAAA
1 AAACCATAAA
41532171 TATATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (22 bp):
AAACCATAAAACTCTAAATCAT
Found at i:41532360 original size:21 final size:21
Alignment explanation
Indices: 41532336--41532376 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41532326 CTATAAAATA
*
41532336 ATAAACACC-AAACTCTAAACC
1 ATAAAC-CCTAAACTCAAAACC
41532357 ATAAACCCTAAACTCAAAAC
1 ATAAACCCTAAACTCAAAAC
41532377 TCTAATCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (21 bp):
ATAAACCCTAAACTCAAAACC
Found at i:41539605 original size:27 final size:27
Alignment explanation
Indices: 41539575--41539752 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41539565 ATATTGAGTC
* * * *
41539575 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41539602 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41539629 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41539657 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41539684 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41539711 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41539738 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41539753 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41539714 original size:82 final size:81
Alignment explanation
Indices: 41539596--41539751 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41539586 TGCTATATAA
* *
41539596 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41539661 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41539678 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41539742 CACTTAGTGC
65 CACTTAGTGC
41539752 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41543596 original size:10 final size:10
Alignment explanation
Indices: 41543577--41543608 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
41543567 TTTTAGGATT
41543577 TTAT-TTTAA
1 TTATCTTTAA
41543586 TTATCTTTAA
1 TTATCTTTAA
41543596 TTATCTTTAA
1 TTATCTTTAA
41543606 TTA
1 TTA
41543609 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:41546974 original size:47 final size:47
Alignment explanation
Indices: 41546922--41547267 Score: 482
Period size: 47 Copynumber: 7.3 Consensus size: 47
41546912 TGTACAAGTA
* * *
41546922 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-AGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
41546969 TATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
41547018 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
41547065 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
41547112 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
41547159 CATATATGAGATAAGGCCGAATGGCGAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
41547206 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
41547253 TATAAATGTGATAAG
1 TATATATGTGATAAG
41547268 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 231 0.84
48 3 0.01
49 40 0.14
50 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:41552766 original size:29 final size:29
Alignment explanation
Indices: 41552724--41552783 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
41552714 GAACTATTAT
*
41552724 CATGGCCCGAAGCCACATCATCCAATATG
1 CATGCCCCGAAGCCACATCATCCAATATG
41552753 CATGCCCCGAAGCCACATCATCCAATATG
1 CATGCCCCGAAGCCACATCATCCAATATG
41552782 CA
1 CA
41552784 CCGAAGTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.37, G:0.15, T:0.17
Consensus pattern (29 bp):
CATGCCCCGAAGCCACATCATCCAATATG
Found at i:41553989 original size:11 final size:11
Alignment explanation
Indices: 41553973--41554002 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
41553963 TGTAATATAA
41553973 AAAATAATATT
1 AAAATAATATT
41553984 AAAATAATATT
1 AAAATAATATT
41553995 AAAATAAT
1 AAAATAAT
41554003 TTTTGACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATAATATT
Found at i:41555873 original size:25 final size:26
Alignment explanation
Indices: 41555810--41555882 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
41555800 ATATTTTCTG
* * *
41555810 AAAATTTTAAC-AGTGGCAAAATCGTC
1 AAAATTTT-ACTAGGGGTAAAATCATC
41555836 AAAATTTTACTAGGGGTAAAATCATC
1 AAAATTTTACTAGGGGTAAAATCATC
*
41555862 -AAATTTTGCTAGGGGTAAAAT
1 AAAATTTTACTAGGGGTAAAAT
41555883 AGGGTTGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 22 0.52
26 20 0.48
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (26 bp):
AAAATTTTACTAGGGGTAAAATCATC
Found at i:41558297 original size:24 final size:22
Alignment explanation
Indices: 41558253--41558297 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
41558243 GTGACGTGTT
* *
41558253 TCCTATTAAATCGAGTTTCTTC
1 TCCTATTAAATCGACTATCTTC
41558275 TCCTAGTTAAATTCGACTATCTT
1 TCCTA-TTAAA-TCGACTATCTT
41558298 TTTCTAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.44
Consensus pattern (22 bp):
TCCTATTAAATCGACTATCTTC
Found at i:41558826 original size:3 final size:3
Alignment explanation
Indices: 41558818--41558842 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
41558808 TAATGGTGAA
41558818 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
41558843 AGGATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:41565305 original size:57 final size:57
Alignment explanation
Indices: 41565244--41565354 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
41565234 CACACTTCGA
* * *
41565244 TTCTTTTGAATGTAGGTTGAGATGGCCTTGACTGAGGTTTTGTGGGAACAATTTCTT
1 TTCTTTTGAATGTAGGTTGAGATAGCCTTGACTGAGATTCTGTGGGAACAATTTCTT
* *
41565301 TTCTTTTGAATGTAGGTTGTGATAGCCTTGGCTGAGATTCTGTGGGAACAATTT
1 TTCTTTTGAATGTAGGTTGAGATAGCCTTGACTGAGATTCTGTGGGAACAATTT
41565355 AAATATAACG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.20, C:0.11, G:0.28, T:0.41
Consensus pattern (57 bp):
TTCTTTTGAATGTAGGTTGAGATAGCCTTGACTGAGATTCTGTGGGAACAATTTCTT
Found at i:41566414 original size:15 final size:16
Alignment explanation
Indices: 41566382--41566426 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
41566372 ATATTTTTAA
41566382 ATAT-TTTTAAATAAT
1 ATATATTTTAAATAAT
*
41566397 ATATATTTTAAAT-TT
1 ATATATTTTAAATAAT
41566412 ATATATTTTAAATAA
1 ATATATTTTAAATAA
41566427 AAAATAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAAATAAT
Found at i:41566998 original size:22 final size:22
Alignment explanation
Indices: 41566973--41567014 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
41566963 ACTAAAATCA
41566973 TAGACAGTAAAACCTAAAACTT
1 TAGACAGTAAAACCTAAAACTT
** *
41566995 TAGACCTTAAAACCTTAAAC
1 TAGACAGTAAAACCTAAAAC
41567015 CATTCAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (22 bp):
TAGACAGTAAAACCTAAAACTT
Found at i:41567384 original size:14 final size:15
Alignment explanation
Indices: 41567360--41567392 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
41567350 CTTAAAATCA
41567360 TAAACCATTAAACCC
1 TAAACCATTAAACCC
*
41567375 TAAA-CATTAAACCT
1 TAAACCATTAAACCC
41567389 TAAA
1 TAAA
41567393 AATCAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCATTAAACCC
Found at i:41569283 original size:31 final size:31
Alignment explanation
Indices: 41569242--41569300 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
41569232 TTTTCAAGCA
41569242 AAGCTACCTATGCGAACTCTT-TATGATAAGT
1 AAGCTACCTATGCGAACT-TTCTATGATAAGT
* *
41569273 AAGCTCCCTATGCGAGCTTTCTATGATA
1 AAGCTACCTATGCGAACTTTCTATGATA
