Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 135 of 362
Found at i:44805860 original size:82 final size:81
Alignment explanation
Indices: 44805690--44806002 Score: 378
Period size: 82 Copynumber: 3.8 Consensus size: 81
44805680 AAATTGTACA
* *
44805690 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT
** * *
44805755 GCGAAATGAATATGAT
66 GCGATTTGACTATGTT
* **
44805771 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTG
44805836 TGCGATTTGACTATGTT
65 TGCGATTTGACTATGTT
* * * * **
44805853 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTA-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTG
*
44805917 TGCGAGTTTGACTATGTA
65 TGCGA-TTTGACTATGTT
* * * * * *
44805935 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGA-TGATATAGCACTGAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACT-ATGTAGCACTAAGTG
44805999 TGCG
65 TGCG
44806003 GACTCAATAT
Statistics
Matches: 199, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
81 61 0.31
82 137 0.69
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT
GCGATTTGACTATGTT
Found at i:44806002 original size:109 final size:109
Alignment explanation
Indices: 44805690--44805976 Score: 540
Period size: 109 Copynumber: 2.6 Consensus size: 109
44805680 AAATTGTACA
44805690 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
44805754 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
44805798 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
44805863 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
* * *
44805907 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
44805972 TGCGA
66 TGCGA
44805977 GTTGATGATA
Statistics
Matches: 175, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
108 15 0.09
109 160 0.91
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (109 bp):
GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:44806012 original size:136 final size:136
Alignment explanation
Indices: 44805689--44806004 Score: 413
Period size: 136 Copynumber: 2.3 Consensus size: 136
44805679 TAAATTGTAC
* * *
44805689 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGC-GATTTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGA-ATGAATATGATGCACTAAGT
* * *
44805753 GTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTG
65 GTGCGAAATGAACATGAGGCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTTG
*
44805818 ACTATGT
130 ACTACGT
* *
44805825 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAATGAATATGATGCACTAAGTG
* * * * * *
44805890 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGA-TTTG
66 TGCGAAATGAACATGAGGCACTAAGTGTGCGA-ATTGACCATGCAGCACTAAGTGTGCGAGTTTG
*
44805954 ATTACGT
130 ACTACGT
* * *
44805961 AGCACTAAGTGTGCGAGTTGA-TGATATAGCACTGAGTGTGCGGA
1 AGCACTAAGTGTGCGATTTGACT-ATGTAGCACTAAGTGTGCGGA
44806005 CTCAATATAC
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
135 1 0.01
136 131 0.84
137 24 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (136 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAATGAATATGATGCACTAAGTG
TGCGAAATGAACATGAGGCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTTGA
CTACGT
Found at i:44811917 original size:43 final size:41
Alignment explanation
Indices: 44811870--44811960 Score: 101
Period size: 43 Copynumber: 2.2 Consensus size: 41
44811860 TATTCTTGTG
* * *
44811870 TAAGATCACATCTAGGACGTTGGCATCGATATGTGATTACATC
1 TAAGACCACATCTAGGACATCGGCATC-ATATGTGATT-CATC
** * *
44811913 TAAGACCATGTCTAGGACATCGGCATCATATTTGATTCATG
1 TAAGACCACATCTAGGACATCGGCATCATATGTGATTCATC
44811954 TAAGACC
1 TAAGACC
44811961 CTGTTTGGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 10 0.24
42 9 0.22
43 22 0.54
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (41 bp):
TAAGACCACATCTAGGACATCGGCATCATATGTGATTCATC
Found at i:44819998 original size:43 final size:41
Alignment explanation
Indices: 44819950--44820055 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 41
44819940 AGGATTTTTT
*
44819950 ATATGTGTTCTCATGTAAGACCACGTCTAGG-ACATTGGCATC
1 ATATGTGTT-TCGTGTAAGACCACGTC-AGGAACATTGGCATC
* * *
44819992 GATATGTGATTACGTGTAAGACCATGTCGGGAACATTGGCATC
1 -ATATGTG-TTTCGTGTAAGACCACGTCAGGAACATTGGCATC
* *
44820035 ATATTTGATTCGTGTAAGACC
1 ATATGTGTTTCGTGTAAGACC
44820056 CTGCTTGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 12 0.22
42 8 0.15
43 32 0.59
44 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (41 bp):
ATATGTGTTTCGTGTAAGACCACGTCAGGAACATTGGCATC
Found at i:44823896 original size:283 final size:283
Alignment explanation
Indices: 44823389--44823954 Score: 1096
Period size: 283 Copynumber: 2.0 Consensus size: 283
44823379 AAAACTTGAA
44823389 ATTTCTAAAAAGAACTGTTTAAAATAATTTGAAAGTTTTTGAAATGTTATTTTTTTACTAAATGT
1 ATTTCTAAAAAGAACTGTTTAAAATAATTTGAAAGTTTTTGAAATGTTATTTTTTTACTAAATGT
* *
44823454 GTGGTATTCCTATTCTCCGGCGTTGATTCTGTAAGTCTTCTAAAACTGTTGCATGATTAATTGAA
66 GTGGTATTCCTATTCTCCAGCGTCGATTCTGTAAGTCTTCTAAAACTGTTGCATGATTAATTGAA
44823519 ATATTGAGACTACTATAGGTAGTAGACTATACTGAAATACTTTATTTAGGGTCAACTAAAACTGT
131 ATATTGAGACTACTATAGGTAGTAGACTATACTGAAATACTTTATTTAGGGTCAACTAAAACTGT
*
44823584 AATAAGATTGTGATATGTGAAAACGAACTCTGAATTACTGATACTATTTTTCATAAAATATTTGT
196 AATAAGATTGTGATACGTGAAAACGAACTCTGAATTACTGATACTATTTTTCATAAAATATTTGT
44823649 TAATAAACACTAGAACTGTAAAT
261 TAATAAACACTAGAACTGTAAAT
44823672 ATTTCTAAAAAGAACTGTTTAAAATAATTTGAAAGTTTTTGAAATGTTATTTTTTTACTAAATGT
1 ATTTCTAAAAAGAACTGTTTAAAATAATTTGAAAGTTTTTGAAATGTTATTTTTTTACTAAATGT
44823737 GTGGTATTCCTATTCTCCAGCGTCGATTCTGTAAGTCTTCTAAAACTGTTGCATGATTAATTGAA
66 GTGGTATTCCTATTCTCCAGCGTCGATTCTGTAAGTCTTCTAAAACTGTTGCATGATTAATTGAA
44823802 ATATTGAGACTACTATAGGTAGTAGACTATACTGAAATACTTTATTTAGGGTCAACTAAAACTGT
131 ATATTGAGACTACTATAGGTAGTAGACTATACTGAAATACTTTATTTAGGGTCAACTAAAACTGT
*
44823867 AATAAGATTGTGATCCGTGAAAACGAACTCTGAATTACTGATACTATTTTTCATAAAATATTTGT
196 AATAAGATTGTGATACGTGAAAACGAACTCTGAATTACTGATACTATTTTTCATAAAATATTTGT
44823932 TAATAAACACTAGAACTGTAAAT
261 TAATAAACACTAGAACTGTAAAT
44823955 TGATGCATAA
Statistics
Matches: 279, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
283 279 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (283 bp):
ATTTCTAAAAAGAACTGTTTAAAATAATTTGAAAGTTTTTGAAATGTTATTTTTTTACTAAATGT
GTGGTATTCCTATTCTCCAGCGTCGATTCTGTAAGTCTTCTAAAACTGTTGCATGATTAATTGAA
ATATTGAGACTACTATAGGTAGTAGACTATACTGAAATACTTTATTTAGGGTCAACTAAAACTGT
AATAAGATTGTGATACGTGAAAACGAACTCTGAATTACTGATACTATTTTTCATAAAATATTTGT
TAATAAACACTAGAACTGTAAAT
Found at i:44828090 original size:17 final size:18
Alignment explanation
Indices: 44828057--44828090 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44828047 TTTAAGGAAG
44828057 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
44828075 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
44828091 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:44829031 original size:14 final size:14
Alignment explanation
Indices: 44829007--44829039 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44828997 TCAAAAAATA
44829007 TTTTA-ATATTATT
1 TTTTATATATTATT
44829020 TTTTATATATTATT
1 TTTTATATATTATT
44829034 TTTTAT
1 TTTTAT
44829040 TTTCCTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATATATTATT
Found at i:44830115 original size:30 final size:30
Alignment explanation
Indices: 44830079--44830140 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
44830069 AATCAGAAGT
44830079 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
44830109 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
44830139 TT
1 TT
44830141 CAGCTACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:44836290 original size:28 final size:28
Alignment explanation
Indices: 44836259--44836313 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
44836249 CTAATCTCTT
*
44836259 TTATATGGCCCATGAGGCTCAAATCACA
1 TTATATGGCCCATGAGGCCCAAATCACA
*
44836287 TTATATGGCCCATTAGGCCCAAATCAC
1 TTATATGGCCCATGAGGCCCAAATCAC
44836314 GTTTACAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (28 bp):
TTATATGGCCCATGAGGCCCAAATCACA
Found at i:44838523 original size:46 final size:45
Alignment explanation
Indices: 44838456--44838623 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
44838446 CGCCCCTAAG
* *
44838456 TGAACTCGGACTCAACACAACGAGCTCGGCCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGCCGTT-GCATCCATAAA
* * *
44838502 TGAACTCGGATTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GCC--GTTGCATCCATAAA
* * ** *
44838549 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTC-GGCCGTTGCATCCATAAA
44838595 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
44838624 ATGCTCAACC
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 50 0.51
47 28 0.29
48 1 0.01
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGCCGTTGCATCCATAAA
Found at i:44838616 original size:93 final size:93
Alignment explanation
Indices: 44838457--44838627 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
44838447 GCCCCTAAGT
* * * *
44838457 GAACTCGGACTCAACACAACGAGCTCGGCCGTTCGCATCCATAAATGAACTCGGATTCAACTCAA
1 GAACTCGGACTCAACACAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
44838522 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
44838550 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACACAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
44838615 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44838628 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACACAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44849774 original size:23 final size:23
Alignment explanation
Indices: 44849748--44849794 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
44849738 CATTCTATTG
*
44849748 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
44849771 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
44849794 T
1 T
44849795 AATGTCATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:44855485 original size:29 final size:29
Alignment explanation
Indices: 44855423--44855539 Score: 166
Period size: 29 Copynumber: 4.1 Consensus size: 29
44855413 CACATGCCTG
* * *
44855423 TATATAGCCCACTAGGCCC-AATC-CCTT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
44855450 TCATATGGCCCATGAGGCCCAAATCACATT
1 T-ATATGGCCCATTAGGCCCAAATCACATT
44855480 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
44855509 TATATGGCCCATTAGGCCCAAATCACGTT
1 TATATGGCCCATTAGGCCCAAATCACATT
44855538 TA
1 TA
44855540 CAGTCATGCT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.01
28 15 0.19
29 61 0.75
30 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:44860890 original size:47 final size:47
Alignment explanation
Indices: 44860788--44860956 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 47
44860778 AAGCTTAGTT
* * * *
44860788 GATGCATGTCCTAGGCATGTCTTACACTGGCTACCATCATTGAGGTC
