Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 195 of 253
Found at i:64076186 original size:93 final size:93
Alignment explanation
Indices: 64076074--64076245 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
64076064 CGCCCATAAG
* *
64076074 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCTCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
64076138 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
64076167 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64076232 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64076246 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64076240 original size:46 final size:46
Alignment explanation
Indices: 64076067--64076242 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
64076057 TGTAACCCGC
* * *
64076067 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACAT
*
64076113 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
64076163 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
64076206 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64076243 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:64081130 original size:4 final size:4
Alignment explanation
Indices: 64081121--64081145 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
64081111 AAAGTATACA
64081121 TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT T
64081146 TTTCTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:64091734 original size:23 final size:23
Alignment explanation
Indices: 64091708--64091753 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
64091698 TCCCTATTCA
64091708 AGACTGTACTTGTTATTCTGGCT
1 AGACTGTACTTGTTATTCTGGCT
64091731 AGACTGTACTTGTTATTCTGGCT
1 AGACTGTACTTGTTATTCTGGCT
64091754 CCGAATCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (23 bp):
AGACTGTACTTGTTATTCTGGCT
Found at i:64095258 original size:31 final size:31
Alignment explanation
Indices: 64095215--64095298 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
64095205 TTAGGCTTGA
64095215 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
64095245 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
64095276 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
64095299 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:64095369 original size:42 final size:42
Alignment explanation
Indices: 64095322--64095413 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
64095312 TGGCCCTTAG
*
64095322 GCCCATTTCAATATCACATGTAACGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAACGTCAATGAATGTATGCAA
**
64095364 GCCCATTTCAATATCACATGTATTGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAACGTCAATGAATGTATGCAA
64095406 GCCCATTT
1 GCCCATTT
64095414 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAACGTCAATGAATGTATGCAA
Found at i:64096553 original size:27 final size:27
Alignment explanation
Indices: 64096523--64096620 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
64096513 GTAAATCTAC
*
64096523 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
*
64096550 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
64096576 AAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
64096606 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
64096621 TGGTAATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 34 0.56
28 6 0.10
29 19 0.31
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:64096777 original size:54 final size:52
Alignment explanation
Indices: 64096610--64096796 Score: 214
Period size: 54 Copynumber: 3.5 Consensus size: 52
64096600 TTTTGTAAAT
* * *
64096610 CAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAA
1 CAGGGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTT-ACAAA
* *
64096663 CCAGTGGTATTTCGCTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 -CAGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTTACAAA
* **
64096717 CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA
1 C-AGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATT-TA-CAAA
* *
64096772 CAGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTCGGTAATTTTACAA
64096797 TCGAGGGTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
53 3 0.03
54 104 0.90
55 8 0.07
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (52 bp):
CAGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTACAAA
Found at i:64096777 original size:81 final size:80
Alignment explanation
Indices: 64096610--64096805 Score: 225
Period size: 81 Copynumber: 2.4 Consensus size: 80
64096600 TTTTGTAAAT
* *
64096610 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTT
*
64096675 CGCTAATTTTACAAA
66 CGCTAATTCTACAAA
* * *
64096690 CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTAT
1 C-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTAT
* * **
64096754 TTTGGTAATTCTATCCTA
64 TTCGCTAATTCTA-CAAA
** * *
64096772 CAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTA
64096806 AAACGATAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 8 0.08
81 83 0.85
82 5 0.05
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.38
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTT
CGCTAATTCTACAAA
Found at i:64096782 original size:27 final size:27
Alignment explanation
Indices: 64096586--64096763 Score: 227
Period size: 27 Copynumber: 6.6 Consensus size: 27
64096576 AAAAAGTCAA
**
64096586 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
64096613 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
64096639 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * *
64096667 TGGTATTTCGCTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
64096694 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
64096721 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
64096748 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
64096764 CTATCCTACA
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 131 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:64096829 original size:27 final size:27
Alignment explanation
Indices: 64096795--64096886 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
64096785 GTAATTTCAC
64096795 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
64096822 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGATAATTTTGTA
* * *
64096849 AATCGAAGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
64096876 AATCGAGGGTA
1 AATCGAGGGTA
64096887 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:64099288 original size:42 final size:42
Alignment explanation
Indices: 64099182--64099329 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
64099172 TATCCAAAAT
* * * * **
64099182 ATGGTCTTACATGTAATCTCGTATCGATGTCAATAGTCCC-GCT
1 ATGGTCTTACACGAAATCTCATATCGATG-CCATA-TCCCAGAA
* * *
64099225 ATGGTCTTACACGAAGTCTCATATTGATGCCATATCCTAGAA
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAA
* * *
64099267 ATGTTCTTACACGAAATCTCATATCGATGTCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAA
*
64099309 ATGGTCTTACACAAAATCTCA
1 ATGGTCTTACACGAAATCTCA
64099330 ATAACCCTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 3 0.03
42 60 0.69
43 24 0.28
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAA
Found at i:64100137 original size:12 final size:12
Alignment explanation
Indices: 64100120--64100144 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64100110 TGGACAAAAA
64100120 TTGGCTTTTAAT
1 TTGGCTTTTAAT
64100132 TTGGCTTTTAAT
1 TTGGCTTTTAAT
64100144 T
1 T
64100145 CGTTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:64104683 original size:40 final size:40
Alignment explanation
Indices: 64104598--64104886 Score: 350
Period size: 40 Copynumber: 7.2 Consensus size: 40
64104588 TATTCGAATG
* * **
64104598 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* * *
64104639 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* * * *
64104679 ATATCTGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
64104719 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64104759 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64104799 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
64104839 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
64104879 ATATCCGG
1 ATATCCGG
64104887 TTAAATTCCG
Statistics
Matches: 222, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
39 3 0.01
40 187 0.84
41 32 0.14
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64112805 original size:40 final size:40
Alignment explanation
Indices: 64112750--64113035 Score: 332
Period size: 40 Copynumber: 7.2 Consensus size: 40
64112740 TATTCGAATG
* **
64112750 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* * *
64112790 ATATCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* * * *
64112829 ATATCCAGACTAAGAT-CCAAAGGCATTTGTGCGAGATACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
64112869 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64112909 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64112949 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
64112988 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
64113028 ATATCCGG
1 ATATCCGG
64113036 TTAAATTCTG
Statistics
Matches: 219, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
39 75 0.34
