Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 19 of 313
Found at i:6323667 original size:18 final size:20
Alignment explanation
Indices: 6323644--6323683 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6323634 TGATATCCCC
6323644 ACAGGT-GTGT-TGGTTGGT
1 ACAGGTGGTGTCTGGTTGGT
6323662 ACAGGTGGTGTGCTGGTTGGT
1 ACAGGTGGTGT-CTGGTTGGT
6323683 A
1 A
6323684 TGGGATGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
21 9 0.47
ACGTcount: A:0.12, C:0.07, G:0.45, T:0.35
Consensus pattern (20 bp):
ACAGGTGGTGTCTGGTTGGT
Found at i:6325533 original size:27 final size:27
Alignment explanation
Indices: 6325503--6325726 Score: 223
Period size: 27 Copynumber: 8.3 Consensus size: 27
6325493 CAAAATAGGC
6325503 AAAATGACCGTAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
6325530 AAAATGATCGTAATGCCTCTATAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
** *
6325557 AAAATGGTCGTAATACCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* *
6325584 AAAATGACCATAATACCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* ** *
6325611 AAAATAATTGTAATGCCCTTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
** * * * *
6325638 AAAATTTCCATAATGCCCTTGTAAGAT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
6325665 AAAATGACCATAATACCCCTATAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * * *
6325692 AAAATGACAGTAATGCCCATGTATGCT
1 AAAATGACCGTAATGCCCCTGTAGGGT
6325719 AAAATGAC
1 AAAATGAC
6325727 GATTATGCCC
Statistics
Matches: 160, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AAAATGACCGTAATGCCCCTGTAGGGT
Found at i:6325638 original size:81 final size:82
Alignment explanation
Indices: 6325503--6325724 Score: 261
Period size: 81 Copynumber: 2.7 Consensus size: 82
6325493 CAAAATAGGC
* * * *
6325503 AAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATG-CCTCTATAGGGTAAAATGGT-C
1 AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCT-TGTAGGGTAAAATGGTCC
* * *
6325566 GTAATACCCCTGTAGGGT
65 ATAATACCCCTGTAAGAT
* * *
6325584 AAAATGACCATAATACCCCTGTAGGGTAAAATAATTGTAATGCCCTTGTAGGGTAAAAT-TTCCA
1 AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCTTGTAGGGTAAAATGGTCCA
* *
6325648 TAATGCCCTTGTAAGAT
66 TAATACCCCTGTAAGAT
* * * * *
6325665 AAAATGACCATAATACCCCTATAGGGTAAAATGACAGTAATGCCCATGTATGCTAAAATG
1 AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCTTGTAGGGTAAAATG
6325725 ACGATTATGC
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 116 0.97
82 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (82 bp):
AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCTTGTAGGGTAAAATGGTCCA
TAATACCCCTGTAAGAT
Found at i:6325896 original size:27 final size:27
Alignment explanation
Indices: 6325866--6325919 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6325856 AGGAAGTACT
*
6325866 ATACTGGTGACTATGTCACATTCACTG
1 ATACTGGTGACTATGCCACATTCACTG
* * *
6325893 ATACTGGTGGCTTTGCCACATTTACTG
1 ATACTGGTGACTATGCCACATTCACTG
6325920 TTTCTGGCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
ATACTGGTGACTATGCCACATTCACTG
Found at i:6342739 original size:28 final size:28
Alignment explanation
Indices: 6342707--6342773 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
6342697 GTAAGTCCGT
6342707 ACACTTAGTGCT-TA-ATAGTCAAACTCGC
1 ACACTTAGTGCTATACA-A-TCAAACTCGC
*
6342735 ACACTTAGTGCTATACAATTAAACTCGC
1 ACACTTAGTGCTATACAATCAAACTCGC
6342763 ACACTTAGTGC
1 ACACTTAGTGC
6342774 CAATCTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 32 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
ACACTTAGTGCTATACAATCAAACTCGC
Found at i:6350105 original size:48 final size:46
Alignment explanation
Indices: 6350027--6350195 Score: 141
Period size: 46 Copynumber: 3.6 Consensus size: 46
6350017 TTTGTGTGCT
* **
6350027 AGTGTAAGGCATGTCTTTGACAT-GCATCAGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCC-CATTATGAAAGCC
* * *
6350073 AGTGTAAGACCATGTCTGGGAGATGGCATCAG--CATTGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCCCATT-AT--GAAAGCC
* * * *
6350121 AGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGA-GAGGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCC-C-ATTATGAAAGCC
*
6350167 AGTGCAAGACATGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACATGGCATC
6350196 GGAATGGATA
Statistics
Matches: 98, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
45 4 0.04
46 42 0.43
47 28 0.29
48 22 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCCATTATGAAAGCC
Found at i:6350176 original size:46 final size:46
Alignment explanation
Indices: 6350068--6350195 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
6350058 CACATTATGA
* * *
6350068 AAGCCAGTGTAAGACCATGTCTGGGAGATGGCATCAGCATTGATACG
1 AAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGACG
* * * *
6350115 AGAGCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGAGAGG
1 A-AGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACG
*
6350161 TAAGCCAGTGCAAGACATGTCTGGGACATGGCATC
1 -AAGCCAGTGTAAGACATGTCTGGGACATGGCATC
6350196 GGAATGGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 37 0.54
47 19 0.28
48 12 0.18
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACG
Found at i:6358757 original size:45 final size:45
Alignment explanation
Indices: 6358621--6358757 Score: 147
Period size: 45 Copynumber: 3.1 Consensus size: 45
6358611 TATGAGGTGC
* * *
6358621 TTTTAT-ATGCTGCCATAGTGTCTTTCAGTTATGGTCTTACTTAA-
1 TTTTATCATGATGCCATAGTATCTTTCAGCTATGGTCTTAC-TAAT
* * *
6358665 TTCTATCATGATGCCATAGCATCATTT-AGCTATGGTCTTACTCAT
1 TTTTATCATGATGCCATAGTATC-TTTCAGCTATGGTCTTACTAAT
* *
6358710 TTTTATCATGGTGCCATAATATCTTTCAGCTATGGT-TTGACTAAT
1 TTTTATCATGATGCCATAGTATCTTTCAGCTATGGTCTT-ACTAAT
6358755 TTT
1 TTT
6358758 AGCTATATAG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
44 12 0.16
45 62 0.81
46 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (45 bp):
TTTTATCATGATGCCATAGTATCTTTCAGCTATGGTCTTACTAAT
Found at i:6362209 original size:9 final size:9
Alignment explanation
Indices: 6362191--6362219 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6362181 CATGTTTTGT
6362191 TTAA-TTAA
1 TTAAGTTAA
6362199 TTAAGTTAA
1 TTAAGTTAA
6362208 TTAAGTTAA
1 TTAAGTTAA
6362217 TTA
1 TTA
6362220 TTTATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TTAAGTTAA
Found at i:6364915 original size:40 final size:41
Alignment explanation
Indices: 6364856--6365247 Score: 433
Period size: 40 Copynumber: 9.8 Consensus size: 41
6364846 CATTTGAATG
* * *
6364856 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
6364896 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * * *
6364936 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
6364976 TTTTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * * *
6365016 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
6365056 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
6365096 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * * *
6365136 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
6365176 TTTTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
6365216 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
6365248 TTGTGGTTAT
Statistics
Matches: 288, Mismatches: 56, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.02
40 273 0.95
41 9 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:6365072 original size:120 final size:120
Alignment explanation
Indices: 6364856--6365247 Score: 511
Period size: 120 Copynumber: 3.3 Consensus size: 120
6364846 CATTTGAATG
* * * * * * * * *
6364856 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCCAGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGT
* * * * * * * * *
6364920 ATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
65 AATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* *
6364976 TTTTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTA
6365041 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
66 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
6365096 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTA
* *
6365161 ATTGTGCTAGTGATTTTTTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
66 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
6365216 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
6365248 TTGTGGTTAT
Statistics
Matches: 242, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
119 2 0.01
120 235 0.97
121 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTA
ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:6373025 original size:40 final size:41
Alignment explanation
Indices: 6372966--6373197 Score: 312
Period size: 40 Copynumber: 5.8 Consensus size: 41
6372956 CATTTGAATG
* *
6372966 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
6373006 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
6373046 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
6373086 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
6373126 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
6373166 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
6373198 TTGTGGTTAT
Statistics
Matches: 169, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 162 0.96
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:6373180 original size:120 final size:120
Alignment explanation
Indices: 6372966--6373217 Score: 427
Period size: 120 Copynumber: 2.1 Consensus size: 120
6372956 CATTTGAATG
* * *
6372966 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
6373031 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
6373086 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
6373150 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
6373206 ATATCC-GGCTAA
1 ATATCCGGGCTAA
6373218 ATTCCGAAGA
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
119 6 0.05
120 115 0.93
121 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:6373213 original size:80 final size:80
Alignment explanation
Indices: 6372966--6373197 Score: 349
Period size: 80 Copynumber: 2.9 Consensus size: 80
6372956 CATTTGAATG
*
6372966 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
6373031 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
6373046 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
6373111 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
6373126 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
6373190 AATTGTGC
65 ATTTGTGC
6373198 TTGTGGTTAT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 135 0.99
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:6382336 original size:18 final size:17
Alignment explanation
Indices: 6382296--6382336 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6382286 TTAACCTTAT
*
6382296 TATCTTATTTTAATTTT
1 TATCTTATTTTAATTTA
*
6382313 TTTCTTATTTTCAATTTA
1 TATCTTATTTT-AATTTA
6382331 TATCTT
1 TATCTT
6382337 TTAATTCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (17 bp):
TATCTTATTTTAATTTA
Found at i:6383627 original size:38 final size:35
Alignment explanation
Indices: 6383585--6383665 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 35
6383575 TTAAATTTCA
6383585 ATAAAAATATAAAAAAT-TAGAATTTTTTTATAAAAATC
1 ATAAAAATA-AAAAAATGTAGAA---TTTTATAAAAATC
*
6383623 ATAAAAATAAAAAATTGTAGAATTTTATAAAAATC
1 ATAAAAATAAAAAAATGTAGAATTTTATAAAAATC
6383658 ATACAAAA
1 ATA-AAAA
6383666 CTTAACGACC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 16 0.40
36 4 0.10
37 6 0.15
38 14 0.35
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (35 bp):
ATAAAAATAAAAAAATGTAGAATTTTATAAAAATC
Found at i:6383890 original size:18 final size:17
Alignment explanation
Indices: 6383870--6383958 Score: 65
Period size: 19 Copynumber: 5.0 Consensus size: 17
6383860 TATAAAATTC
6383870 TATAATTTTTTATATTT
1 TATAATTTTTTATATTT
*
6383887 CTAT-ATATTTTATAACTTT
1 -TATAATTTTTTAT-A-TTT
* *
6383906 TATGATTTTTATAAAATTT
1 TATAATTTTT-T-ATATTT
*
6383925 TACAATTTTTATATATTT
1 TATAATTTTT-TATATTT
*
6383943 TATTA-TTTTTATATTT
1 TATAATTTTTTATATTT
6383959 GTTTTCTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
16 7 0.12
17 12 0.21
18 15 0.26
19 21 0.36
20 2 0.03
21 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (17 bp):