1 GATGCATGTCCTAGACACGTCTTACACTGGCTACCATCATTGACGCC
44860835 GATGCATGTCCTAGACACGTCTTACACTGGC-ACCCATC-TCT-ACGCC
1 GATGCATGTCCTAGACACGTCTTACACTGGCTA-CCATCAT-TGACGCC
* * * * * * *
44860881 GATGCCATGTCCCAGACATGGTCTTACATTGTCTACCGTAATGTG--GCT
1 GATG-CATGTCCTAGACA-CGTCTTACACTGGCTACCATCAT-TGACGCC
* * *
44860929 GATGCATATCCCAAACACGTCTTACACT
1 GATGCATGTCCTAGACACGTCTTACACT
44860957 AGCCCTCGTC
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
46 18 0.18
47 58 0.59
48 20 0.20
49 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCTAGACACGTCTTACACTGGCTACCATCATTGACGCC
Found at i:44860947 original size:94 final size:93
Alignment explanation
Indices: 44860693--44861002 Score: 258
Period size: 94 Copynumber: 3.3 Consensus size: 93
44860683 GTTAAGTTGT
* *
44860693 CGATGCCATGTCCCATACATGGTCTTAC-TCTAGCTCT-CCTGTATAAGT-GCTGATGCATGTCC
1 CGATGCCATGTCCCAGACATGGTCTTACAT-T-G-TCTACC-GTA-ATGTGGCTGATGCATGTCC
** ** * *
44860755 CAAACATTTCTTACACTAGCACGAAGCT-TAGT
61 CAAACACGTCTTACACTAGCACCCATCTCTAGC
* * * * * * * * * *
44860787 TGATG-CATGTCCTAGGCAT-GTCTTACACTGGCTACCATCAT-TGAGGTCGATGCATGTCCTAG
1 CGATGCCATGTCCCAGACATGGTCTTACATTGTCTACCGTAATGTG-GCT-GATGCATGTCCCAA
*
44860849 ACACGTCTTACACTGGCACCCATCTCTACGC
64 ACACGTCTTACACTAGCACCCATCTCTA-GC
*
44860880 CGATGCCATGTCCCAGACATGGTCTTACATTGTCTACCGTAATGTGGCTGATGCATATCCCAAAC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGTCTACCGTAATGTGGCTGATGCATGTCCCAAAC
* *
44860945 ACGTCTTACACTAGC-CCTCGTCTCAATGC
66 ACGTCTTACACTAGCACC-CATCTCTA-GC
* *
44860974 CGATGCCATGTTCCAGACATAGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
44861003 CAGGCTCTCA
Statistics
Matches: 169, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 5 0.03
91 34 0.20
92 10 0.06
93 18 0.11
94 78 0.46
95 20 0.12
96 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACATTGTCTACCGTAATGTGGCTGATGCATGTCCCAAAC
ACGTCTTACACTAGCACCCATCTCTAGC
Found at i:44868392 original size:94 final size:93
Alignment explanation
Indices: 44868274--44868443 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 93
44868264 AGCTTAGCCG
* * *
44868274 ATGCATGTTCTAGACACGTCTTACACTAGTACTCATCTCAATGCCGA-TGCCATGTCCCA-AGCA
1 ATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAATGCC-ACTGCCATG-CCCAGA-CA
44868337 TAGTCTTACACTGGATATCATAGTGTGGTTA
63 TAGTCTTACACTGGATATCATAGTGTGGTTA
* ** * *
44868368 ATGCATGTCCCAGACACGTCTTACACTAGCCCTTGTCTTAATGCCACTGCCATGCCCAGACATGG
1 ATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAATGCCACTGCCATGCCCAGACATAG
44868433 TCTTACACTGG
66 TCTTACACTGG
44868444 CTTCACATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 20 0.30
94 46 0.70
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (93 bp):
ATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAATGCCACTGCCATGCCCAGACATAG
TCTTACACTGGATATCATAGTGTGGTTA
Found at i:44870282 original size:30 final size:30
Alignment explanation
Indices: 44870246--44870307 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
44870236 AATCGAAAGT
* *
44870246 TTTGGCACTAAGTGTGCGATTTAAACAAGC
1 TTTGGCACGAAGTGTGCAATTTAAACAAGC
*
44870276 TTTGGCACGAAGTGTGCAATTTAAACTAGC
1 TTTGGCACGAAGTGTGCAATTTAAACAAGC
44870306 TT
1 TT
44870308 CGGCTACTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (30 bp):
TTTGGCACGAAGTGTGCAATTTAAACAAGC
Found at i:44873207 original size:40 final size:40
Alignment explanation
Indices: 44873153--44873426 Score: 469
Period size: 40 Copynumber: 6.9 Consensus size: 40
44873143 GATATAGCTT
*
44873153 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
44873193 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
44873233 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
44873273 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
44873313 CTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
44873353 CTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
44873393 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
44873427 CAATCCGAAT
Statistics
Matches: 225, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 13 0.06
40 212 0.94
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:44881282 original size:38 final size:39
Alignment explanation
Indices: 44881248--44881506 Score: 344
Period size: 38 Copynumber: 6.9 Consensus size: 39
44881238 GATATAGCTT
*
44881248 CTCGCTCAAATGCCTTCGGACTTAG-CCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAA
* *
44881286 CTCG--CAATTGCCTTCGGAC-TAGCTC---TATAGTAA
1 CTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAA
44881319 CTCGCAC-AATG-CTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAA
*
44881357 CTCGCACAATTGCCTTCGGACTT-GCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAA
*
44881395 CTCGCAC-AATGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAA
*
44881434 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAA
*
44881474 CTCGCAC-AATGCCTTCGGGCTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGACTTAGCCCGGTTAT
44881507 CAATCCGAAT
Statistics
Matches: 198, Mismatches: 10, Indels: 26
0.85 0.04 0.11
Matches are distributed among these distances:
33 16 0.08
34 7 0.04
35 9 0.05
36 15 0.08
37 8 0.04
38 62 0.31
39 40 0.20
40 41 0.21
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAA
Found at i:44881427 original size:77 final size:76
Alignment explanation
Indices: 44881256--44881506 Score: 374
Period size: 77 Copynumber: 3.4 Consensus size: 76
44881246 TTCTCGCTCA
* *
44881256 AATGCCTTC-GGACTTAG-CCGGTTATAGTAACTCG--CAATTGCCTTCGGACTAGCTC--TATA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGACTTGCCCGGTATA
44881315 GTAACTCGCAC
66 GTAACTCGCAC
44881326 AATG-CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGACTTGCCCGGTTAT
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGACTTGCCCGG-TAT
44881390 AGTAACTCGCAC
65 AGTAACTCGCAC
* *
44881402 AATGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTC-GGACTT-GCCCGG-T
44881467 ATAGTAACTCGCAC
63 ATAGTAACTCGCAC
44881481 AATGCCTTCGGG-CTTAGCCCGGTTAT
1 AATGCCTTCGGGACTTAGCCCGGTTAT
44881507 CAATCCGAAT
Statistics
Matches: 165, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
69 4 0.02
70 12 0.07
71 17 0.10
73 19 0.12
76 19 0.12
77 42 0.25
78 19 0.12
79 33 0.20
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (76 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGACTTGCCCGGTATA
GTAACTCGCAC
Found at i:44885315 original size:103 final size:104
Alignment explanation
Indices: 44885189--44885411 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
44885179 AATGGATATC
44885189 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
44885253 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
44885292 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
44885357 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
44885396 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
44885412 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 38 0.34
104 73 0.65
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:44889493 original size:26 final size:26
Alignment explanation
Indices: 44889457--44889509 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
44889447 CACCACTGAA
* *
44889457 TCGGGGAATCATCACTTAGCAAACCC
1 TCGGGGAATCACCACATAGCAAACCC
*
44889483 TCGGGGAATCACCACATAGCAACCCC
1 TCGGGGAATCACCACATAGCAAACCC
44889509 T
1 T
44889510 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCACCACATAGCAAACCC
Found at i:44889582 original size:68 final size:68
Alignment explanation
Indices: 44889469--44889614 Score: 204
Period size: 69 Copynumber: 2.1 Consensus size: 68
44889459 GGGGAATCAT
*
44889469 CACTTAGCAAACCCTCGGGGAATCACCACATAGCAACCCCTTTT-CATTTCAATATACAATGGAT
1 CACTTAGCAAACCCTCGGGGAATCACCACATAGCAACCCCTTTTACATTTCAA-AGACAATGGAT
44889533 ATCG
65 ATCG
* * * ***
44889537 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGAT
1 CACTTAGCAAACCCTC-GGGGAATCACCACATAGCAACCCCTTTTACATTTCAAAGACAATGGAT
44889602 ATCG
65 ATCG
44889606 CACTTAGCA
1 CACTTAGCA
44889615 CCACCAATGA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 15 0.22
69 46 0.67
70 8 0.12
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (68 bp):
CACTTAGCAAACCCTCGGGGAATCACCACATAGCAACCCCTTTTACATTTCAAAGACAATGGATA
TCG
Found at i:44889676 original size:25 final size:25
Alignment explanation
Indices: 44889627--44889674 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
44889617 ACCAATGAAC
44889627 CGGGGAATCAGCACTTAGCAACCCT
1 CGGGGAATCAGCACTTAGCAACCCT
44889652 CGGGGAATCAGCAC-TAGCAACCC
1 CGGGGAATCAGCACTTAGCAACCC
44889675 CTTTCACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.12
Consensus pattern (25 bp):
CGGGGAATCAGCACTTAGCAACCCT
Found at i:44889714 original size:100 final size:101
Alignment explanation
Indices: 44889536--44889739 Score: 317
Period size: 100 Copynumber: 2.0 Consensus size: 101
44889526 AATGGATATC
44889536 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGA
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGA
* *
44889601 TATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 TATCGCACATAGCACCACCAATAAACCGGGGAATCA
44889637 GCACTTAGCAA-CCCTC-GGGGAATCAGCAC-TAGCAACCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAG--ATGGTG
* *
44889699 GATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
64 GAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
44889737 GCA
1 GCA
44889740 ACACAGCAAC
Statistics
Matches: 96, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
98 25 0.26
99 13 0.14
100 46 0.48
101 12 0.12
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (101 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATGGTGGA
TATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:44890109 original size:28 final size:29
Alignment explanation
Indices: 44890077--44890138 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
44890067 TAATCCACCA
44890077 CCCAACTTTTTG-AAAATTACAATTTTG-C
1 CCCAAC-TTTTGCAAAATTACAATTTTGTC
* *
44890105 CCCAACTTTTGCATAATTACACTTTTGTC
1 CCCAACTTTTGCAAAATTACAATTTTGTC
44890134 CCCAA
1 CCCAA
44890139 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 5 0.17
28 19 0.63
29 6 0.20
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.37
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGTC
Found at i:44897011 original size:69 final size:72
Alignment explanation
Indices: 44896899--44897048 Score: 234
Period size: 69 Copynumber: 2.1 Consensus size: 72
44896889 GGGGAATCAT
* *
44896899 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTC-AATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
44896962 GATATCG
66 GATATCG
***
44896969 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
44897033 GATATCG
66 GATATCG
44897040 CACTTAGCA
1 CACTTAGCA
