Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 169 of 318
Found at i:52505663 original size:19 final size:19
Alignment explanation
Indices: 52505617--52505664 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
52505607 TTTTATATAT
*
52505617 TATATTATATATACATTTT
1 TATATTATATATACATTTA
52505636 TATA-T-TATATA-ATTTA
1 TATATTATATATACATTTA
52505652 TATTATTATATAT
1 TA-TATTATATAT
52505665 TTTTATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 2 0.08
19 9 0.36
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATATACATTTA
Found at i:52508360 original size:13 final size:13
Alignment explanation
Indices: 52508344--52508368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52508334 TAAGTACCCA
52508344 ACCCAACCCAATT
1 ACCCAACCCAATT
52508357 ACCCAACCCAAT
1 ACCCAACCCAAT
52508369 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:52508434 original size:20 final size:20
Alignment explanation
Indices: 52508396--52508434 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52508386 ATTTACTAAA
**
52508396 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
52508416 TAAAAATGAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
52508435 TATATATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:52508469 original size:9 final size:9
Alignment explanation
Indices: 52508455--52508522 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
52508445 TTTATACAAA
52508455 TAATTCGGT
1 TAATTCGGT
*
52508464 TAATTCGGG
1 TAATTCGGT
*
52508473 TAATTCAGT
1 TAATTCGGT
*
52508482 TAATATAGG-
1 TAAT-TCGGT
*
52508491 TAATTCGGG
1 TAATTCGGT
*
52508500 TAATTCGAT
1 TAATTCGGT
52508509 TAATTCGGT
1 TAATTCGGT
52508518 TAATT
1 TAATT
52508523 TTATACTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
8 3 0.06
9 43 0.90
10 2 0.04
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:52508521 original size:27 final size:27
Alignment explanation
Indices: 52508455--52508522 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
52508445 TTTATACAAA
52508455 TAATTCGGTTAATTCGGGTAATTCAGT
1 TAATTCGGTTAATTCGGGTAATTCAGT
*
52508482 TAATATAGG-TAATTCGGGTAATTC-GAT
1 TAAT-TCGGTTAATTCGGGTAATTCAG-T
52508509 TAATTCGGTTAATT
1 TAATTCGGTTAATT
52508523 TTATACTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 4 0.11
27 29 0.81
28 3 0.08
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCAGT
Found at i:52519587 original size:30 final size:30
Alignment explanation
Indices: 52519518--52519783 Score: 140
Period size: 30 Copynumber: 9.0 Consensus size: 30
52519508 AATCATCGAC
52519518 TAATGAAAAGGGATAGCTTCAGCTATCAAAA
1 TAATGAAAAGGGATAGCTTCAGCTATC-AAA
*
52519549 TAATGAAAAGGGATAGCCTCAGCTATCAAA
1 TAATGAAAAGGGATAGCTTCAGCTATCAAA
* * * *
52519579 TTATGAAAAAGGATAG--TGATG-AATC-AA
1 TAATGAAAAGGGATAGCTTCA-GCTATCAAA
* * * *
52519606 TAATGAAAAGGGAT-G-GTGACGACCATCGAA
1 TAATGAAAAGGGATAGCTTCA-G-CTATCAAA
* *
52519636 CAATGAAAAGGGATAGCTTC-GACTATCGAA
1 TAATGAAAAGGGATAGCTTCAG-CTATCAAA
** * * *
52519666 TTGTGAAAAAGGATAGCTTCGGCTATTAAA
1 TAATGAAAAGGGATAGCTTCAGCTATCAAA
* * * * *
52519696 TTATGAAAAGGGAT-G-GTGA-CGACCAACAA
1 TAATGAAAAGGGATAGCTTCAGCTATC-A-AA
* * * * *
52519725 CAATGAAAAGGGAT-GGTGACAACCATCAAA
1 TAATGAAAAGGGATAGCT-TCAGCTATCAAA
*
52519755 TAATGAAAAGGGATAGCTTCGGCTATCAA
1 TAATGAAAAGGGATAGCTTCAGCTATCAA
52519784 GCTGCGAGAA
Statistics
Matches: 181, Mismatches: 40, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
26 1 0.01
27 20 0.11
28 7 0.04
29 20 0.11
30 97 0.54
31 32 0.18
32 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (30 bp):
TAATGAAAAGGGATAGCTTCAGCTATCAAA
Found at i:52519673 original size:87 final size:87
Alignment explanation
Indices: 52519550--52519738 Score: 240
Period size: 87 Copynumber: 2.1 Consensus size: 87
52519540 CTATCAAAAT
*
52519550 AATGAAAAGGGATAGCCTCAGCTATCAAATTATGAAAAAGGATAG-T-GATGAATCAATAATGAA
1 AATGAAAAGGGATAGCCTCAGCTATCAAATTATGAAAAAGGATAGCTCGAT-AATAAATAATGAA
*
52519613 AAGGGATGGTGACGACCATCGAAC
65 AAGGGATGGTGACGACCAAC-AAC
* * * * * *