TATAATTTTTTATATTT
Found at i:6383949 original size:8 final size:9
Alignment explanation
Indices: 6383870--6383958 Score: 64
Period size: 9 Copynumber: 10.0 Consensus size: 9
6383860 TATAAAATTC
6383870 TATA-ATTT
1 TATATATTT
*
6383878 TTTATATTT
1 TATATATTT
6383887 CTATATATTT
1 -TATATATTT
6383897 TATA-ACTTT
1 TATATA-TTT
6383906 TATGAT-TTT
1 TAT-ATATTT
*
6383915 TATAAAATTT
1 TAT-ATATTT
*
6383925 TACA-ATTTT
1 TATATA-TTT
6383934 TATATATTT
1 TATATATTT
6383943 TAT-TATTT
1 TATATATTT
6383951 T-TATATTT
1 TATATATTT
6383959 GTTTTCTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
7 1 0.02
8 16 0.24
9 34 0.52
10 15 0.23
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TATATATTT
Found at i:6383997 original size:61 final size:58
Alignment explanation
Indices: 6383917--6384030 Score: 133
Period size: 61 Copynumber: 1.9 Consensus size: 58
6383907 ATGATTTTTA
* *
6383917 TAAAATTTTACAATTTTTAT-ATATTTTATT-ATTTTTATATTTGTTTTCTAATTTTTAATAT
1 TAAAATTTAACAATATTTATGAT-TTTTATTGA-TTTTA-A-TT-TTTTCTAATTTTTAATAT
* *
6383978 TAAAATTTAATAATATTTATGGTTTTTATTGATTTTAATTTTTTCTAATTTTT
1 TAAAATTTAACAATATTTATGATTTTTATTGATTTTAATTTTTTCTAATTTTT
6384031 TTTATAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
58 13 0.28
59 2 0.04
60 1 0.02
61 29 0.62
62 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (58 bp):
TAAAATTTAACAATATTTATGATTTTTATTGATTTTAATTTTTTCTAATTTTTAATAT
Found at i:6396313 original size:30 final size:29
Alignment explanation
Indices: 6396262--6396354 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
6396252 GGGTGACTAA
* * *
6396262 GTTGCTCACACAAGTCAACATTATATTAGG
1 GTTGCTCACACAAGT-GACATTATATCAAG
*
6396292 GTTGCTTACACAAGCTGACATTATATCAAG
1 GTTGCTCACACAAG-TGACATTATATCAAG
* * *
6396322 GTTACTCACACAAGATGAAATTATAACAAG
1 GTTGCTCACACAAG-TGACATTATATCAAG
6396352 GTT
1 GTT
6396355 ACCGTTCGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 52 0.98
31 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (29 bp):
GTTGCTCACACAAGTGACATTATATCAAG
Found at i:6400905 original size:22 final size:22
Alignment explanation
Indices: 6400877--6400919 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6400867 AGGGATTTAT
6400877 TTGTAAAGTGTTGAA-AAATGTG
1 TTGTAAAGTG-TGAATAAATGTG
6400899 TTGTAAAGTGTGAATAAATGT
1 TTGTAAAGTGTGAATAAATGT
6400920 AAAATGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (22 bp):
TTGTAAAGTGTGAATAAATGTG
Found at i:6404258 original size:43 final size:43
Alignment explanation
Indices: 6404157--6404264 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
6404147 GATTACCGAG
* * * *
6404157 ATGTGATTACATGCAAGACCATGTCTTGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGAT
* * * * *
6404200 ATATGTTTTCGTGTAAGACCATGTCTAGTACATTAGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGAT
*
6404243 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
6404265 ATCTGGGATA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGAT
Found at i:6406350 original size:43 final size:43
Alignment explanation
Indices: 6406302--6406385 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
6406292 AAATCTTACA
* * *
6406302 ATGCCAATGTGCCAGACGTGGTCTTACAT-GTAACCACATATGG
1 ATGCCAATGTCCCAGACATGGTCTTAC-TCGTAAACACATATGG
*
6406345 ATGCCATTGTCCCAGACATGGTCTTACTCGTAAACACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACTCGTAAACACATAT
6406386 CAAAATACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACTCGTAAACACATATGG
Found at i:6413455 original size:43 final size:43
Alignment explanation
Indices: 6413407--6413490 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
6413397 AAATTGTACA
*
6413407 ATGCCAATGTCCCAAAC-GTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTAC-TCGTAAACACATATCG
* *
6413450 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATAT
1 ATGCCAATGTCCCAAACAGGGTCTTACTCGTAAACACATAT
6413491 GAAAATCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACTCGTAAACACATATCG
Found at i:6415521 original size:11 final size:11
Alignment explanation
Indices: 6415502--6415538 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
6415492 GATGGAATTT
6415502 AAATG-GCATG
1 AAATGTGCATG
*
6415512 GAATGTGCATG
1 AAATGTGCATG
6415523 AAATGTGCATG
1 AAATGTGCATG
6415534 AAATG
1 AAATG
6415539 GTCATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (11 bp):
AAATGTGCATG
Found at i:6419047 original size:17 final size:17
Alignment explanation
Indices: 6419025--6419079 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 17
6419015 TAGGAGCTAG
*
6419025 TATCAATTTAATGCCCT
1 TATCAATGTAATGCCCT
6419042 TATCAAAATGTAATGCCCT
1 TATC--AATGTAATGCCCT
6419061 TATCAAAATGTAATGCCCT
1 TATC--AATGTAATGCCCT
6419080 GAATTTGGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 4 0.11
19 31 0.89
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (17 bp):
TATCAATGTAATGCCCT
Found at i:6419057 original size:19 final size:19
Alignment explanation
Indices: 6419033--6419079 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
6419023 AGTATCAATT
6419033 TAATGCCCTTATCAAAATG
1 TAATGCCCTTATCAAAATG
6419052 TAATGCCCTTATCAAAATG
1 TAATGCCCTTATCAAAATG
6419071 TAATGCCCT
1 TAATGCCCT
6419080 GAATTTGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (19 bp):
TAATGCCCTTATCAAAATG
Found at i:6421150 original size:27 final size:27
Alignment explanation
Indices: 6421106--6421209 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
6421096 AGAGCCCAGA
* * *
6421106 TTGTAAAGTCACTGAAATATCCCCGA-T
1 TTGTAAAATTACTAAAATA-CCCCGAGT
**
6421133 TTGTAAAATTACTAAAATACCCTTAGT
1 TTGTAAAATTACTAAAATACCCCGAGT
** *
6421160 TTGTAAAATTACCCAAATACCCTTGTAG-
1 TTGTAAAATTACTAAAATACCC-CG-AGT
*
6421188 -TGTAAAATTACCAAAATACCCC
1 TTGTAAAATTACTAAAATACCCC
6421210 TGTAGGGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.06
27 57 0.89
28 1 0.02
29 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCCGAGT
Found at i:6421213 original size:27 final size:27
Alignment explanation
Indices: 6421134--6421222 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
6421124 ATCCCCGATT
*
6421134 TGTAAAATTACTAAAATA-CCCT-TAG
1 TGTAAAATTACCAAAATACCCCTGTAG
* *
6421159 TTTGTAAAATTACCCAAATACCCTTGTAG
1 --TGTAAAATTACCAAAATACCCCTGTAG
6421188 TGTAAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
*
6421215 GGTAAAAT
1 TGTAAAAT
6421223 GACTATTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 48 0.89
28 3 0.06
29 3 0.06
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGTAG
Found at i:6421664 original size:33 final size:32
Alignment explanation
Indices: 6421626--6421714 Score: 96
Period size: 28 Copynumber: 2.8 Consensus size: 32
6421616 TAATTGCATT
* * *
6421626 ACACTGTACTAATACTGTATTGGGCTTAGGCCC
1 ACACTGTACT-ATACTGTATAGGGCTAAGACCC
6421659 ACACTGT--TAT--TGTATAGGGCTAAGACCC
1 ACACTGTACTATACTGTATAGGGCTAAGACCC
*
6421687 AGACTGTACTGATACTGTATAGGGCTAA
1 ACACTGTACT-ATACTGTATAGGGCTAA
6421715 AGCCCAGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
28 21 0.45
30 3 0.06
31 3 0.06
33 20 0.43
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (32 bp):
ACACTGTACTATACTGTATAGGGCTAAGACCC
Found at i:6421721 original size:33 final size:31
Alignment explanation
Indices: 6421628--6421722 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 31
6421618 ATTGCATTAC
* * *
6421628 ACTGTACTAATACTGTATTGGGCTTAGGCCCAC
1 ACTGTACT-ATACTGTATAGGGC-TAAGCCCAG
6421661 ACTGT--TAT--TGTATAGGGCTAAGACCCAG
1 ACTGTACTATACTGTATAGGGCTAAG-CCCAG
6421689 ACTGTACTGATACTGTATAGGGCTAAAGCCCAG
1 ACTGTACT-ATACTGTATAGGGCT-AAGCCCAG
6421722 A
1 A
6421723 TTGTTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
27 3 0.06
28 18 0.35
30 3 0.06
31 3 0.06
33 22 0.42
34 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (31 bp):
ACTGTACTATACTGTATAGGGCTAAGCCCAG
Found at i:6424623 original size:26 final size:27
Alignment explanation
Indices: 6424594--6424658 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
6424584 CGACCCCCAA
6424594 TTGTAAAATTACTAAAATACCCTAG-T
1 TTGTAAAATTACTAAAATACCCTAGAT
* *
6424620 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACTAAAATACCCTAGAT
6424647 TTGTAAAATTAC
1 TTGTAAAATTAC
6424659 CCAAATAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 23 0.64
27 13 0.36
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTAGAT
Found at i:6425812 original size:40 final size:41
Alignment explanation
Indices: 6425743--6425838 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
6425733 AACTATGTTC
6425743 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACA-AA
1 GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
* * * *
6425782 TGGCACTAAGTGTGCGAGTT-GGAATGGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
6425823 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
6425839 TACCGAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
Found at i:6426789 original size:43 final size:43
Alignment explanation
Indices: 6426707--6426789 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
6426697 GGGAAGTGTT
* *
6426707 GCTTAAACCAAGCCTAATTTCATCCCATACGGTTCAGCATGTG
1 GCTTAAACCAAGCCTAATTTCATCCCACACGATTCAGCATGTG
* * *
6426750 GCTTAAACCAAGCCTATTTTTA-CCTCACACGATTGAGCAT
1 GCTTAAACCAAGCCTAATTTCATCC-CACACGATTCAGCAT
6426790 ACGGGCGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (43 bp):
GCTTAAACCAAGCCTAATTTCATCCCACACGATTCAGCATGTG
Found at i:6428985 original size:35 final size:34
Alignment explanation
Indices: 6428945--6429013 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
6428935 AATTGCTTTC
*
6428945 CTGCTGATTTGATGTTGTTACCATTTGACGAGTT
1 CTGCTGATTTGATGTTGTTACCATTTGACAAGTT
6428979 NCTGCTGATTTGATGTTGTTACCATTTGACAAGTT
1 -CTGCTGATTTGATGTTGTTACCATTTGACAAGTT
6429014 TGACATAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.43
Consensus pattern (34 bp):
CTGCTGATTTGATGTTGTTACCATTTGACAAGTT
Found at i:6433354 original size:39 final size:42
Alignment explanation
Indices: 6433269--6433363 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 42
6433259 GACTATGTTC
6433269 GGCACTAAGTGTGCG-GTTTGAAATAGCTTCGGCTATAAATGA
1 GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTAT-AATGA
*
6433311 --CACT-AGTGTGCGAG-TTGGAATAGCTTCGGCTAT-ATGA
1 GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTATAATGA
6433348 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
6433364 TACTGAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
37 4 0.08
39 30 0.62
40 14 0.29
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTATAATGA
Found at i:6441033 original size:14 final size:15
Alignment explanation
Indices: 6441014--6441045 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6441004 TTGCCTTTAT
6441014 TTTTCTA-GATTGAA
1 TTTTCTATGATTGAA
6441028 TTTTCTATGATTGAA
1 TTTTCTATGATTGAA
6441043 TTT
1 TTT
6441046 CCTGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTTCTATGATTGAA
Found at i:6446997 original size:10 final size:10
Alignment explanation
Indices: 6446982--6447008 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6446972 AAAAAGGTTG
6446982 ATATATACAT
1 ATATATACAT
6446992 ATATATACAT
1 ATATATACAT
6447002 ATATATA
1 ATATATA
6447009 TTTCTGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATACAT
Found at i:6448744 original size:28 final size:27
Alignment explanation
Indices: 6448686--6448836 Score: 212
Period size: 27 Copynumber: 5.5 Consensus size: 27
6448676 TAAATTGTGC
* * *
6448686 AGCACTAAGTGTGCGAATTGAATATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
6448713 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
6448741 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
6448768 AGCACTAAGTGTGCGAGTATGATTGTGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
6448796 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
6448823 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
6448837 AGACTTAATA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
27 64 0.56
28 50 0.44
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:6448751 original size:55 final size:55
Alignment explanation
Indices: 6448686--6448836 Score: 230
Period size: 55 Copynumber: 2.7 Consensus size: 55
6448676 TAAATTGTGC