44897049 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 34 0.47
70 16 0.22
71 23 0.32
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:44897079 original size:76 final size:69
Alignment explanation
Indices: 44896899--44897084 Score: 212
Period size: 69 Copynumber: 2.6 Consensus size: 69
44896889 GGGGAATCAT
* * *
44896899 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAATATACAATGGA
1 CACTTAGCAA-CCATCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAGATACAATGGA
44896964 TATCG
65 TATCG
* ***
44896969 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCATCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTC-AAGATACAATGG
44897034 ATATCG
64 ATATCG
*
44897040 CACTTAGCACCACCAAT-GAACGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCA--ACC-ATCG---GGGGAATCAGCACATAGCAACCCC
44897085 TCGGGGGAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
69 34 0.34
70 16 0.16
71 23 0.23
73 4 0.04
74 1 0.01
76 23 0.23
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (69 bp):
CACTTAGCAACCATCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAGATACAATGGAT
ATCG
Found at i:44897096 original size:103 final size:103
Alignment explanation
Indices: 44896968--44897188 Score: 367
Period size: 103 Copynumber: 2.2 Consensus size: 103
44896958 AATGGATATC
44896968 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
44897032 GGAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAAT-AATCGGGGAATCA
44897070 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
44897135 GGATCACGCACATAGCACCACCCATAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAATCGGGGAATCA
**
44897173 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
44897189 TTTATACAAC
Statistics
Matches: 112, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
102 13 0.12
103 98 0.88
104 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAATCGGGGAATCA
Found at i:44897545 original size:29 final size:29
Alignment explanation
Indices: 44897512--44897575 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
44897502 TAATCCACCA
44897512 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
44897541 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
44897571 CCCAA
1 CCCAA
44897576 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:44897549 original size:30 final size:30
Alignment explanation
Indices: 44897519--44897575 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44897509 CCACCCAACT
44897519 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
44897548 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
44897576 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:44904637 original size:104 final size:104
Alignment explanation
Indices: 44904515--44904738 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
44904505 AATGGATATC
44904515 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
44904580 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
44904619 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
44904684 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
44904723 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
44904739 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:44905100 original size:29 final size:29
Alignment explanation
Indices: 44905067--44905130 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
44905057 TAATCCACCA
44905067 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
44905096 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
44905126 CCCAA
1 CCCAA
44905131 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:44905104 original size:30 final size:30
Alignment explanation
Indices: 44905074--44905130 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44905064 CCACCCAACT
44905074 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
44905103 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
44905131 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:44908709 original size:49 final size:49
Alignment explanation
Indices: 44908635--44908858 Score: 169
Period size: 49 Copynumber: 4.7 Consensus size: 49
44908625 ATATGTTGCC
* * *
44908635 GATGCCATGTCCCAGAGATGATCTTACACTGGCTATCATCATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCT
* * * * *
44908684 GATGCCATGTCCCAAACATGGTCTTATACTAGTTCTCATCTATACG-TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-AT-CGAGGCT
* * * * *
44908734 AATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-GAAC-TCTTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-GAGGCT
* * * * *
44908778 GACG-CGTGTCCCAGACA-CGTCTTACACTGGCTAACATCATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCT
* * *
44908825 GATGCCATGTCCAAGACATGGTTTTATACTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT
44908859 CTCGTCTATA
Statistics
Matches: 132, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 29 0.22
45 1 0.01
46 5 0.04
47 7 0.05
48 22 0.17
49 57 0.43
50 8 0.06
51 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCT
Found at i:44908912 original size:141 final size:141
Alignment explanation
Indices: 44908642--44908949 Score: 431
Period size: 141 Copynumber: 2.2 Consensus size: 141
44908632 GCCGATGCCA
* * *
44908642 TGTCCCAGAGATGATCTTACACTGGCTATCATCATCGAGGCTGATGCCATGTCCCAAACATGGTC
1 TGTCCCAGACACG-TCTTACACTGGCTAACATCATCGAGGCTGATGCCATGTCCCAAACATGGTC
* *
44908707 TTATACTAGTTCTCATCTATACGTGCTAATGCATGTCCCAGACATGTCTTACACTAGCAGAACTC
65 TTATACTAGCTCTCATCTATACGTGCTAATGCATGTCCCAGACATGTCTTACACTAGCACAACTC
44908772 TTAGCCGACGCG
130 TTAGCCGACGCG
*
44908784 TGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCTGATGCCATGT-CCAAGACATGGTT
1 TGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCTGATGCCATGTCCCAA-ACATGGTC
* * * *
44908848 TTATACTAGCTCTCGTCTATACGTGCTGATTCATG-CCCTAGACATGTCTTACACTGGCACAACT
65 TTATACTAGCTCTCATCTATACGTGCTAATGCATGTCCC-AGACATGTCTTACACTAGCACAACT
* *
44908912 CTTAGCTGATGCG
129 CTTAGCCGACGCG
* * * *
44908925 TGTCCTACACACGTCCTACATTGGC
1 TGTCCCAGACACGTCTTACACTGGC
44908950 ACACAAGTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
140 7 0.05
141 130 0.88
142 11 0.07
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (141 bp):
TGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCTGATGCCATGTCCCAAACATGGTCT
TATACTAGCTCTCATCTATACGTGCTAATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT
TAGCCGACGCG
Found at i:44914830 original size:50 final size:50
Alignment explanation
Indices: 44914724--44914820 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
44914714 TAAAGTTTCA
*
44914724 ATATGAGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGAT
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGAT
* *
44914774 ATATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATC
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATC
44914821 TTACTATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGAT
Found at i:44916566 original size:27 final size:28
Alignment explanation
Indices: 44916535--44916594 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
44916525 TGTACCTGGA
44916535 CCCCTAAT-CGATAAAATGACT-ATTATG
1 CCCCTAATGCGATAAAATGACTGA-TATG
*
44916562 CCCCT-ATGTGATAAAATGACTGATATG
1 CCCCTAATGCGATAAAATGACTGATATG
44916589 CCCCTA
1 CCCCTA
44916595 TGATATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CCCCTAATGCGATAAAATGACTGATATG
Found at i:44916595 original size:27 final size:27
Alignment explanation
Indices: 44916544--44916596 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
44916534 ACCCCTAATC
44916544 GATAAAATGACTATTATGCCCCTATGT
1 GATAAAATGACTATTATGCCCCTATGT
44916571 GATAAAATGACTGA-TATGCCCCTATG
1 GATAAAATGACT-ATTATGCCCCTATG
44916597 ATATGTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (27 bp):
GATAAAATGACTATTATGCCCCTATGT
Found at i:44919059 original size:50 final size:50
Alignment explanation
Indices: 44919005--44919228 Score: 258
Period size: 50 Copynumber: 4.5 Consensus size: 50
44918995 TAGCAAGCAT
*
44919005 TTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
* * *
44919055 TTAGTACTACACACGTGACCTAACCATC-GGATACACGTAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGG-TACATGTAGTAGCCTGCAC
* * * *
44919105 TTAGTACTACACACGTGA-TTGAAGCTATCGGGT--ATGAATAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCT-AA-CAATCTGGTACATG--TAGTAGCCTGCAC
* * * * *
44919156 TTAGTACTACACGTGCGGCCTAGCAATCTGGTACATGTAGTAGTCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
44919206 TTAGTACTACACATGTGACCTAA
1 TTAGTACTACACATGTGACCTAA
44919229 AACCGTTTTA
Statistics
Matches: 145, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
49 5 0.03
50 101 0.70
51 33 0.23
52 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (50 bp):
TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
Found at i:44919166 original size:101 final size:101
Alignment explanation
Indices: 44919042--44919223 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
44919032 CTGGTACATG
* *
44919042 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATC-GGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGG-TACACGTAGTAGCCTGCACT
44919106 TAGTACTACACACGTGATTGAAGCTATCGGGTATGAA
65 TAGTACTACACACGTGATTGAAGCTATCGGGTATGAA
** * * * *
44919143 TAGTAGCCTGCACTTAGTACTACACGTGCGGCCTAGCAATCTGGTACATGTAGTAGTCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
*
44919208 AGTACTACACATGTGA
66 AGTACTACACACGTGA
44919224 CCTAAAACCG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 69 0.97
102 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATTGAAGCTATCGGGTATGAA
Found at i:44926299 original size:50 final size:50
Alignment explanation
Indices: 44926240--44926515 Score: 258
Period size: 50 Copynumber: 5.5 Consensus size: 50
44926230 TTGGTATGCA
* * *
44926240 TAGTGGCCTGCACTTAGTATTACACATGCGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
*
44926290 TAGTAGCCTGCACTTAGTACTATACACAT--GACCTAACCATC-GGATACACG
1 TAGTAGCCTGCACTTAGTAC--TACACATGCGACCTAACAATCTGG-TACACG
* * * * * * * *
44926340 TAGAAGCCTGCACTTAGTACTACACATGTGATCGAAGCTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACACG
* * * *
44926391 TAGTAGCCTGTACTTAGTACTACACATGCAACCTAGCAATCTGGTGCAC-
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* * *
44926440 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AA-CTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG--GT--ACACG
*
44926492 TAGTAGCCTGCACATAGTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
44926516 TATGTCCTCT
Statistics
Matches: 186, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
47 3 0.02
48 9 0.05
49 35 0.19
50 67 0.36
51 40 0.22
52 32 0.17
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
Found at i:44926494 original size:101 final size:97
Alignment explanation