41569301 TGTCTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (31 bp):
AAGCTACCTATGCGAACTTTCTATGATAAGT
Found at i:41572648 original size:47 final size:47
Alignment explanation
Indices: 41572579--41572837 Score: 232
Period size: 47 Copynumber: 5.5 Consensus size: 47
41572569 ATGTCGATGT
*
41572579 CATGTCCCAGACATGGTCTAACACTGGCTCATCCATCAAGTCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGC
* **
41572626 CATGTCCCAGACATGGTCTAACACTGGCTCATCCATCAAGTTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGC
* * *
41572673 CATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCCGTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA--AGT--CAATGC
* * * * * * *
41572723 CATGTCCTAGACGTGGTCTTATACTGACACAT--GTCATAGCCAATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCA-AGTCAATGC
*
41572768 CATGTCCCAGACAT-GTCTTACACTGGCTC-T-CATCTCAATGCCAATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TCAA-GTCAATGC
41572814 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
41572838 AGCACACACA
Statistics
Matches: 178, Mismatches: 23, Indels: 23
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 13 0.07
46 41 0.23
47 76 0.43
48 4 0.02
49 1 0.01
50 29 0.16
51 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGC
Found at i:41575481 original size:18 final size:17
Alignment explanation
Indices: 41575454--41575487 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41575444 GCGATCTCCC
41575454 AATCACAAAAAAAAGGT
1 AATCACAAAAAAAAGGT
*
41575471 AATCTACAAAATAAAGG
1 AATC-ACAAAAAAAAGG
41575488 ACAAGGCACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.15
Consensus pattern (17 bp):
AATCACAAAAAAAAGGT
Found at i:41590384 original size:40 final size:40
Alignment explanation
Indices: 41590347--41590530 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
41590337 GCTACTCGTT
*
41590347 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41590387 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
41590426 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41590465 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41590506 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41590531 CATCATTCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 6 0.05
39 55 0.45
40 49 0.40
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41598595 original size:79 final size:81
Alignment explanation
Indices: 41598487--41598668 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
41598477 TACTCGTTCA
* *
41598487 AATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
41598549 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
41598566 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
41598629 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
41598645 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41598669 CATCATTCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 7 0.08
79 65 0.74
80 16 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:41598601 original size:39 final size:40
Alignment explanation
Indices: 41598485--41598668 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
41598475 GCTACTCGTT
*
41598485 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41598524 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
41598564 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41598603 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41598644 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41598669 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 50 0.40
40 59 0.48
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41606950 original size:36 final size:39
Alignment explanation
Indices: 41606856--41606962 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 39
41606846 CGGATAAGAT
* * * **
41606856 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAATGC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG-TAATGC
41606896 CCGAAGGCATTCGTGCGAGTT-TTAAATCCGGG-AAT-C
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTAATGC
41606932 CCGAA-GCATTCGTGGCGAGTTGTT-AATCCGG
1 CCGAAGGCATTCGT-GCGAGTTGTTAAATCCGG
41606963 TTAGTCCGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
35 8 0.13
36 20 0.33
37 5 0.08
39 10 0.16
40 18 0.30
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTAATGC
Found at i:41614463 original size:40 final size:40
Alignment explanation
Indices: 41614397--41614561 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
41614387 CCGGAAAGAT
* *
41614397 CCGAAGGC-TTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
41614436 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
**
41614476 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTT-AGT-
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
41614514 CCGAAGGCA-T-GTGTGAGTTACTAAAACC-GGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
41614551 CCGAAGGCATT
1 CCGAAGGCATT
41614562 GAACGAGCTA
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
35 3 0.03
36 16 0.14
37 10 0.09
38 10 0.09
39 11 0.10
40 62 0.55
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:41622383 original size:39 final size:40
Alignment explanation
Indices: 41622179--41622401 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
41622169 TTGAATGCTG
* * * * * *
41622179 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
41622219 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41622259 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
41622299 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
41622339 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
41622378 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41622402 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:41622421 original size:79 final size:80
Alignment explanation
Indices: 41622254--41622436 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
41622244 GTGCGAGATA
* * *
41622254 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
41622319 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
41622334 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
41622398 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
41622413 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
41622437 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:41624900 original size:40 final size:40
Alignment explanation
Indices: 41624845--41624986 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
41624835 TATTCGAATG
*
41624845 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
41624885 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
41624925 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
41624965 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
41624987 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41628504 original size:20 final size:21
Alignment explanation
Indices: 41628479--41628526 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
41628469 TATTATGATT
41628479 TAATTG-ATTTTTTAGCTTGC
1 TAATTGAATTTTTTAGCTTGC
*
41628499 TAATTGGAATTTTTTAGCTTGG
1 TAATT-GAATTTTTTAGCTTGC
41628521 TAATTG
1 TAATTG
41628527 GACTTGGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 2 0.08
22 18 0.72