* *
6448686 AGCACTAAGTGTGCGAATTGAATATATAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATATAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
6448741 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTGTGT
1 AGCACTAAGTGTGCGAGTTGAATATATAGCACTAAGTGTGCGAGTATGACTATGT
* *
6448796 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTGAATATATAGCACTAAGTGTGC
6448837 AGACTTAATA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATATAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:6451186 original size:41 final size:41
Alignment explanation
Indices: 6451141--6451255 Score: 103
Period size: 41 Copynumber: 2.7 Consensus size: 41
6451131 ATTTAATATA
*
6451141 TTATTGCTAGTATTATTATGTTTCTATTTATATTTAT-T-TT
1 TTATTGCTAATATTATTAT-TTTCTATTTATATTTATCTGTT
* *
6451181 GTTATT-CTAATACTATTATTTATCTAATTTTTATTTATCTGTT
1 -TTATTGCTAATATTATTATTT-TCT-ATTTATATTTATCTGTT
*
6451224 TATATTTG-TACTATTATTATATTTCTATTTAT
1 T-TA-TTGCTAATATTATTAT-TTTCTATTTAT
6451256 TATATTTCTA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
39 2 0.03
40 14 0.23
41 16 0.27
42 2 0.03
43 9 0.15
44 15 0.25
45 2 0.03
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (41 bp):
TTATTGCTAATATTATTATTTTCTATTTATATTTATCTGTT
Found at i:6451245 original size:17 final size:15
Alignment explanation
Indices: 6451223--6451287 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
6451213 ATTTATCTGT
*
6451223 TTATATTTGTACTATTA
1 TTATATTTCTA-T-TTA
6451240 TTATATTTCTATTTA
1 TTATATTTCTATTTA
6451255 TTATATTTCTA--T-
1 TTATATTTCTATTTA
*
6451267 TTCTATTTCTATTTA
1 TTATATTTCTATTTA
6451282 -TATATT
1 TTATATT
6451288 AATATTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 10 0.24
13 1 0.02
14 6 0.14
15 14 0.33
16 1 0.02
17 10 0.24
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:6451255 original size:12 final size:12
Alignment explanation
Indices: 6451240--6451284 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
6451230 TGTACTATTA
6451240 TTATATTTCTATTT
1 TTATATTTCTA--T
6451254 ATTATATTTCTAT
1 -TTATATTTCTAT
*
6451267 TTCTATTTCTAT
1 TTATATTTCTAT
6451279 TTATAT
1 TTATAT
6451285 ATTAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 16 0.57
13 1 0.04
15 11 0.39
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTTCTAT
Found at i:6451425 original size:3 final size:3
Alignment explanation
Indices: 6451419--6451451 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6451409 TATCATCGTC
6451419 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6451452 TAACTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6451662 original size:3 final size:3
Alignment explanation
Indices: 6451654--6451695 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
6451644 TGTTCGTTAC
* * *
6451654 TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6451696 CATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6451674 original size:9 final size:9
Alignment explanation
Indices: 6451649--6451693 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
6451639 TATATTGTTC
*
6451649 GTTACTATT
1 GTTATTATT
*
6451658 ATTATTATT
1 GTTATTATT
*
6451667 GTTGTTATT
1 GTTATTATT
*
6451676 ATTATTATT
1 GTTATTATT
6451685 GTTATTATT
1 GTTATTATT
6451694 ATCATTTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.64
Consensus pattern (9 bp):
GTTATTATT
Found at i:6451675 original size:18 final size:18
Alignment explanation
Indices: 6451649--6451695 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
6451639 TATATTGTTC
*
6451649 GTTACTATTATTATTATT
1 GTTATTATTATTATTATT
*
6451667 GTTGTTATTATTATTATT
1 GTTATTATTATTATTATT
6451685 GTTATTATTAT
1 GTTATTATTAT
6451696 CATTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (18 bp):
GTTATTATTATTATTATT
Found at i:6451676 original size:15 final size:15
Alignment explanation
Indices: 6451656--6451695 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
6451646 TTCGTTACTA
*
6451656 TTATTATTATTGTTG
1 TTATTATTATTATTG
6451671 TTATTATTATTATTG
1 TTATTATTATTATTG
6451686 TTATTATTAT
1 TTATTATTAT
6451696 CATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (15 bp):
TTATTATTATTATTG
Found at i:6457773 original size:65 final size:65
Alignment explanation
Indices: 6457660--6457790 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 65
6457650 ATTTTACCCA
*
6457660 TATTGAATTTACTATCTTTGATTACTTTATTCATTTCAAAATGCGCTCCCAATAAATTTCCTTCT
1 TATTGAATTTACTATCTTTGATTACTTTATTCATTTCAAAATACGCTCCCAATAAATTTCCTTCT
* ** * ** * *
6457725 TATTGCATTTACTATCTTTGATTAAC-TTATTTGTTTCGAGCTATGCTCCCAATTAATTTCCTTC
1 TATTGAATTTACTATCTTTGATT-ACTTTATTCATTTCAAAATACGCTCCCAATAAATTTCCTTC
6457789 T
65 T
6457790 T
1 T
6457791 TTCCATTGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 54 0.96
66 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (65 bp):
TATTGAATTTACTATCTTTGATTACTTTATTCATTTCAAAATACGCTCCCAATAAATTTCCTTCT
Found at i:6458258 original size:46 final size:46
Alignment explanation
Indices: 6458203--6458311 Score: 164
Period size: 46 Copynumber: 2.4 Consensus size: 46
6458193 TGAGGAAGCC
* * *
6458203 ACAAGTCCTATACCCTTGAGTTGTAGTGGGATGGATTGAAGAAGAT
1 ACAAATCCTATACCCCTGAGCTGTAGTGGGATGGATTGAAGAAGAT
* * *
6458249 AGAAATCCTATACCCCTGAGCTGTAGTGGGATGGATTGAAGATGGT
1 ACAAATCCTATACCCCTGAGCTGTAGTGGGATGGATTGAAGAAGAT
6458295 ACAAATCCTATACCCCT
1 ACAAATCCTATACCCCT
6458312 AAATTACATT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGCTGTAGTGGGATGGATTGAAGAAGAT
Found at i:6458325 original size:46 final size:46
Alignment explanation
Indices: 6458227--6458337 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
6458217 CTTGAGTTGT
* * * **
6458227 AGTGGGATGGATTGAAGAAGATAGAAATCCTATACCCCTGAGCTGT
1 AGTGGGATGGATTGAAGAAGATACAAATCCTATACCCCTAAACTAC
* * *
6458273 AGTGGGATGGATTGAAGATGGTACAAATCCTATACCCCTAAATTAC
1 AGTGGGATGGATTGAAGAAGATACAAATCCTATACCCCTAAACTAC
* *
6458319 ATTGGGATGGATGGAAGAA
1 AGTGGGATGGATTGAAGAA
6458338 ACCACAAATT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGGGATGGATTGAAGAAGATACAAATCCTATACCCCTAAACTAC
Found at i:6458979 original size:143 final size:143
Alignment explanation
Indices: 6458696--6459249 Score: 623
Period size: 143 Copynumber: 3.9 Consensus size: 143
6458686 ATAAATTTCT
*
6458696 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCT-CCTAAAGTTGCAGCGGA
1 TCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGCGGA
* * **
6458760 GTAGACTGAAGATAGCGGATCTTATTTCCCT-AACGTTGCA-CTGGAATTGATTAAAGCTACAAA
66 GCAGACTGAAGATAGCGGATCTTATTTCCCTGAA-GTTACAGC-GGAACAGATTAAAGCTACAAA
6458823 TTATGGCGAATCTTA
129 TTATGGCGAATCTTA
* * *
6458838 TCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGCGGA
* ** * * *
6458903 GCAGACTGATGATAGCAAATCTCATTTCCCTGAAGTTACAGCGGAACAGATTGATGCTACAAATT
66 GCAGACTGAAGATAGCGGATCTTATTTCCCTGAAGTTACAGCGGAACAGATTAAAGCTACAAATT
*
6458968 ATGGCGGATCTTA
131 ATGGCGAATCTTA
* ** * * * *
6458981 TCTTCCT-TAGTTGGGGTGGAA-TAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAG
1 TCTTCCTGAAGTTGCAGT-GAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGCGG
* * * * * * *
6459044 AACAGACTGAAGACAGTGGATCTTATTTCCCTGATGTTCCGGTGGAACAGATTAAAGCTACAAAT
65 AGCAGACTGAAGATAGCGGATCTTATTTCCCTGAAGTTACAGCGGAACAGATTAAAGCTACAAAT
*
6459109 TACGGCGAATCTTA
130 TATGGCGAATCTTA
* * * * *
6459123 TCTTCCTTAAGTTGCAGTGGAGTAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGTAGTGGA
1 TCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGCGGA
* * * * * * ** * * * *
6459188 GTAGATTAAAGATAGAGAATCTTGTTTCCCTGAAGACACAGAGAAATAGATTGAAGCTACAA
66 GCAGACTGAAGATAGCGGATCTTATTTCCCTGAAGTTACAGCGGAACAGATTAAAGCTACAA
6459250 GTCACAATCC
Statistics
Matches: 344, Mismatches: 62, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
142 164 0.48
143 177 0.51
144 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
TCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGCGGA
GCAGACTGAAGATAGCGGATCTTATTTCCCTGAAGTTACAGCGGAACAGATTAAAGCTACAAATT
ATGGCGAATCTTA
Found at i:6459218 original size:285 final size:284
Alignment explanation
Indices: 6458719--6459249 Score: 740
Period size: 285 Copynumber: 1.9 Consensus size: 284
6458709 GCAGTGGAGC
* ** *
6458719 AGATTGAAGCCACCAACCTTATCTCCTAAAGTTGCAGCGGAGTAGACTGAAGATAGCGGATCTTA
1 AGATTGAAGCCACCAACCTTATCTCCTAAAGTTGCAGCAGAACAGACTGAAGACAGCGGATCTTA
* ** *
6458784 TTTCCCTAACGTTGCACTGGAATTGATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAG
66 TTTCCCTAACGTTCCACTGGAACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTGAAG
* * * *
6458849 TTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGATG
131 TTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAG
** * * *
6458914 ATAGCAAATCTCATTTCCCTGAAGTTACAGCGGAACAGATTGATGCTACAAATTATGGCGGATCT
196 ATAGCAAATCTCATTTCCCTGAAGACACAGAGAAACAGATTGAAGCTACAAATTATGGCGGATCT
6458979 TATCTTCCTTAGTTGGGGTGGAAT
261 TATCTTCCTTAGTTGGGGTGGAAT
* * *
6459003 AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAACAGACTGAAGACAGTGGATCTT
1 AGATTGAAGCCACCAACCTTATCT-CCTAAAGTTGCAGCAGAACAGACTGAAGACAGCGGATCTT
* * ** *
6459068 ATTTCCCTGATGTTCCGGTGGAACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTTAA
65 ATTTCCCTAACGTTCCACTGGAACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTGAA
* * * * *
6459133 GTTGCAGTGGAGTAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTAAA
130 GTTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAA
** *
6459198 GATAG-AGAATCTTGTTTCCCTGAAGACACAGAGAAATAGATTGAAGCTACAA
195 GATAGCA-AATCTCATTTCCCTGAAGACACAGAGAAACAGATTGAAGCTACAA
6459250 GTCACAATCC
Statistics
Matches: 212, Mismatches: 33, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
284 24 0.11
285 188 0.89
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (284 bp):
AGATTGAAGCCACCAACCTTATCTCCTAAAGTTGCAGCAGAACAGACTGAAGACAGCGGATCTTA
TTTCCCTAACGTTCCACTGGAACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTGAAG
TTGCAGTGAAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAG
ATAGCAAATCTCATTTCCCTGAAGACACAGAGAAACAGATTGAAGCTACAAATTATGGCGGATCT
TATCTTCCTTAGTTGGGGTGGAAT
Found at i:6459455 original size:176 final size:176
Alignment explanation
Indices: 6459252--6459808 Score: 712
Period size: 176 Copynumber: 3.2 Consensus size: 176
6459242 AGCTACAAGT
** * * * * *
6459252 CACAATCCTTATCTCTTTGAAGTTGCAGTAGAGTAGGAAAATACACAAACTTTATCTCCTTAAAG
1 CACAATCCTTATCTCCCTCAAGTTGCAGTAGAGCAGGAAAATACACAAACCTTATCTCCCTGAAG
* * **
6459317 TTACAGTGGAGCAGGTTAAAATTACCAATTCTTATCTCCTTTAAGTTTCAGCAAAGTAGATCGAA
66 TTATAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTTTCAGCGGAGTAGATCGAA
* *
6459382 GCTACAAATCTCTTCTCCCTGAAACTACATTGGAG-AGGATCGAAGC
131 GCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCA-GATCGAAGA
* * * *
6459428 CACAATCCTTATTTCCCT-AATGTTGCAGTGGAGCCGGAAAATACAAAAACCTTATCTCCCTGAA
1 CACAATCCTTATCTCCCTCAA-GTTGCAGTAGAGCAGGAAAATACACAAACCTTATCTCCCTGAA
* * * * *
6459492 GTTTTAATGGAGCAGGTTGAAATTACCAATTCTTATCTCCCTAAAG-TTCTAGTGGAGTAGATCG
65 GTTATAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTTTC-AGCGGAGTAGATCG
* *
6459556 ACGCTACAAATCTCTTCTCTCTGAAATTACATTGGAGCAGATCGAAGA
129 AAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAAGA
** *
6459604 CGTAATCCTTATCTCCTTCAAGTTGCAGTAGAGCAGGAAAATACACAAACCTTATCTCCCTGAAG
1 CACAATCCTTATCTCCCTCAAGTTGCAGTAGAGCAGGAAAATACACAAACCTTATCTCCCTGAAG
* * * *
6459669 TTGTAGTGCAGCAGGTTGAAATTACCAATTCTTATCTTCTTTAAGTTCCAGCGGAGTAGATCGAA
66 TTATAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTTTCAGCGGAGTAGATCGAA
*
6459734 GCTACAAATCTCTTCTCCCTGAAATTACATTGGAGTA-ATTCGAAG-
131 GCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGA-TCGAAGA
* *
6459779 CTACAAGT-CTCATCTCCCTGAAGTTGCAGT
1 C-ACAA-TCCTTATCTCCCTCAAGTTGCAGT
6459809 GGATTAGAAC
Statistics
Matches: 327, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
175 7 0.02
176 314 0.96
177 6 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (176 bp):
CACAATCCTTATCTCCCTCAAGTTGCAGTAGAGCAGGAAAATACACAAACCTTATCTCCCTGAAG
TTATAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTTAAGTTTCAGCGGAGTAGATCGAA
GCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGAAGA
Found at i:6459546 original size:88 final size:87
Alignment explanation
Indices: 6459254--6459705 Score: 220