Indices: 44926235--44926515 Score: 266
Period size: 101 Copynumber: 2.8 Consensus size: 97
44926225 GCTCTTTGGT
* * * **
44926235 ATGCA-TAGTGGCCTGCACTTAGTATTACACATGCGACCTAACAATCTG--GTACATGTAGTAGC
1 ATGCACTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AA-CTGTCGTACACATAGTAGC
*
44926297 CTGCACTTAGTACTATACACATGACCTAACCATCGG
64 CTGCACTTAGTAC--TACACATGACCTAACAATCGG
* * * * * * *
44926333 ATACACGTAGAAGCCTGCACTTAGTACTACACATGTGATC-GAAGCTATCGGGTACGCATAGTAG
1 ATGCAC-TAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTGTC--GTACACATAGTAG
* *
44926397 CCTGTACTTAGTACTACACATGCAACCTAGCAATCTGG
63 CCTGCACTTAGTACTACACATG--ACCTAACAATC-GG
*
44926435 -TGCACTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTGTCTTAAACACATAGTAGC
1 ATGCACTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTGTCGT--ACACATAGTAGC
*
44926499 CTGCACATAGTACTACA
64 CTGCACTTAGTACTACA
44926516 TATGTCCTCT
Statistics
Matches: 146, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
97 2 0.01
98 5 0.03
99 10 0.07
100 59 0.40
101 68 0.47
102 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (97 bp):
ATGCACTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTGTCGTACACATAGTAGCCT
GCACTTAGTACTACACATGACCTAACAATCGG
Found at i:44928209 original size:14 final size:15
Alignment explanation
Indices: 44928180--44928212 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44928170 TTATTTTTAA
44928180 ATTTTGAGTAATTTT
1 ATTTTGAGTAATTTT
*
44928195 ATTTTGGGT-ATTTT
1 ATTTTGAGTAATTTT
44928209 ATTT
1 ATTT
44928213 GTAATAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (15 bp):
ATTTTGAGTAATTTT
Found at i:44933859 original size:93 final size:93
Alignment explanation
Indices: 44933700--44933870 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
44933690 GCCCCTAAGT
**** *
44933700 GAACTCGGACTCAACTCAACGAGCTCAGGTGTTCGAATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
44933765 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
44933793 GAACTCGGACTCAACTCAATGAGTTCAAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
44933858 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44933871 TAAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44933886 original size:46 final size:47
Alignment explanation
Indices: 44933694--44933879 Score: 122
Period size: 46 Copynumber: 4.0 Consensus size: 47
44933684 TAACCCGCCC
* * *
44933694 CTAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGAATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATG-TCTAAACCAT
* * *
44933741 -TAAGTGAACTCGGACTGAACTCAACGAGTTCGGATGCCTAGTTA-CAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTCTA--AACCAT
* * * ** **
44933788 CTCA-CGAACTCGGACTCAACTCAATGAGTTC--A-AAC-ATTCGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTCTAAAC-CAT
44933831 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTAAACCAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTCTAAACCAT
44933879 C
1 C
44933880 CTAGTGACAT
Statistics
Matches: 106, Mismatches: 19, Indels: 28
0.69 0.12 0.18
Matches are distributed among these distances:
41 1 0.01
43 4 0.04
44 2 0.02
45 7 0.07
46 58 0.55
47 25 0.24
48 7 0.07
49 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTCTAAACCAT
Found at i:44944025 original size:469 final size:469
Alignment explanation
Indices: 44943142--44944543 Score: 2500
Period size: 469 Copynumber: 3.0 Consensus size: 469
44943132 ACATCCCAAT
* *
44943142 TTTCGAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCGTAGAT
1 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
* *
44943207 TTAATCAGGTT-GTGGGCCTCTAGAAGGACCAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGT
66 TTAATCATGTTAGTGGGGCTCTAGAAGGA-CAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGT
* * *
44943271 TTTGATTGCATAGGAAGAAGGGGTTTTAGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATT
130 TTTGATTCCATAGGAAGAAGGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATT
* *
44943336 AAACACAAGAAAGCAGGTGGCAAAGTGGCATGTGATGCCACTGGGGAGGCTATAAAGGTGGCGTG
195 AAACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTAGGGAGGCTATAAAGGTGGCGTG
44943401 TGGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGG
260 TGGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGG
*
44943466 GTAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGAAGTTTAAATTGCTCAAGGGATTGAGTAA
325 GTAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGATTGAGTAA
44943531 GGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACT
390 GGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACT
44943596 CCTGGATCAGGTAAA
455 CCTGGATCAGGTAAA
44943611 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
1 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
44943676 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
66 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
*
44943741 TTGATTCCATAGGAAGAACGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
131 TTGATTCCATAGGAAGAAGGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
*
44943806 AACACAAGGAAGCAAGTGGCAAAGTGGCATGTGATGCCACTAGGGAGGCTATAAAGGTGGCGTGT
196 AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTAGGGAGGCTATAAAGGTGGCGTGT
44943871 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGGG
261 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGGG
44943936 TAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGATTGAGTAAG
326 TAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGATTGAGTAAG
44944001 GAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACTC
391 GAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACTC
* *
44944066 TTGGGTCAGGTAAA
456 CTGGATCAGGTAAA
* *
44944080 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTTTGTTTGCTTGGTATAGAT
1 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
44944145 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
66 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
44944210 TTGATTCCATAGGAAGAAGGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
131 TTGATTCCATAGGAAGAAGGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
* ** *
44944275 AACACAAGGAAGCAGGTGGCAAAGGGGCATGTGACACCACTAGGGAGGCTATAAAGGGGGCGTGT
196 AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTAGGGAGGCTATAAAGGTGGCGTGT
*
44944340 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAATGGAATTATTTTTATGGT
261 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTA---TT-T--T
44944405 TGGAAAGGGTAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGA
320 T---AAGGGTAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGA
* *
44944470 TTGAGTACGGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCAGAAT
382 TTGAGTAAGGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAAT
44944535 GGTGGACTC
447 GGTGGACTC
44944544 TTAGGGAGCA
Statistics
Matches: 898, Mismatches: 25, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
469 744 0.83
470 16 0.02
472 2 0.00
473 1 0.00
475 2 0.00
478 133 0.15
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (469 bp):
TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
TTGATTCCATAGGAAGAAGGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTAGGGAGGCTATAAAGGTGGCGTGT
GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGGG
TAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGATTGAGTAAG
GAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACTC
CTGGATCAGGTAAA
Found at i:44954443 original size:28 final size:28
Alignment explanation
Indices: 44954400--44954515 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
44954390 GGAGGAAGCG
* *
44954400 TTCTGGTGGCTTTGCCACAAATATATGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
44954428 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
44954456 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
44954484 ATCTGGTGGCTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
44954510 TTCTGG
1 TTCTGG
44954516 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 67 0.85
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:44965425 original size:38 final size:42
Alignment explanation
Indices: 44965331--44965425 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 42
44965321 TGTTGATTTC
*
44965331 GGCACTAAGTGTGCGGGTATAAACATTTACGATAATGAGATT
1 GGCACTAAGTGTGCGAGTATAAACATTTACGATAATGAGATT
*
44965373 GGCACTAAGTGTGCGAGT-T-TA-ATTTAC-ATAAGTGAGATT
1 GGCACTAAGTGTGCGAGTATAAACATTTACGATAA-TGAGATT
44965412 -GCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
44965426 GACTTTGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
38 18 0.36
39 13 0.26
40 1 0.02
41 1 0.02
42 17 0.34
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAGTATAAACATTTACGATAATGAGATT
Found at i:44973142 original size:28 final size:27
Alignment explanation
Indices: 44973110--44973185 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 27
44973100 AATGAGATTG
44973110 GCACTAAGTGTGCGAGTTTAAT-TGTATA
1 GCACTAAGTGTGCGAGTTTAATAT-TA-A
*
44973138 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTT-AATATTAA
*
44973166 GCACTAAGTGTGCGACTTTA
1 GCACTAAGTGTGCGAGTTTA
44973186 TCGAGTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 1 0.02
28 38 0.86
29 4 0.09
30 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTTAATATTAA
Found at i:44983065 original size:43 final size:43
Alignment explanation
Indices: 44983018--44983122 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
44983008 TTGCCCAGCT
*
44983018 ATGGTCTTACTCGA-AATCAAATAATGATGCCAATGTCCTAGAC
1 ATGGTCTTACTC-ATAATCAAATAATGATGCCAATGTCCCAGAC
* *
44983061 ATGGTCTTACTCATAATCACATAGTGATGCCAATGTCCCAGAC
1 ATGGTCTTACTCATAATCAAATAATGATGCCAATGTCCCAGAC
* *
44983104 ATGGTGTTACACATAATCA
1 ATGGTCTTACTCATAATCA
44983123 CATCTTATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACTCATAATCAAATAATGATGCCAATGTCCCAGAC
Found at i:44984015 original size:43 final size:43
Alignment explanation
Indices: 44983987--44984068 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
44983977 GTTCTTACTT
44983987 GAAATCAAATAACGATGCCAATGTCCTAGACATGGTCTTACAC
1 GAAATCAAATAACGATGCCAATGTCCTAGACATGGTCTTACAC
* * ** *
44984030 GTAATCACATAATTATGCCAATGTCCTAGTCATGGTCTT
1 GAAATCAAATAACGATGCCAATGTCCTAGACATGGTCTT
44984069 TGTAACACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
GAAATCAAATAACGATGCCAATGTCCTAGACATGGTCTTACAC
Found at i:44985109 original size:27 final size:27
Alignment explanation
Indices: 44985079--44985272 Score: 208
Period size: 27 Copynumber: 7.2 Consensus size: 27
44985069 ATTATCAAAG
* * * *
44985079 TACCCTCAAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
44985106 TACCCTCGATTTATAGAATTACTATTG
1 TACCCTCGATTTACAGAATTACTATTT
* * *
44985133 TACGCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