52519637 AATGAAAAGGGATAGCTTC-GACTATCGAATTGTGAAAAAGGATAGCTTCGGCTATTAAATTATG
1 AATGAAAAGGGATAGCCTCAG-CTATCAAATTATGAAAAAGGATAGC-TC-GATAATAAATAATG
52519701 AAAAGGGATGGTGACGACCAACAAC
63 AAAAGGGATGGTGACGACCAACAAC
52519726 AATGAAAAGGGAT
1 AATGAAAAGGGAT
52519739 GGTGACAACC
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
86 1 0.01
87 40 0.45
89 17 0.19
90 29 0.33
91 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (87 bp):
AATGAAAAGGGATAGCCTCAGCTATCAAATTATGAAAAAGGATAGCTCGATAATAAATAATGAAA
AGGGATGGTGACGACCAACAAC
Found at i:52519730 original size:29 final size:30
Alignment explanation
Indices: 52519698--52519768 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 30
52519688 CTATTAAATT
*
52519698 ATGAAAAGGGATGGTGACGACCAAC-AACA
1 ATGAAAAGGGATGGTGACAACCAACAAACA
* *
52519727 ATGAAAAGGGATGGTGACAACCATCAAATA
1 ATGAAAAGGGATGGTGACAACCAACAAACA
52519757 ATGAAAAGGGAT
1 ATGAAAAGGGAT
52519769 AGCTTCGGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.46, C:0.13, G:0.27, T:0.14
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACAACCAACAAACA
Found at i:52519760 original size:119 final size:118
Alignment explanation
Indices: 52519518--52519783 Score: 347
Period size: 119 Copynumber: 2.2 Consensus size: 118
52519508 AATCATCGAC
*
52519518 TAATGAAAAGGGATAGCTTC-AGCTATCAAAATAATGAAAAGGGATAGCCTCAGCTATCAAATTA
1 TAATGAAAAGGGATAGCTTCGA-CTATCAAAATAATGAAAAAGGATAGCCTCAGCTATCAAATTA
* * * * *
52519582 TGAAAAAGGATAGTGATGAATCAATAATGAAAAGGGATGGTGACGACCATCGAA
65 TGAAAAAGGATAGTGACGAAACAACAATGAAAAGGGATGGTGACAACCATCAAA
* * ** * * *
52519636 CAATGAAAAGGGATAGCTTCGACTATC-GAATTGTGAAAAAGGATAGCTTCGGCTATTAAATTAT
1 TAATGAAAAGGGATAGCTTCGACTATCAAAATAATGAAAAAGGATAGCCTCAGCTATCAAATTAT
* *
52519700 GAAAAGGGATGGTGACGACCAACAACAATGAAAAGGGATGGTGACAACCATCAAA
66 GAAAAAGGATAGTGACGA--AACAACAATGAAAAGGGATGGTGACAACCATCAAA
*
52519755 TAATGAAAAGGGATAGCTTCGGCTATCAA
1 TAATGAAAAGGGATAGCTTCGACTATCAA
52519784 GCTGCGAGAA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
117 45 0.36
118 24 0.19
119 57 0.45
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (118 bp):
TAATGAAAAGGGATAGCTTCGACTATCAAAATAATGAAAAAGGATAGCCTCAGCTATCAAATTAT
GAAAAAGGATAGTGACGAAACAACAATGAAAAGGGATGGTGACAACCATCAAA
Found at i:52519769 original size:89 final size:90
Alignment explanation
Indices: 52519550--52519780 Score: 242
Period size: 89 Copynumber: 2.6 Consensus size: 90
52519540 CTATCAAAAT
* * * * * * *
52519550 AATGAAAAGGGATAGCCT-CAGCTATCAAATTATGAAAAAGGATAG--T--GATGAATCAATAAT
1 AATGAAAAGGGATAG-CTACAACCATCAAATAATGAAAAAGGATAGCTTCGGCT-ATTAAATTAT
*
52519610 GAAAAGGGATGGTGACGACCATCGAAC
64 GAAAAGGGATGGTGACGACCAACGAAC
* * * * **
52519637 AATGAAAAGGGATAGCTTCGACTATCGAATTGTGAAAAAGGATAGCTTCGGCTATTAAATTATGA
1 AATGAAAAGGGATAGCTACAACCATCAAATAATGAAAAAGGATAGCTTCGGCTATTAAATTATGA
52519702 AAAGGGATGGTGACGACCAAC-AAC
66 AAAGGGATGGTGACGACCAACGAAC
* *
52519726 AATGAAAAGGGAT-GGTGACAACCATCAAATAATGAAAAGGGATAGCTTCGGCTAT
1 AATGAAAAGGGATAGCT-ACAACCATCAAATAATGAAAAAGGATAGCTTCGGCTAT
52519781 CAAGCTGCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
86 2 0.02
87 38 0.31
88 2 0.02
89 48 0.40
90 29 0.24
91 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (90 bp):
AATGAAAAGGGATAGCTACAACCATCAAATAATGAAAAAGGATAGCTTCGGCTATTAAATTATGA
AAAGGGATGGTGACGACCAACGAAC
Found at i:52519820 original size:119 final size:119
Alignment explanation
Indices: 52519519--52519823 Score: 294
Period size: 119 Copynumber: 2.6 Consensus size: 119
52519509 ATCATCGACT
* * ** * * * *
52519519 AATGAAAAGGGATAGCTTC-AGCTATCAAAATAATGAAAAGGGATAGCCTCAGCTATCAAATTAT
1 AATGAAAAGGGATAGCTTCGA-CTATCGAACT-GCGAAAAAGGATAACTTCAGCTATCAAACTAT
* * * * * * *
52519583 GAAAAAGGATAGTGATGA--ATCAATAATGAAAAGGGATGGTGACGACCATCGAAC
64 GAAAAGGGATGGTGACGACCAACAACAATGAAAAGGGATGGTGACAACCATCAAAC
* * * * * *
52519637 AATGAAAAGGGATAGCTTCGACTATCGAATTGTGAAAAAGGATAGCTTCGGCTATTAAATTATGA
1 AATGAAAAGGGATAGCTTCGACTATCGAACTGCGAAAAAGGATAACTTCAGCTATCAAACTATGA
*
52519702 AAAGGGATGGTGACGACCAACAACAATGAAAAGGGATGGTGACAACCATCAAAT