Period size: 88 Copynumber: 5.1 Consensus size: 87
6459244 CTACAAGTCA
** * * * * * *
6459254 CAATCCTTATCTCTTTGAAGTTGCAGTAGAGTAGGAAAATACACAAACTTTATCTCCTTAAAGTT
1 CAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGAAAATACA-AAACCTTATCTCCCTGAAGTT
* * *
6459319 ACAGTGGAGCAGGTTAAAATTAC
65 ATAATGGAGCAGGTTGAAATTAC
* * * * *** * ** *
6459342 CAATTCTTATCTCCTTTAAGTTTCAGCAAAGTAGATCGAAGCTAC-AAATCTCT-TCTCCCTGAA
1 CAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAG---GAAAATACAAAACCT-TATCTCCCTGAA
** * * * ***
6459405 ACTACATTGGAG-AGGATCGAAGCCA-
62 GTTATAATGGAGCAGG-TTGAAATTAC
* * *
6459430 CAATCCTTATTTCCCTAATGTTGCAGTGGAGCCGGAAAATACAAAAACCTTATCTCCCTGAAGTT
1 CAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGAAAATAC-AAAACCTTATCTCCCTGAAGTT
*
6459495 TTAATGGAGCAGGTTGAAATTAC
65 ATAATGGAGCAGGTTGAAATTAC
* * *** * *
6459518 CAATTCTTATCTCCCTAAAGTT-CTAGTGGAGTAGATCGACGCTAC-AAATCTCT-TCTCTCTGA
1 CAATCCTTATCTCCCTAAAGTTGC-AGTGGAGCAG---GAAAATACAAAACCT-TATCTCCCTGA
* * * * * *
6459580 AATTACATTGGAGCAGATCG-AA-GAC
61 AGTTATAATGGAGCAGGTTGAAATTAC
* * * *
6459605 GTAATCCTTATCTCCTTCAAGTTGCAGTAGAGCAGGAAAATACACAAACCTTATCTCCCTGAAGT
1 -CAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGAAAATACA-AAACCTTATCTCCCTGAAGT
* * *
6459670 TGTAGTGCAGCAGGTTGAAATTAC
64 TATAATGGAGCAGGTTGAAATTAC
*
6459694 CAATTCTTATCT
1 CAATCCTTATCT
6459706 TCTTTAAGTT
Statistics
Matches: 261, Mismatches: 81, Indels: 44
0.68 0.21 0.11
Matches are distributed among these distances:
85 11 0.04
86 2 0.01
87 56 0.21
88 124 0.48
89 55 0.21
90 2 0.01
91 11 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (87 bp):
CAATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGAAAATACAAAACCTTATCTCCCTGAAGTTA
TAATGGAGCAGGTTGAAATTAC
Found at i:6459826 original size:44 final size:44
Alignment explanation
Indices: 6459711--6459826 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
6459701 TATCTTCTTT
* * *
6459711 AAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTG
1 AAGTTACAGTGGAGTAGATCGAAGCTACAAATCTCATCTCCCTG
* * *
6459755 AAATTACATTGGAGTA-ATTCGAAGCTACAAGTCTCATCTCCCTG
1 AAGTTACAGTGGAGTAGA-TCGAAGCTACAAATCTCATCTCCCTG
* * * *
6459799 AAGTTGCAGTGGATTAGAACGAGGCTAC
1 AAGTTACAGTGGAGTAGATCGAAGCTAC
6459827 TTGAAGAAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 56 0.97
45 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
AAGTTACAGTGGAGTAGATCGAAGCTACAAATCTCATCTCCCTG
Found at i:6461115 original size:15 final size:14
Alignment explanation
Indices: 6461095--6461180 Score: 59
Period size: 15 Copynumber: 5.9 Consensus size: 14
6461085 TCTAATACTA
6461095 TTATTTATCTAATTT
1 TTATTTATCT-ATTT
6461110 TTATTTATCTATTT
1 TTATTTATCTATTT
* * *
6461124 ATATTTCTACTATTA
1 TTATTTAT-CTATTT
*
6461139 TTATATT-TCTGTTT
1 TTAT-TTATCTATTT
6461153 ATTATATT-TCTATTT
1 -TTAT-TTATCTATTT
* *
6461168 ATATTTATATATT
1 TTATTTATCTATT
6461181 AATATTATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
13 2 0.03
14 22 0.38
15 32 0.55
16 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (14 bp):
TTATTTATCTATTT
Found at i:6461144 original size:17 final size:16
Alignment explanation
Indices: 6461122--6461169 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
6461112 ATTTATCTAT
6461122 TTATATTTCTACTATTA
1 TTATATTTCTACT-TTA
*
6461139 TTATATTTCT-GTTTA
1 TTATATTTCTACTTTA
6461154 TTATATTTCTA-TTTA
1 TTATATTTCTACTTTA
6461169 T
1 T
6461170 ATTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 18 0.62
16 1 0.03
17 10 0.34
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATATTTCTACTTTA
Found at i:6461350 original size:27 final size:26
Alignment explanation
Indices: 6461320--6461370 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
6461310 ATCTTCATTA
*
6461320 CTATTATTATTATTTCTTTCTTTTTGC
1 CTATTATTATTATTTCATT-TTTTTGC
*
6461347 CTATTATTGTTATTTCATTTTTTT
1 CTATTATTATTATTTCATTTTTTT
6461371 ATACTTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.69
Consensus pattern (26 bp):
CTATTATTATTATTTCATTTTTTTGC
Found at i:6461407 original size:3 final size:3
Alignment explanation
Indices: 6461388--6461442 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
6461378 GAAAGACTTA
* * * **
6461388 TAT TAT TCAT TAC TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT TGC
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6461434 TAT TAT TAT
1 TAT TAT TAT
6461443 CGTTTTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6461422 original size:18 final size:18
Alignment explanation
Indices: 6461401--6461442 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6461391 TATTCATTAC
* *
6461401 TATTATTATTATTGTTGT
1 TATTATTATTATTGCTAT
6461419 TATTATTATTATTGCTAT
1 TATTATTATTATTGCTAT
6461437 TATTAT
1 TATTAT
6461443 CGTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.64
Consensus pattern (18 bp):
TATTATTATTATTGCTAT
Found at i:6461423 original size:15 final size:15
Alignment explanation
Indices: 6461403--6461485 Score: 68
Period size: 15 Copynumber: 5.7 Consensus size: 15
6461393 TTCATTACTA
6461403 TTATTATTATTGTTG
1 TTATTATTATTGTTG
*
6461418 TTATTATTATTATTG
1 TTATTATTATTGTTG
* *
6461433 CTATTATTATCGTT-
1 TTATTATTATTGTTG
**
6461447 TT-TT-TTATCATTG
1 TTATTATTATTGTTG
6461460 TTATT-TATATTGTTG
1 TTATTAT-TATTGTTG
6461475 TT-TTCATTATT
1 TTATT-ATTATT
6461486 ATTATTCTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
12 7 0.13
13 4 0.07
14 6 0.11
15 37 0.67
16 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.08, T:0.66
Consensus pattern (15 bp):
TTATTATTATTGTTG
Found at i:6461490 original size:27 final size:28
Alignment explanation
Indices: 6461393--6461491 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 28
6461383 ACTTATATTA
*
6461393 TTCATTACTATTA-TTATTATTGTTGTT
1 TTCATTATTATTATTTATTATTGTTGTT
* * *
6461420 ATT-ATTATTATTGCTATTATTATCGTTTTT
1 -TTCATTATTATT-AT-TTATTATTGTTGTT
* * *
6461450 TTTATCATTGTTATTTA-TATTGTTGTT
1 TTCATTATTATTATTTATTATTGTTGTT
6461477 TTCATTATTATTATT
1 TTCATTATTATTATT
6461492 CTGTCATGCA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
27 28 0.51
28 5 0.09
29 3 0.05
30 19 0.35
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.65
Consensus pattern (28 bp):
TTCATTATTATTATTTATTATTGTTGTT
Found at i:6464686 original size:956 final size:953
Alignment explanation
Indices: 6462401--6466503 Score: 5269
Period size: 957 Copynumber: 4.3 Consensus size: 953
6462391 TATTAAGACT
* * ** *
6462401 AATTGGGGAGATGTTTTGTCCTGGGCATCAGAATGGATGACACCTAGAAGATATG-GACATAGAT
1 AATTGGGGAGATGCTTTGTCTTGGGCATCAGAGCGGATGACTCCTAGAAGATA-GAGACATAGAT
* * * *
6462465 GTGACTGACCCGATTAATAGTACATCAGACTGGACCCAAGTAGAATAGATCCTGAAAT-CATTTA
65 GTGACTGACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCT-AAATCCATTTA
* * * ** * ** * *
6462529 TGGATCTATTCACTTGAGACATTTATAGAGTGACATATGTAAACCCTGAGTGGATGGCGGACTAT
129 TGGATCTATTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTAT
* * * * * * * *
6462594 GTATGTGTGACTTGAACACTTTGGTGTAAGTAAAAGCTTGAGTTCAAATAGGTAAAAAATTGAAA
194 GTATGCGTGACTCGTACACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGATACAAAA-TCAAA
* * * * * **
6462659 A-CTGGTGTGTTGGGTGTACGACTTCTATAGTGTGTAGCATCATTCACAATGGTGGAATTCATAG
258 AGCTGGTGCGTTGGCTGTACGACTTCTATAGTATGTAACGTCATTCACAATAATGGAATTCATAG
* *
6462723 CCCAAGATATGAGAAAATGATATCCTCTCATAAGCATTACATT-GTGATGAGAAGTAAATGTGGC
323 CCCAAGATATGAGAAAATGATATCCTCTCATAAGCATTACATTATTGATGAGAAGTAAACGTGGC
* * * * * *
6462787 CAGAGGTCATTCGTCTTTGTGATGGATAACTTGATTACTATTTAATAGTGATTGACTTTTCATAA
388 CAGGGGTCATTCATCTTTGTGATGGATGACTTGATCACTATTTGATAGTGATTGACTTTTCATGA
** * ** * *
6462852 ATGAAGGCGTAATGATTACCATAAGATAAAATATGATCATATTGGGAGAATGAATATTATCCCAA
453 ATGAAGATGTAATGATTACCATAAGATAAAATAGGATCATATTGGGAGAACAAATATCAGCCCAA
*
6462917 AGAGATCAATGATATACTATAAGGGTAACACACTTATGACAAGGTCAATGGATGAGCACTGAATA
518 AGAGATCAATGATATACTATGAGGGTAACACACTTATGACAAGGTCAATGGATGAGCACTGAATA
* * *
6462982 GTTGCTCTTGTAATGGTATGGCTTTAGGGAAAGCTCAGTCACGATACTTTAGTGGAATGCCTTCA
583 GTTGCTCTCGTAATGGTATGTCTTTAGGGAAAGCTCAGTCACGATACTTTAGTGGAAGGCCTTCA
*
6463047 TGACTAAATGAGTTTATAATTAATAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCCCT
648 TGACTAAATGAGTTTATAATTAATAGGCGAAAAGTTAAAACTTAATTATAAATCATTTAAGCCCT
* * * *
6463112 AATTACATATGTCCAATAGGTTCCTCCGCTAGGTCGTTGAAACCAAAAATGAATTGCGTGTTGAA
713 AATTACATATGTCCAATAGGTCCCTCCGCTAGCTCGTTGAAACC-TAAATGAATTG-ATG-TGAA
* * * *
6463177 TTGAAAATGAATAGAATGAATATAAATAGAGAAACGGAAAACATTCAAAAGTTATTACGGTTTTC
775 -T-AAAATGAATAGAATGAATATAAATAGAGAAACGGAAAACATTAAAAAATGATTATGGTTTTC
* *
6463242 TTTGAAATAGAGAAATGAAATCGTTTGGAAATGAATATGGTTTTCTCAAAATTGAAATGGAGATG
838 TTTGAAATAGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCAAAATTGAAATGGAGATG
* *
6463307 AAAAAGAAAATAAGGAATGATTCATTTGCAAATGTACATGGTTTACTCAAA
903 AAAAAGAAAATAAGAAATGATTCATTTGCAAATGTACATGGATTACTCAAA
* * * *
6463358 AATTGTGGAGATGCTTTGTCTTGGGCAACAGAGTGGATGACTCCTAGAAGATAGAGAGATAGATG
1 AATTGGGGAGATGCTTTGTCTTGGGCATCAGAGCGGATGACTCCTAGAAGATAGAGACATAGATG
* * * * * * * *
6463423 TGACTGACCAGATTAACAGTACATTAGATTGGAGCCAAGTAGAGTAGATCCTGAATTCTTTTGTG
66 TGACTGACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCTAAATCCATTTATG
*
6463488 GATCTATTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGAGTATGT
131 GATCTATTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTATGT
* *
6463553 ATGCGTGACTCGAACACTTTGATGTAAGTAAAAGCTTGAGTTTGAATAGATACAAAA-CTAAAAG
196 ATGCGTGACTCGTACACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGATACAAAATC-AAAAG
* * * * *
6463617 TTGGTGCATTAGCTATACGACTTCTATAGTATGCAACGTCATTCACAATAATGGAATTCATAGCC
260 CTGGTGCGTTGGCTGTACGACTTCTATAGTATGTAACGTCATTCACAATAATGGAATTCATAGCC
* * *
6463682 CAAGATATGAGAAAATGATATCCTCTCATAATCATTACACTATTGATGAGAAGTAAACGTGGCTA
325 CAAGATATGAGAAAATGATATCCTCTCATAAGCATTACATTATTGATGAGAAGTAAACGTGGCCA
6463747 GGGGTCATTCATCTTTGTGATGGA-GACTTGATCACTATTTGATAGTGATTGACTTTTCATGAAT
390 GGGGTCATTCATCTTTGTGATGGATGACTTGATCACTATTTGATAGTGATTGACTTTTCATGAAT
* * * *
6463811 GAAGATGTAATGATTACCTTAAGATAAAAAAGGAACATATTGGGAGAAAAAATATCAGCCCAAAG
455 GAAGATGTAATGATTACCATAAGATAAAATAGGATCATATTGGGAGAACAAATATCAGCCCAAAG
* * ** *
6463876 AGATCAATGATATATTATGAGGGTAACACATTTATGGTAAGGTCAATGGATGAGCATTGAATAGT
520 AGATCAATGATATACTATGAGGGTAACACACTTATGACAAGGTCAATGGATGAGCACTGAATAGT
* * * * *
6463941 TGCTCTCGTAATGGAATGTCTTTAGAGAAAGCTCAGTTACAATACTTTAGTGGAAGGCCTTCGTG
585 TGCTCTCGTAATGGTATGTCTTTAGGGAAAGCTCAGTCACGATACTTTAGTGGAAGGCCTTCATG
*
6464006 ACTAAATGAGTTTATAATTAATAGGCGAAAAGTTAAAACTTAATTATAAATCATTTAATCCCTAA
650 ACTAAATGAGTTTATAATTAATAGGCGAAAAGTTAAAACTTAATTATAAATCATTTAAGCCCTAA
6464071 TTACATATG-CCTAATAGGTCCCTCCGCTAGCTCGTTGAAATCCTAAATGAATTGCATGTTGAAT
715 TTACATATGTCC-AATAGGTCCCTCCGCTAGCTCGTTGAAA-CCTAAATGAATTG-ATG-TGAAT
* *
6464135 CAAAAATGAATAGAATAAATATAAATAGAGAAACGGAAAATATT-AAAAATGATTATGGTTTTCT
776 --AAAATGAATAGAATGAATATAAATAGAGAAACGGAAAACATTAAAAAATGATTATGGTTTTCT
* * * *
6464199 TTGAAATAGAGAAATGAAATCGTTTAGAAATGAATGTGGTTCTCTCAAAATTTAAATGGAGATGA
839 TTGAAATAGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCAAAATTGAAATGGAGATGA
* * *
6464264 AAAAGAAAATGAGAAATGATTCATTTGCAAATGTACATGGATAACTAAAA
904 AAAAGAAAATAAGAAATGATTCATTTGCAAATGTACATGGATTACTCAAA
* * *
6464314 AATTGGGGAGATGCTATGTCTTAGGG-ATTAGAGCAGATGACTCCTAGAAGATAGAGACATAGAT
1 AATTGGGGAGATGCTTTGTCTT-GGGCATCAGAGCGGATGACTCCTAGAAGATAGAGACATAGAT
* ** *
6464378 GTGACTAACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCTAAATCTGTTTGT
65 GTGACTGACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCTAAATCCATTTAT
* * *
6464443 GGATCTACTT-GCTTGTGATGTTTATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTAT
130 GGATCTA-TTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTAT
* * *
6464507 GTATGCGTGACTCGTGCACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGCTACAAAATCGAAA
194 GTATGCGTGACTCGTACACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGATACAAAATCAAAA
* * * * *
6464572 GCTGGTGCGTTGGTTGTTCGATTTCCATAGTATGTAACATCATTCACAATAATGGAATTCATAGC
259 GCTGGTGCGTTGGCTGTACGACTTCTATAGTATGTAACGTCATTCACAATAATGGAATTCATAGC
* * * *
6464637 CCAAGATATGAGAAAATGATATCCTCTCATAAGAATTACATTGTTGATGAGAAGCAAACGTAGCC
324 CCAAGATATGAGAAAATGATATCCTCTCATAAGCATTACATTATTGATGAGAAGTAAACGTGGCC