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (21 bp):
TAATTGAATTTTTTAGCTTGC
Found at i:41628513 original size:22 final size:22
Alignment explanation
Indices: 41628485--41628528 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
41628475 GATTTAATTG
41628485 ATTTTTTAGCTTGCTAATTGGA
1 ATTTTTTAGCTTGCTAATTGGA
*
41628507 ATTTTTTAGCTTGGTAATTGGA
1 ATTTTTTAGCTTGCTAATTGGA
41628529 CTTGGCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (22 bp):
ATTTTTTAGCTTGCTAATTGGA
Found at i:41631298 original size:27 final size:28
Alignment explanation
Indices: 41631263--41631329 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
41631253 CAAATTAAAA
* *
41631263 ATATAAAAAATTATTTAATTTCAAA-TT
1 ATATTAAAAATTATTTAATTTAAAACTT
*
41631290 ATATTAAAAA-TATTTATTTTAAAACTT
1 ATATTAAAAATTATTTAATTTAAAACTT
* *
41631317 AAATTTAAAATTA
1 ATATTAAAAATTA
41631330 AAAAGGTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 12 0.36
27 19 0.58
28 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATTAAAAATTATTTAATTTAAAACTT
Found at i:41631398 original size:18 final size:19
Alignment explanation
Indices: 41631362--41631399 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
41631352 TCTTAAAATA
41631362 AAAATATAAAATTTAATTT
1 AAAATATAAAATTTAATTT
* *
41631381 AAAA-ATAAATTTTCATTT
1 AAAATATAAAATTTAATTT
41631399 A
1 A
41631400 CCTAACTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATAAAATTTAATTT
Found at i:41633998 original size:30 final size:31
Alignment explanation
Indices: 41633942--41634000 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
41633932 ATTTTTTAAA
*
41633942 TTTTAAAAAATTCATAAAATTGTAAAATTAT
1 TTTTAAAAAATTCATAAAATTATAAAATTAT
*
41633973 TTTTAAAATATT-A-AAAATGTATAAAATT
1 TTTTAAAAAATTCATAAAAT-TATAAAATT
41634001 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 9 0.36
31 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTTAAAAAATTCATAAAATTATAAAATTAT
Found at i:41634007 original size:39 final size:40
Alignment explanation
Indices: 41633927--41634021 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 40
41633917 GATAGCAATT
* * *
41633927 AATTAATTTTTTAAATTTTAAAAAATTCATAAAATTGT-AA
1 AATT-ATTTTTAAAATATTAAAAAATTCATAAAATTATAAA
41633967 AATTATTTTTAAAATATT-AAAAATGT-ATAAAATTTATAAAA
1 AATTATTTTTAAAATATTAAAAAAT-TCATAAAA-TTAT-AAA
41634008 AATATATTTTTAAA
1 AAT-TATTTTTAAA
41634022 TTTTTTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
38 12 0.26
39 16 0.34
40 4 0.09
41 5 0.11
42 10 0.21
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (40 bp):
AATTATTTTTAAAATATTAAAAAATTCATAAAATTATAAA
Found at i:41634026 original size:9 final size:9
Alignment explanation
Indices: 41634014--41634039 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
41634004 AAAAAATATA
41634014 TTTTTAAAT
1 TTTTTAAAT
41634023 TTTTTAAAT
1 TTTTTAAAT
41634032 TTTTTAAA
1 TTTTTAAA
41634040 AAATGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:41636119 original size:37 final size:37
Alignment explanation
Indices: 41636069--41636147 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41636059 TTATTACGAA
* * *
41636069 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
41636106 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
41636143 GTCTT
1 GTCTT
41636148 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:41636340 original size:49 final size:49
Alignment explanation
Indices: 41636266--41636628 Score: 546
Period size: 47 Copynumber: 7.6 Consensus size: 49
41636256 CCCTTCGGGA
* * * * *
41636266 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41636313 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41636362 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41636409 CCTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41636456 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41636505 C-TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41636553 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41636600 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
41636629 TATTCAAATA
Statistics
Matches: 290, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 142 0.49
48 48 0.17
49 100 0.34
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41636470 original size:96 final size:95
Alignment explanation
Indices: 41636266--41636628 Score: 550
Period size: 96 Copynumber: 3.8 Consensus size: 95
41636256 CCCTTCGGGA
* * * * * * *
41636266 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
*
41636331 ACTTCCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
41636362 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
41636426 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
41636456 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATAT
*
41636520 ACACTTTCACATTCATCACATCGGCTATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41636553 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
41636618 ACTTTCACATT
65 ACTTTCACATT
41636629 TATTCAAATA
Statistics
Matches: 248, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
94 45 0.18
95 44 0.18
96 114 0.46
97 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41638332 original size:13 final size:13
Alignment explanation
Indices: 41638314--41638338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41638304 TACTAAATTT
41638314 TCATGGATTCAAG
1 TCATGGATTCAAG
41638327 TCATGGATTCAA
1 TCATGGATTCAA
41638339 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:41640607 original size:29 final size:29
Alignment explanation
Indices: 41640568--41640646 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
41640558 CTTAATAATC
*
41640568 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
41640598 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
41640627 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41640647 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:41640689 original size:43 final size:43
Alignment explanation
Indices: 41640628--41640730 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
41640618 TGCATTTCAA
41640628 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
41640671 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
41640714 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
41640731 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:41642643 original size:37 final size:37
Alignment explanation
Indices: 41642593--41642671 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41642583 TTATTACGAA
* * *
41642593 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
41642630 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
41642667 GTCTT
1 GTCTT
41642672 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:41642864 original size:49 final size:49
Alignment explanation
Indices: 41642790--41643152 Score: 537
Period size: 49 Copynumber: 7.6 Consensus size: 49
41642780 CCCTTCGGGA
* * * * *
41642790 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
41642837 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGTC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41642886 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41642933 C-TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41642979 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41643028 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41643077 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41643124 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