66 AAAGGGATGGTGACGACCAACAACAATGAAAAGGGATGGTGACAACCATCAAAC
* * * * * * *
52519756 AATGAAAAGGGATAGCTTCGGCTATC-AAGCTGCGAGAAGGGATAACTTTATCTATCGAGCTATG
1 AATGAAAAGGGATAGCTTCGACTATCGAA-CTGCGAAAAAGGATAACTTCAGCTATCAAACTATG
52519820 AAAA
65 AAAA
52519824 AGGTCGTGAC
Statistics
Matches: 155, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
117 42 0.27
118 29 0.19
119 84 0.54
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (119 bp):
AATGAAAAGGGATAGCTTCGACTATCGAACTGCGAAAAAGGATAACTTCAGCTATCAAACTATGA
AAAGGGATGGTGACGACCAACAACAATGAAAAGGGATGGTGACAACCATCAAAC
Found at i:52521662 original size:25 final size:25
Alignment explanation
Indices: 52521621--52521668 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
52521611 TTTAGTTTGG
* *
52521621 ATAAGCTTCCTGATACATGGCTCAC
1 ATAAGCATCCTGATACAGGGCTCAC
52521646 ATAAGCATCCT-ATTACAGGGCTC
1 ATAAGCATCCTGA-TACAGGGCTC
52521669 GAGAAAGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (25 bp):
ATAAGCATCCTGATACAGGGCTCAC
Found at i:52521855 original size:15 final size:15
Alignment explanation
Indices: 52521827--52521863 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
52521817 ACTAAACTTT
*
52521827 AAATGATTTTTCTTGG
1 AAAT-ATTTGTCTTGG
52521843 AAATATTTGTCTTGG
1 AAATATTTGTCTTGG
52521858 AAATAT
1 AAATAT
52521864 ACATGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.46
Consensus pattern (15 bp):
AAATATTTGTCTTGG
Found at i:52527418 original size:13 final size:13
Alignment explanation
Indices: 52527400--52527425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52527390 TTTAGTCCTG
52527400 ACCCCTTTCTAAA
1 ACCCCTTTCTAAA
52527413 ACCCCTTTCTAAA
1 ACCCCTTTCTAAA
52527426 GCATGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (13 bp):
ACCCCTTTCTAAA
Found at i:52553263 original size:37 final size:37
Alignment explanation
Indices: 52553221--52553301 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
52553211 CGGGGTTTTA
* **
52553221 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTACTCATCGGGTCTT
*
52553258 ACCCGGACAGAATCTCCACACGTACTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTACTCATCGGGTCTT
52553295 ACCCGGA
1 ACCCGGA
52553302 ATATATTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTACTCATCGGGTCTT
Found at i:52553575 original size:48 final size:48
Alignment explanation
Indices: 52553460--52553585 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
52553450 TATTGCACAA
* ** *
52553460 TAGCCATTTGGCTTTACCAAATATACATCCCTCATACATATTTCATAT
1 TAGCCATTTGGCTTTACCACATATACATATCTCATACATATCTCATAT
*
52553508 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTTGGCTTTACCACATATACATATCTCATACATATCTCATAT
* * *
52553556 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTTGGCTTTACCACATATACATAT
52553586 ATTTACCTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (48 bp):
TAGCCATTTGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:52559264 original size:40 final size:40
Alignment explanation
Indices: 52559137--52559266 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52559127 ATGCTGGAAA
* *
52559137 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
52559177 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
52559217 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
52559257 TTATATCCGG
1 TTATATCCGG
52559267 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:52567309 original size:40 final size:40
Alignment explanation
Indices: 52567182--52567311 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52567172 ATGCTGGAAA
* *
52567182 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
52567222 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
52567262 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
52567302 TTATATCCGG
1 TTATATCCGG
52567312 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:52568987 original size:40 final size:40
Alignment explanation
Indices: 52568935--52569145 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