* * * *
6464702 ACGGGTCATTCATCTTTGTGATGGATGATTTTATCACTATTTGATAGTGATTGACTTTTTATGAA
389 AGGGGTCATTCATCTTTGTGATGGATGACTTGATCACTATTTGATAGTGATTGACTTTTCATGAA
* * * * *
6464767 TGAAGATGTAATGACTACCATAAGATAAAATAGTATCATATTAGGAGAACATAGATC-GTCCCAA
454 TGAAGATGTAATGATTACCATAAGATAAAATAGGATCATATTGGGAGAACAAATATCAG-CCCAA
*
6464831 AGAGATCAATGATATACTATGAGGGTAACACACTTATGACAAGGTCATTGGATGAGCACTGAATA
518 AGAGATCAATGATATACTATGAGGGTAACACACTTATGACAAGGTCAATGGATGAGCACTGAATA
* * * * * * * * * *
6464896 ATTGCTCTTGTAAGGGTATGTCTTTAGGGAAAGCTTAGTCATGATAGTTTAATGAAAAGCCTTCG
583 GTTGCTCTCGTAATGGTATGTCTTTAGGGAAAGCTCAGTCACGATACTTTAGTGGAAGGCCTTCA
** *
6464961 TGACTAAATGAGTTTATAATTAATAGGAAAAAAGTTAAAACTTAATTATAACTCATTTAAGCCCT
648 TGACTAAATGAGTTTATAATTAATAGGCGAAAAGTTAAAACTTAATTATAAATCATTTAAGCCCT
* * ** *
6465026 AATTACATATTTCTAATAGGTCCCTTTGCTAGCCCGTTGAAACC-----------------AT-A
713 AATTACATATGTCCAATAGGTCCCTCCGCTAGCTCGTTGAAACCTAAATGAATTGATGTGAATAA
* *
6465073 AATGAATAGAATGAATATAAATAGAGAAATGGAAAACATTAAAAAATGATTATGGTTTCCTTTGA
778 AATGAATAGAATGAATATAAATAGAGAAACGGAAAACATTAAAAAATGATTATGGTTTTCTTTGA
* * ** *
6465138 AATAGAGAAATGAAATCATTT-GAAATTGAATGTGGTTTTCTCTAAATAGAAATAAAGGTGAAAA
843 AATAGAGAAATGAAATCATTTGGAAA-TGAATGTGGTTTTCTCAAAATTGAAATGGAGATGAAAA
* *
6465202 AGAAAATAAGAAATGATTTATTCGCAAATGTACATGGATTACTCAAA
907 AGAAAATAAGAAATGATTCATTTGCAAATGTACATGGATTACTCAAA
* * * * * * *
6465249 AATTGGGCAGATACTTTATCTTGAGCATCAGAGTGGATGACTCTTAGAATATAGAGACATAGATG
1 AATTGGGGAGATGCTTTGTCTTGGGCATCAGAGCGGATGACTCCTAGAAGATAGAGACATAGATG
* * * * * *
6465314 TGATTGACCAAATTGACAATACATTAGACTAGAACCAAGTAGAATAGATCCTGAATCCATTTATG
66 TGACTGACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCTAAATCCATTTATG
* * * ** *
6465379 GATCTACTCACTTGTGATGTTCATATTGTCACATACGTAATTCTTGTGTGGATGGCGGACTGTGT
131 GATCTATTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTATGT
* * * *
6465444 ATGCATGACTCGTATAGTTTGATGTAAGTAAAAGCTTGAGTTCGAATAAATACAAAATCAAAAGC
196 ATGCGTGACTCGTACACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGATACAAAATCAAAAGC
* * * * *
6465509 TGGTGTGTTGGCTGTGCGACTTTTATAGTATGTAACGTCATTTACAATAATGGAATTCATAGCCT
261 TGGTGCGTTGGCTGTACGACTTCTATAGTATGTAACGTCATTCACAATAATGGAATTCATAGCCC
*
6465574 AAGATATGAGAAAATGATATGCTCTCATAAGCATTACATTATTGATGAGAAGTAAACGTGGCCAG
326 AAGATATGAGAAAATGATATCCTCTCATAAGCATTACATTATTGATGAGAAGTAAACGTGGCCAG
* *
6465639 GGGTCATTCGTCTTTGTGATGGATGACTTGATCACTATTTGATAGTGATTGACTTTTCATGAATA
391 GGGTCATTCATCTTTGTGATGGATGACTTGATCACTATTTGATAGTGATTGACTTTTCATGAATG
* * *
6465704 AAGATGTAATGATTACCATAAGATAAAATAGGATCATATTGGGATAACAGATATCATCCCAAAGA
456 AAGATGTAATGATTACCATAAGATAAAATAGGATCATATTGGGAGAACAAATATCAGCCCAAAGA
* * * * * * *
6465769 GATCAATGATATACTATCAGGGTAGCACACTTATGACAACGTCAATGTATGAACATTAAATAGTT
521 GATCAATGATATACTATGAGGGTAACACACTTATGACAAGGTCAATGGATGAGCACTGAATAGTT
*
6465834 GCTCTCGTAATGGTATGTCTTTAGGGAAAGCTCAGTCACGGTACTTTAGTGGAAGGCCTTCATGA
586 GCTCTCGTAATGGTATGTCTTTAGGGAAAGCTCAGTCACGATACTTTAGTGGAAGGCCTTCATGA
* * * * * ** *
6465899 TTAAATGAGTTGATAACTAATAAG-TAAAATGTTAAAACTTAATTATAAATCATTTGTGCCTTAA
651 CTAAATGAGTTTATAATTAATAGGCGAAAA-GTTAAAACTTAATTATAAATCATTTAAGCCCTAA
* * * * * * *
6465963 TTAAATATGTCCAATAGGTCCCCCCACTAGCTCATTGAAA-CTAGAAATAAATTG-TGTG-TTGA
715 TTACATATGTCCAATAGGTCCCTCCGCTAGCTCGTTGAAACCT--AAATGAATTGATGTGAATAA
* * * *
6466025 AATG-A-A-AATGAATAT-AAT---G-AA--TATAA-A-T-AGAAATGGTTATGGTTTTCTTTGA
778 AATGAATAGAATGAATATAAATAGAGAAACGGAAAACATTAAAAAATGATTATGGTTTTCTTTGA
* * * * * * *
6466077 AATAGAGGAATAAAATCATTTGGAAATGAATGTAGTTTTTTTAAAATTTAAATGGAAATGAAAAA
843 AATAGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCAAAATTGAAATGGAGATGAAAAA
* *
6466142 GAAAATGAGAAATGATTCATTTGCAAATGTACATGGGTTACTCAAA
908 GAAAATAAGAAATGATTCATTTGCAAATGTACATGGATTACTCAAA
* * * * *
6466188 AATTGGGGAGATGCTTTGTCTTGGGTATCAGAGCGGATGACTTCTAGAAGATAAAGACGTAGTTG
1 AATTGGGGAGATGCTTTGTCTTGGGCATCAGAGCGGATGACTCCTAGAAGATAGAGACATAGATG
* * * * * * * * *
6466253 TGACTGACCAGATTGAAAGCACATCAAACTGGACCAAAGTAGAATAGATCCTGAATCCGTTTCTA
66 TGACTGACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCTAAATCCATTTATG
* *
6466318 GATCTATTCACTTGTGACATTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTATGG
131 GATCTATTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTATGT
* * * * **
6466383 ATGTGTGACTCGTGCACTTTGATGTAAGTAAAAGCTTGAGTTTGAATAGATACAAAACCAAAATT
196 ATGCGTGACTCGTACACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGATACAAAATCAAAAGC
* *
6466448 TGGTGCGTTAGG-TGTATGACTTCCATAGTATGTAACGTCATTCACAATAATGGAAT
261 TGGTGCGTT-GGCTGTACGACTTCTATAGTATGTAACGTCATTCACAATAATGGAAT
6466504 GTAACACCCC
Statistics
Matches: 2734, Mismatches: 372, Indels: 98
0.85 0.12 0.03
Matches are distributed among these distances:
934 50 0.02
935 761 0.28
937 2 0.00
939 375 0.14
940 7 0.00
941 1 0.00
942 3 0.00
944 2 0.00
945 1 0.00
948 3 0.00
949 9 0.00
950 1 0.00
951 2 0.00
952 5 0.00
956 498 0.18
957 969 0.35
958 45 0.02
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (953 bp):
AATTGGGGAGATGCTTTGTCTTGGGCATCAGAGCGGATGACTCCTAGAAGATAGAGACATAGATG
TGACTGACCAGATTGACAGTACATTAGACTGGACCCAAGTAGAATAGATCCTAAATCCATTTATG
GATCTATTCACTTGTGACGTTCATATTGTGACATACGTAATTCTTAAGTGGATGGCGGACTATGT
ATGCGTGACTCGTACACTTTGATGTAAGTAAAAGCTTGAGTTCGAATAGATACAAAATCAAAAGC
TGGTGCGTTGGCTGTACGACTTCTATAGTATGTAACGTCATTCACAATAATGGAATTCATAGCCC
AAGATATGAGAAAATGATATCCTCTCATAAGCATTACATTATTGATGAGAAGTAAACGTGGCCAG
GGGTCATTCATCTTTGTGATGGATGACTTGATCACTATTTGATAGTGATTGACTTTTCATGAATG
AAGATGTAATGATTACCATAAGATAAAATAGGATCATATTGGGAGAACAAATATCAGCCCAAAGA
GATCAATGATATACTATGAGGGTAACACACTTATGACAAGGTCAATGGATGAGCACTGAATAGTT
GCTCTCGTAATGGTATGTCTTTAGGGAAAGCTCAGTCACGATACTTTAGTGGAAGGCCTTCATGA
CTAAATGAGTTTATAATTAATAGGCGAAAAGTTAAAACTTAATTATAAATCATTTAAGCCCTAAT
TACATATGTCCAATAGGTCCCTCCGCTAGCTCGTTGAAACCTAAATGAATTGATGTGAATAAAAT
GAATAGAATGAATATAAATAGAGAAACGGAAAACATTAAAAAATGATTATGGTTTTCTTTGAAAT
AGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCAAAATTGAAATGGAGATGAAAAAGAA
AATAAGAAATGATTCATTTGCAAATGTACATGGATTACTCAAA
Found at i:6475566 original size:39 final size:39
Alignment explanation
Indices: 6475496--6475606 Score: 170
Period size: 39 Copynumber: 2.9 Consensus size: 39
6475486 CTCAATCATA
* * *
6475496 TAAACAGTAATTCATTCA-ATAATAGTAATTCATCCGTT
1 TAAACAGTACTTCATCCATATAACAGTAATTCATCCGTT
* *
6475534 TAAACAGTACTTTATCCATATAACAGTAATTCATCCTTT
1 TAAACAGTACTTCATCCATATAACAGTAATTCATCCGTT
6475573 TAAACAGTACTTCATCCATATAACAGTAATTCAT
1 TAAACAGTACTTCATCCATATAACAGTAATTCAT
6475607 TCGTGTAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
38 15 0.23
39 51 0.77
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (39 bp):
TAAACAGTACTTCATCCATATAACAGTAATTCATCCGTT
Found at i:6475616 original size:19 final size:19
Alignment explanation
Indices: 6475492--6475606 Score: 115
Period size: 20 Copynumber: 5.9 Consensus size: 19
6475482 CACTCTCAAT
*
6475492 CATATAAACAGTAATTCATT
1 CATAT-AACAGTAATTCATC
*
6475512 CA-ATAATAGTAATTCATC
1 CATATAACAGTAATTCATC
* * * *
6475530 CGTTTAAACAGTACTTTATC
1 CATAT-AACAGTAATTCATC
6475550 CATATAACAGTAATTCATC
1 CATATAACAGTAATTCATC
* * *
6475569 CTTTTAAACAGTACTTCATC
1 CATAT-AACAGTAATTCATC
6475589 CATATAACAGTAATTCAT
1 CATATAACAGTAATTCAT
6475607 TCGTGTAACA
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
18 13 0.17
19 30 0.40
20 32 0.43
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:6475632 original size:39 final size:38
Alignment explanation
Indices: 6475514--6475635 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 38
6475504 AATTCATTCA
*
6475514 ATAATAGTAATTCATCCGTTTAAACAGTACTTTATCCAT
1 ATAACAGTAATTCATCCGTTTAAACAGTACTTT-TCCAT
* *
6475553 ATAACAGTAATTCATCCTTTTAAACAGTACTTCATCCAT
1 ATAACAGTAATTCATCCGTTTAAACAGTACTT-TTCCAT
* * *
6475592 ATAACAGTAATTCATTCGTGTAACACA-TAGCTTTTTCAT
1 ATAACAGTAATTCATCCGTTTAA-ACAGTA-CTTTTCCAT
6475631 ATAAC
1 ATAAC
6475636 CAATCACAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
39 66 0.92
40 6 0.08
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (38 bp):
ATAACAGTAATTCATCCGTTTAAACAGTACTTTTCCAT
Found at i:6475836 original size:24 final size:24
Alignment explanation
Indices: 6475799--6475851 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6475789 AGCTTTATTA
*
6475799 AGCTG-AAATGGTAAGCTCTGACG
1 AGCTGAAAATAGTAAGCTCTGACG
* *
6475822 AGCTGAAAATAGTAAGCTCTTATG
1 AGCTGAAAATAGTAAGCTCTGACG
6475846 AGCTGA
1 AGCTGA
6475852 TATATCGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (24 bp):
AGCTGAAAATAGTAAGCTCTGACG
Found at i:6479448 original size:27 final size:26
Alignment explanation
Indices: 6479417--6479594 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 26
6479407 TAAATTGTAC
6479417 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
6479444 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
6479470 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCG-ATTGACT-ATGT
*
6479498 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
6479526 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
6479553 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
6479580 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6479595 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.02
27 100 0.79
28 24 0.19
29 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:6479585 original size:82 final size:81
Alignment explanation
Indices: 6479414--6479594 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6479404 GATTAAATTG
* * *
6479414 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6479479 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
6479495 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
6479559 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
6479577 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6479595 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:6482602 original size:329 final size:329
Alignment explanation
Indices: 6482004--6482650 Score: 1206
Period size: 329 Copynumber: 2.0 Consensus size: 329
6481994 ATCAGGGCAA
* *
6482004 GACCATCGATGGGCTCCCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGTCACGAGAAACCT
1 GACCATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGTCACGAGAAACCT
* * *
6482069 GAATGTCCCCTATGTGGAAGACGACACCTAGGTGAATGTTGGGGCAAGTCTACTAGCAGGGCCTG
66 GAATGTCCCCAATGTGGAAGACGACACATAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCTG
*
6482134 TTACGGGTGCGGTTCGAAGGACCATCTCATTAGAGATTGCACGGAGCTGGATGAGAAGAATAAGA
131 TTACGGATGCGGTTCGAAGGACCATCTCATTAGAGATTGCACGGAGCTGGATGAGAAGAATAAGA
6482199 TTCAAGGTGCAAGACCTAGTGGAGTGACATCTAGAGGTAGACCACCGAGAATTTTTGGAGGCAGG
196 TTCAAGGTGCAAGACCTAGTGGAGTGACATCTAGAGGTAGACCACCGAGAATTTTTGGAGGCAGG
*
6482264 GGTGGTAGTCAGAGGGGGGCTTCTGATACGGCCGATCGCGCCGAGAACCGTGCTCCTGCTGCAGA
261 GGTGGTAGTCAGAGGGGGGCTTCTGATACGGCCGATCGCGCCGAGAACCGTACTCCTGCTGCAGA
6482329 GCAC
326 GCAC
6482333 GACCATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGTCTA-GAGAAACC
1 GACCATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGTC-ACGAGAAACC
*
6482397 TGAATGTCCCCAATGTGGAAGACGACACATAGGTGAATGTTGGGGTAAGTCTACTAACAGGGCCT
65 TGAATGTCCCCAATGTGGAAGACGACACATAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCT
6482462 GTTACGGATGCGGTTCGAAGGACCATCTCATTAGAGATTGCACGGAGCTGGATGAGAAGAATAAG
130 GTTACGGATGCGGTTCGAAGGACCATCTCATTAGAGATTGCACGGAGCTGGATGAGAAGAATAAG
6482527 ATTCAAGGTGCAAGACCTAGTGGAGTGACATCTAGAGGTAGACCACCGAGAATTTTTGGAGGCAG
195 ATTCAAGGTGCAAGACCTAGTGGAGTGACATCTAGAGGTAGACCACCGAGAATTTTTGGAGGCAG
6482592 GGGTGGTAGTCAGAGGGGGGCTTCTGATACGGCCGATCGCGCCGAGAACCGTACTCCTG
260 GGGTGGTAGTCAGAGGGGGGCTTCTGATACGGCCGATCGCGCCGAGAACCGTACTCCTG
6482651 ATAGAGCATA
Statistics
Matches: 309, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
329 308 1.00
330 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (329 bp):
GACCATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGTCACGAGAAACCT
GAATGTCCCCAATGTGGAAGACGACACATAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCTG
TTACGGATGCGGTTCGAAGGACCATCTCATTAGAGATTGCACGGAGCTGGATGAGAAGAATAAGA
TTCAAGGTGCAAGACCTAGTGGAGTGACATCTAGAGGTAGACCACCGAGAATTTTTGGAGGCAGG