41643153 TATTCAAATA
Statistics
Matches: 288, Mismatches: 21, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
46 45 0.16
47 96 0.33
48 1 0.00
49 146 0.51
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41643181 original size:191 final size:190
Alignment explanation
Indices: 41642801--41643198 Score: 511
Period size: 191 Copynumber: 2.1 Consensus size: 190
41642791 TTATCACATT
* * * * *
41642801 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACACTTCCACATT
1 TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATATACACTTCCACATT
*
41642866 CATCACATCGGCCATTAGTCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
* * * * * *
41642931 GCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA-
131 GCCTATCACATATATACACTTTCACATTCATCAAATCAGACATTA-G-CATACCACATATAC
* *
41642992 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATATACACTTCCACATT
* * *
41643057 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
* *
41643122 GCCTTATCACATATATATACACTTTCACATTTATTCAAAT-ATAC-TTCA-CATACCACATATAC
131 GCC-TATCAC--ATATATACACTTTCACATTCA-TCAAATCAGACATT-AGCATACCACATATAC
*
41643184 TAT-CA-TTTCATATTC
1 TATACACTTTCACATTC
41643199 GAATACTCAT
Statistics
Matches: 181, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
190 9 0.05
191 135 0.75
192 9 0.05
193 2 0.01
194 21 0.12
195 5 0.03
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
TATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATATACACTTCCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTATCACATATATACACTTTCACATTCATCAAATCAGACATTAGCATACCACATATAC
Found at i:41644854 original size:13 final size:13
Alignment explanation
Indices: 41644836--41644860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41644826 TACTAAATTT
41644836 TCATGGATTCAAG
1 TCATGGATTCAAG
41644849 TCATGGATTCAA
1 TCATGGATTCAA
41644861 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:41646257 original size:34 final size:34
Alignment explanation
Indices: 41646217--41646293 Score: 145
Period size: 34 Copynumber: 2.2 Consensus size: 34
41646207 CAAACATACG
41646217 AAGTAATAATTAAATAATGCATGATATACAAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAAA
41646251 AAGTAATAATTAAATAATGCATGATATACAAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAAA
41646285 AGAGTAATA
1 A-AGTAATA
41646294 CAATATCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.58, C:0.05, G:0.10, T:0.26
Consensus pattern (34 bp):
AAGTAATAATTAAATAATGCATGATATACAAAAA
Found at i:41646826 original size:53 final size:53
Alignment explanation
Indices: 41646768--41646882 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 53
41646758 ATACATAACA
*
41646768 TATATAAAAAAATGATAA-GTAATATAGAATA-AAAATAA-AAATATAATAAATGT
1 TATATAAAAAAAT-ATAATGTAA-ATA-AATAGAAAATAAGAAATATAATAAATAT
* * * *
41646821 TATATAATAAAATATAATTTAAATATATAGAAAATAAGAAATATAATAGATAT
1 TATATAAAAAAATATAATGTAAATAAATAGAAAATAAGAAATATAATAAATAT
*
41646874 AATATAAAA
1 TATATAAAA
41646883 TAATTAAGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
51 3 0.06
52 14 0.27
53 35 0.67
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (53 bp):
TATATAAAAAAATATAATGTAAATAAATAGAAAATAAGAAATATAATAAATAT
Found at i:41647041 original size:23 final size:23
Alignment explanation
Indices: 41647015--41647060 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
41647005 AATAGACAAT
41647015 AAATAATATTA-ATATATATAATA
1 AAATAATATTACA-ATATATAATA
*
41647038 AAATAATCTTACAATATATAATA
1 AAATAATATTACAATATATAATA
41647061 TAAAAGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATATTACAATATATAATA
Found at i:41653627 original size:30 final size:30
Alignment explanation
Indices: 41653591--41653653 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
41653581 ACTCAATAAT
* * *
41653591 CTATACTTGGGCAAAATGACCATTTTGCCC
1 CTATACTTGGACAAAATAACCATTTTACCC
**
41653621 CTATACTTTTACAAAATAACCATTTTACCC
1 CTATACTTGGACAAAATAACCATTTTACCC
41653651 CTA
1 CTA
41653654 GGTCCGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (30 bp):
CTATACTTGGACAAAATAACCATTTTACCC
Found at i:41656924 original size:68 final size:66
Alignment explanation
Indices: 41656852--41657023 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
41656842 CATCATGTGT
* * * *
41656852 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
41656915 TGTAG
62 TGTAG
** * *
41656920 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
41656985 AG
65 AG
* * * *
41656987 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
41657024 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:41656957 original size:64 final size:64
Alignment explanation
Indices: 41656876--41657058 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
41656866 AGACATTATG
* * *
41656876 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
41656940 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41657005 AA
63 AA
* * *
41657007 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAG
41657059 TCGAACTATA
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 25 0.26
66 21 0.21
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41658080 original size:15 final size:16
Alignment explanation
Indices: 41658062--41658091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41658052 AGGGAAACTA
41658062 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
41658077 TGATATAATGAAATA
1 TGATATAATGAAATA
41658092 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:41658927 original size:46 final size:47
Alignment explanation
Indices: 41658869--41659137 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 47
41658859 GGGTTATTGT
*
41658869 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTG-TGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGA-CGATGA
* * **
41658915 GAGCAAGTGTAAGAACATGTCTGGGACATGGCATCG-GCATCGA-GACAA
1 GAGCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGACCA-CGACGATGA
* * * * *
41658963 GTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGA-GACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGACGATG-A
* * *
41659010 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-ACGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGACGATGA
* *
41659055 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGA--ATTGA-GAT-A
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA-CGACGATGA
* *
41659101 TGAGCCAGTGTGAGACCATGTCTGGGACATGGCATCG
1 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
41659138 GTACTTTACT
Statistics
Matches: 185, Mismatches: 22, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
45 2 0.01
46 72 0.39
47 84 0.45
48 26 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGACGATGA
Found at i:41659126 original size:140 final size:140
Alignment explanation
Indices: 41658874--41659131 Score: 360
Period size: 140 Copynumber: 1.8 Consensus size: 140
41658864 ATTGTGAGCT
*
41658874 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTGTGAGAGCAAGTGTAAGAACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATCGTGAGAGCAAGTGTAAGAACATGTCTGG
* * *