52568925 CATTTGAATG
* * *
52568935 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
52568975 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
52569015 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
52569055 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA-C
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
52569094 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
52569134 ATATCC-GGCTAA
1 ATATCCGGGCTAA
52569146 ATTCCGAAGA
Statistics
Matches: 149, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 37 0.25
40 110 0.74
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:52577104 original size:40 final size:40
Alignment explanation
Indices: 52577052--52577263 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
52577042 CATTTGAATG
* * *
52577052 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
52577092 ATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * **
52577132 ATATCTGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTCTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGATT
* * **
52577172 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
52577212 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
52577252 ATATCC-GGCTAA
1 ATATCCGGGCTAA
52577264 ATTCCGAAGA
Statistics
Matches: 143, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 6 0.04
40 137 0.96
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:52580124 original size:98 final size:97
Alignment explanation
Indices: 52580001--52580294 Score: 475
Period size: 98 Copynumber: 3.0 Consensus size: 97
52579991 GCGGAAATTG
52580001 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT-AAATATATATATGAGATATGT
*
52580066 ATATCTGGTAAAGCCAAATGGCTAATGTGAAAT
65 ATATCTGGTAAAGCCGAATGGCTAATGTGAAAT
52580099 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT-AAATATATATATGAGATATGT
52580164 ATATGC-GGTAAAGCCGAATGGCTAATGTGAAAT
65 ATAT-CTGGTAAAGCCGAATGGCTAATGTGAAAT
* * * *
52580197 ATGTATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAA-GTATGTATGAGATATGTA
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAATATATATATGAGATATGTA
* * *
52580261 TATGTGGTAAAGTCGAATGGTTAATGTGAAAT
66 TATCTGGTAAAGCCGAATGGCTAATGTGAAAT
52580293 AT
1 AT
52580295 ATATATATGA
Statistics
Matches: 185, Mismatches: 9, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
96 46 0.25
97 2 0.01
98 136 0.74
99 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (97 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAATATATATATGAGATATGTA
TATCTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:52580125 original size:48 final size:48
Alignment explanation
Indices: 52580001--52580294 Score: 462
Period size: 48 Copynumber: 6.0 Consensus size: 48
52579991 GCGGAAATTG
*
52580001 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT-GAA-AT
* * *
52580051 ATATATGAGATATGTATATCTGGTAAAGCCAAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52580099 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
52580149 ATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52580197 ATGTATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52580245 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGTTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52580293 AT
1 AT
52580295 ATATATATGA
Statistics
Matches: 225, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
48 135 0.60
49 6 0.03
50 84 0.37
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:52580776 original size:48 final size:48
Alignment explanation
Indices: 52580704--52581096 Score: 633
Period size: 48 Copynumber: 8.1 Consensus size: 48
52580694 GCGGAGATTG
52580704 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52580752 ATGTATGAGATATGTATATCTGGTAAAGCCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
52580802 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
52580850 ATGGATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52580898 ATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