40 137 0.63
41 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64112971 original size:119 final size:121
Alignment explanation
Indices: 64112752--64113016 Score: 344
Period size: 119 Copynumber: 2.2 Consensus size: 121
64112742 TTCGAATGAT
*
64112752 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACTATATCCGGGCTAAGTCCGAAGGCTTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATAACCGGGCTAAGTCCGAAGGCTTT
*
64112816 GTGCTAAGTGACCATATCCAGACTAAGATCCAAAGGCATTTGTGCGAGATACTA-A
66 GTGCTAAGTGACCATAACCAGACTAAGATCCAAAGGCATTTGTGCGAGATACTATA
* * **
64112871 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAGTCCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATAACCGGGCTAAGT-CCGAAGGC-T
* * * * * * *
64112935 TTGTGC-GAGTTACTATAACCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
64 TTGTGCTAAGTGACCATAACCAGACTAAGATCCAAAGGCATTTGTGCGAGATACTATA
*
64112991 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
64113017 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
119 87 0.69
120 33 0.26
121 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (121 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATAACCGGGCTAAGTCCGAAGGCTTT
GTGCTAAGTGACCATAACCAGACTAAGATCCAAAGGCATTTGTGCGAGATACTATA
Found at i:64113030 original size:79 final size:79
Alignment explanation
Indices: 64112754--64113016 Score: 327
Period size: 79 Copynumber: 3.3 Consensus size: 79
64112744 CGAATGATAT
* ** *
64112754 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACTATATCCGGGCTAAGTCCGAAGGC-TTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGATACTATAACCGGGCTAAGTCCGAAGGCATTTG
* * * *
64112817 TGCTAAGTGACCATAT
65 TGC-GAGTTACTATAA
* * * *
64112833 CCAGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATAA-CCGGGCTAAGT-CCGAAGGCATT
64112896 TGTGCGAGTTACTATAA
63 TGTGCGAGTTACTATAA
*
64112913 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCGAAGGCATTTGT
64112978 GCGAGTTACTATAA
66 GCGAGTTACTATAA
*
64112992 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64113017 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 84 0.53
80 65 0.41
81 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCGAAGGCATTTGT
GCGAGTTACTATAA
Found at i:64115112 original size:21 final size:20
Alignment explanation
Indices: 64115071--64115113 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
64115061 ATTTCCCATG
*
64115071 TTGGCCCATTTTCTCTATTT
1 TTGGCCCATTTTCACTATTT
* *
64115091 TTGGCCCGTTTTTCACTCTTT
1 TTGGCCC-ATTTTCACTATTT
64115112 TT
1 TT
64115114 ACTTTCCTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.07, C:0.26, G:0.12, T:0.56
Consensus pattern (20 bp):
TTGGCCCATTTTCACTATTT
Found at i:64128489 original size:17 final size:17
Alignment explanation
Indices: 64128469--64128510 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
64128459 ATCACCAGTT
*
64128469 TGAACTTAGACAATCAA
1 TGAACTAAGACAATCAA
64128486 TGAACTAAGACAATCAA
1 TGAACTAAGACAATCAA
64128503 TGAACTAA
1 TGAACTAA
64128511 CATTTGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (17 bp):
TGAACTAAGACAATCAA
Found at i:64132469 original size:47 final size:47
Alignment explanation
Indices: 64132331--64132462 Score: 167
Period size: 47 Copynumber: 2.8 Consensus size: 47
64132321 GTACGAATGA
* **
64132331 TACCTTGATTTGGCTACTGGCCATGGTATAGGTATTCAAAGAGGAGT
1 TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCAAAGATAAGT
* * ***
64132378 TACCTT-AGTTTGGCTACAGGCCATGGTATAGATACTCCGGGATAAGT
1 TACCTTGA-TTTGGCTACTGGCCATGGTATAGGTACTCAAAGATAAGT
*
64132425 TACCTTGATTTGGCTACTGGTCATGGTATAGGTACTCA
1 TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCA
64132463 TCGATAAAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 69 0.97
48 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCAAAGATAAGT
Found at i:64134402 original size:24 final size:26
Alignment explanation
Indices: 64134373--64134422 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
64134363 AGTTCATGCA
64134373 ATATTAAAGC-ATTTAA-ATACAAAT
1 ATATTAAAGCTATTTAACATACAAAT
64134397 ATATTAAAGCTTATTTAACATACAAA
1 ATATTAAAGC-TATTTAACATACAAA
64134423 CTTACCTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
26 6 0.26
27 7 0.30
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAAAT
Found at i:64142487 original size:67 final size:64
Alignment explanation
Indices: 64142367--64142496 Score: 170
Period size: 67 Copynumber: 2.0 Consensus size: 64
64142357 AGATATTATG
* * * * *
64142367 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAACAGAGCTACGAGATAT
* *
64142431 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAACAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGTAGACAACAGAGCTACGAGAT
64142496 A
63 A
64142497 AACTGGCTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
64 25 0.45
66 2 0.04
67 29 0.52
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAACAGAGCTACGAGATAT
Found at i:64145298 original size:45 final size:45
Alignment explanation
Indices: 64145234--64145324 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
64145224 AAAAGTCTAG
64145234 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
1 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
64145279 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
1 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
64145324 A
1 A
64145325 TATTTTTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (45 bp):
ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
Found at i:64145323 original size:24 final size:24
Alignment explanation
Indices: 64145251--64145325 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
64145241 TAGCCAAATA
64145251 GAAAATTGCAACAAGTAATAACTT
1 GAAAATTGCAACAAGTAATAACTT
* ** *
64145275 GAAAA---CATTACTAGCCA-AA-TA
1 GAAAATTGCA--ACAAGTAATAACTT
64145296 GAAAATTGCAACAAGTAATAACTT
1 GAAAATTGCAACAAGTAATAACTT
64145320 GAAAAT
1 GAAAAT
64145326 ATTTTTGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 8 0.22
22 7 0.19
23 7 0.19
24 14 0.39
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.23
Consensus pattern (24 bp):
GAAAATTGCAACAAGTAATAACTT
Found at i:64153600 original size:117 final size:120
Alignment explanation
Indices: 64153458--64153690 Score: 382
Period size: 117 Copynumber: 2.0 Consensus size: 120
64153448 TTAATTTTTT
*
64153458 TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATGA
1 TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATAA
*
64153523 TAAAAAA-TTAATTTAAT-TTTTAAAAACTATAAAGATATAAACTATTAAATTAG
66 TAAAAAATTTAATTTAATCTTTTAAAAACTATAAAAATATAAACTATTAAATTAG
* * *
64153576 TTTATAA-TTTATAAAATTTTAAATTAATAATGATAATTTTATACTTTGAACTCTTTAAAAATAA
1 TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATAA
* *
64153640 TAAAAAATTTAATTTAATCTTTTAAAAATTATAAAAATATAAATTATTAAA
66 TAAAAAATTTAATTTAATCTTTTAAAAACTATAAAAATATAAACTATTAAA
64153691 ATAATAAAAT
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
117 60 0.57
118 17 0.16
119 29 0.27
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATAA
TAAAAAATTTAATTTAATCTTTTAAAAACTATAAAAATATAAACTATTAAATTAG
Found at i:64153685 original size:15 final size:17
Alignment explanation
Indices: 64153664--64153704 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
64153654 TAATCTTTTA
64153664 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
64153680 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
64153696 AAAATTATA
1 AAAATTATA
64153705 TTTTTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:64156868 original size:27 final size:27
Alignment explanation
Indices: 64156838--64156891 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
64156828 ATCCCTATGA
64156838 ATCAAACGAGCAAGAAAGTGACCACTC
1 ATCAAACGAGCAAGAAAGTGACCACTC
64156865 ATCAAACGAGCAAGAAAGTGACCACTC
1 ATCAAACGAGCAAGAAAGTGACCACTC
64156892 TTCCGCTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (27 bp):
ATCAAACGAGCAAGAAAGTGACCACTC
Found at i:64158345 original size:20 final size:22
Alignment explanation
Indices: 64158322--64158364 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
64158312 AAAAACGATA
64158322 AAAAGAAAGG-AAAAG-ATGAG
1 AAAAGAAAGGTAAAAGCATGAG
* *
64158342 AAAATAGAGGTAAAAGCATGAG
1 AAAAGAAAGGTAAAAGCATGAG
64158364 A
1 A
64158365 GGAAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.60, C:0.02, G:0.28, T:0.09
Consensus pattern (22 bp):
AAAAGAAAGGTAAAAGCATGAG
Found at i:64160332 original size:48 final size:46
Alignment explanation
Indices: 64160219--64160336 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 46
64160209 TATGTGAGCC
*
64160219 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAAAGCT
* * * * *
64160265 ATTGTAAGATATGTCTGGGACATGTATCGAC-TTCGGGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATT-GAGA-AGA-AAGCT
* *
64160313 AGTGTAAGACCTGTATGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
64160337 GCGTCAACTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.03
46 31 0.53
47 2 0.03
48 24 0.41
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAAAGCT
Found at i:64161514 original size:28 final size:28
Alignment explanation
Indices: 64161474--64161537 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
64161464 CACGGGCTAA
*
64161474 GACACGAGCGTGTCATGGCCGTGTGAGG
1 GACACGAGCGTGTCATGGCAGTGTGAGG