41658939 GACATGGCATCGGCATCGAGACAAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGA
66 GACATGGCATCGGAATCGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGA
41659004 GACGTAAGCC
131 GACGTAAGCC
* * * *
41659014 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA-CGATGATAGTC-AGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATCG-TGAGAG-CAAGTGTAAGAACATGTCT
* * * *
41659077 GGGACATGGCATC-GAATTGAGATATGAGCCAGTGTGAGACCATGTCTGGGACATG
64 GGGACATGGCATCGGAATCGAGACAAGAGCCAGTGTAAGA-CATGTCTGGGACATG
41659132 GCATCGGTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
139 20 0.19
140 82 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATCGTGAGAGCAAGTGTAAGAACATGTCTGG
GACATGGCATCGGAATCGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGA
GACGTAAGCC
Found at i:41663266 original size:49 final size:47
Alignment explanation
Indices: 41663068--41663480 Score: 619
Period size: 47 Copynumber: 8.6 Consensus size: 47
41663058 CCCTTCGGGA
* * * * * *
41663068 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41663115 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41663162 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41663209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
41663257 TCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 -CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41663307 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41663356 CTTATCACATATATATACACTTTCACATTCATCACATGGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41663405 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41663452 CTTATCACATAGATATACACTTTCACATT
1 CTTATCACAT--ATATACACTTTCACATT
41663481 TATTCAAATA
Statistics
Matches: 344, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
47 175 0.51
48 1 0.00
49 130 0.38
50 1 0.00
51 37 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41663368 original size:145 final size:143
Alignment explanation
Indices: 41663068--41663480 Score: 618
Period size: 145 Copynumber: 2.9 Consensus size: 143
41663058 CCCTTCGGGA
* * * * * *
41663068 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC-TGTCACATATATACA
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTTATCACATATATACA
41663132 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
*
41663195 ATCGGCTATTAGGC
130 ATCGGCCATTAGGC
*
41663209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCTTATCACATATATAT
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTCGGCC-CTTATCAC--ATATAT
*
41663274 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
*
41663339 CACATCGGCCATTCGGC
127 CACATCGGCCATTAGGC
*
41663356 CTTATCACATATATATACACTTTCACATTCATCACATGGGCCATTCGG-CCTTATCACATATATA
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTTATCACATATATA
*
41663420 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAGATATACACTTTCACATT
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
41663481 TATTCAAATA
Statistics
Matches: 250, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
141 42 0.17
142 1 0.00
143 5 0.02
145 112 0.45
147 53 0.21
148 1 0.00
149 36 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACAATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:41671402 original size:47 final size:45
Alignment explanation
Indices: 41671343--41671465 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 45
41671333 CAGGCTAATA
41671343 CATGTCCCAGACATGTATTACACTAGCTCTCGTCTCAAT-T-CCGATG
1 CATGTCCCAGACATGTATTACACTAGCTCTCG--T-AATGTGCCGATG
* *
41671389 CCATGTCCCAGACATGGTCTTACACTGGCTCTCGTAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTATTACACTAGCTCTCGTAATGT-GCCGATG
*
41671437 CATGTCCCAGACATGTCA-TACATTAGCTC
1 CATGTCCCAGACATGT-ATTACACTAGCTC
41671466 ACAATAAACC
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
45 3 0.05
46 13 0.20
47 28 0.42
48 22 0.33
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTATTACACTAGCTCTCGTAATGTGCCGATG
Found at i:41671825 original size:30 final size:30
Alignment explanation
Indices: 41671763--41671825 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
41671753 ACTCAATAAT
* *
41671763 CTATACTTGGGCAAAATGACCATTTTGCCC
1 CTATACTTGGGCAAAATAACCATTTTACCC
** *
41671793 CTATACTTTTGCAAAATAACCATTTTATCC
1 CTATACTTGGGCAAAATAACCATTTTACCC
41671823 CTA
1 CTA
41671826 GGTTCGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (30 bp):
CTATACTTGGGCAAAATAACCATTTTACCC
Found at i:41673012 original size:11 final size:11
Alignment explanation
Indices: 41672996--41673027 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
41672986 TTATGATTGC
41672996 GATTGAATGAT
1 GATTGAATGAT
41673007 GATTGAATGAT
1 GATTGAATGAT
*
41673018 GATTGCATGA
1 GATTGAATGA
41673028 ATTATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (11 bp):
GATTGAATGAT
Found at i:41674629 original size:32 final size:33
Alignment explanation
Indices: 41674562--41674633 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
41674552 GAGCTTATTC
*
41674562 TTTATTTTGATATTTATATTTTTGGTAATTAGA
1 TTTATTTTGATATTTATATTTTTGGTAATAAGA
*
41674595 TTTATTTTGATATTTGTA-TTTTGGT-ATAAGGA
1 TTTATTTTGATATTTATATTTTTGGTAATAA-GA
41674627 TTTATTT
1 TTTATTT
41674634 GACCTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 3 0.08
32 16 0.44
33 17 0.47
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (33 bp):
TTTATTTTGATATTTATATTTTTGGTAATAAGA
Found at i:41674891 original size:16 final size:16
Alignment explanation
Indices: 41674870--41674903 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41674860 TTTAAGTAAT
* *
41674870 TAAAAATTATTAAAAC
1 TAAAAAATATAAAAAC
41674886 TAAAAAATATAAAAAC
1 TAAAAAATATAAAAAC
41674902 TA
1 TA
41674904 TTTTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAATATAAAAAC
Found at i:41677038 original size:15 final size:15
Alignment explanation
Indices: 41677005--41677040 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
41676995 CAAATATCTT
41677005 TTTTATTTTTAAATA
1 TTTTATTTTTAAATA
*
41677020 -TTTATTTTTTAATA
1 TTTTATTTTTAAATA
41677034 TTTTATT
1 TTTTATT
41677041 ATATCCGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTTAAATA
Found at i:41683537 original size:16 final size:16
Alignment explanation
Indices: 41683516--41683547 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41683506 AGAACGGAGT
41683516 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
41683532 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
41683548 TAACACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:41684197 original size:180 final size:180
Alignment explanation
Indices: 41683859--41684198 Score: 482
Period size: 180 Copynumber: 1.9 Consensus size: 180
41683849 CATCCGAGAG
* * ** * *
41683859 CTGTACCATGAGATAAATAATTTTTAGTGGAGAGAGGTTGGAACTGTCAGACAGTGAAACAGGGG
1 CTGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAATGAAACAGGGG
* ** *
41683924 TATCTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTATAAAAAATTTATGGTAAGAA
66 TATCTTTAATGAATAAACTATACTAATTGAATAAACCAAAAATTATAAAAAATTTATGGTAAGAA
* * * *
41683989 TATATGTGAGCCTAGTTTCTGGGAAAATTAGTTGTTCTCAATTTGGAGTC
131 GATATATGAGCCTAGTTTCAGCGAAAATTAGTTGTTCTCAATTTGGAGTC
* *
41684039 CTGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCGGACAATGAAATAGGGG
1 CTGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAATGAAACAGGGG
* * * *
41684104 TATCTTTAATGAATAAACTATACTAATTGAATAAACCAAAAATTCTGAAAATTTTATGGTAAGAG
66 TATCTTTAATGAATAAACTATACTAATTGAATAAACCAAAAATTATAAAAAATTTATGGTAAGAA
* *
41684169 GATATATGAGTCTATTTTCAGCGAAAATTA
131 GATATATGAGCCTAGTTTCAGCGAAAATTA
41684199 ATGGATCTTT
Statistics
Matches: 138, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
180 138 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (180 bp):
CTGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATCAGACAATGAAACAGGGG
TATCTTTAATGAATAAACTATACTAATTGAATAAACCAAAAATTATAAAAAATTTATGGTAAGAA
GATATATGAGCCTAGTTTCAGCGAAAATTAGTTGTTCTCAATTTGGAGTC
Found at i:41686008 original size:34 final size:34
Alignment explanation
Indices: 41685931--41686008 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
41685921 TAAATGCTGA
* * *
41685931 TAAATTCAAATATATATATATATGTTATATGTGC
1 TAAATTGAATTATATAAATATATGTTATATGTGC
*
41685965 TGAATTGAATTATAATAAATATATGTGTATAT-T-C
1 TAAATTGAATTAT-ATAAATATATGT-TATATGTGC
41685999 TAAATTGAAT
1 TAAATTGAAT
41686009 CGAGCTTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 20 0.54
35 12 0.32
36 5 0.14
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (34 bp):
TAAATTGAATTATATAAATATATGTTATATGTGC
Found at i:41694856 original size:17 final size:18
Alignment explanation
Indices: 41694834--41694871 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
41694824 AAATTCTACT
41694834 AAATTTT-AGAAAATT-TA
1 AAATTTTCA-AAAATTATA
41694851 AAATTTTCAAAAATTATA
1 AAATTTTCAAAAATTATA
41694869 AAA
1 AAA
41694872 ATGAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATTTTCAAAAATTATA
Found at i:41696280 original size:22 final size:23
Alignment explanation
Indices: 41696242--41696300 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
41696232 GGCATTATGG
41696242 TGCAAGTGACAGTGGCACTACAA
1 TGCAAGTGACAGTGGCACTACAA
* * *
41696265 TGCAAGTG-TAGTGGCACTTCAG
1 TGCAAGTGACAGTGGCACTACAA
41696287 TGCAAAGTGACAGT
1 TGC-AAGTGACAGT
41696301 CACATGTCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 14 0.47
23 13 0.43
24 3 0.10
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.22
Consensus pattern (23 bp):
TGCAAGTGACAGTGGCACTACAA
Found at i:41702984 original size:29 final size:29
Alignment explanation
Indices: 41702925--41703053 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
41702915 ATAGTAAGTC
* *
41702925 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
41702953 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
41702982 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
41703011 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
41703040 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41703054 CAATCTCATG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.14
29 75 0.82
30 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:41711075 original size:29 final size:29
Alignment explanation
Indices: 41711016--41711144 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
41711006 ATAGTAAGTC
* *
41711016 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
41711044 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
41711073 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
41711102 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
41711131 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41711145 CAATCTCATG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.14
29 75 0.82
30 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:41718449 original size:52 final size:52
Alignment explanation
Indices: 41718381--41718479 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
41718371 GAGGTTGTGG
* * *
41718381 CGAGCTCAAGATAGAGAGTCACATTGTGACAAGAAATACCTTGAGGTCGCAA
1 CGAGCTCAAGACAGAGAGTCACATCGTGACAAGAAAAACCTTGAGGTCGCAA
**
41718433 CGAGCTCAAGACAGAGAGTCACATCGTGATGAGAAAAACCTTGAGGT
1 CGAGCTCAAGACAGAGAGTCACATCGTGACAAGAAAAACCTTGAGGT
41718480 TACGACAAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (52 bp):
CGAGCTCAAGACAGAGAGTCACATCGTGACAAGAAAAACCTTGAGGTCGCAA
Found at i:41718496 original size:52 final size:52
Alignment explanation
Indices: 41718383--41718505 Score: 147
Period size: 52 Copynumber: 2.4 Consensus size: 52
41718373 GGTTGTGGCG
* * * * *
41718383 AGCTCAAGATAGAGAGTCACATTGTGACAAGAAATACCTTGAGGTCGCAACG
1 AGCTCAAGACAGAGAGTCACATCGTGACAAGAAAAACCTTGAGGTCACAACA
** * *
41718435 AGCTCAAGACAGAGAGTCACATCGTGATGAGAAAAACCTTGAGGTTACGACA
1 AGCTCAAGACAGAGAGTCACATCGTGACAAGAAAAACCTTGAGGTCACAACA
* *
41718487 AGCTTAAGACAAAGAGTCA
1 AGCTCAAGACAGAGAGTCA
41718506 TGCCGTGAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (52 bp):
AGCTCAAGACAGAGAGTCACATCGTGACAAGAAAAACCTTGAGGTCACAACA
Found at i:41725743 original size:42 final size:42
Alignment explanation
Indices: 41725681--41725790 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
41725671 GTGCAGGTTT
* * *
41725681 CACATGGCTAAGACACACGCCTGTGTTCTAGGCCGTGTAGCA
1 CACACGGCTGAGACACACGCCTGTGTTCTAGGCCATGTAGCA
* *
41725723 CACACGGCTGAGACAGACGCCCGTGTTCTAGGCCATGTAGCA
1 CACACGGCTGAGACACACGCCTGTGTTCTAGGCCATGTAGCA
*
41725765 CACACGGCTGAGACACATGCCTGTGT
1 CACACGGCTGAGACACACGCCTGTGT
41725791 CTCTGCCCGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (42 bp):
CACACGGCTGAGACACACGCCTGTGTTCTAGGCCATGTAGCA
Found at i:41727155 original size:57 final size:58
Alignment explanation
Indices: 41727066--41727206 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 58
41727056 ATGTATATGA
* * ** * *
41727066 CTGGATTACCAGTTTAGGCTAAATCCTTTTTATGATATATGCTCTAA-A-GAGCTT-GAT
1 CTGGATTACCCGTTTGGGCTAAATCCAATTTATAACATATGCTC-AAGAGGA-CTTAGAT
* *
41727123 CTGGATTACCCGTTTGGGCTAAATCCAATTTATAACATATGCTCAAGAGGATTTATAT
1 CTGGATTACCCGTTTGGGCTAAATCCAATTTATAACATATGCTCAAGAGGACTTAGAT
* *
41727181 CAGGATTACCCGTCTGGGCTAAATCC
1 CTGGATTACCCGTTTGGGCTAAATCC
41727207 TTTCATAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
56 2 0.03
57 41 0.58
58 28 0.39
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (58 bp):
CTGGATTACCCGTTTGGGCTAAATCCAATTTATAACATATGCTCAAGAGGACTTAGAT
Found at i:41728829 original size:150 final size:150
Alignment explanation
Indices: 41728558--41728859 Score: 568
Period size: 150 Copynumber: 2.0 Consensus size: 150
41728548 TCAGTTTTCG
*
41728558 TAAGAGTAATTCCCTAATTTTCTTCTTGTGCATTCTTAGTTTAGTTAATTAGTTTAGATAAAGTA
1 TAAGAGTAATTCCCCAATTTTCTTCTTGTGCATTCTTAGTTTAGTTAATTAGTTTAGATAAAGTA
*
41728623 AATCCCCTTATTTTTAGGCTAGATAATAAAAAGAAAGTTAATAGTAGTACTTTTAGTTCCTGTGG
66 AATCCCCTTATTTTTAGGCTAGATAATAAAAAGAAAGTTAATACTAGTACTTTTAGTTCCTGTGG
41728688 GTTCGACATTCTGGTCTTGC
131 GTTCGACATTCTGGTCTTGC
41728708 TAAGAGTAATTCCCCAATTTTCTTCTTGTGCATTCTTAGTTTAGTTAATTAGTTTAGATAAAGTA
1 TAAGAGTAATTCCCCAATTTTCTTCTTGTGCATTCTTAGTTTAGTTAATTAGTTTAGATAAAGTA
*
41728773 AATCCCCTTATTTTTAGGCTAGATAATAAAAAGAAAGTTAATACTAGTACTTTTAGTTCTTGTGG
66 AATCCCCTTATTTTTAGGCTAGATAATAAAAAGAAAGTTAATACTAGTACTTTTAGTTCCTGTGG
*
41728838 GTTTGACATTCTGGTCTTGC
131 GTTCGACATTCTGGTCTTGC
41728858 TA
1 TA
41728860 TAAACTATAC
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 148 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (150 bp):
TAAGAGTAATTCCCCAATTTTCTTCTTGTGCATTCTTAGTTTAGTTAATTAGTTTAGATAAAGTA
AATCCCCTTATTTTTAGGCTAGATAATAAAAAGAAAGTTAATACTAGTACTTTTAGTTCCTGTGG