44985160 TACCCCCAATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
44985187 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
44985214 TAACCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
44985241 TACCCTCGATTTATAAAATTGCCATTT
1 TACCCTCGATTTACAGAATTACTATTT
44985268 TACCC
1 TACCC
44985273 CTAGGGTGTT
Statistics
Matches: 139, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:44985195 original size:54 final size:54
Alignment explanation
Indices: 44985079--44985260 Score: 229
Period size: 54 Copynumber: 3.4 Consensus size: 54
44985069 ATTATCAAAG
* * * *
44985079 TACCCTCAAATTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACTATTG
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
* * * *
44985133 TACGCTCGATTTACAAAATTACTGTTTTACCCCCAATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
* * ** * *
44985187 TACCCTCGATTTATAGAATTACCATTTTAACCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
*
44985241 TACCCTCGATTTATAAAATT
1 TACCCTCGATTTACAAAATT
44985261 GCCATTTTAC
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:44985810 original size:6 final size:6
Alignment explanation
Indices: 44985795--44985903 Score: 71
Period size: 6 Copynumber: 17.8 Consensus size: 6
44985785 ATTCTGTTAC
* * * * *
44985795 CTGATA CTGATT CTGATT CTAATT CTG-TCAC CTAATT TTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
* * * *
44985844 CTGATT CTGATT CTG-TCAC CTGATT TTGATT CTGATT CTCATT TTGATT
1 CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT
44985893 CT-AGTT CTGAT
1 CTGA-TT CTGAT
44985904 AATGTTTCTT
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
5 3 0.04
6 67 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:44985820 original size:31 final size:31
Alignment explanation
Indices: 44985785--44985852 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
44985775 TCTTATTTTC
* *
44985785 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTAATACTGATTCTGATTCTA
** *
44985816 ATTCTGTCACCTAATTTTGATTCTGATTCTG
1 ATTCTGTCACCTAATACTGATTCTGATTCTA
44985847 ATTCTG
1 ATTCTG
44985853 ATTCTGTCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTCTGATTCTA
Found at i:44985868 original size:31 final size:31
Alignment explanation
Indices: 44985785--44985882 Score: 106
Period size: 37 Copynumber: 3.0 Consensus size: 31
44985775 TCTTATTTTC
* *
44985785 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATTCTGATTCTGATTCTA
*
44985816 ATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTG
1 ATTCTGTCACC------TGATTCTGATTCTGATTCTA
*
44985853 ATTCTGTCACCTGATTTTGATTCTGATTCT
1 ATTCTGTCACCTGATTCTGATTCTGATTCT
44985883 CATTTTGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
31 28 0.49
37 29 0.51
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGTCACCTGATTCTGATTCTGATTCTA
Found at i:44985892 original size:37 final size:37
Alignment explanation
Indices: 44985796--44985894 Score: 153
Period size: 37 Copynumber: 2.7 Consensus size: 37
44985786 TTCTGTTACC
* *
44985796 TGATACTGATTCTGATTCTAATTCTGTCACCTAATTT
1 TGATTCTGATTCTGATTCTGATTCTGTCACCTAATTT
*
44985833 TGATTCTGATTCTGATTCTGATTCTGTCACCTGATTT
1 TGATTCTGATTCTGATTCTGATTCTGTCACCTAATTT
* *
44985870 TGATTCTGATTCTCATTTTGATTCT
1 TGATTCTGATTCTGATTCTGATTCT
44985895 AGTTCTGATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGATTCTGTCACCTAATTT
Found at i:44987941 original size:27 final size:27
Alignment explanation
Indices: 44987881--44987987 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
44987871 AATGCCCCAG
**
44987881 TTGTAAAATTA-CCAAAGTACTCC-CGGT
1 TTGTAAAATTACCCAAA-TAC-CCTCAAT
* * *
44987908 TTATAAAATTACCCAAATATCCTTAAT
1 TTGTAAAATTACCCAAATACCCTCAAT
* * *
44987935 TTGTAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTACCCAAATACCCTCAAT
* **
44987962 TTGCAAAATTACTGAAATACCCTCAA
1 TTGTAAAATTACCCAAATACCCTCAA
44987988 CATGGAAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.03
27 56 0.89
28 5 0.08
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCCAAATACCCTCAAT
Found at i:44987996 original size:27 final size:26
Alignment explanation
Indices: 44987939--44988012 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
44987929 CTTAATTTGT
***
44987939 AAAATTATCGAAATACCCTCAGTTTGC
1 AAAATTAT-GAAATACCCTCAACATGC
*
44987966 AAAATTACTGAAATACCCTCAACATGG
1 AAAATTA-TGAAATACCCTCAACATGC
*
44987993 AAAATTATCAAAGTACCCTC
1 AAAATTATGAAA-TACCCTC
44988013 GAATTACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.10
27 35 0.88
28 1 0.03
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (26 bp):
AAAATTATGAAATACCCTCAACATGC
Found at i:44988053 original size:28 final size:27
Alignment explanation
Indices: 44988006--44988173 Score: 201
Period size: 27 Copynumber: 6.2 Consensus size: 27
44987996 ATTATCAAAG
* *
44988006 TACCCTCGAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
44988033 TACCCTTGATTTTACAAAATTACTGTTT
1 TACCCTCGA-TTTACAAAATTACTATTT
44988061 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
44988088 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
** *
44988115 TACCCTCGATTTACGGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
44988142 GACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
44988169 TACCC
1 TACCC
44988174 ATAGGGTGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 98 0.80
28 25 0.20
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:44988514 original size:31 final size:32
Alignment explanation
Indices: 44988476--44988539 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
44988466 CTCACTGTAA
* *
44988476 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
44988507 TCTGGTGGCCTAGCCACAATATCTATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
44988539 T
1 T
44988540 GACTTCGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:44988741 original size:6 final size:6
Alignment explanation
Indices: 44988677--44988800 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
44988667 TTGCATTCAC
* * *
44988677 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCT- ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
44988725 -TCACCTA ATTCTG ATTCTC ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
44988775 AATCTT ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
44988801 AATGTTTCCT
Statistics
Matches: 89, Mismatches: 17, Indels: 24
0.68 0.13 0.18
Matches are distributed among these distances:
5 10 0.11
6 67 0.75
7 9 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:44988786 original size:31 final size:30
Alignment explanation
Indices: 44988689--44988773 Score: 125
Period size: 31 Copynumber: 2.8 Consensus size: 30
44988679 TCTGATTTTG
* *
44988689 ATTCTGTTACCTGATACTGATTCTATTCTA
1 ATTCTGTCACCTGATTCTGATTCTATTCTA
* *
44988719 ATTCTGTCACCTAATTCTGATTCTCATTCTG
1 ATTCTGTCACCTGATTCTGATTCT-ATTCTA
44988750 ATTCTGTCACCTGATTCTGATTCT
1 ATTCTGTCACCTGATTCTGATTCT
44988774 GAATCTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 21 0.43
31 28 0.57
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.46
Consensus pattern (30 bp):
ATTCTGTCACCTGATTCTGATTCTATTCTA
Found at i:44990878 original size:27 final size:27
Alignment explanation
Indices: 44990846--44990928 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
44990836 AAATATCTTT
44990846 GATTTGTAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTATCGAAATACCCTC
44990873 -AGTTTGTAAAATTA-CTGAAATACCCTC
1 GA-TTTGTAAAATTATC-GAAATACCCTC
**
44990900 GACATGTAAAATTATC-AAAGTACCCTC
1 GATTTGTAAAATTATCGAAA-TACCCTC
44990927 GA
1 GA
44990929 ATTACAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
26 5 0.10
27 42 0.86
28 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCTC
Found at i:44990894 original size:54 final size:54
Alignment explanation
Indices: 44990796--44990926 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 54
44990786 TACCCCCAGT
* * * * * * **
44990796 TGTAAAATTACCAACGTACCC-CTGGTTTATAAAATTACCCAAATATCTTTGATT
1 TGTAAAATTATCAAAGTACCCTC-AGTTTATAAAATTACCCAAATACCCTCGACA
* **
44990850 TGTAAAATTATCGAAA-TACCCTCAGTTTGTAAAATTACTGAAATACCCTCGACA
1 TGTAAAATTATC-AAAGTACCCTCAGTTTATAAAATTACCCAAATACCCTCGACA
44990904 TGTAAAATTATCAAAGTACCCTC
1 TGTAAAATTATCAAAGTACCCTC
44990927 GAATTACAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
53 3 0.05
54 57 0.90
55 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TGTAAAATTATCAAAGTACCCTCAGTTTATAAAATTACCCAAATACCCTCGACA
Found at i:44990950 original size:27 final size:27
Alignment explanation
Indices: 44990920--44991110 Score: 238
Period size: 27 Copynumber: 7.1 Consensus size: 27
44990910 ATTATCAAAG
* *
44990920 TACCCTCGAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
**
44990947 TACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
44990974 TACCCTCTATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
44991001 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
44991028 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
44991055 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
44991082 TACCCTCGATTTATAAAATTACAATTT
1 TACCCTCGATTTACAAAATTACTATTT
44991109 TA
1 TA
44991111 GCCTTAATGT
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:44990978 original size:81 final size:81
Alignment explanation
Indices: 44990893--44991110 Score: 186
Period size: 81 Copynumber: 2.7 Consensus size: 81
44990883 ATTACTGAAA
** * * *
44990893 TACCCTCGACATGTAAAATTATCAAAGTACCCTCGAA-TTACAAAATTACTGTTTTACCCTTAAT
1 TACCCTCGACATACAAAATTACCAAAGTACCCTC-AATTTACAAAATTACTATTTTACCCTCAAT
44990957 TTACAAAATTACTATTT
65 TTACAAAATTACTATTT
* ** *** *
44990974 TACCCTCTATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGACATACAAAATTACCAAAGTACCCTCAATTTACAAAATTACTATTTTACCCTCAATT
* * * *
44991039 TATAGAATTATTGTTT
66 TACAAAATTACTATTT
** * **** * * *
44991055 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACAATTTTA
1 TACCCTCGACATACAAAATTACCAAAGTACCCTCAATTTACAAAATTACTATTTTA
44991111 GCCTTAATGT
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
80 2 0.02
81 112 0.98
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (81 bp):
TACCCTCGACATACAAAATTACCAAAGTACCCTCAATTTACAAAATTACTATTTTACCCTCAATT
TACAAAATTACTATTT
Found at i:44991475 original size:32 final size:31
Alignment explanation
Indices: 44991415--44991476 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
44991405 CTTGCTACAA
* *
44991415 TCTGGTGGCTTCGCCAAATATATATATCTGT
1 TCTGGTGGCCTAGCCAAATATATATATCTGT
* *
44991446 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCA-AATATATATATCTG
44991477 GTGACTTCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCAAATATATATATCTGT
Found at i:44991666 original size:6 final size:6
Alignment explanation
Indices: 44991646--44991759 Score: 56
Period size: 6 Copynumber: 18.7 Consensus size: 6