*
64161502 GACACGGGCGTGTCATGGCAGTGTGAGG
1 GACACGAGCGTGTCATGGCAGTGTGAGG
*
64161530 GATACGAG
1 GACACGAG
64161538 TATGTGCCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.19, G:0.44, T:0.17
Consensus pattern (28 bp):
GACACGAGCGTGTCATGGCAGTGTGAGG
Found at i:64163169 original size:25 final size:25
Alignment explanation
Indices: 64163141--64163192 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
64163131 TGTATTGCTT
64163141 GCAAAAAGGCAAAATCAATGATCCA
1 GCAAAAAGGCAAAATCAATGATCCA
*
64163166 GCAAAAAGGCGAAATCAATGATCCA
1 GCAAAAAGGCAAAATCAATGATCCA
64163191 GC
1 GC
64163193 CACATGGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (25 bp):
GCAAAAAGGCAAAATCAATGATCCA
Found at i:64164441 original size:13 final size:13
Alignment explanation
Indices: 64164409--64164443 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
64164399 TGTTAAATGT
64164409 GCTTATTAATTAA
1 GCTTATTAATTAA
64164422 G-TCTATTAATTAA
1 GCT-TATTAATTAA
64164435 GCTTATTAA
1 GCTTATTAA
64164444 GTTGTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (13 bp):
GCTTATTAATTAA
Found at i:64165921 original size:21 final size:21
Alignment explanation
Indices: 64165883--64165932 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
64165873 TTAAGCAAAG
64165883 ATATAAAATTATTTAAAA-TAA
1 ATAT-AAATTATTTAAAAGTAA
*
64165904 ATATAAATTCTTTAAAAAGTAA
1 ATATAAATTATTT-AAAAGTAA
*
64165926 AAATAAA
1 ATATAAA
64165933 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATAAATTATTTAAAAGTAA
Found at i:64169607 original size:29 final size:29
Alignment explanation
Indices: 64169565--64169620 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
64169555 AAATTTCGAG
64169565 TCAAATTGAGTCGAGTTAACGAATCCTAC
1 TCAAATTGAGTCGAGTTAACGAATCCTAC
64169594 TCAAATTGAGTCGAGTTAACGAATCCT
1 TCAAATTGAGTCGAGTTAACGAATCCT
64169621 GTTATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (29 bp):
TCAAATTGAGTCGAGTTAACGAATCCTAC
Found at i:64170993 original size:31 final size:31
Alignment explanation
Indices: 64170956--64171016 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
64170946 AGAGGGGGAA
64170956 AAAGAAAACAAAATTCTTCCATTATTTTCTG
1 AAAGAAAACAAAATTCTTCCATTATTTTCTG
64170987 AAAGAAAACAAAATTCTTCCATTATTTTCT
1 AAAGAAAACAAAATTCTTCCATTATTTTCT
64171017 TTCAAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (31 bp):
AAAGAAAACAAAATTCTTCCATTATTTTCTG
Found at i:64171607 original size:11 final size:11
Alignment explanation
Indices: 64171593--64171622 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64171583 TGTTATTTTT
*
64171593 ATGAGTTTTGG
1 ATGAGCTTTGG
64171604 ATGAGCTTTGG
1 ATGAGCTTTGG
64171615 ATGAGCTT
1 ATGAGCTT
64171623 GAATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (11 bp):
ATGAGCTTTGG
Found at i:64174851 original size:55 final size:55
Alignment explanation
Indices: 64174736--64174852 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
64174726 CCACACGGGT
** ** *
64174736 GTGTGGGATTCTGGGCCAGGCTGTGTGATTCACACAACCAAGGCCATTTTAGGGC
1 GTGTGGGATTCTAAGCCAGGCCATGTGATCCACACAACCAAGGCCATTTTAGGGC
* * * *
64174791 ATGTGGGATTCTAAGCCAGGCCATGTGATCCATACAGCCAAGGCTATTTT-GGGCC
1 GTGTGGGATTCTAAGCCAGGCCATGTGATCCACACAACCAAGGCCATTTTAGGG-C
64174846 GTGTGGG
1 GTGTGGG
64174853 CCCACACGGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (55 bp):
GTGTGGGATTCTAAGCCAGGCCATGTGATCCACACAACCAAGGCCATTTTAGGGC
Found at i:64176177 original size:45 final size:45
Alignment explanation
Indices: 64176108--64176197 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
64176098 ATATACTTCA
*
64176108 CCACTTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
1 CCACCTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
*
64176153 CCACCTTGAGTTCGGGATCGGCTTTGGATACTAATTCAACGATCT
1 CCACCTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
64176198 GACTTTAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (45 bp):
CCACCTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
Found at i:64177590 original size:17 final size:17
Alignment explanation
Indices: 64177555--64177636 Score: 50
Period size: 15 Copynumber: 5.0 Consensus size: 17
64177545 AAATCTTTAA
*
64177555 TTCTCC-TTC-TTTTCG
1 TTCTCCTTTCTTTTTCT
64177570 TTCTCCTTTCTTTTTCT
1 TTCTCCTTTCTTTTTCT
* *
64177587 TTCT--ATTCTTTCTCT
1 TTCTCCTTTCTTTTTCT
*
64177602 GTT-TCGTTTCTTTGTTTCT
1 -TTCTCCTTTC-TT-TTTCT
*
64177621 TTC-CCTTTTTTTTTCT
1 TTCTCCTTTCTTTTTCT
64177637 ATTTTATTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
15 16 0.31
16 10 0.19
17 14 0.27
18 8 0.15
19 4 0.08
ACGTcount: A:0.01, C:0.26, G:0.05, T:0.68
Consensus pattern (17 bp):
TTCTCCTTTCTTTTTCT
Found at i:64177606 original size:21 final size:19
Alignment explanation
Indices: 64177575--64177622 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
64177565 TTTCGTTCTC
64177575 CTTTCTTTTTC-TTTCTATT
1 CTTTCTTTTTCGTTTCT-TT
64177594 CTTTCTCTGTTTCGTTTCTTT
1 CTTTCT-T-TTTCGTTTCTTT
*
64177615 GTTTCTTT
1 CTTTCTTT
64177623 CCCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.02, C:0.21, G:0.06, T:0.71
Consensus pattern (19 bp):
CTTTCTTTTTCGTTTCTTT
Found at i:64177671 original size:5 final size:5
Alignment explanation
Indices: 64177661--64177719 Score: 77
Period size: 5 Copynumber: 12.2 Consensus size: 5
64177651 ATTCTTTAAT
* * *
64177661 TATAA TATAA TATAA TATAA TATAA TACAA TACAA TACAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
64177711 T-T-A TATAA T
1 TATAA TATAA T
64177720 TATATTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 46 0.92
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (5 bp):
TATAA
Found at i:64184567 original size:16 final size:16
Alignment explanation
Indices: 64184533--64184569 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
64184523 AATTTTATTT
**
64184533 TAATAATAAATTTTTA
1 TAATAATAAATTTAAA
64184549 TAATAATAAATTTAAA
1 TAATAATAAATTTAAA
64184565 TAATA
1 TAATA
64184570 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATAAATTTAAA
Found at i:64185941 original size:29 final size:29
Alignment explanation
Indices: 64185899--64185957 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
64185889 TCCGACATTG
64185899 GTATGTCGGGAGGCGGTCAATAATCCGTC
1 GTATGTCGGGAGGCGGTCAATAATCCGTC
64185928 GTATGTCGGGAGGCGGTCAATAATCCGTC
1 GTATGTCGGGAGGCGGTCAATAATCCGTC
64185957 G
1 G
64185958 GGACGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (29 bp):
GTATGTCGGGAGGCGGTCAATAATCCGTC
Found at i:64191364 original size:25 final size:25
Alignment explanation
Indices: 64191336--64191385 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
64191326 ATGTAAATTT
64191336 TAAA-TATTTTTAAAAATAATTAATA
1 TAAATTATTTTTAAAAATAA-TAATA
*
64191361 TAAATTATTTTTAAAATTAATAATA
1 TAAATTATTTTTAAAAATAATAATA
64191386 CATGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAATTATTTTTAAAAATAATAATA
Found at i:64191397 original size:26 final size:26
Alignment explanation
Indices: 64191340--64191400 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
64191330 AAATTTTAAA
*
64191340 TATTTTTAAAAATAATTAATATAAAT
1 TATTTTTAAAAATAATTAATACAAAT
* *
64191366 TATTTTTAAAATTAA-TAATACATGAT
1 TATTTTTAAAAATAATTAATACA-AAT
64191392 T-TTTTTAAA
1 TATTTTTAAA
64191401 GTTTAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
TATTTTTAAAAATAATTAATACAAAT
Found at i:64196926 original size:37 final size:38
Alignment explanation
Indices: 64196870--64196948 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
64196860 AATTGAAACT
64196870 TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
1 TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
*
64196908 TTTC-AAAATAATTTCACTCTCTTCCTCCCCATAATTC
1 TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
64196945 TTTC
1 TTTC
64196949 TTCTGATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.41
Consensus pattern (38 bp):
TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
Found at i:64199553 original size:31 final size:31
Alignment explanation
Indices: 64199509--64199578 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
64199499 AACGGTCAGT
** *
64199509 GACCAAAAGAGAAAACTTCAAATATTTGGGC
1 GACCAAAAGAGAAAAAGTCAAATAGTTGGGC
* *
64199540 GACC-AAAGAAGAAAAAGTCAAGTAGTTGGGT
1 GACCAAAAG-AGAAAAAGTCAAATAGTTGGGC
64199571 GACCAAAA
1 GACCAAAA
64199579 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 4 0.12
31 25 0.78
32 3 0.09
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.16
Consensus pattern (31 bp):
GACCAAAAGAGAAAAAGTCAAATAGTTGGGC
Found at i:64200617 original size:42 final size:41
Alignment explanation
Indices: 64200548--64200791 Score: 312
Period size: 42 Copynumber: 5.9 Consensus size: 41
64200538 TGTAAAACAA
* ****
64200548 AGAGCAATAGCGGCGTTTTAACAAAAACGCCGCTAAAAA-C
1 AGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
* * *
64200588 AGAGCAATAGCGGCGTTTTTTTGTTAAAACACCGCTAAAAA-C
1 AGAGCATTAGCGGCG--TTTTTGGTAAAACGCCGCTAAAAACC
* *
64200630 AGAACAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
*
64200671 AGAGCATTAGCGGCGCTTTTGGTAAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGTTTTTGGT-AAAACGCCGCTAAAAACC
* *
64200713 AGAGCATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAACC
1 AGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
* *