GTTCGACATTCTGGTCTTGC
Found at i:41737008 original size:20 final size:20
Alignment explanation
Indices: 41736985--41737023 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41736975 AAGGCTTTAC
* *
41736985 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
41737005 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
41737024 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:41738696 original size:16 final size:16
Alignment explanation
Indices: 41738671--41738702 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41738661 AAATTTGAGA
41738671 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
41738687 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
41738703 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:41742523 original size:17 final size:17
Alignment explanation
Indices: 41742501--41742536 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
41742491 TCCGCCTCCT
41742501 TAACCCTCCATTAGTGA
1 TAACCCTCCATTAGTGA
41742518 TAACCCTCCATTAGTGA
1 TAACCCTCCATTAGTGA
41742535 TA
1 TA
41742537 CCCCAAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (17 bp):
TAACCCTCCATTAGTGA
Found at i:41743051 original size:103 final size:103
Alignment explanation
Indices: 41742872--41743078 Score: 378
Period size: 103 Copynumber: 2.0 Consensus size: 103
41742862 ATTGGGCGGA
* *
41742872 AACCCTGACAGCTCCTTAGGGAAAACATCAAGGAATTCCCTAACTATTCTCAACTCTTCAATAGT
1 AACCCTAACAGCTCCTTAGGGAAAACATCAAGGAATTCCCTAACTATTCTCAACTCCTCAATAGT
41742937 AGGGCTCTTAACCTCCGTGTCGCTAATGTATGCCAAAT
66 AGGGCTCTTAACCTCCGTGTCGCTAATGTATGCCAAAT
* *
41742975 AACCCTAACAGCTCCTTGGGGAAAACATCAAGGAATTCCCTAACTGTTCTCAACTCCTCAATAGT
1 AACCCTAACAGCTCCTTAGGGAAAACATCAAGGAATTCCCTAACTATTCTCAACTCCTCAATAGT
41743040 AGGGCTCTTAACCTCCGTGTCGCTAATGTATGCCAAAT
66 AGGGCTCTTAACCTCCGTGTCGCTAATGTATGCCAAAT
41743078 A
1 A
41743079 GGCTTCACAT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (103 bp):
AACCCTAACAGCTCCTTAGGGAAAACATCAAGGAATTCCCTAACTATTCTCAACTCCTCAATAGT
AGGGCTCTTAACCTCCGTGTCGCTAATGTATGCCAAAT
Found at i:41748208 original size:47 final size:47
Alignment explanation
Indices: 41748154--41748481 Score: 422
Period size: 47 Copynumber: 6.9 Consensus size: 47
41748144 TTAGGATTTT
** * *
41748154 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
41748201 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCA
** * *
41748252 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
** * * *
41748299 ATGTGATGAATGTGAACATGCGTATGTGTGATGAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* ** * *
41748346 ATGTGATGAATGTGAGCATGCGTATGTGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
41748393 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
41748440 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAAT
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAAT
41748482 AGCTAATGCG
Statistics
Matches: 253, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 205 0.81
49 11 0.04
51 37 0.15
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:41748279 original size:23 final size:23
Alignment explanation
Indices: 41748252--41748373 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 23
41748242 CGAATGGCCA
41748252 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
41748275 ATGTG-TGATAAG-GCCAA-ATGGCCA
1 ATGTGATGA-ATGTG--AACAT-GCGT
41748299 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
41748322 ATGTG-TGATGAGGTCG-A-ATGGCCA
1 ATGTGATGA--ATGT-GAACAT-GCGT
*
41748346 ATGTGATGAATGTGAGCATGCGT
1 ATGTGATGAATGTGAACATGCGT
41748369 ATGTG
1 ATGTG
41748374 TGATAAGGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 28
0.64 0.12 0.25
Matches are distributed among these distances:
22 8 0.11
23 30 0.42
24 26 0.36
25 8 0.11
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:41748376 original size:25 final size:24
Alignment explanation
Indices: 41748253--41748377 Score: 66
Period size: 25 Copynumber: 5.2 Consensus size: 24
41748243 GAATGGCCAA
41748253 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTG-ACATGCGTATG
* ** * * *
41748278 TGTGAT-AAGGCCAAATG-GCCA-A
1 TGTGATGAATGTGACATGCG-TATG
41748300 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTG-ACATGCGTATG
* * *
41748325 TGTGATG-AGGTCGA-ATG-GCCA-A
1 TGTGATGAATGT-GACATGCG-TATG
41748347 TGTGATGAATGTGAGCATGCGTATG
1 TGTGATGAATGTGA-CATGCGTATG
41748372 TGTGAT
1 TGTGAT
41748378 AAGGCCGAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 17 0.24
23 15 0.21
24 16 0.23
25 22 0.31
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.29
Consensus pattern (24 bp):
TGTGATGAATGTGACATGCGTATG
Found at i:41748599 original size:46 final size:46
Alignment explanation
Indices: 41748463--41748599 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
41748453 GAACATGTAT
* * *
41748463 ATATGTGGTAAGGCCGAATAGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
41748509 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
41748555 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
41748600 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:41750141 original size:40 final size:40
Alignment explanation
Indices: 41750087--41750403 Score: 460
Period size: 40 Copynumber: 8.0 Consensus size: 40
41750077 ATTGAGAGTT
* * *
41750087 ATATATCCGAGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
41750127 TTATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
41750167 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
41750207 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTATTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
41750247 ATGA-ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 AT-ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
41750287 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
41750327 ATATAACTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
41750367 ATATATCCGGGTTAA-ACCTCGAAG-GCATTCATGCTAG
1 ATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAG
41750404 AATTATGAGG
Statistics
Matches: 256, Mismatches: 18, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
39 15 0.06
40 240 0.94
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:41750499 original size:57 final size:57
Alignment explanation
Indices: 41750409--41750519 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
41750399 GCTAGAATTA
** *
41750409 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTAAGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* ** * * *
41750466 TGAGGCACTAAGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTAAGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGT
41750520 CAGTGGGCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (57 bp):
TGAGGCACTAAGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:41751421 original size:37 final size:37
Alignment explanation
Indices: 41751362--41751504 Score: 214
Period size: 37 Copynumber: 3.9 Consensus size: 37
41751352 AGCTCAGACG
* *
41751362 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41751399 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
41751436 TACTCTGCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
41751473 TAATCTCCACACGTAGTCATCGGGTCTCACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