44991636 TACCTGATAG
* * * * * * *
44991646 TGATTC TAATAC TGATTC TGATTC TAATTC TG-TCACC TAATTC TTATTT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC
* * *
44991695 TGATTC TGATT- TGAATTC TGCCA-CC TGATTC TGATTC TGATTC TCATTT
1 TGATTC TGATTC TG-ATTC TG--ATTC TGATTC TGATTC TGATTC TGATTC
44991744 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
44991760 AATGTTTCTT
Statistics
Matches: 79, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
5 5 0.06
6 64 0.81
7 8 0.10
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:44991689 original size:37 final size:37
Alignment explanation
Indices: 44991648--44991743 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
44991638 CCTGATAGTG
* *
44991648 ATTCTAATACTGATTCTGATTCT-AATTCTGTCACCTA
1 ATTCTAATTCTGATTCTGATT-TGAATTCTGCCACCTA
* * *
44991685 ATTCTTATTTTGATTCTGATTTGAATTCTGCCACCTG
1 ATTCTAATTCTGATTCTGATTTGAATTCTGCCACCTA
* *
44991722 ATTCTGATTCTGATTCTCATTT
1 ATTCTAATTCTGATTCTGATTT
44991744 TGATTCTAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
36 1 0.02
37 49 0.98
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (37 bp):
ATTCTAATTCTGATTCTGATTTGAATTCTGCCACCTA
Found at i:44993398 original size:6 final size:6
Alignment explanation
Indices: 44993361--44993451 Score: 78
Period size: 6 Copynumber: 14.8 Consensus size: 6
44993351 TTGCATTCAC
* * *
44993361 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
44993410 ATTCTG -TCAACTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
44993452 AGTTCTATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
5 3 0.04
6 57 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:44993412 original size:37 final size:37
Alignment explanation
Indices: 44993361--44993451 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 37
44993351 TTGCATTCAC
* *
44993361 ATTCTAATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTAATTTTGATTCTGTCAACTGATACTGATTCTG
* * *
44993398 ATTCTGATTCTGATTCTGTCAACTGATTCTGATTCTG
1 ATTCTAATTTTGATTCTGTCAACTGATACTGATTCTG
*
44993435 ATTCTCATTTTGATTCT
1 ATTCTAATTTTGATTCT
44993452 AGTTCTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (37 bp):
ATTCTAATTTTGATTCTGTCAACTGATACTGATTCTG
Found at i:44995577 original size:54 final size:53
Alignment explanation
Indices: 44995416--44995577 Score: 157
Period size: 54 Copynumber: 3.0 Consensus size: 53
44995406 TTAGAATACT
* * *
44995416 TTAGTTTACCAAATCACTAAAATACCC-CCAGTTGTAAAATTACCAAAGTACCC
1 TTAGTTTACAAAATTACTAAAATACCCTCGAG-TGTAAAATTACCAAAGTACCC
** * ** * * *
44995469 CCAGTTTATAAAATTACCCAAATATCCTCGATTAATAAAATTACCGAAA-TACCC
1 TTAGTTTACAAAATTACTAAAATACCCTCGAGT-GTAAAATTACC-AAAGTACCC
* *
44995523 TTAGTTTGCAAAATTACTAAAATACCCTCGACGTGTAAAATTATCAAAGTACCC
1 TTAGTTTACAAAATTACTAAAATACCCTCGA-GTGTAAAATTACCAAAGTACCC
44995577 T
1 T
44995578 CGAATTACAA
Statistics
Matches: 83, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
53 23 0.28
54 56 0.67
55 4 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (53 bp):
TTAGTTTACAAAATTACTAAAATACCCTCGAGTGTAAAATTACCAAAGTACCC
Found at i:44995602 original size:27 final size:27
Alignment explanation
Indices: 44995572--44995723 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
44995562 ATTATCAAAG
* *
44995572 TACCCTCGAATTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTATTATTT
*
44995599 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTATTATTT
** * ***
44995626 TACGATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTATTATTT
*
44995653 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTATTATTT
* * *
44995680 TACCCTCAATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTATTATTT
44995707 TACCCTCGATTTACAAA
1 TACCCTCGATTTACAAA
44995724 TTACCGTTGA
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATTATTT
Found at i:44995646 original size:81 final size:80
Alignment explanation
Indices: 44995560--44995728 Score: 221
Period size: 81 Copynumber: 2.1 Consensus size: 80
44995550 TCGACGTGTA
* * * *
44995560 AAATTATCAAAGTACCCTCGAATTACAAAATTATTGTTTTACCCTCGATTTACAGAATTATTATT
1 AAATTACCAAAGTACCCTCGAATTACAAAATTACTATTTTACCCTCAATTTACAGAATTATTATT
*
44995625 TTACGATCGATTTAC
66 TTACCATCGATTTAC
**** * *
44995640 AGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTATAGAATTATTAT
1 A-AATTACCAAAGTACCCTCGAATTACAAAATTACTATTTTACCCTCAATTTACAGAATTATTAT
*
44995705 TTTACCCTCGATTTAC
65 TTTACCATCGATTTAC
44995721 AAATTACC
1 AAATTACC
44995729 GTTGATTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
80 8 0.11
81 68 0.89
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (80 bp):
AAATTACCAAAGTACCCTCGAATTACAAAATTACTATTTTACCCTCAATTTACAGAATTATTATT
TTACCATCGATTTAC
Found at i:44996109 original size:33 final size:32
Alignment explanation
Indices: 44996059--44996122 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
44996049 CTCGCTGCAA
*
44996059 TCTGGTGGCTTCACCACATATATATATATCTGT
1 TCTGGTGGCCTCACCACA-ATATATATATCTGT
*
44996092 TCTGGTGGCCT-AGCCACAATATCTATATCTG
1 TCTGGTGGCCTCA-CCACAATATATATATCTG
44996123 GTGACTTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTCACCACAATATATATATCTGT
Found at i:44996322 original size:6 final size:6
Alignment explanation
Indices: 44996258--44996386 Score: 88
Period size: 6 Copynumber: 21.3 Consensus size: 6
44996248 TTGCATTCAC
* * *
44996258 ATTCTG ATTTTG ATTCT- ATTAACTG ATACTG ATTCT- ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
44996306 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG
* * *
44996355 ATTTTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
44996387 AATGTTCTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 11 0.12
6 75 0.79
7 6 0.06
8 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:44998377 original size:26 final size:25
Alignment explanation
Indices: 44998304--44998383 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
44998294 TTAGTTTACC
* * * *
44998304 AAATTACTAAA-TACCCCCAGTTGT
1 AAATTACCAAAGTACCCCGATTTAT
*
44998328 AAATTACCAAAGTACCCCGGTTTAT
1 AAATTACCAAAGTACCCCGATTTAT
*
44998353 AAATTACCCAAA-TATCCTCGATTTA-
1 AAATTA-CCAAAGTA-CCCCGATTTAT
44998378 AAATTA
1 AAATTA
44998384 TCGAAATACC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 10 0.22
25 23 0.50
26 13 0.28
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATTACCAAAGTACCCCGATTTAT
Found at i:44998497 original size:27 final size:27
Alignment explanation
Indices: 44998444--44998600 Score: 174
Period size: 27 Copynumber: 5.8 Consensus size: 27
44998434 ATTATCGAAG
* *
44998444 TACCCTCGAATTACA-AATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
44998470 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
** *
44998497 TACCCT-TTTATTACAGAATTACCGTTTT
1 TACCCTCGAT-TTACAGAATTACTG-TTT
* *
44998525 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
44998552 TACCCTCAATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
44998579 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
44998601 CGTTGATTAT
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
26 15 0.14
27 73 0.67
28 20 0.18
29 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:44998538 original size:55 final size:54
Alignment explanation
Indices: 44998444--44998600 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 54
44998434 ATTATCGAAG
* * * *
44998444 TACCCTCGAA-TTACA-AATTATTGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTC-AATTTACAGAATTAGTATTTTACCCTCGATTTACAAAATTACTATTT
**
44998497 TACCCT-TTTATTACAGAATTACCGT-TTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCAAT-TTACAGAATTA--GTATTTTACCCTCGATTTACAAAATTACTATTT
* *
44998552 TACCCTCAATTTATAGAATTATTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCAATTTACAGAATTAGTATTTTACCCTCGATTTACAAAATTAC
44998601 CGTTGATTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
53 12 0.14
54 30 0.34
55 44 0.50
56 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTAGTATTTTACCCTCGATTTACAAAATTACTATTT
Found at i:44998593 original size:82 final size:81
Alignment explanation
Indices: 44998444--44998604 Score: 207
Period size: 82 Copynumber: 2.0 Consensus size: 81
44998434 ATTATCGAAG
* * * * **
44998444 TACCCTCGAATTACAAATTATTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTTTTATT
1 TACCCTCGAATTACAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCTGATATT
*
44998509 ACAGAATTACCGTTTT
66 ACAAAATTACCGTTTT
* * *
44998525 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTATAGAATTATTATTTTACCCTCGAT-
1 TACCCTCGAATTAC-AAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCT-GATA
44998589 TTACAAAATTACCGTT
64 TTACAAAATTACCGTT
44998605 GATTATAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 13 0.19
82 54 0.79
83 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (81 bp):
TACCCTCGAATTACAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCTGATATT
ACAAAATTACCGTTTT
Found at i:44999170 original size:30 final size:31
Alignment explanation
Indices: 44999124--44999201 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
44999114 TTGCATTCAC
* * *
44999124 ATTCTGATTTTGATTCTATAACCTGATACTG
1 ATTCTGATTCTAATTCTATAACCTAATACTG
* * *
44999155 ATTCT-ATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTATAACCTAATACTG
*
44999185 ATTCTGATTCTGATTCT
1 ATTCTGATTCTAATTCT
44999202 GATTCTGTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTATAACCTAATACTG
Found at i:44999188 original size:6 final size:6
Alignment explanation
Indices: 44999179--44999252 Score: 80
Period size: 6 Copynumber: 12.3 Consensus size: 6
44999169 CTGTCACCTA
* *
44999179 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG
* *
44999227 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
44999253 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 2 0.04
6 52 0.93
7 2 0.04
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:45001239 original size:27 final size:27
Alignment explanation
Indices: 45001209--45001276 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
45001199 TTAGTTTACC
* *
45001209 AAATCACTAAAATACCCCCAGTTTGTA
1 AAATCACCAAAATACCCCCAGTTTATA
* *
45001236 AAATTACCAAAGTACCCCCAGTTTATA
1 AAATCACCAAAATACCCCCAGTTTATA
* *
45001263 AAATTACCCAAATA
1 AAATCACCAAAATA
45001277 TCCTCGATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (27 bp):
AAATCACCAAAATACCCCCAGTTTATA
Found at i:45001317 original size:26 final size:26
Alignment explanation
Indices: 45001218--45001330 Score: 95
Period size: 26 Copynumber: 4.3 Consensus size: 26
45001208 CAAATCACTA
*
45001218 AAATACCCCCAGTTTGTAAAATTACC
1 AAATACCCCCAGTTTATAAAATTACC
45001244 AAAGTACCCCCAGTTTATAAAATTACCC
1 AAA-TACCCCCAGTTTATAAAATTA-CC
* * * * *
45001272 AAATATCCTC-GATTAAAAAATTATCG
1 AAATACCCCCAGTTTATAAAATTA-CC
** *
45001298 AAATA-CCCCAGTTTGCAAAATTACT
1 AAATACCCCCAGTTTATAAAATTACC
*