64200754 AGAGCATTTGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAA
64200792 GTCATATAAC
Statistics
Matches: 186, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
40 37 0.20
41 74 0.40
42 75 0.40
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
AGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
Found at i:64200682 original size:41 final size:41
Alignment explanation
Indices: 64200548--64200791 Score: 314
Period size: 41 Copynumber: 5.9 Consensus size: 41
64200538 TGTAAAACAA
***
64200548 AGAGCAATAGCGGCG-TTTTAACAAAAACGCCGCTAAAAA-C
1 AGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAACC
* * *
64200588 AGAGCAATAGCGGCGTTTTTTTGTTAAAACACCGCTAAAAA-C
1 AGAGCAATAGCGGCG--CTTTTGGTAAAACGCCGCTAAAAACC
* *
64200630 AGAACAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
64200671 AGAGCATTAGCGGCGCTTTTGGTAAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAACC
* *
64200713 AGAGCATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
64200754 AGAGCATTTGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
64200792 GTCATATAAC
Statistics
Matches: 186, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
40 37 0.20
41 74 0.40
42 71 0.38
43 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:64200735 original size:83 final size:81
Alignment explanation
Indices: 64200571--64200791 Score: 318
Period size: 83 Copynumber: 2.7 Consensus size: 81
64200561 CGTTTTAACA
* * * *
64200571 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTTGTTAAAACACCGCTAAAAACAGAAC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTTGGTAAAACGCCGCTAAAAACAGAAC
*
64200635 AATAGCGGCGTTTTTGGT
64 AATAGCGGCGCTTTTGGT
*
64200653 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAAACGCCGCTAAAAACCAGAGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAA-CAGAAC
*
64200718 ATTAGCGGCGCTTTTGGT
64 AATAGCGGCGCTTTTGGT
* *
64200736 AAAACGCTGCTAAAAACCAGAGCATTTGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
64200792 GTCATATAAC
Statistics
Matches: 127, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
81 6 0.05
82 46 0.36
83 75 0.59
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAACAA
TAGCGGCGCTTTTGGT
Found at i:64201118 original size:22 final size:21
Alignment explanation
Indices: 64201093--64201147 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
64201083 ATTTTAAGTT
*
64201093 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
64201115 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
64201136 TCTAT-GATTAAG
1 T-TATGGATTAAG
64201148 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.24, C:0.02, G:0.35, T:0.40
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:64201128 original size:15 final size:15
Alignment explanation
Indices: 64201092--64201124 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64201082 TATTTTAAGT
*
64201092 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
64201107 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
64201121 TTTA
1 TTTA
64201125 AGGGTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:64201298 original size:14 final size:14
Alignment explanation
Indices: 64201281--64201319 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
64201271 ATCATTATAG
*
64201281 TTTAGGGTTTATTA
1 TTTAGGGTTTATGA
*
64201295 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
64201309 TTAAGGGTTTA
1 TTTAGGGTTTA
64201320 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:64201810 original size:19 final size:19
Alignment explanation
Indices: 64201766--64201810 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
64201756 AACAACATTG
* *
64201766 ATAACAAATAAAAATGACAT
1 ATAA-AAATAAAAATAAAAT
*
64201786 ACAAAAATAAAAATAAAAT
1 ATAAAAATAAAAATAAAAT
64201805 ATAAAA
1 ATAAAA
64201811 TAGAGATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAT
Found at i:64207391 original size:42 final size:42
Alignment explanation
Indices: 64207319--64207480 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 42
64207309 GGTTATATTT
* * * *
64207319 TTTAGCGGCGTTGATGTG-AAAATCGTCGCTAATGGTC-TGTTC
1 TTTAGCGGCGTT--TGTGAAAAAACGCCGCTAAAGGTCATGGTC
* * *
64207361 TATAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAA-CGCCGCTAAAGGTCATGGTC
* *
64207404 TTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGT-GAAAAAACGCCGCTAAAGGTCATGGTC
*
64207447 TTTAGCGGCGTTTGCGAGAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTGTGA-AAAAACGCCGCTAAAG
64207481 ACAAGGACCT
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
40 4 0.04
41 4 0.04
42 22 0.22
43 64 0.64
44 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAAAAAACGCCGCTAAAGGTCATGGTC
Found at i:64207418 original size:43 final size:42
Alignment explanation
Indices: 64207319--64207501 Score: 165
Period size: 43 Copynumber: 4.3 Consensus size: 42
64207309 GGTTATATTT
* * ** *
64207319 TTTAGCGGCGTTGATGTG-AAAATCGTCGCTAATGGTC-TGTTC
1 TTTAGCGGCGTT--TGTGAAAAAACGCCGCTAAAAGTCATGGTC
* *
64207361 TATAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAA-CGCCGCTAAAAGTCATGGTC
* * *
64207404 TTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGT-GAAAAAACGCCGCTAAAAGTCATGGTC
* * * *
64207447 TTTAGCGGCGTTTGCGAGAAAAACGCCGCT-AAAGACAAGGACC
1 TTTAGCGGCGTTTGTGA-AAAAACGCCGCTAAAAGTCATGG-TC
64207490 TTTAGCGGCGTT
1 TTTAGCGGCGTT
64207502 GCATATAGCG
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
40 4 0.03
41 4 0.03
42 29 0.25
43 73 0.63
44 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAAAAAACGCCGCTAAAAGTCATGGTC
Found at i:64207493 original size:86 final size:86
Alignment explanation
Indices: 64207319--64207501 Score: 203
Period size: 86 Copynumber: 2.1 Consensus size: 86
64207309 GGTTATATTT
* * * * * *
64207319 TTTAGCGGCG-TTGATGTGAAAATCGTCGCTAATGGTCTGTTCTATAGCGGCGTTTGTGAAAAAA
1 TTTAGCGGCGTTTGATGGGAAAAACGCCGCTAAAGGTCTGGTCTATAGCGGCGTTTGCGAAAAAA
* * * *
64207383 GTGCCGCTAAAAGTCATGGTC
66 GCGCCGCTAAAAGACAAGGCC
* *
64207404 TTTAGCAGCGTTTG-TGGGAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAA
1 TTTAGCGGCGTTTGATGGGAAAAACGCCGCTAAAGGTC-TGGTCTATAGCGGCGTTTGCGA-AAA
64207468 AA-CGCCGCT-AAAGACAAGGACC
64 AAGCGCCGCTAAAAGACAAGG-CC
64207490 TTTAGCGGCGTT
1 TTTAGCGGCGTT
64207502 GCATATAGCG
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
85 36 0.44
86 40 0.49
87 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (86 bp):
TTTAGCGGCGTTTGATGGGAAAAACGCCGCTAAAGGTCTGGTCTATAGCGGCGTTTGCGAAAAAA
GCGCCGCTAAAAGACAAGGCC
Found at i:64215701 original size:20 final size:20
Alignment explanation
Indices: 64215676--64215715 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64215666 TGTCATTAAG
64215676 TTAACAAAAACTTCACAAAC
1 TTAACAAAAACTTCACAAAC
64215696 TTAACAAAAACTTCACAAAC
1 TTAACAAAAACTTCACAAAC
64215716 ACGCTGAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (20 bp):
TTAACAAAAACTTCACAAAC
Found at i:64222087 original size:31 final size:29
Alignment explanation
Indices: 64222019--64222075 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
64222009 TTTAATGTAT
* *
64222019 AATTGTATATATAAATTTTAATTTTATGC
1 AATTTTATATATAAATTTTAATTTGATGC
*
64222048 AATTTTATATATAAAGTTTTGATTTGAT
1 AATTTTATATATAAA-TTTTAATTTGAT
64222076 TTAATTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.53
Consensus pattern (29 bp):
AATTTTATATATAAATTTTAATTTGATGC
Found at i:64225367 original size:42 final size:40
Alignment explanation
Indices: 64225321--64225411 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
64225311 AGATTTCCAT
* * *
64225321 ATTATTTTTGAATTTTGAAATTTTGGACTTTATTTAGATAAA
1 ATTATTTTTG-AGTTT-AAATTTTGAACTTTAATTAGATAAA
* * *
64225363 ATTATTTTTGGGTTTAGATTTTTAACTTTAATTAGATAAA
1 ATTATTTTTGAGTTTAAATTTTGAACTTTAATTAGATAAA
*
64225403 ATTTTTTTT
1 ATTATTTTT
64225412 ATGTTTCTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 29 0.69
41 3 0.07
42 10 0.24
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (40 bp):
ATTATTTTTGAGTTTAAATTTTGAACTTTAATTAGATAAA
Found at i:64229165 original size:13 final size:11
Alignment explanation
Indices: 64229134--64229163 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
64229124 GACAGATTTC
64229134 TTAAAAATATT
1 TTAAAAATATT
64229145 TTAAAAATATT
1 TTAAAAATATT
64229156 TTATAAAA
1 TTA-AAAA
64229164 ATTGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:64229626 original size:14 final size:14
Alignment explanation
Indices: 64229599--64229677 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
64229589 TGAATATTTT
* *
64229599 TAATAATATGTAAA
1 TAATATTATTTAAA
64229613 TAATATTATTTAAA
1 TAATATTATTTAAA
* *
64229627 AAATTATTATTAAAA
1 TAA-TATTATTTAAA
*
64229642 TAAAATTGAACTATTAAA
1 TAATATT--A-T-TTAAA
*
64229660 TAAT-TTATTAAAA
1 TAATATTATTTAAA
64229673 TAATA
1 TAATA
64229678 AATTATATTA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
13 8 0.16
14 18 0.36
15 13 0.26
16 1 0.02
17 3 0.06
18 7 0.14
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.41
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:64229698 original size:16 final size:16
Alignment explanation
Indices: 64229653--64229701 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
64229643 AAAATTGAAC
64229653 TATTAAATAATTTATTA
1 TATT-AATAATTTATTA
**
64229670 -A--AATAATAAATTA
1 TATTAATAATTTATTA