GGTGGTAGTCAGAGGGGGGCTTCTGATACGGCCGATCGCGCCGAGAACCGTACTCCTGCTGCAGA
GCAC
Found at i:6484550 original size:60 final size:60
Alignment explanation
Indices: 6484457--6484573 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 60
6484447 CTGCCTTCAG
* *
6484457 GACGAGATATGGTCACTACGAGTTCTTAGTGATGCCATTTGGGCTCACTAATGCCCCTGC
1 GACGAGATACGGTCACTACGAATTCTTAGTGATGCCATTTGGGCTCACTAATGCCCCTGC
* *
6484517 GACGAGGTACGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCC
1 GACGAGATACGGTCACTACGAATTCTTAGTGATGCCATTTGGGCTCACTAATGCCCC
6484574 GGCAGTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (60 bp):
GACGAGATACGGTCACTACGAATTCTTAGTGATGCCATTTGGGCTCACTAATGCCCCTGC
Found at i:6486087 original size:116 final size:115
Alignment explanation
Indices: 6485875--6486104 Score: 361
Period size: 116 Copynumber: 2.0 Consensus size: 115
6485865 AAGGATGCGA
* *
6485875 TTTGGGTTGTTGTTGATAGACTAACTAAGTCGGCTCACTTATCCCCGTGTGTATGGATTTTTCAT
1 TTTGGGTTGTTGTTGATAGACTAACTAAGTCGGCTCACTTATCCCCGTGCGTACGGATTTTTCAT
* ** *
6485940 TGGATAGACTAGTTGAATTGTACGTTTCTCAGATTGTGAGATTACACGGG
66 TGGATAAACTAGCCGAATTGTACGTTACTCAGATTGTGAGATTACACGGG
* *
6485990 TTTGGGTTGTTGTTGATAGGCTGACTAAGTCGGCTCACTTTATCCCCGTGCGTACGGATTTTTCA
1 TTTGGGTTGTTGTTGATAGACTAACTAAGTCGGCTCAC-TTATCCCCGTGCGTACGGATTTTTCA
* *
6486055 TTGGGTAAACTAGCCGAATTGTATGTTACTCAGATTGTGAGATTACACGG
65 TTGGATAAACTAGCCGAATTGTACGTTACTCAGATTGTGAGATTACACGG
6486105 AGTACCTATT
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
115 36 0.35
116 68 0.65
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (115 bp):
TTTGGGTTGTTGTTGATAGACTAACTAAGTCGGCTCACTTATCCCCGTGCGTACGGATTTTTCAT
TGGATAAACTAGCCGAATTGTACGTTACTCAGATTGTGAGATTACACGGG
Found at i:6488772 original size:40 final size:40
Alignment explanation
Indices: 6488625--6488808 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
6488615 TTGAATGCTG
* *
6488625 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
6488664 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6488704 TCCAGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6488743 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
6488784 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
6488809 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 51 0.42
40 61 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6488830 original size:79 final size:79
Alignment explanation
Indices: 6488677--6488841 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
6488667 GGACTAAGAT
* * ** *
6488677 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
6488742 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
6488756 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
6488818 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
6488835 CCGAAGG
1 CCGAAGG
6488842 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:6493644 original size:47 final size:47
Alignment explanation
Indices: 6493590--6493715 Score: 186
Period size: 47 Copynumber: 2.7 Consensus size: 47
6493580 GGTAAGGTGC
*
6493590 CGATGCCATGTCCTAGACATAGTCTTACACTGGCTTAT-ATCTCA-AAT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGC-TATCATCTCATAAT
*
6493637 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATCTCATAAT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCATAAT
6493685 CGATG-CATGTCCCAGACATGTCTTACACTGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGG
6493716 TTTACGTCTC
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
46 14 0.19
47 51 0.70
48 8 0.11
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCATAAT
Found at i:6505050 original size:99 final size:100
Alignment explanation
Indices: 6504923--6505105 Score: 314
Period size: 99 Copynumber: 1.8 Consensus size: 100
6504913 GAAGCTATTT
*
6504923 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
6504988 TGGACTTAGTACTACACACCTGATCACAGTTTTTG
66 TGCACTTAGTACTACACACCTGATCACAGTTTTTG
* * *
6505023 GGTACGCATAGTAGC-TGCACTTTGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
6505087 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
6505106 GTGACCTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 63 0.81
100 15 0.19
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACCTGATCACAGTTTTTG
Found at i:6505110 original size:49 final size:49
Alignment explanation
Indices: 6504931--6505111 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 49
6504921 TTGGTACGCA
* * * * *
6504931 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * * * ** * *
6504980 TAGTAGCCTGGACTTAGTACTACACACCTGATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
* *
6505031 TAGTAG-CTGCACTTTGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
6505079 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
6505112 TCATAATAGT
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
48 17 0.16
49 51 0.49
50 21 0.20
51 16 0.15
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:6509875 original size:29 final size:28
Alignment explanation
Indices: 6509839--6509916 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
6509829 TCATGAGATT
6509839 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
6509869 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
6509896 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
6509917 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:6510134 original size:174 final size:174
Alignment explanation
Indices: 6509869--6510196 Score: 595
Period size: 174 Copynumber: 1.9 Consensus size: 174
6509859 AAATTGTACA
*
6509869 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
6509934 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTG-AGGGTGCGACCTTACCGAGTCG
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACA-TGAAGGGTGCGACCTTACCGAGTCA
6509998 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
6510043 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
6510108 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
6510173 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
6510197 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
173 2 0.01
174 146 0.99
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:6512955 original size:24 final size:24
Alignment explanation
Indices: 6512895--6512980 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
6512885 TTCAGGCAGT
* * *
6512895 ATAATAGGAAGATCATAAGAGCC-
1 ATAACAGGAAGCTCATGAGAGCCA
6512918 ATAATCAGGAAGCTCATGAGAGCCA
1 ATAA-CAGGAAGCTCATGAGAGCCA
* *
6512943 ATAACAGGTAGCTC-TGAAAAGCCA
1 ATAACAGGAAGCTCATG-AGAGCCA
*
6512967 TTAACAGGAAGCTC
1 ATAACAGGAAGCTC
6512981 CAGATAGCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
23 6 0.11
24 43 0.81
25 4 0.08
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (24 bp):
ATAACAGGAAGCTCATGAGAGCCA
Found at i:6512989 original size:24 final size:23
Alignment explanation
Indices: 6512900--6512991 Score: 69
Period size: 24 Copynumber: 3.8 Consensus size: 23
6512890 GCAGTATAAT
* *
6512900 AGGAAGATCATAAGAGCCA-TAATC
1 AGGAAGCTCAGAA-AGCCATTAA-C
* *
6512924 AGGAAGCTCATGAGAGCCAATAAC
1 AGGAAGCTCA-GAAAGCCATTAAC
* *
6512948 AGGTAGCTCTGAAAAGCCATTAAC
1 AGGAAGCTCAG-AAAGCCATTAAC
*
6512972 AGGAAGCTCCAGATAGCCAT
1 AGGAAGCT-CAGAAAGCCAT
6512992 ACATTGGGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 47 0.87
25 6 0.11
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (23 bp):
AGGAAGCTCAGAAAGCCATTAAC
Found at i:6513060 original size:25 final size:26
Alignment explanation
Indices: 6513032--6513090 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6513022 GAAGCTTTGG
*
6513032 AGAGCCATTAATC-AGAAGCTCACAA
1 AGAGCCATTAACCGAGAAGCTCACAA
* * *
6513057 AGAGCCTTTAACCGGGAAGCTCACTA
1 AGAGCCATTAACCGAGAAGCTCACAA
6513083 AGAGCCAT
1 AGAGCCAT
6513091 ATATCAAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAACCGAGAAGCTCACAA
Found at i:6513600 original size:5 final size:5
Alignment explanation
Indices: 6513571--6513609 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
6513561 TAAATTTAAC
* *
6513571 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
6513610 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:6526563 original size:50 final size:48
Alignment explanation
Indices: 6526388--6526553 Score: 278
Period size: 48 Copynumber: 3.4 Consensus size: 48
6526378 TGTAGTGAAT
6526388 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
6526436 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
6526484 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCGGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
* *
6526534 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
6526554 GTGTGTATAT
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
48 70 0.63
50 41 0.37
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:6527474 original size:10 final size:9
Alignment explanation
Indices: 6527439--6527467 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
6527429 CGTTCTTTAT
6527439 AAATAAAAA
1 AAATAAAAA
6527448 AAATAAAAA
1 AAATAAAAA
6527457 AAATAAAAA
1 AAATAAAAA
6527466 AA
1 AA
6527468 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAATAAAAA
Found at i:6527663 original size:26 final size:26
Alignment explanation
Indices: 6527624--6527708 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
6527614 CCACATCAAG
* * *
6527624 AAGCTC-CAGAGAGCCATTAATTAGA
1 AAGCTCACAAAGAGCCTTTAATCAGA
* * *
6527649 AAGCTTACAAAGAGCCTTTAATCGGG
1 AAGCTCACAAAGAGCCTTTAATCAGA
* *
6527675 AAGCTCACAAAGAGCCTTTAATCGGG
1 AAGCTCACAAAGAGCCTTTAATCAGA
6527701 AAGCTCAC
1 AAGCTCAC
6527709 TCAGAACCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
25 5 0.10
26 47 0.90
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCTTTAATCAGA
Found at i:6535235 original size:24 final size:24
Alignment explanation
Indices: 6535203--6535251 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6535193 ACTGTAATCA
6535203 GTAATTTAATTGTTTGGTTGAATG
1 GTAATTTAATTGTTTGGTTGAATG
6535227 GTAATTTAATTGTTTGGTTGAATG
1 GTAATTTAATTGTTTGGTTGAATG
6535251 G
1 G
6535252 AATAGAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (24 bp):
GTAATTTAATTGTTTGGTTGAATG
Found at i:6535444 original size:26 final size:25
Alignment explanation
Indices: 6535415--6535498 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 25
6535405 TGTAATTTAA
* *
6535415 TAATAATAAATAATTTAATCATATTT
1 TAATAATAAATAATTAAAT-ATAATT
*
6535441 TAAT-ATAATTATTATTAAATATAATT
1 TAATAATAA--ATAATTAAATATAATT
* *
6535467 TAATAA-AAATAATGATATATAATT
1 TAATAATAAATAATTAAATATAATT
6535491 TAATAATA
1 TAATAATA
6535499 TTCTTAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
24 19 0.40
25 5 0.10
26 15 0.31
27 9 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
TAATAATAAATAATTAAATATAATT
Found at i:6535459 original size:55 final size:60
Alignment explanation
Indices: 6535396--6535530 Score: 181
Period size: 55 Copynumber: 2.3 Consensus size: 60
6535386 ATTTAATACG
* *
6535396 ATTATTAAATGTAATTTAAT-AATAAT-A-A-ATAATTTAATCATATT-TTAATATAATT
1 ATTATTAAATATAATTTAATAAATAATGATATATAATTTAATAATATTCTTAATATAATT
6535451 ATTATTAAATATAATTTAATAAAAATAATGATATATAATTTAATAATATTCTTAATATAATT
1 ATTATTAAATATAATTTAAT--AAATAATGATATATAATTTAATAATATTCTTAATATAATT
6535513 ATTATTAAAATATGAATT
1 ATTATT-AAATAT-AATT
6535531 AAGGAAAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
55 19 0.28
58 6 0.09
59 1 0.01
60 1 0.01
61 15 0.22
62 17 0.25
63 6 0.09
64 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (60 bp):
ATTATTAAATATAATTTAATAAATAATGATATATAATTTAATAATATTCTTAATATAATT
Found at i:6535472 original size:24 final size:23
Alignment explanation
Indices: 6535445--6535512 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
6535435 ATATTTTAAT
6535445 ATAATTATTATTAAATATAATTTA
1 ATAA-TATTATTAAATATAATTTA
* * * *
6535469 ATAAAAATAATGATATATAATTTA
1 AT-AATATTATTAAATATAATTTA
*
6535493 ATAATATTCTT-AATATAATT
1 ATAATATTATTAAATATAATT
6535513 ATTATTAAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 19 0.56
25 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
ATAATATTATTAAATATAATTTA
Found at i:6537106 original size:22 final size:22
Alignment explanation