45001323 GAATACCC
1 AAATACCC
45001331 TCGACATGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
25 8 0.11
26 32 0.46
27 25 0.36
28 5 0.07
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATACCCCCAGTTTATAAAATTACC
Found at i:45001416 original size:28 final size:27
Alignment explanation
Indices: 45001353--45001510 Score: 167
Period size: 28 Copynumber: 5.8 Consensus size: 27
45001343 ATTATCGAAG
* *
45001353 TACCCTTCGAATTACAAAATTA-TGTTT
1 TACCC-TCGATTTACAGAATTACTGTTT
45001380 TACCCTCGATTTACAGAATTTACTGTTT
1 TACCCTCGATTTACAGAA-TTACTGTTT
** *
45001408 TACGATCGATTTACAGGAATTACCGTTT
1 TACCCTCGATTTACA-GAATTACTGTTT
* *
45001436 TACCCTCGATTTACA-AAATACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
45001462 TACCCTCAATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
45001489 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
45001511 CGTTGATATT
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 32 0.29
27 35 0.32
28 39 0.36
29 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:45001463 original size:82 final size:81
Alignment explanation
Indices: 45001353--45001514 Score: 202
Period size: 82 Copynumber: 2.0 Consensus size: 81
45001343 ATTATCGAAG
* * * *
45001353 TACCCTTCGAATTACAAAATTATGTTTTACCCTCGATTTACAGAATTTACTGTTTTACGATCGAT
1 TACCCTTCGAATTACAAAATTATATTTTACCCTCAATTTACAGAA-TTACTATTTTACCATCGAT
*
45001418 TTACAGGAATTACCGTTT
65 TTACA-AAATTACCGTTT
* * * *
45001436 TACCC-TCGATTTACAAAA-TACTATTTTACCCTCAATTTATAGAATTATTATTTTACCCTCGAT
1 TACCCTTCGAATTACAAAATTA-TATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGAT
45001499 TTACAAAATTACCGTT
65 TTACAAAATTACCGTT
45001515 GATATTTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
80 10 0.14
81 22 0.32
82 32 0.46
83 5 0.07
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTTCGAATTACAAAATTATATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
TACAAAATTACCGTTT
Found at i:45001498 original size:53 final size:54
Alignment explanation
Indices: 45001377--45001507 Score: 156
Period size: 53 Copynumber: 2.4 Consensus size: 54
45001367 CAAAATTATG
* * * * *
45001377 TTTTACCCTCGATTTACAGAATTTACTGTTTTACGATCGATTTACAGGAATTACCG
1 TTTTACCCTCGATTTACA-AA-ATACTATTTTACCATCAATTTACAGGAATTACCA
* * **
45001433 TTTTACCCTCGATTTACAAAATACTATTTTACCCTCAATTTATA-GAATTATTA
1 TTTTACCCTCGATTTACAAAATACTATTTTACCATCAATTTACAGGAATTACCA
45001486 TTTTACCCTCGATTTACAAAAT
1 TTTTACCCTCGATTTACAAAAT
45001508 TACCGTTGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
53 28 0.42
54 18 0.27
55 2 0.03
56 18 0.27
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAAAATACTATTTTACCATCAATTTACAGGAATTACCA
Found at i:45001896 original size:34 final size:32
Alignment explanation
Indices: 45001845--45001909 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 32
45001835 CTCGCTGCAA
*
45001845 TCTGGTGGCTTCACCACATTATATATATATCTGT
1 TCTGGTGGCCTCACCACA--ATATATATATCTGT
*
45001879 TCTGGTGGCCT-AGCCACAATATCTATATCTG
1 TCTGGTGGCCTCA-CCACAATATATATATCTG
45001910 GTACTTCGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 12 0.43
33 1 0.04
34 15 0.54
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (32 bp):
TCTGGTGGCCTCACCACAATATATATATCTGT
Found at i:45002115 original size:6 final size:6
Alignment explanation
Indices: 45002104--45002178 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
45002094 CTGTCACCTA
*
45002104 ATTCTG ATTCTG ATTTCTG ATTCTG ATTCTG -TCACTTG ATTCTTG ATT-TG
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG AT-TC-TG ATTC-TG ATTCTG
*
45002154 ATTCTC ATT-TG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
45002179 AATGTTTCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
5 11 0.19
6 29 0.51
7 16 0.28
8 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:45002121 original size:13 final size:13
Alignment explanation
Indices: 45002105--45002131 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45002095 TGTCACCTAA
45002105 TTCTGATTCTGAT
1 TTCTGATTCTGAT
45002118 TTCTGATTCTGAT
1 TTCTGATTCTGAT
45002131 T
1 T
45002132 CTGTCACTTG
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:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TTCTGATTCTGAT
Found at i:45002143 original size:19 final size:18
Alignment explanation
Indices: 45002091--45002151 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
45002081 ATTCTATTTA
*
45002091 ATTCTGTCACCTAATTCTG
1 ATTCTGTCA-CTGATTCTG
**
45002110 ATTCTGATTTCTGATTCTG
1 ATTCTG-TCACTGATTCTG
45002129 ATTCTGTCACTTGATTCTTG
1 ATTCTGTCAC-TGATTC-TG
45002149 ATT
1 ATT
45002152 TGATTCTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.06
19 26 0.76
20 6 0.18
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (18 bp):
ATTCTGTCACTGATTCTG
Found at i:45002178 original size:23 final size:25
Alignment explanation
Indices: 45002118--45002178 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
45002108 TGATTCTGAT
45002118 TTCT-GATTCTGATTCTGTCACTTGA
1 TTCTAGATTCTGATTC-GTCACTTGA
* *
45002143 TTCTTGATT-TGATTC-TCATTTGA
1 TTCTAGATTCTGATTCGTCACTTGA
45002166 TTCTAG-TTCTGAT
1 TTCTAGATTCTGAT
45002179 AATGTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 16 0.50
25 10 0.31
26 4 0.12
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.52
Consensus pattern (25 bp):
TTCTAGATTCTGATTCGTCACTTGA
Found at i:45004207 original size:28 final size:28
Alignment explanation
Indices: 45004152--45004223 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
45004142 TAGATACTTT
*
45004152 AGTTTACAAATTACTAAACATACCCCCA
1 AGTTTACAAATTACCAAACATACCCCCA
45004180 AGTTGTACAAATTACCAAA-AGTA-CCCCA
1 AGTT-TACAAATTACCAAACA-TACCCCCA
* *
45004208 GGTTTAAAAAATTACC
1 AGTTT-ACAAATTACC
45004224 CAATATCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.03
28 22 0.58
29 15 0.39
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (28 bp):
AGTTTACAAATTACCAAACATACCCCCA
Found at i:45005118 original size:19 final size:19
Alignment explanation
Indices: 45005091--45005158 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
45005081 CTGTCACCTA
*
45005091 ATTTATGATTCTGATTCTG
1 ATTTCTGATTCTGATTCTG
* *
45005110 ATTTCTGATTTCGTCA-ACTG
1 ATTTCTGA-TTC-TGATTCTG
45005130 A-TTCTGA-TCTGATTCTG
1 ATTTCTGATTCTGATTCTG
45005147 CATTT-TGATTCT
1 -ATTTCTGATTCT
45005159 AGTTCTAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
16 2 0.05
17 5 0.13
18 4 0.11
19 18 0.47
20 7 0.18
21 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (19 bp):
ATTTCTGATTCTGATTCTG
Found at i:45006448 original size:27 final size:27
Alignment explanation
Indices: 45006418--45006506 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
45006408 CTCGATTAAT
**
45006418 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATCGAAATACCCTCGA-CATGC
*
45006445 AAAATTA-CTGAAATACCCTCGACATGT
1 AAAATTATC-GAAATACCCTCGACATGC
* *
45006472 AAAATTATCGAAGTACCCTCGA-ATTAC
1 AAAATTATCGAAATACCCTCGACA-TGC
45006499 AAAATTAT
1 AAAATTAT
45006507 TGTTTTACCC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGACATGC
Found at i:45006490 original size:54 final size:53
Alignment explanation
Indices: 45006361--45006505 Score: 148
Period size: 54 Copynumber: 2.7 Consensus size: 53
45006351 TACCCCCAGT
* * * * * *
45006361 TGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATATCCTCGAT
1 TGTAAAATTATCGAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGAA
* * * **
45006414 TAATAAAATTATCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGACA
1 T-GTAAAATTATCGAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGA-A
*
45006469 TGTAAAATTATCGAAGTACCCTC-GAATTACAAAATTA
1 TGTAAAATTATCGAAGTACCCTCAG-TTTACAAAATTA
45006506 TTGTTTTACC
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
53 2 0.03
54 71 0.96
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (53 bp):
TGTAAAATTATCGAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGAA
Found at i:45006515 original size:27 final size:27
Alignment explanation
Indices: 45006485--45006641 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
45006475 ATTATCGAAG
* *
45006485 TACCCTCGAATTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
45006512 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
** * *
45006539 TACGATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
45006566 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * * *
45006593 TACCCTCAATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
45006620 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
45006642 CGTTGATTTA
Statistics
Matches: 111, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:45006644 original size:81 final size:81
Alignment explanation
Indices: 45006485--45006645 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
45006475 ATTATCGAAG
* * * * *
45006485 TACCCTCGAATTACAAAATTATTGTTTTACCCTCGATTTACAGAATTACTGTTTTACGATCGATT
1 TACCCTCGAATTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
*
45006550 TACAGAATTACCGTTT
66 TACAAAATTACCGTTT
* * * *
45006566 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGAATTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
45006631 TACAAAATTACCGTT
66 TACAAAATTACCGTT
45006646 GATTTATAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGAATTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
TACAAAATTACCGTTT
Found at i:45007023 original size:33 final size:32
Alignment explanation
Indices: 45006973--45007036 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
45006963 CTCGCTGCAA
*
45006973 TCTGGTGGCTTCACCACATATATATATATCTGT
1 TCTGGTGGCCTCACCACA-ATATATATATCTGT
*
45007006 TCTGGTGGCCT-AGCCACAATATCTATATCTG
1 TCTGGTGGCCTCA-CCACAATATATATATCTG
45007037 GTGACTTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTCACCACAATATATATATCTGT
Found at i:45007221 original size:30 final size:31
Alignment explanation
Indices: 45007175--45007252 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
45007165 TTGCATTCAC
* * *
45007175 ATTCTGATTTTGATTCTATAACCTGATACTG
1 ATTCTGATTCTAATTCTATAACCTAATACTG
* * *
45007206 ATTCT-ATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTATAACCTAATACTG
*
45007236 ATTCTGATTCTGATTCT
1 ATTCTGATTCTAATTCT
45007253 GATTCTGTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTATAACCTAATACTG
Found at i:45007239 original size:6 final size:6
Alignment explanation
Indices: 45007230--45007304 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
45007220 CTGTCACCTA
* *
45007230 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACTTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
* *
45007279 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
45007305 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 2 0.04
6 49 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:45007261 original size:37 final size:36