64229683 TATTAATAATTTATTA
1 TATTAATAATTTATTA
64229699 TAT
1 TAT
64229702 GACTTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
16 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAATAATTTATTA
Found at i:64239344 original size:39 final size:39
Alignment explanation
Indices: 64239290--64239367 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
64239280 TTTTTTGATT
64239290 TCTCTAAATGTTAGGGTCAAGTTGTAAATATAAAAAATA
1 TCTCTAAATGTTAGGGTCAAGTTGTAAATATAAAAAATA
*
64239329 TCTCTAAACT-TTAGGGTCAAGTTGTAAATATGAAAAATA
1 TCTCTAAA-TGTTAGGGTCAAGTTGTAAATATAAAAAATA
64239368 ATGACCCATG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (39 bp):
TCTCTAAATGTTAGGGTCAAGTTGTAAATATAAAAAATA
Found at i:64239613 original size:17 final size:16
Alignment explanation
Indices: 64239560--64239617 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
64239550 TAATCACTTT
64239560 AATATTAAATT-AATA
1 AATATTAAATTAAATA
* *
64239575 AA-ATGATATTAAGATA
1 AATATTAAATTAA-ATA
*
64239591 AGTATTAAATTAAATTA
1 AATATTAAATTAAA-TA
64239608 AATATTAAAT
1 AATATTAAAT
64239618 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
16 5 0.15
17 19 0.58
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
AATATTAAATTAAATA
Found at i:64240881 original size:16 final size:17
Alignment explanation
Indices: 64240853--64240888 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
64240843 AAATCACACC
64240853 ATTAATGTCACAAATGA
1 ATTAATGTCACAAATGA
64240870 ATTAAT-TCACAAATGA
1 ATTAATGTCACAAATGA
64240886 ATT
1 ATT
64240889 TAGAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (17 bp):
ATTAATGTCACAAATGA
Found at i:64249608 original size:56 final size:56
Alignment explanation
Indices: 64249522--64249697 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
64249512 ACAAGGGATG
*
64249522 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
64249578 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
64249634 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
64249690 ATGGGCAA
1 ATGGGCAA
64249698 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:64250913 original size:40 final size:40
Alignment explanation
Indices: 64250823--64251047 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
64250813 TCGAATGATG
* * * *
64250823 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64250863 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64250903 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64250942 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64250982 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64251023 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64251048 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64251069 original size:119 final size:119
Alignment explanation
Indices: 64250823--64251080 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
64250813 TCGAATGATG
* *
64250823 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
64250888 GTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
64250942 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
64251005 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
64251062 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64251081 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:64263072 original size:48 final size:47
Alignment explanation
Indices: 64263016--64263113 Score: 169
Period size: 48 Copynumber: 2.1 Consensus size: 47
64263006 TTCGCCAATT
*
64263016 AAGCACAAATACAAGGAAAACACTTGAACGAATAAAAACATACAATGA
1 AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAA-ATACAATGA
*
64263064 AAGCACAAATACAAGGAAAACACTTAAATGAATAAAAAATACAATGA
1 AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
64263111 AAG
1 AAG
64263114 TTCACAAGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 12 0.25
48 36 0.75
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.13
Consensus pattern (47 bp):
AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
Found at i:64263686 original size:17 final size:18
Alignment explanation
Indices: 64263664--64263703 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
64263654 CGATAAAAAT
64263664 TTTATG-GGTATTGATAC
1 TTTATGAGGTATTGATAC
64263681 TTTATGAAAGGTATTGATAC
1 TTTATG--AGGTATTGATAC
64263701 TTT
1 TTT
64263704 TTGTAAGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
20 14 0.70
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (18 bp):
TTTATGAGGTATTGATAC
Found at i:64265775 original size:18 final size:18
Alignment explanation
Indices: 64265761--64265798 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
64265751 GATCACATGT
64265761 CCGTGTACTATCACACGG
1 CCGTGTACTATCACACGG
64265779 CCGTGTACTATCACACGG
1 CCGTGTACTATCACACGG
64265797 CC
1 CC
64265799 TACCATACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (18 bp):
CCGTGTACTATCACACGG
Found at i:64267843 original size:14 final size:14
Alignment explanation
Indices: 64267824--64267861 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
64267814 TCATACGGGT
64267824 TAATAAAAAAAGAA
1 TAATAAAAAAAGAA
* *
64267838 TAATAAAAATATAA
1 TAATAAAAAAAGAA
64267852 T-ATAAAAAAA
1 TAATAAAAAAA
64267862 TAGGCAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
TAATAAAAAAAGAA
Found at i:64277592 original size:14 final size:12
Alignment explanation
Indices: 64277563--64277597 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
64277553 TTTAAAATTT
64277563 TTTTATTTTTTA
1 TTTTATTTTTTA
64277575 TTTTATGTTTTTA
1 TTTTAT-TTTTTA
64277588 CTTTTATTTT
1 -TTTTATTTT
64277598 ATTTTAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:64277991 original size:20 final size:20
Alignment explanation
Indices: 64277968--64278007 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
64277958 AGCTCATTCA
*
64277968 TCATTCAGGGAGTTTCACTT
1 TCATTCAGGAAGTTTCACTT
*
64277988 TCATTTAGGAAGTTTCACTT
1 TCATTCAGGAAGTTTCACTT
64278008 CTCTCCCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (20 bp):
TCATTCAGGAAGTTTCACTT
Found at i:64283601 original size:40 final size:38
Alignment explanation
Indices: 64283518--64283605 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 38
64283508 GTCCAACCCA
*
64283518 ACACACCATGTAGGGATAAAATCGACCCACCTATCCCT
1 ACACACCATATAGGGATAAAATCGACCCACCTATCCCT
* * *
64283556 GCACACCATATATGGGGATAAAATCGACCCGTCC-ATCCTT
1 ACACACCATATA--GGGATAAAATCGACCC-ACCTATCCCT
64283596 ACACACCATA
1 ACACACCATA
64283606 AGGTACTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 10 0.24
40 30 0.71
41 2 0.05
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (38 bp):
ACACACCATATAGGGATAAAATCGACCCACCTATCCCT
Found at i:64285664 original size:18 final size:18
Alignment explanation
Indices: 64285641--64285680 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
64285631 AACTCCGAAA
*
64285641 CCAAAACTCGTCGGTCAC
1 CCAAAACTCGTCGCTCAC
*
64285659 CCAAAACTCGTTGCTCAC
1 CCAAAACTCGTCGCTCAC
64285677 CCAA
1 CCAA
64285681 CTCAGTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.12, T:0.17
Consensus pattern (18 bp):
CCAAAACTCGTCGCTCAC
Found at i:64290777 original size:40 final size:40
Alignment explanation
Indices: 64290718--64290805 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
64290708 ATCCAACCCA
*
64290718 ACACACCATGTA--GGGATAAAATCGACCCACCCATCCCT
1 ACACACCATATATGGGGATAAAATCGACCCACCCATCCCT
* ** *
64290756 GCACACCATATATGGGGATAAAATCGACCCGTCCATTCCT
1 ACACACCATATATGGGGATAAAATCGACCCACCCATCCCT
64290796 ACACACCATA
1 ACACACCATA
64290806 AGGTACTGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 10 0.24
40 32 0.76
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (40 bp):
ACACACCATATATGGGGATAAAATCGACCCACCCATCCCT
Found at i:64292785 original size:8 final size:8
Alignment explanation
Indices: 64292774--64292806 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
64292764 AATTTAGCCC
64292774 TCACATTT
1 TCACATTT
64292782 TCACATTT
1 TCACATTT
64292790 TCACATTT
1 TCACATTT
*
64292798 TAACATTT
1 TCACATTT
64292806 T
1 T
64292807 AGTCCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:64293821 original size:49 final size:48
Alignment explanation
Indices: 64293625--64293844 Score: 173
Period size: 49 Copynumber: 4.6 Consensus size: 48
64293615 AAATGTTATA
** * **
64293625 GATGCCATGTCCCAGACAGGTCTTACACCGGCTCTCACTTATCTTTGTT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTGTGCC
* * * * **
64293674 GATGCCATGTCCCAGACAGGTCTTACGCTA--ACACAC-CTC-AAGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTGTGCC
* * * * *
64293718 AATGCCATGTCCTAAACAGGTCTTACACTAGCT-TGCA-TATCTTGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTATC-TG-TGCC
64293767 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTGTGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTGTGCC
* * * *
64293816 CATGCCCTATCCCAGACAGATCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
64293845 GACACACATT
Statistics
Matches: 132, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
44 27 0.20
45 2 0.02
46 4 0.03
47 4 0.03
49 88 0.67
50 3 0.02
51 4 0.03
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTGTGCC
Found at i:64304459 original size:129 final size:128
Alignment explanation
Indices: 64304212--64304662 Score: 618