Indices: 6537046--6537137 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
6537036 GCTTACTATT
* * * *
6537046 TTCAGCTCATTGGAACTTTCTG
1 TTCAGCTCAATAGAGCTTACTG
*
6537068 ATTCAACTC-ATATGAGCTTACTG
1 -TTCAGCTCAATA-GAGCTTACTG
**
6537091 TTCAGCTTGATAGAGCTTACCAT-
1 TTCAGCTCAATAGAGCTTA-C-TG
*
6537114 TTTAGCTCAATAGAGCTTACTG
1 TTCAGCTCAATAGAGCTTACTG
6537136 TT
1 TT
6537138 TATCGGCTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.02
22 17 0.31
23 35 0.65
24 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACTG
Found at i:6537328 original size:20 final size:20
Alignment explanation
Indices: 6537303--6537361 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
6537293 GAATGAGATA
6537303 TGTTGAAATGGATGAATTAC
1 TGTTGAAATGGATGAATTAC
*
6537323 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGGATGAATTAC
* *
6537343 TATTGATATGGATGAATTA
1 TGTTGAAATGGATGAATTA
6537362 TAGTTTATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTTGAAATGGATGAATTAC
Found at i:6542492 original size:902 final size:902
Alignment explanation
Indices: 6540747--6543568 Score: 5366
Period size: 902 Copynumber: 3.1 Consensus size: 902
6540737 NNNNNNNNNN
6540747 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
1 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
*
6540812 GATTTGGGTTGTGTCTAAATGTGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
66 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
*
6540877 TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGAAGGTAATTTGGCAAGTTCTT
131 TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGATGGTAATTTGGCAAGTTCTT
* *
6540942 AGTGTATCATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATGTGTTT
196 AGTGTATTATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATATGTTT
6541007 ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
261 ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
* * * *
6541072 ATATACATATGGCATATAGTGTGCGAAATACCGTTATTTGATGATATTTTAGATAATTCACTTGA
326 ATATACATATGGCATATACTGTGCGAAATATCGTTATTTGATGATATTTCACATAATTCACTTGA
6541137 CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
391 CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
* *
6541202 GATGTAAATGGATTGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
456 GATGTAAATGAATCGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
6541267 TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
521 TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
* *
6541332 TGAGTAATTTTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGCGCTTACTAAGC
586 TGAGTAATTGTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGAGCTTACTAAGC
* * *
6541397 TTTATAGCTTACTTTGTGTTATTTTTCTATGTTTTATAGGGGTTTGAACGTTCGCTCGGGTTTGA
651 TTTATAGCTTACTTTGTGTTATTTTTCCATGTTTTATAGTGATTTGAACGTTCGCTCGGGTTTGA
6541462 AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
716 AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
* *
6541527 TTATATGACATGTATAGGCTTTAATCATTTTGACAAAGGTTTTGATGATGTATTTGGTTCCTTTG
781 TTATATGACATGTATAGGCTTGAATCTTTTTGACAAAGGTTTTGATGATGTATTTGGTTCCTTTG
6541592 TACGGCTTATTAATGACTTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
846 TACGGCTTATTAATGACTTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
6541649 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
1 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
6541714 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
66 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
6541779 TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGATGGTAATTTGGCAAGTTCTT
131 TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGATGGTAATTTGGCAAGTTCTT
6541844 AGTGTATTATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATATGTTT
196 AGTGTATTATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATATGTTT
6541909 ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
261 ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
6541974 ATATACATATGGCATATACTGTGCGAAATATCGTTATTTGATGATATTTCACATAATTCACTTGA
326 ATATACATATGGCATATACTGTGCGAAATATCGTTATTTGATGATATTTCACATAATTCACTTGA
6542039 CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
391 CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
6542104 GATGTAAATGAATCGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
456 GATGTAAATGAATCGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
6542169 TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
521 TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
6542234 TGAGTAATTGTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGAGCTTACTAAGC
586 TGAGTAATTGTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGAGCTTACTAAGC
6542299 TTTATAGCTTACTTTGTGTTATTTTTCCATGTTTTATAGTGATTTGAACGTTCGCTCGGGTTTGA
651 TTTATAGCTTACTTTGTGTTATTTTTCCATGTTTTATAGTGATTTGAACGTTCGCTCGGGTTTGA
6542364 AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
716 AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
* *
6542429 TTATATGACATGTATAGGCTTGAATCTTTTTGACAAAGGTTTTGGTGATGTATTTGATTCCTTTG
781 TTATATGACATGTATAGGCTTGAATCTTTTTGACAAAGGTTTTGATGATGTATTTGGTTCCTTTG
6542494 TACGGCTTATTAATGACTTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
846 TACGGCTTATTAATGACTTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
6542551 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
1 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
6542616 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
66 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
6542681 TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGATGGTAATTTGGCAAGTTCTT
131 TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGATGGTAATTTGGCAAGTTCTT
6542746 AGTGTATTATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATATGTTT
196 AGTGTATTATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATATGTTT
6542811 ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
261 ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
6542876 ATATACATATGGCATATACTGTGCGAAATATCGTTATTTGATGATATTTCACATAATTCACTTGA
326 ATATACATATGGCATATACTGTGCGAAATATCGTTATTTGATGATATTTCACATAATTCACTTGA
6542941 CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
391 CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
6543006 GATGTAAATGAATCGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
456 GATGTAAATGAATCGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
6543071 TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
521 TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
6543136 TGAGTAATTGTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGAGCTTACTAAGC
586 TGAGTAATTGTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGAGCTTACTAAGC
6543201 TTTATAGCTTACTTTGTGTTATTTTTCCATGTTTTATAGTGATTTGAACGTTCGCTCGGGTTTGA
651 TTTATAGCTTACTTTGTGTTATTTTTCCATGTTTTATAGTGATTTGAACGTTCGCTCGGGTTTGA
6543266 AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
716 AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
* *
6543331 TTATATGACATGTATAGGCTTGAATCATTTTT-----AGTGTATCATGTATAATGTATTTGGTTC
781 TTATATGACATGTATAGGCTTGAATC-TTTTTGACAAAG-GT-T-TTG-ATGATGTATTTGGTTC
*
6543391 CTTTGTACGGCTTATTAATGAATTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
841 CTTTGTACGGCTTATTAATGACTTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
6543453 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
1 ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
6543518 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTT
66 GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTT
6543569 GGCATGCTTT
Statistics
Matches: 1891, Mismatches: 24, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
898 2 0.00
899 2 0.00
900 1 0.00
901 2 0.00
902 1879 0.99
903 5 0.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (902 bp):
ATAGTAAGCTTTGGTATAATTTAAGATGATGTTTGGATTCCATTTTGGTTTAGTAAATGCTTGAT
GATTTGGGTTGTGTCTAAATATGGATATTAGTTAAAGTATCAATTTGATTTAAAGTACAATAGAA
TTAAGTGATACAGGTATGTACAAAACCTATATGAGAATCAAATGATGGTAATTTGGCAAGTTCTT
AGTGTATTATGTATATGAAATGAGAAAGACTTATGTATAAGTATGTTTCATGCCAAAATATGTTT
ATTTGGCTATAATGAGGTATGAATTGAATGATATGTGAGATATGAGTTATAGTTATTTTAACTAA
ATATACATATGGCATATACTGTGCGAAATATCGTTATTTGATGATATTTCACATAATTCACTTGA
CTAAAGAAAAGGTGGTGGAAATTGAATTGTATAAAGTTATATATATGATTGCTTATGCATATGAA
GATGTAAATGAATCGATAAGAAGTATTCAAATCATACGTGTTTTGAATGAATAAACTCATGAAAA
TCTTGATCATTTGTGTGCATGAATTTGAGATTGAATGGTGAAATCATATGAATTATATCATGTTT
TGAGTAATTGTTTAAAATGTGGTTATTTAATAATATGAGTTTATTACCCTAGGAGCTTACTAAGC
TTTATAGCTTACTTTGTGTTATTTTTCCATGTTTTATAGTGATTTGAACGTTCGCTCGGGTTTGA
AGTTAGCGGAGATAACATCACACTATTCGGTGTTTGATTTTGGTATTTTTACACTTGTCATTTGG
TTATATGACATGTATAGGCTTGAATCTTTTTGACAAAGGTTTTGATGATGTATTTGGTTCCTTTG
TACGGCTTATTAATGACTTATGTTTGATGTGTAATTTGCCTGGTGTAATGTCATAAT
Found at i:6544662 original size:24 final size:24
Alignment explanation
Indices: 6544624--6544706 Score: 139
Period size: 24 Copynumber: 3.4 Consensus size: 24
6544614 CTGGAGACCT
* *
6544624 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTGATAACTGGGGCATA
6544649 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
6544673 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
6544697 AGCCCTTTTG
1 AGCCCTTTTG
6544707 CACTTCCTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
24 52 0.93
25 4 0.07
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAACTGGGGCATA
Found at i:6544780 original size:20 final size:20
Alignment explanation
Indices: 6544755--6544821 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
6544745 TTATGAATAC
6544755 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6544775 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
6544795 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
6544815 ACCATGT
1 ATCATGT
6544822 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:6544786 original size:11 final size:11
Alignment explanation
Indices: 6544755--6544810 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
6544745 TTATGAATAC
6544755 ATCATGTGCAT
1 ATCATGTGCAT
*
6544766 ATCA--TACAT
1 ATCATGTGCAT
6544775 ATCATGTGCAT
1 ATCATGTGCAT
*
6544786 ATCA--TACAT
1 ATCATGTGCAT
*
6544795 GTCATGTGCAT
1 ATCATGTGCAT
6544806 ATCAT
1 ATCAT
6544811 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:6544886 original size:25 final size:25
Alignment explanation
Indices: 6544858--6544905 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
6544848 GTATATAAAC
* *
6544858 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
6544883 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
6544906 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:6549077 original size:20 final size:20
Alignment explanation
Indices: 6549035--6549078 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6549025 TTCGAAAAAA
* *
6549035 AATCGATTTAAATCACGAAG
1 AATCGATGTAAATCAAGAAG
6549055 AATCGATGTAAA-CAAGAATG
1 AATCGATGTAAATCAAGAA-G
6549075 AATC
1 AATC
6549079 CTTTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
AATCGATGTAAATCAAGAAG
Found at i:6549237 original size:21 final size:21
Alignment explanation
Indices: 6549185--6549239 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
6549175 GCAGCATAAA
* *
6549185 GATTTAAAGAAACAAACAACT
1 GATTTAAAGCATCAAACAACT
6549206 GATTT-AAGCATCAAACAA-T
1 GATTTAAAGCATCAAACAACT
6549225 CGATTTAAAGCATCA
1 -GATTTAAAGCATCA
6549240 TTCAATCAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (21 bp):
GATTTAAAGCATCAAACAACT
Found at i:6552158 original size:79 final size:82
Alignment explanation
Indices: 6552047--6552230 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
6552037 GCTCCTCGTT
* * *
6552047 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
6552109 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
**
6552127 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
6552190 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
6552207 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6552231 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:6552164 original size:39 final size:41
Alignment explanation
Indices: 6552047--6552230 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
6552037 GCTCCTCGTT
* * *