52580946 ATGTATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
52580996 ATATATGAGATATGTATATGTGGTAAATCTGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
52581044 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
52581092 ATGTA
1 ATGTA
52581097 GGCGATGTGT
Statistics
Matches: 318, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
48 224 0.70
49 8 0.03
50 86 0.27
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:52581000 original size:703 final size:704
Alignment explanation
Indices: 52579610--52581008 Score: 2508
Period size: 703 Copynumber: 2.0 Consensus size: 704
52579600 AATTTGTACA
* * *
52579610 AAAATGGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAGTTTCAAATGAAATC
1 AAAATGGCTATAAGATAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAAAGAAATC
52579675 CAATAGAACACATTTTGAATTCTGTACAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAGATT
66 CAATAGAACACATTTTGAATTCTGTACAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAGATT
52579740 AGTCAAACAGTGAAACAGGGGAAAATTTAAGAAAAATCTGGTATTGATTGGCCAAACCTAAAATT
131 AGTCAAACAGTGAAACAGGGGAAAATTTAAGAAAAATCTGGTATTGATTGGCCAAACCTAAAATT
52579805 CTGAAAATTTTATGGATGGAAGATATATGAGTCTATATTCAGGGAAAATTAACGGAAATTGATTT
196 CTGAAAATTTTATGGATGGAAGATATATGAGTCTATATTCAGGGAAAATTAACGGAAATTGATTT
*
52579870 TGAGTTTTGTAGCTCCATTTATAAATAATTTAGTGACTATTGCTCAGGAAAACAGCTTGTAGTGA
261 TGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAACAGCTTGTAGTGA
52579935 ATATGTGAATTTGTTGTAAACATTGATGAAACTATTTGAGTTGCTTATAAGCTGTTGCGGAAATT
326 ATATGTGAATTTGTTGTAAACATTGATGAAACTATTTGAGTTGCTTATAAGCTGTTGCGGAAATT
52580000 GATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATATGAGATATG
391 GATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATATGAGATATG
*
52580065 TATATCTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
456 TATATCTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
* *
52580130 AATGGCTAATGTGAAATATATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAA
521 AATGGCTAATGTGAAATATATAGATGAGATAAGTATATGCGGTAAAGCCGAATGGCTAATGTGAA
52580195 ATATGTATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAGATATGT
586 ATATGTATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAGATATGT
52580260 ATATGTGGTAAAGTCGAATGGTTAATGTGAAATATATATATATGAGATATATAG
651 ATATGTGGTAAAGTCGAATGGTTAATGTGAAATATATATATATGAGATATATAG
52580314 AAAATGGCTATAAGATAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAAAGAAATC
1 AAAATGGCTATAAGATAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAAAGAAATC
*
52580379 CAATAGAACACATTTTGAATTCTGTACAATGAGAAATTTGATTTG-AGTGAAGAGTGGTCAGATT
66 CAATAGAACACATTTTGAATTCTGTACAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAGATT
*
52580443 AGTCAAACAGTGAAACAGGGGAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCTAAAATT
131 AGTCAAACAGTGAAACAGGGGAAAATTTAAGAAAAATCTGGTATTGATTGGCCAAACCTAAAATT
* * *
52580508 CTTAAAATTTTATGGATGGAAGATATCTGAGTCTATATTCAGGGAAAATTAACGGCAATTGATTT
196 CTGAAAATTTTATGGATGGAAGATATATGAGTCTATATTCAGGGAAAATTAACGGAAATTGATTT
**
52580573 TGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTTTGGAAAACAGCTTGTAGTGA
261 TGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAACAGCTTGTAGTGA
*
52580638 ATATGTGAATTTGTTGTAAACATTGATGAAACTATTTGAGTTGCTTATAAGCTGTTGCGGAGATT
326 ATATGTGAATTTGTTGTAAACATTGATGAAACTATTTGAGTTGCTTATAAGCTGTTGCGGAAATT
* *
52580703 GATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT-GAA-ATATGTATGAGATATG
391 GATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATATGAGATATG
*
52580766 TATATCTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
456 TATATCTGGTAAAGCCAAATGGCTAATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
* * *
52580831 CGAATGGCTAATGTG-AA-ATATGGATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTG
519 CGAATGGCTAATGTGAAATATATAGATGAGATAAGTATATGCGGTAAAGCCGAATGGCTAATGTG
* *
52580894 AAATATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAGTATGTATGAGATAT
584 AAATATGTATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAGATAT
52580959 GTATATGTGGTAAAG-CTGAATGGTTAATGTG-AA-ATATATATATGAGATAT
649 GTATATGTGGTAAAGTC-GAATGGTTAATGTGAAATATATATATATGAGATAT
52581009 GTATATGTGG
Statistics
Matches: 669, Mismatches: 23, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
699 17 0.03
700 3 0.00
701 177 0.26
702 6 0.01
703 360 0.54
704 106 0.16
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (704 bp):
AAAATGGCTATAAGATAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAAAGAAATC
CAATAGAACACATTTTGAATTCTGTACAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAGATT
AGTCAAACAGTGAAACAGGGGAAAATTTAAGAAAAATCTGGTATTGATTGGCCAAACCTAAAATT
CTGAAAATTTTATGGATGGAAGATATATGAGTCTATATTCAGGGAAAATTAACGGAAATTGATTT
TGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAACAGCTTGTAGTGA
ATATGTGAATTTGTTGTAAACATTGATGAAACTATTTGAGTTGCTTATAAGCTGTTGCGGAAATT
GATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATATGAGATATG
TATATCTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATATAGATGAGATAAGTATATGCGGTAAAGCCGAATGGCTAATGTGAA
ATATGTATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAGATATGT
ATATGTGGTAAAGTCGAATGGTTAATGTGAAATATATATATATGAGATATATAG
Found at i:52581004 original size:146 final size:144
Alignment explanation
Indices: 52580707--52581096 Score: 636
Period size: 146 Copynumber: 2.7 Consensus size: 144
52580697 GAGATTGATG
* *
52580707 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATC
1 TATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
*
52580772 TGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATG
66 TGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
52580837 GCTAATGTGAAATATG
129 GCTAATGTGAAATATA
* *
52580853 GATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* * * *
52580918 TGGTAAATCCGAATGGCTAATGTGAAGTATGTATGAGATATGTATATGTGGTAAAGCTGAATGGT
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
52580983 TAATGTGAAATATATA
131 TAATGTG-AA-ATATA
*
52580999 TATGAGATATGTATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
*
52581064 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTA
52581097 GGCGATGTGT
Statistics
Matches: 226, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
144 42 0.19
145 4 0.02
146 180 0.80
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (144 bp):
TATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
TAATGTGAAATATA
Found at i:52581112 original size:98 final size:98
Alignment explanation
Indices: 52580707--52581093 Score: 652
Period size: 98 Copynumber: 4.0 Consensus size: 98
52580697 GAGATTGATG
*
52580707 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATC
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
52580772 TGGTAAAGCCGAATGGCTAATGTGAAATATATA
66 TGGTAAAGCCGAATGGCTAATGTGAAATATATA
* *
52580805 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGGATGAGATAAGTATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
52580870 TGGTAAAGCTGAATGGCTAATGTG-AA-ATATG
66 TGGTAAAGCCGAATGGCTAATGTGAAATATATA
* *
52580901 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAGTATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
52580966 TGGTAAAGCTGAATGGTTAATGTGAAATATATA
66 TGGTAAAGCCGAATGGCTAATGTGAAATATATA
* *
52580999 TATGAGATATGTATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
*
52581064 TGGTAAAGCCGAATGGCTAGTGTGAAATAT
66 TGGTAAAGCCGAATGGCTAATGTGAAATAT
52581094 GTAGGCGATG
Statistics
Matches: 271, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
96 88 0.32
97 4 0.01
98 179 0.66
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (98 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATATA
Found at i:52581387 original size:37 final size:37
Alignment explanation
Indices: 52581242--52581386 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
52581232 GGAAATATAT
52581242 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52581279 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52581316 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52581353 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52581387 TCATCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52586283 original size:15 final size:17