Period size: 129 Copynumber: 3.5 Consensus size: 128
64304202 AACGAAAAAC
* ** * * * * * * *
64304212 CGAAACCCAACACGGTAGGACACGATTCCTCGAATTTCCAAACATTGAACATTGCCTCGCTTTAG
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
* * *
64304277 CATTTAG-AAAACACGAGCAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGGAAAT
66 CATTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-GGGAAAT
** * *
64304340 CGAAACCCAGCACAATAGGGCACTATTCCCTAAATTTCTAAACATCGAATATTGCCTTGTTTTAA
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
* *
64304405 CATTTGGAAAAACACGAGTAAAATTCTAAAGGAGTATTCGATTATTTTAAACAAACGGGAAAT
66 CATTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
* * * *
64304468 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCTAAACATCAAATATTGCATTGTTTTAG
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
*
64304533 CGTTTGGAAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
66 CATTTGG-AAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
* *
64304597 CGAAACCCAGCACAATAGGGCCCTATTCCCCGCATTTCCAAACATC-AGATATTGCCTTTGTTTT
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGA-ATATTGCC-TTGTTTT
64304661 AG
64 AG
64304663 TGAATCTTCA
Statistics
Matches: 286, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
128 130 0.45
129 147 0.51
130 9 0.03
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (128 bp):
CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
CATTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
Found at i:64306743 original size:21 final size:21
Alignment explanation
Indices: 64306702--64306743 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
64306692 CGTGGCGCGT
*
64306702 GTACGAGGGCCGTGTGCTGGC
1 GTACGAGGGCCGTGGGCTGGC
*
64306723 GTACG-GGGGCGTGGGCGTGGC
1 GTACGAGGGCCGTGGGC-TGGC
64306744 TGTGGCGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.07, C:0.21, G:0.55, T:0.17
Consensus pattern (21 bp):
GTACGAGGGCCGTGGGCTGGC
Found at i:64307003 original size:16 final size:16
Alignment explanation
Indices: 64306982--64307014 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64306972 ATGGACTTTA
64306982 TATTTTGGTTTTT-TTT
1 TATTTT-GTTTTTGTTT
64306998 TATTTTGTTTTTGTTT
1 TATTTTGTTTTTGTTT
64307014 T
1 T
64307015 TGGATTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (16 bp):
TATTTTGTTTTTGTTT
Found at i:64307596 original size:176 final size:176
Alignment explanation
Indices: 64307328--64308063 Score: 894
Period size: 176 Copynumber: 4.2 Consensus size: 176
64307318 TGTGATTTTT
* * * * *
64307328 AGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCTCACCGTCTTTGATCTATTCCACTGCAACTTC
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
* * *
64307393 TA-GGAGGCAAGATCTGCAATCTTCAGCCCGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
66 -AGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
*
64307457 TTCGATTTGCTCCACTACTATTTAGGGAGGCAAGATCTACAATCTTC
130 TTCGATTTGCTCCACTACTATTTAGGGAGACAAGATCTACAATCTTC
** *
64307504 ATTCTGTTACCCTACTACTTAGAGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
* **
64307569 AGGGAGACAAGATCGGCAATCTTCAGCCTATTACCCTACTACTTAGTAGGTTAAGGCTTGCTTCT
66 AGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCT
* * *
64307634 TCGATTTTCTCCACTACTATTTAGGGGGACAAGATCTACAATCTTT
131 TCGATTTGCTCCACTACTATTTAGGGAGACAAGATCTACAATCTTC
* **
64307680 AGCCTGTTA-CC--CTACTTAGGGGGTTAAGGGTCGTTGTCTTTGATCTGTTCCACTGCAGCTTC
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
* *
64307742 AGAGAGAAAAGATCTGG-AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
66 AGGGAGACAAGATC-GGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
* * * *
64307806 TTTGATTTGCTCCACTACTGTTTAGGGAGACAAGATTTACAATCTTT
130 TTCGATTTGCTCCACTACTATTTAGGGAGACAAGATCTACAATCTTC
* * * ** * * **
64307853 AGCCTATTACCCTACTACTTAAGGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACT--ATTATT
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCA-GCTT
* * ** * * * * *
64307916 TAGGGAGACAATATCTACAATCTTAAGCCTGTTACCTTACTACTTAGGGGGTTAAAGCTCGCCAT
65 CAGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG-CTT
* * * * * *
64307981 CTTTGATCTGTTCCACT-GTAACTTCAGGGAGACAAGATCTGCAATCTTC
129 CTTCGATTTGCTCCACTACT-A-TTTAGGGAGACAAGATCTACAATCTTC
*
64308030 AGCCTATTACCCTACTACTTAGGGGGTTAAGGCT
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCT
64308064 TGCTTCTTCA
Statistics
Matches: 486, Mismatches: 64, Indels: 19
0.85 0.11 0.03
Matches are distributed among these distances:
173 153 0.31
174 5 0.01
175 56 0.12
176 216 0.44
177 56 0.12
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (176 bp):
AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
AGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCT
TCGATTTGCTCCACTACTATTTAGGGAGACAAGATCTACAATCTTC
Found at i:64308265 original size:64 final size:64
Alignment explanation
Indices: 64308163--64308353 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
64308153 CTGTATGGCT
* *
64308163 ATGCTTATGTCAAATGACTAGGATGCTATG-CTCAAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGAC-CAAAATGAATTAAATGCTCCTAACTAGATGTG
*
64308227 ATGCTTATGTCAAATAATTAGGATGCTATGACCGAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGACCAAAATGAATTAAATGCTCCTAACTAGATGTG
* * *
64308291 ATGCTTATGTTAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGTCAAATAATTAGGATGCTATGACCAAAATGAATTAAATGCTCCTAACTAGATGT
64308354 ATTATGAATG
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
64 118 0.99
65 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGACCAAAATGAATTAAATGCTCCTAACTAGATGTG
Found at i:64310117 original size:13 final size:13
Alignment explanation
Indices: 64310101--64310125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64310091 TGGCATCTTT
64310101 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
64310114 TTTTTGTTTTTT
1 TTTTTGTTTTTT
64310126 TTATATATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:64310733 original size:90 final size:91
Alignment explanation
Indices: 64310576--64310760 Score: 347
Period size: 90 Copynumber: 2.1 Consensus size: 91
64310566 GAGCTAGGCT
*
64310576 TTGA-TCTTTACCTCTTTTCTTCTCTTAGGTTCGCGATGTCCATTGCCCCTTTTTAAGGTAGGAT
1 TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCGCGATGTCCATTGCCCCTTTGTAAGGTAGGAT
64310640 CTATTTCTCATCTTGTTCTACCAT-C
66 CTATTTCTCATCTTGTTCTACCATCC
64310665 TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCGCGATGTCCATTGCCCCTTTGTAAGGTAGGAT
1 TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCGCGATGTCCATTGCCCCTTTGTAAGGTAGGAT
64310730 CTATTTCTCATCTTGTTCTACCATCC
66 CTATTTCTCATCTTGTTCTACCATCC
64310756 TTGAC
1 TTGAC
64310761 AAATAAGGAG
Statistics
Matches: 93, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
89 4 0.04
90 83 0.89
91 6 0.06
ACGTcount: A:0.15, C:0.26, G:0.14, T:0.45
Consensus pattern (91 bp):
TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCGCGATGTCCATTGCCCCTTTGTAAGGTAGGAT
CTATTTCTCATCTTGTTCTACCATCC
Found at i:64314080 original size:128 final size:128
Alignment explanation
Indices: 64313827--64314276 Score: 686
Period size: 128 Copynumber: 3.5 Consensus size: 128
64313817 AACAAAAAAC
* * * * * * * *
64313827 CGAAACCCAGAACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTCGCTTTAG
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
* * ** * *
64313892 CATTTAG-AAAACACGAGCGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGGGGAAAT
66 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-GGGAAAT
*
64313955 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGTCTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
64314020 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
66 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
*
64314083 CGAAACCCAGCACGATAAGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
*
64314148 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGGAAAT
66 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
* * * *
64314211 CGAAACCCAGCACGATAGGGCCCTATTCCCTGCATTTCCAAACATCGGATATTGCCTTTGTTTTA
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCC-TTGTTTTA
64314276 G
65 G
64314277 TGAATCTTCT
Statistics
Matches: 297, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
128 244 0.82
129 53 0.18
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (128 bp):
CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
Found at i:64326505 original size:24 final size:24
Alignment explanation
Indices: 64326478--64326527 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
64326468 TGGTTTAGGG
*
64326478 TTAGGGTTTAGTGGTTTAAG-GTTT
1 TTAGGGTTGAG-GGTTTAAGTGTTT
*
64326502 TTAGGGTTGAGGGTTTTAGTGTTT
1 TTAGGGTTGAGGGTTTAAGTGTTT
64326526 TT
1 TT
64326528 TAAGGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (24 bp):
TTAGGGTTGAGGGTTTAAGTGTTT
Found at i:64326910 original size:126 final size:125
Alignment explanation
Indices: 64326647--64326911 Score: 415
Period size: 126 Copynumber: 2.1 Consensus size: 125
64326637 ATTAACTATT
* *
64326647 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTG
1 AATTACGGAAAAAAACTCCCACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTG
* * * *
64326712 AGAAGATGTTCTGGAACGAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
66 AGAAGATGTTCTGGAACAAACAATGTCAAAAACGCTTCAAGAAGGATGCACTGTCAACAA