41751505 AGAATATATT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41751623 original size:48 final size:48
Alignment explanation
Indices: 41751552--41752203 Score: 1106
Period size: 48 Copynumber: 13.6 Consensus size: 48
41751542 TGTTACAACA
*
41751552 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
41751600 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
41751648 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
41751696 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
41751744 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
41751792 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
41751840 TTCACATTCGCCATTCGGCTTCACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
41751888 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
41751936 TTTACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
41751984 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
41752032 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
41752080 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
41752128 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
41752176 TTCACATTAGCCATTCGGCTTCACCACA
1 TTCACATTAGCCATTCGGCTTTACCACA
41752204 CGTATATATA
Statistics
Matches: 564, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 564 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:41758204 original size:47 final size:47
Alignment explanation
Indices: 41758150--41758434 Score: 417
Period size: 47 Copynumber: 6.1 Consensus size: 47
41758140 TTAGGATTTT
** *
41758150 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
** *
41758197 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* ** *
41758244 ATGTGATAAATGTGAACATGCGTATTTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
** *
41758291 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
41758338 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
41758385 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
41758432 ATG
1 ATG
41758435 CGAAATGTGT
Statistics
Matches: 221, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:41758256 original size:94 final size:94
Alignment explanation
Indices: 41758150--41758483 Score: 442
Period size: 94 Copynumber: 3.6 Consensus size: 94
41758140 TTAGGATTTT
*
41758150 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
41758215 TGCGTATGTGTGATAAGGCCGAATGGCCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
* *
41758244 ATGTGATAAATGTGAACATGCGTAT-T-TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATAAATGTG-A-ATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
41758307 CATGCGTATGTGTGATAAGGCCGAATGGCCA
64 CATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** *
41758338 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * * *
41758403 TGTATATATGTGGTAAGGCCGAATGGCTA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
* * * * * * *
41758432 ATGCG--AAATGTGTATGAGATAGATATGAGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGATAAATGTGAATGTG-TATATATGAGATAAGGCCGAATGGCCAATGTGA
41758484 AACGTGTATG
Statistics
Matches: 210, Mismatches: 25, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
92 12 0.06
93 30 0.14
94 159 0.76
95 2 0.01
96 7 0.03
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (94 bp):
ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:41758544 original size:46 final size:46
Alignment explanation
Indices: 41758408--41758549 Score: 203
Period size: 46 Copynumber: 3.1 Consensus size: 46
41758398 GAACATGTAT
* * *
41758408 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* *
41758454 ATATGAGGTAAAGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * * *
41758500 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
41758546 ATAT
1 ATAT
41758550 ATATATTGTG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:41762056 original size:19 final size:19
Alignment explanation
Indices: 41762022--41762060 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
41762012 GGTTTCGTAC
*
41762022 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
41762042 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
41762060 T
1 T
41762061 CTTTTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:41766701 original size:6 final size:6
Alignment explanation
Indices: 41766671--41766764 Score: 75
Period size: 6 Copynumber: 15.3 Consensus size: 6
41766661 AAGAAACATT
* * *
41766671 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
41766720 ATCAGA ATCAGA ATCGGT ATCAAGA AACAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT
41766765 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
5 2 0.03
6 58 0.85
7 7 0.10
8 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:41766725 original size:25 final size:26
Alignment explanation
Indices: 41766692--41766761 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
41766682 AATCAAAATG
41766692 AGAATCAGAATCAGAATCAGGTGA-C-
1 AGAATCAGAATCAGAATCAGGT-ATCA
41766717 AGAATCAGAATCAGAATC-GGTATCA
1 AGAATCAGAATCAGAATCAGGTATCA
* *
41766742 AGAAACAGAATCAAAATCAG
1 AGAATCAGAATCAGAATCAG
41766762 AATGTGAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.03
24 4 0.10
25 34 0.85
26 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.16
Consensus pattern (26 bp):
AGAATCAGAATCAGAATCAGGTATCA
Found at i:41766729 original size:31 final size:31
Alignment explanation
Indices: 41766692--41766764 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
41766682 AATCAAAATG
* **
41766692 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGAAACAGAATC
* *
41766723 AGAATCAGAATCGGTATCAAGAAACAGAATC
1 AGAATCAGAATCAGAATCAAGAAACAGAATC
*
41766754 AAAATCAGAAT
1 AGAATCAGAAT
41766765 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.16
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGAAACAGAATC
Found at i:41766955 original size:33 final size:32
Alignment explanation
Indices: 41766904--41766967 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
41766894 ATGAAGTCAC
* *
41766904 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
41766936 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
41766968 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:41767300 original size:27 final size:27
Alignment explanation
Indices: 41767270--41767515 Score: 318
Period size: 27 Copynumber: 9.1 Consensus size: 27
41767260 TAACACCCTA
** *
41767270 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
41767297 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
41767324 AGGGTAAAACAGTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
41767351 AGGGTAAAACATTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
41767378 AGGGTAAAACAATAATTTTGTCAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
41767405 AGGGTAAAAC-GATAATTTTATAAATCG
1 AGGGTAAAACAG-TAATTTTGTAAATCG
*
41767432 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
41767459 AGGGTAAAA-TGATAATTTTGTAAATCG
1 AGGGTAAAACAG-TAATTTTGTAAATCG
**
41767486 AGGGTAAAACAACAATTTTGTAAATC-
1 AGGGTAAAACAGTAATTTTGTAAATCG
41767512 AGGG
1 AGGG
41767516 ATACTTTGGT
Statistics
Matches: 196, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.03
27 190 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTTTGTAAATCG
Done.