Alignment explanation
Indices: 52586253--52586285 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
52586243 ACAACCTTTT
52586253 AATAAATTGAACTTAAC
1 AATAAATTGAACTTAAC
52586270 AATAAA-TG-ACTTAAC
1 AATAAATTGAACTTAAC
52586285 A
1 A
52586286 GACCGGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (17 bp):
AATAAATTGAACTTAAC
Found at i:52589247 original size:31 final size:31
Alignment explanation
Indices: 52589212--52589273 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
52589202 TTTAGCTACT
*
52589212 ACGTTTTAGATCATTTC-TATTTTGGTCACTC
1 ACGTTTTAGATC-GTTCATATTTTGGTCACTC
52589243 ACGTTTTAGATCGTTCATATTTTGGTCACTC
1 ACGTTTTAGATCGTTCATATTTTGGTCACTC
52589274 TCCGTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ACGTTTTAGATCGTTCATATTTTGGTCACTC
Found at i:52594357 original size:41 final size:41
Alignment explanation
Indices: 52594220--52594363 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 41
52594210 CGATTCTTAA
* * * *
52594220 CACTGGCTC-AAAGCCCTTTGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * *
52594259 CCACTAGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
52594300 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
52594341 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
52594364 CCCAAGCTCG
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 42 0.49
41 40 0.47
43 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:52600744 original size:15 final size:16
Alignment explanation
Indices: 52600703--52600747 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
52600693 ACTATCATAA
52600703 TATATGAATATGTGTGT
1 TATATG-ATATGTGTGT
* *
52600720 GATGTGATATGTGT-T
1 TATATGATATGTGTGT
52600735 TATATGATATGTG
1 TATATGATATGTG
52600748 ACTATTATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 8 0.33
17 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (16 bp):
TATATGATATGTGTGT
Found at i:52608646 original size:35 final size:35
Alignment explanation
Indices: 52608600--52608672 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
52608590 CATTTGTTAA
52608600 ACCAAAAGGCATTATGAAGAACTCGTAGTGGCCAT
1 ACCAAAAGGCATTATGAAGAACTCGTAGTGGCCAT
52608635 ACCAAAAGGCATTATGAAGAACTCGTAGTGGCCAT
1 ACCAAAAGGCATTATGAAGAACTCGTAGTGGCCAT
52608670 ACC
1 ACC
52608673 TCGTCCTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (35 bp):
ACCAAAAGGCATTATGAAGAACTCGTAGTGGCCAT
Found at i:52610093 original size:68 final size:70
Alignment explanation
Indices: 52610021--52610218 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
52610011 ACACCCTGTA
* * * *
52610021 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
52610083 ATAAAT
65 ATAAAT
*
52610089 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
52610154 ATAAAT
65 ATAAAT
*
52610160 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
52610219 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:52610132 original size:41 final size:41
Alignment explanation
Indices: 52610087--52610204 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52610077 TGAAAGATAA
52610087 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52610128 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52610158 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52610199 ATGTAG
1 ATGTAG
52610205 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52610144 original size:71 final size:71
Alignment explanation
Indices: 52610055--52610218 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52610045 GAGATGTATC
52610055 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52610120 AGGACA
66 AGGACA
52610126 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52610191 AGGACA
66 AGGACA
52610197 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52610219 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52614615 original size:37 final size:37