** *
64326772 AATTACATAAAAAAACTCCTACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAACTCCCACATGGACGCTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTT
*
64326837 GAGAAGATGTTTCT-GAACAAACAATGTCAAAAATGCTTCAAGAAGGATGCACTGTCAACAA
65 GAGAAGATG-TTCTGGAACAAACAATGTCAAAAACGCTTCAAGAAGGATGCACTGTCAACAA
64326898 AATTACGGAAAAAA
1 AATTACGGAAAAAA
64326912 GCTCGTCCTT
Statistics
Matches: 126, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
125 47 0.37
126 75 0.60
127 4 0.03
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (125 bp):
AATTACGGAAAAAAACTCCCACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTG
AGAAGATGTTCTGGAACAAACAATGTCAAAAACGCTTCAAGAAGGATGCACTGTCAACAA
Found at i:64330001 original size:38 final size:39
Alignment explanation
Indices: 64329959--64330040 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
64329949 CCAAAAATAT
* *
64329959 TAAAAA-TATTGCCGT-ATTCAAAATAACATTTATTTTAA
1 TAAAAATTATTGCC-TAATTCAAAAGAACATTTATTGTAA
* * *
64329997 TAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTAT
1 TAAAAATTATTGCCTAATTCAAAAGAACATTTATTGTAA
64330036 TAAAA
1 TAAAA
64330041 TTAAAAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 7 0.19
39 30 0.81
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (39 bp):
TAAAAATTATTGCCTAATTCAAAAGAACATTTATTGTAA
Found at i:64330118 original size:15 final size:15
Alignment explanation
Indices: 64330098--64330129 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64330088 TATTAATTAA
*
64330098 AACTATATAAATAAT
1 AACTATAAAAATAAT
64330113 AACTATAAAAATAAT
1 AACTATAAAAATAAT
64330128 AA
1 AA
64330130 AATATTGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AACTATAAAAATAAT
Found at i:64330298 original size:130 final size:129
Alignment explanation
Indices: 64329994--64330373 Score: 599
Period size: 128 Copynumber: 2.9 Consensus size: 129
64329984 ACATTTATTT
* * *
64329994 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
* *
64330059 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAATAATAACTATAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAA-AATAAATATAAAAA
* *
64330124 TAAT--AAAATATTGGCAAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAT
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
64330187 AATTAAAATATTAAAAA-AACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAA-TAAATATAAAAA
* *
64330251 TAATAAAAAAATATTGCCTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAAAGTAAAGT
1 TAAT-AAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATT-AAAAAAAGTAAAGT
64330316 ACAATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAA-AAAT
64 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAATAAAT
64330374 TCTACAAATA
Statistics
Matches: 232, Mismatches: 11, Indels: 14
0.90 0.04 0.05
Matches are distributed among these distances:
126 2 0.01
127 46 0.20
128 71 0.31
130 48 0.21
131 34 0.15
132 31 0.13
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (129 bp):
TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATAAATATAAAAA
Found at i:64330499 original size:21 final size:22
Alignment explanation
Indices: 64330474--64330526 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
64330464 TGGTTCAGCT
*
64330474 TCCGGCGAGGG-TTGTGGTTGC
1 TCCGGCGAGGGATTGTGGTTCC
*
64330495 TCCGGTG-GGGATTGTGGTTCC
1 TCCGGCGAGGGATTGTGGTTCC
64330516 TCCGGCAGAGG
1 TCCGGC-GAGG
64330527 ATCTGGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 1 0.04
23 2 0.08
ACGTcount: A:0.08, C:0.21, G:0.45, T:0.26
Consensus pattern (22 bp):
TCCGGCGAGGGATTGTGGTTCC
Found at i:64332651 original size:11 final size:10
Alignment explanation
Indices: 64332620--64332670 Score: 57
Period size: 11 Copynumber: 4.7 Consensus size: 10
64332610 TTAACAAAAA
64332620 TTGAGAGAAAT
1 TTGAGAG-AAT
64332631 TTGAGAGAAT
1 TTGAGAGAAT
64332641 TTGGAGAGAAT
1 TT-GAGAGAAT
*
64332652 TTAGATAGAAT
1 TT-GAGAGAAT
64332663 TGTGAGAG
1 T-TGAGAG
64332671 GACTATTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.14
11 29 0.83
12 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:64332669 original size:22 final size:21
Alignment explanation
Indices: 64332620--64332670 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
64332610 TTAACAAAAA
64332620 TTGAGAGAAATTTGAGAGAAT
1 TTGAGAGAAATTTGAGAGAAT
*
64332641 TTG-GAGAGAATTTAGATAGAAT
1 TTGAGAGA-AATTT-GAGAGAAT
64332663 TGTGAGAG
1 T-TGAGAG
64332671 GACTATTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 8 0.32
23 2 0.08
24 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (21 bp):
TTGAGAGAAATTTGAGAGAAT
Found at i:64333847 original size:26 final size:26
Alignment explanation
Indices: 64333818--64333910 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
64333808 CTTGAACCGA
64333818 TGTTTATTTAGCAGGCATTGAGCCAG
1 TGTTTATTTAGCAGGCATTGAGCCAG
* *
64333844 TG-TTATTTAGTAGGCCTTGAGCC-G
1 TGTTTATTTAGCAGGCATTGAGCCAG
* *
64333868 ATGTTTATTTAGCAGGCTTTGAGCAAG
1 -TGTTTATTTAGCAGGCATTGAGCCAG
* * *
64333895 TGATTAATTAGTAGGC
1 TGTTTATTTAGCAGGC
64333911 TTTAACCCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.02
25 21 0.38
26 33 0.59
27 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.37
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCATTGAGCCAG
Found at i:64333882 original size:51 final size:52
Alignment explanation
Indices: 64333801--64333910 Score: 168
Period size: 51 Copynumber: 2.1 Consensus size: 52
64333791 ATATTGGAAA
* * *
64333801 AGTAAGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCCAGTG-TTATTT
1 AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCAAGTGATTAATT
* *
64333852 AGTAGGCCTTGAGCCGATGTTTATTTAGCAGGCTTTGAGCAAGTGATTAATT
1 AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCAAGTGATTAATT
64333904 AGTAGGC
1 AGTAGGC
64333911 TTTAACCCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 41 0.77
52 12 0.23
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (52 bp):
AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCAAGTGATTAATT
Found at i:64333931 original size:52 final size:51
Alignment explanation
Indices: 64333822--64333935 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 51
64333812 AACCGATGTT
* * * * * * *
64333822 TATTTAGCAGGCATTGAGCCAGTGTTATTTAGTAGGCCTTGAGCCGATGTT
1 TATTTAGCAGGCATTGAGCAAGTGTTAATTAGTAGGCCTTAACCCAATATA
* *
64333873 TATTTAGCAGGCTTTGAGCAAGTGATTAATTAGTAGGCTTTAACCCAATATA
1 TATTTAGCAGGCATTGAGCAAGTG-TTAATTAGTAGGCCTTAACCCAATATA
64333925 TATTTAGCAGG
1 TATTTAGCAGG
64333936 TACTATGTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 22 0.42
52 31 0.58
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (51 bp):
TATTTAGCAGGCATTGAGCAAGTGTTAATTAGTAGGCCTTAACCCAATATA
Found at i:64335546 original size:19 final size:19
Alignment explanation
Indices: 64335522--64335561 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
64335512 TGTGCTATTG
*
64335522 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
64335541 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
64335560 TA
1 TA
64335562 CACAATTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:64337009 original size:9 final size:9
Alignment explanation
Indices: 64336995--64337020 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
64336985 AGAACTCATG
64336995 TTTTGCAAC
1 TTTTGCAAC
64337004 TTTTGCAAC
1 TTTTGCAAC
64337013 TTTTGCAA
1 TTTTGCAA
64337021 TTTAGTCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (9 bp):
TTTTGCAAC
Found at i:64344498 original size:30 final size:30
Alignment explanation
Indices: 64344462--64344523 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
64344452 GAGAGACTAA
64344462 GTAAGCCTTCTTCCAGATGATGAATGAGTG
1 GTAAGCCTTCTTCCAGATGATGAATGAGTG
*
64344492 GTAAGCCTTCTTCTAGATGATGAATGAGTG
1 GTAAGCCTTCTTCCAGATGATGAATGAGTG
64344522 GT
1 GT
64344524 TTACAGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (30 bp):
GTAAGCCTTCTTCCAGATGATGAATGAGTG
Found at i:64352236 original size:79 final size:81
Alignment explanation
Indices: 64352096--64352280 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
64352086 TTGAATGATG
*
64352096 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
64352160 TGTGCGAGGTACTA-A
66 TGTGCGAGGTACTATA
* * * * **
64352175 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
64352237 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGGTACTATA
* * *
64352255 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64352281 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGGTACTATA
Found at i:64352287 original size:40 final size:40
Alignment explanation
Indices: 64352099--64352280 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
64352089 AATGATGTCC
* * * * *
64352099 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCT
* * * *
64352139 GGACTAAGAT-CCGAAGGCATTTGTGCGAGGTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCT
64352179 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
*
64352218 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCT
*
64352258 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
64352281 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
Found at i:64352302 original size:79 final size:79
Alignment explanation