6552047 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
6552087 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
6552127 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
6552166 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
6552207 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6552231 CATCATTCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 65 0.51
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:6557487 original size:30 final size:31
Alignment explanation
Indices: 6557451--6557513 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
6557441 AATGTGAAAG
6557451 TATGATAG-AAAATCAAGGTAGTTAACATGA
1 TATGATAGAAAAATCAAGGTAGTTAACATGA
6557481 TATGATAGAAAAATCAAGGTAGTTAACATGA
1 TATGATAGAAAAATCAAGGTAGTTAACATGA
6557512 TA
1 TA
6557514 GGAAATATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (31 bp):
TATGATAGAAAAATCAAGGTAGTTAACATGA
Found at i:6560063 original size:52 final size:52
Alignment explanation
Indices: 6559986--6560089 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
6559976 GTATCTCTTG
6559986 TTGTCATTGTCCAGACCGGATTGGGGTAAGGTTTTCACAGATAGGCAATACC
1 TTGTCATTGTCCAGACCGGATTGGGGTAAGGTTTTCACAGATAGGCAATACC
6560038 TTGTCATTGTCCAGACCGGATTGGGGTAAGGTTTTCACAGATAGGCAATACC
1 TTGTCATTGTCCAGACCGGATTGGGGTAAGGTTTTCACAGATAGGCAATACC
6560090 GATTTTGAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (52 bp):
TTGTCATTGTCCAGACCGGATTGGGGTAAGGTTTTCACAGATAGGCAATACC
Found at i:6564755 original size:10 final size:10
Alignment explanation
Indices: 6564727--6564760 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6564717 GAATTGTGTT
*
6564727 TATAAATATA
1 TATAATTATA
6564737 TATTAATTATA
1 TA-TAATTATA
6564748 TATAATTATA
1 TATAATTATA
6564758 TAT
1 TAT
6564761 TTAATGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TATAATTATA
Found at i:6582753 original size:20 final size:21
Alignment explanation
Indices: 6582730--6582768 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6582720 CATATCATAT
6582730 AAATAAC-ATTAAATTACTTA
1 AAATAACAATTAAATTACTTA
*
6582750 AAATAACAATTATATTACT
1 AAATAACAATTAAATTACT
6582769 ACATTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAACAATTAAATTACTTA
Found at i:6584314 original size:48 final size:48
Alignment explanation
Indices: 6584260--6584488 Score: 323
Period size: 48 Copynumber: 4.8 Consensus size: 48
6584250 TCTCATACTG
* * * * ** *
6584260 ATGCCATGTCACAAACATAGTCTTACACGAAATCACATATCGAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
6584308 ATGCCATATCCTAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
6584356 ATCCCATGTCCCAGACATGGTCTTACATGGGATAACATATCGATGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
6584404 ATGCCATGTCCCAAACATGGTCTTACATGGGACCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
6584452 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
6584489 ATGCCATAGC
Statistics
Matches: 158, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 158 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:6584530 original size:37 final size:37
Alignment explanation
Indices: 6584450--6584550 Score: 125
Period size: 37 Copynumber: 2.7 Consensus size: 37
6584440 ATATCGATGC
*
6584450 CAATGCCAT-GTCCCAGAC-ATGGTCTTACATGGGATCA
1 CAATGCCATAG-CCCAG-CTATGGTCTTACATGGCATCA
* *
6584487 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATTA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGGCATCA
* *
6584524 CGATGCCATAGCCTAGCTATGGTCTTA
1 CAATGCCATAGCCCAGCTATGGTCTTA
6584551 TACATACTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.02
37 55 0.96
38 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (37 bp):
CAATGCCATAGCCCAGCTATGGTCTTACATGGCATCA
Found at i:6594287 original size:40 final size:40
Alignment explanation
Indices: 6594232--6594455 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
6594222 TATTCGGATG
6594232 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
6594272 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
6594315 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
6594355 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
6594395 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
6594435 ATATCC-GGCCAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
6594456 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
41 1 0.01
43 36 0.23
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:6594375 original size:83 final size:80
Alignment explanation
Indices: 6594236--6594442 Score: 283
Period size: 83 Copynumber: 2.5 Consensus size: 80
6594226 CGGATGATAT
* **
6594236 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
6594301 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
6594319 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
*
6594384 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
6594399 CCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGG
6594443 CCAAATCCCG
Statistics
Matches: 114, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
79 2 0.02
80 46 0.40
81 2 0.02
83 64 0.56
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
TGCTAGTGACTATAC
Found at i:6598382 original size:37 final size:37
Alignment explanation
Indices: 6598323--6598431 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
6598313 AGCTCAGACG
* * *
6598323 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
6598360 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
6598397 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
6598432 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:6598632 original size:48 final size:48
Alignment explanation
Indices: 6598578--6599484 Score: 1674
Period size: 48 Copynumber: 18.8 Consensus size: 48
6598568 GCACATCGCC
*
6598578 TACATATTTCACACTAGCCATTCGGCTTTACCACAGATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6598626 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
6598676 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
6598724 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6598772 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6598820 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6598868 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6598916 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6598964 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599012 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599060 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599108 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599156 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599204 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599252 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599300 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
6599348 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
6599398 TATATATTTCACA-TTGACCATTCGGCTTTACCATATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
6599446 TACATATTTCACACTAGCCATTCGGCTTTACCATATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
6599485 TGCATGTTCA
Statistics
Matches: 839, Mismatches: 12, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
48 747 0.89
49 8 0.01
50 84 0.10
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:6599575 original size:22 final size:22
Alignment explanation
Indices: 6599500--6599618 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
6599490 GTTCATATTC
6599500 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
6599522 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
6599546 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
6599569 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
6599593 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
6599616 ATC
1 ATC
6599619 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:6599637 original size:94 final size:94
Alignment explanation
Indices: 6599462--6599647 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 94
6599452 TTTCACACTA
* * *
6599462 GCCATTCGGCTTTACCATATATATGCATGTTCATATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* **
6599527 ACATATGCATGCTCACATTC-ATCACATTG
66 ACATATACACACTCACA-TCGATCACATTG
* *
6599556 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
1 GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
6599621 ATATATACACATTCACATCGATCACAT
66 ACATATACACACTCACATCGATCACAT
6599648 AAAATCCTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 2 0.02
94 79 0.98
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (94 bp):
GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
ACATATACACACTCACATCGATCACATTG
Found at i:6599647 original size:47 final size:47
Alignment explanation
Indices: 6599406--6599626 Score: 268
Period size: 47 Copynumber: 4.7 Consensus size: 47
6599396 TATATATATT
* * * *
6599406 TCACATTGACCATTCGGCTTTA-C-CATATATGCATATCTCATACATAT-T
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACAT-TCA
* * * * * *
6599454 TCACACTAGCCATTCGGCTTTACCATATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
6599501 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
6599548 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
6599595 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
6599627 ACACATTCAC
Statistics
Matches: 152, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
46 1 0.01
47 118 0.78
48 19 0.12
49 3 0.02
50 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:6620460 original size:43 final size:43
Alignment explanation
Indices: 6620412--6620496 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
6620402 ATCGACATCG
* *
6620412 TATTTGATTTCGTGTAAAACC-CTGTCTGGGATAG-TGGCATTGA
1 TATTTGATTACATGTAAAACCAC-GTCTGGGAT-GTTGGCATTGA
*
6620455 TATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCATTG
1 TATTTGATTACATGTAAAACCACGTCTGGGATGTTGGCATTG
6620497 TACAAGCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
TATTTGATTACATGTAAAACCACGTCTGGGATGTTGGCATTGA
Found at i:6633415 original size:40 final size:40
Alignment explanation
Indices: 6633357--6633437 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
6633347 TAGGGAGAGA
* *
6633357 AATGAAACTTCTTGAGTTATGAATAGATTCCTTGAATTGG
1 AATGAAACTTCCTAAGTTATGAATAGATTCCTTGAATTGG
*
6633397 AATGAAACTTCCTAAGTTATGAATGGATTCCTTGAATTGG
1 AATGAAACTTCCTAAGTTATGAATAGATTCCTTGAATTGG
6633437 A
1 A
6633438 GTTATGGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (40 bp):
AATGAAACTTCCTAAGTTATGAATAGATTCCTTGAATTGG
Found at i:6637245 original size:29 final size:29
Alignment explanation
Indices: 6637206--6637284 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
6637196 CTTAATAATC
*
6637206 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
6637236 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
6637265 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6637285 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:6644791 original size:29 final size:29
Alignment explanation
Indices: 6644757--6644830 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
6644747 TAATCAGCCA
* *
6644757 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACC
*
6644786 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAACC
6644815 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
6644831 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACC
Found at i:6649986 original size:43 final size:43
Alignment explanation
Indices: 6649816--6649987 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 43
6649806 CATAGGATTC
* * *
6649816 CGATATGTGATTTCGTGTAAGACCACGTCAGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * * **
6649859 CGAT-TTGAGATTTATGTGTAAGACCATGTTTGGGACATCAGCAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
6649903 CG-TATTTGATTTCTTGTAAGACC-CTGTATAGGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCAT
* *
6649945 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
6649988 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 27, Indels: 16
0.69 0.20 0.12
Matches are distributed among these distances:
42 25 0.27
43 39 0.41
44 30 0.32
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Done.