Alignment explanation
Indices: 45007197--45007295 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 36
45007187 ATTCTATAAC
* *
45007197 CTGATACTGATTCTATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTATTCTGATTCTGTCACCTAATT
* *
45007233 CTGATTCTGATTCTGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCT-ATTCTGATTCTGTCACCTAATT
* *
45007270 CTGATTTTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCT-ATTCTGATTCT
45007296 AGTTCTGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 13 0.24
37 42 0.76
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (36 bp):
CTGATTCTGATTCTATTCTGATTCTGTCACCTAATT
Found at i:45009370 original size:27 final size:27
Alignment explanation
Indices: 45009338--45009416 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
45009328 AAATATCTTT
45009338 GATTTGTAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTATCGAAATACCCTC
*
45009365 -AGTTTGCAAAATTA-CTGAAATA-CCTC
1 GA-TTTGTAAAATTATC-GAAATACCCTC
** *
45009391 GACATGTAAAATTATCGAAGTACCCT
1 GATTTGTAAAATTATCGAAATACCCT
45009417 TGAATTACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (27 bp):
GATTTGTAAAATTATCGAAATACCCTC
Found at i:45009376 original size:54 final size:53
Alignment explanation
Indices: 45009287--45009416 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 53
45009277 ATACCCCAAG
* * * * * *
45009287 TTGTAAAATTA-CCAAAGTACCCCCGGTTTAAAAAATTACCCAAATATCTTTGAT
1 TTGTAAAATTATCGAAA-TACCCTCAGTTTAAAAAATTACCCAAATA-CCTCGAC
** **
45009341 TTGTAAAATTATCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCTCGAC
1 TTGTAAAATTATCGAAATACCCTCAGTTTAAAAAATTACCCAAATACCTCGAC
* *
45009394 ATGTAAAATTATCGAAGTACCCT
1 TTGTAAAATTATCGAAATACCCT
45009417 TGAATTACAA
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
53 25 0.40
54 34 0.54
55 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTATCGAAATACCCTCAGTTTAAAAAATTACCCAAATACCTCGAC
Found at i:45009441 original size:27 final size:27
Alignment explanation
Indices: 45009411--45009604 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
45009401 ATTATCGAAG
* * *
45009411 TACCCTTGAATTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
45009438 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
45009465 TACCCTC-ATTTTACAAAATTACTATTT
1 TACCCTCGA-TTTACAAAATTACTGTTT
45009492 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
45009519 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
45009546 TACCCTCGGTTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
45009573 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
45009600 TACCC
1 TACCC
45009605 CTAGGGTGTT
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 143 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:45009511 original size:81 final size:81
Alignment explanation
Indices: 45009411--45009604 Score: 280
Period size: 81 Copynumber: 2.4 Consensus size: 81
45009401 ATTATCGAAG
* * * *
45009411 TACCCTTGAATTACAAAATTATTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTT
*
45009476 TACAAAATTACTATTT
66 TACAAAATTACCATTT
* *
45009492 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGGTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTT
* *
45009557 TACAGAATTACCGTTT
66 TACAAAATTACCATTT
* **
45009573 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTGTTTTACCC
45009605 CTAGGGTGTT
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTT
TACAAAATTACCATTT
Found at i:45010145 original size:6 final size:6
Alignment explanation
Indices: 45010108--45010229 Score: 79
Period size: 6 Copynumber: 19.8 Consensus size: 6
45010098 TTGCATTCAC
* * * *
45010108 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
45010157 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG -TCAACTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
45010207 ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
45010230 AGTTCTAATA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
5 4 0.05
6 73 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:45010155 original size:31 final size:31
Alignment explanation
Indices: 45010108--45010217 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
45010098 TTGCATTCAC
* *
45010108 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * **
45010139 ATTCTGATTCTAATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
45010170 ATTCTGATTCTGATTCTGATT--CTG-TCAACTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT--ACTG
45010201 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
45010218 CATTTTGATT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 60 0.94
32 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:45010177 original size:37 final size:37
Alignment explanation
Indices: 45010130--45010217 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
45010120 ATTCTGTTAC
* *
45010130 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCAACTAATT
* * *
45010167 TTGATTCTGATTCTGATTCTGATTCTGTCAACTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCAACTAATT
45010204 CTGATTCTGATTCT
1 CTGATTCTGATTCT
45010218 CATTTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCAACTAATT
Found at i:45010227 original size:37 final size:36
Alignment explanation
Indices: 45010108--45010229 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 36
45010098 TTGCATTCAC
* *
45010108 ATTCTAATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
45010145 ATTCTA-----ATTCTGTCACCTAATTTTGATTCTG
1 ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
45010176 ATTCTGATTCTGATTCTGTCAACTGATTCTGATTCTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTCTG
45010213 ATTCTCATTTTGATTCT
1 ATTCT-ATTTTGATTCT
45010230 AGTTCTAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 42 0.60
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (36 bp):
ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:45012822 original size:26 final size:26
Alignment explanation
Indices: 45012757--45012892 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
45012747 TTGGAGGCCT
45012757 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
45012781 AGCCC-TTTCGGTAAACTGGGGCAGA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
45012806 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* ** * *
45012832 AGCCGTTTTCGGTATACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
45012858 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
45012884 AGCCCTTTT
1 AGCCCTTTT
45012893 TCACTTCCTC
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
22 3 0.03
23 2 0.02
24 14 0.15
25 6 0.06
26 68 0.73
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:45012842 original size:52 final size:51
Alignment explanation
Indices: 45012757--45012892 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 51
45012747 TTGGAGGCCT
* *
45012757 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTCGGTAAACTGGGGCAGA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCTTTTCGGTAAACTAGGGCAGA
* * *
45012806 AGCCCTTTTCAATAAACTAGGGCATAAGCCGTTTTCGGTATACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCC-TTTTCGGTAAACTAGGGCAGA
45012858 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAG-CCTTTT
45012893 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
48 5 0.07
49 7 0.09
50 9 0.12
51 5 0.07
52 48 0.63
53 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCTTTTCGGTAAACTAGGGCAGA
Found at i:45012969 original size:20 final size:20
Alignment explanation
Indices: 45012944--45012996 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
45012934 ATAAATACAA
* *
45012944 CATGTGTATTTCATA-CATAT
1 CATGTGCATATCATATCA-AT
45012964 CATGTGCATATCATATCAAT
1 CATGTGCATATCATATCAAT
45012984 CATGT--ATATCATA
1 CATGTGCATATCATA
45012997 GCCCACGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.27
20 20 0.67
21 2 0.07
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (20 bp):
CATGTGCATATCATATCAAT
Found at i:45018513 original size:6 final size:6
Alignment explanation
Indices: 45018495--45018582 Score: 67
Period size: 6 Copynumber: 14.3 Consensus size: 6
45018485 AAGAACCATT
* *
45018495 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
45018544 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCCA-A ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA AT-CAGA ATCAGA AT
45018583 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
5 6 0.09
6 50 0.76
7 8 0.12
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:45018540 original size:31 final size:31
Alignment explanation
Indices: 45018504--45018582 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
45018494 TATCAGAACT
* *
45018504 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
45018535 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
45018566 AGAATCCA-AATCAGAAT
1 AGAAT-CAGAATCAGAAT
45018583 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:45019041 original size:27 final size:27
Alignment explanation
Indices: 45019002--45019257 Score: 381
Period size: 27 Copynumber: 9.6 Consensus size: 27
45018992 TACCTCAGAA
* *
45019002 GGTATCTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
45019029 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
45019056 GGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
45019083 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
45019110 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
45019137 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
45019164 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
45019191 GGTATTTCGGTAATTCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
45019217 GGTATTGCGATAATTCTA-CCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
45019243 GGTATTTCGATAATT
1 GGTATTTCGGTAATT
45019258 TTACAAGTCA
Statistics
Matches: 208, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
25 5 0.02
26 32 0.15
27 171 0.82
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:45019276 original size:27 final size:26
Alignment explanation
Indices: 45019242--45019393 Score: 101
Period size: 27 Copynumber: 5.7 Consensus size: 26
45019232 CTACCTATAG
*
45019242 GGGTATTTCGATAATTTTACAAGTCAA
1 GGGTATTT-GATAATTTTACAAATCAA
* *
45019269 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTGA-TAATTTTACAAATCAA
* * *
45019296 GGGTATTTTAGTAA-TTTACAAACCAG
1 GGGTATTTGA-TAATTTTACAAATCAA
* ** *
45019322 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTA-TTTGATAATTTTACAAATCAA
* **
45019349 GGGTATTTTGGTAATTTTGTAAA-CTAA
1 GGGTA-TTTGATAATTTTACAAATC-AA
*
45019376 GGGTATTTCAATAATTTT
1 GGGTATTT-GATAATTTT
45019394 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 24 0.24
27 78 0.76
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTGATAATTTTACAAATCAA
Done.