Indices: 64352149--64352313 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
64352139 GGACTAAGAT
* **
64352149 CCGAAGGCATTTGTGCGAGGTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGGTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
64352214 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
64352228 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGGTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
64352291 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
64352307 CCGAAGG
1 CCGAAGG
64352314 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGGTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:64354950 original size:19 final size:21
Alignment explanation
Indices: 64354917--64354956 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
64354907 GTCCCCTGTA
*
64354917 GTTTGAAAAATTTTC-TAAGT
1 GTTTCAAAAATTTTCTTAAGT
64354937 GTTTCAAAAA-TTTCTTAAGT
1 GTTTCAAAAATTTTCTTAAGT
64354957 TATCGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (21 bp):
GTTTCAAAAATTTTCTTAAGT
Found at i:64360896 original size:49 final size:51
Alignment explanation
Indices: 64360840--64360977 Score: 208
Period size: 49 Copynumber: 2.7 Consensus size: 51
64360830 TAGCCAAAGC
*
64360840 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* * * *
64360889 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
*
64360940 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACAC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAC
64360978 TTGTGACCTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 40 0.51
50 3 0.04
51 36 0.46
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (51 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
Found at i:64363152 original size:9 final size:9
Alignment explanation
Indices: 64363131--64363163 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
64363121 GTGTTAATCA
64363131 AAATTAA-T
1 AAATTAATT
*
64363139 AAATTGATT
1 AAATTAATT
64363148 AAATTAATT
1 AAATTAATT
64363157 AAATTAA
1 AAATTAA
64363164 GCAACCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AAATTAATT
Found at i:64367410 original size:17 final size:17
Alignment explanation
Indices: 64367388--64367423 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64367378 AATCCTAATT
*
64367388 AAACTAAATAAAAATAA
1 AAACTAAACAAAAATAA
*
64367405 AAACTAACCAAAAATAA
1 AAACTAAACAAAAATAA
64367422 AA
1 AA
64367424 TAAGTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACTAAACAAAAATAA
Found at i:64378625 original size:47 final size:47
Alignment explanation
Indices: 64378596--64378856 Score: 414
Period size: 47 Copynumber: 5.6 Consensus size: 47
64378586 ATATATGAGC
* * *
64378596 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
** * *
64378643 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
64378690 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
64378737 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
64378784 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
64378831 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
64378857 CGTGGAAGTG
Statistics
Matches: 201, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 201 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:64378663 original size:94 final size:94
Alignment explanation
Indices: 64378565--64378876 Score: 455
Period size: 94 Copynumber: 3.3 Consensus size: 94
64378555 TTAGGATTTT
* ** * *
64378565 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* **
64378630 TGCATTTGTGTGCTAAGGCCGAATGGAAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
64378659 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
64378724 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
*
64378753 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
64378818 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
64378847 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
64378877 GGGAAGCCGA
Statistics
Matches: 195, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
94 192 0.98
95 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:64378806 original size:22 final size:22
Alignment explanation
Indices: 64378778--64378853 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
64378768 ACATGTATAT
64378778 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
64378800 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
64378822 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
64378847 ATGTGAT
1 ATGTGAT
64378854 GAACGTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:64378890 original size:47 final size:47
Alignment explanation
Indices: 64378565--64378876 Score: 383
Period size: 47 Copynumber: 6.6 Consensus size: 47
64378555 TTAGGATTTT
* ** * * *
64378565 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * **
64378612 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
64378659 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
64378706 ATGTGATGAGTGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
64378753 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
64378800 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
64378847 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
64378877 GGGAAGCCGA
Statistics
Matches: 240, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 237 0.99
48 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:64384440 original size:69 final size:68
Alignment explanation
Indices: 64384275--64384445 Score: 202
Period size: 69 Copynumber: 2.5 Consensus size: 68
64384265 GTTTAACGCT
* * * * *
64384275 TAAGACCATAGCTCTATTATGGCAACTAATAGAGTCTAATGGGATAGTAAACATGATGATTTTAA
1 TAAGACCATAGCTCAACTATGGCAAC-AATAAAGTCTAATGGGATAGTAAACAAGAGGATTTTAA
64384340 AGTG
65 AGTG
* * *
64384344 TAAGACCATAGCTCAGCTATGGCAACAAATAAAGTCTATTGGGATAGTAAACACAG-GGA-TTTC
1 TAAGACCATAGCTCAACTATGGCAAC-AATAAAGTCTAATGGGATAGTAAACA-AGAGGATTTTA
64384407 AAGCTG
64 AAG-TG
**
64384413 TAAGACCATAGCTCAACTATGAAAACAATAAAG
1 TAAGACCATAGCTCAACTATGGCAACAATAAAG
64384446 CCCGCCAGGA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 13 0.15
69 74 0.84
70 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (68 bp):
TAAGACCATAGCTCAACTATGGCAACAATAAAGTCTAATGGGATAGTAAACAAGAGGATTTTAAA
GTG
Found at i:64386065 original size:19 final size:19
Alignment explanation
Indices: 64386043--64386080 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
64386033 AAGTATAAAA
* *
64386043 AAAATATAAAAGAGAAATT
1 AAAACATAAAAAAGAAATT
64386062 AAAACATAAAAAAGAAATT
1 AAAACATAAAAAAGAAATT
64386081 CCTTTAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAACATAAAAAAGAAATT
Found at i:64388996 original size:20 final size:21
Alignment explanation
Indices: 64388950--64388996 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
64388940 AAGATGAGTA
*
64388950 AAAAC-TCTTGCAAAAAAAAT
1 AAAACATCTTGCAAAAAAAAC
* *
64388970 AAGACATCTT-CAAAATAAAC
1 AAAACATCTTGCAAAAAAAAC
64388990 AAAACAT
1 AAAACAT
64388997 TTTCCAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAACATCTTGCAAAAAAAAC
Found at i:64389139 original size:31 final size:31
Alignment explanation
Indices: 64389101--64389159 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
64389091 AACAATTTTA
* * *
64389101 CTCTTTTTGAAAGATTGATGGCCAAATTCAG
1 CTCTTTTTAAAAGATTAAAGGCCAAATTCAG
*
64389132 CTCTTTTTAAAAGCTTAAAGGCCAAATT
1 CTCTTTTTAAAAGATTAAAGGCCAAATT
64389160 GAAAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (31 bp):
CTCTTTTTAAAAGATTAAAGGCCAAATTCAG
Found at i:64391190 original size:46 final size:45
Alignment explanation
Indices: 64391132--64391299 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
64391122 CGTAGCCGCC
*
64391132 GCATGTCCCAAACATGTCTTACACTGGCTTACATCATGAGGCCGAT
1 GCATGTCCCAAACATGTCTTACACTAGCTT-CATCATGAGGCCGAT
* * * * *
64391178 GCATTTCCCAAACATGTCTTACACTAGCTTTCGTC-TCAATGTCGAT
1 GCATGTCCCAAACATGTCTTACACTAGC-TTCATCAT-GAGGCCGAT
* * * *
64391224 GCCATGTCCCAAATATGGTCTTACATTAGCTCTCATAATGTGGCCGAT
1 G-CATGTCCCAAACAT-GTCTTACACTAGCT-TCATCATGAGGCCGAT
*
64391272 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAAACATGTCTTACACTAGC
64391300 ACGTAAATAA
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 48 0.49
47 27 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (45 bp):
GCATGTCCCAAACATGTCTTACACTAGCTTCATCATGAGGCCGAT
Found at i:64398738 original size:13 final size:13
Alignment explanation
Indices: 64398720--64398746 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64398710 GCTCGGCAGG
64398720 GACACGCCCGTGT
1 GACACGCCCGTGT
64398733 GACACGCCCGTGT
1 GACACGCCCGTGT
64398746 G
1 G
64398747 CGATTGCTTA
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:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:64410768 original size:30 final size:28
Alignment explanation
Indices: 64410734--64410795 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 28
64410724 ATGGATTTAA
64410734 ATTATTTATTATTTAAGTAAATAGATATTT
1 ATTATTTATTA-TTAAGTAAA-AGATATTT
64410764 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTATTTATTATTAAGTAAAAGATATTT
64410792 ATTA
1 ATTA
64410796 ATTAAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 12 0.38
29 9 0.28
30 11 0.34
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (28 bp):
ATTATTTATTATTAAGTAAAAGATATTT
Done.