Alignment explanation
Indices: 52614556--52614664 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
52614546 AGCTCAGATG
* *
52614556 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52614593 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52614630 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52614665 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52614865 original size:48 final size:48
Alignment explanation
Indices: 52614810--52615202 Score: 633
Period size: 48 Copynumber: 8.1 Consensus size: 48
52614800 ACACATCGCC
*
52614810 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
52614858 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
52614908 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
52614956 TACATACTTCACATTAGCCATTCGGATTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
52615004 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
52615052 TCCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
52615102 TATATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
52615150 TACATATTTCACATTAGCCATTCGTCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
52615198 TACAT
1 TACAT
52615203 CAATCTCCGC
Statistics
Matches: 319, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
48 228 0.71
50 91 0.29
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:52614936 original size:98 final size:98
Alignment explanation
Indices: 52614813--52615199 Score: 652
Period size: 98 Copynumber: 4.0 Consensus size: 98
52614803 CATCGCCTAC
* *
52614813 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
52614878 TTCAGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
52614911 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATACATACTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
52614976 TTCGGATTTACCACATATACATATCTC--ATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
52615007 ATATTTCACATTAGCCATTCAGCTTTACCACATATACTTATCTCATCCATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
52615072 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
52615105 ATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
52615170 TTCGTCTTTACCACATATACATATCTCATA
66 TTCGGCTTTACCACATATACATATCTCATA
52615200 CATCAATCTC
Statistics
Matches: 269, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
96 90 0.33
98 179 0.67
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:52614986 original size:146 final size:147
Alignment explanation
Indices: 52614810--52615199 Score: 644
Period size: 146 Copynumber: 2.7 Consensus size: 147
52614800 ACACATCGCC
*
52614810 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
52614875 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCAGCTTTACC
66 CCATTCAGCTTTACCACATATACATATCTCATATACATATTTCACATTAACCATTCAGCTTTACC
52614940 ACATATACATATCTC-A
131 ACATATACATATCTCAA
* *
52614956 TACATACTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* * * *
52615021 CCATTCAGCTTTACCACATATACTTATCTC--ATCCATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCAGCTTTACCACATATACATATCTCATATACATATTTCACATTAACCATTCAGCTTTACC
52615084 ACATATACATATCTCATA
131 ACATATACATATCTCA-A
* *
52615102 TATATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
52615167 CCATTC-GTCTTTACCACATATACATATCTCATA
66 CCATTCAG-CTTTACCACATATACATATCTCATA
52615200 CATCAATCTC
Statistics
Matches: 226, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
144 44 0.19
145 1 0.00
146 180 0.80
148 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (147 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATACATATCTCATATACATATTTCACATTAACCATTCAGCTTTACC
ACATATACATATCTCAA
Found at i:52615034 original size:194 final size:194
Alignment explanation
Indices: 52614810--52615202 Score: 687
Period size: 194 Copynumber: 2.0 Consensus size: 194
52614800 ACACATCGCC
*
52614810 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAG
52614875 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCAGCTTTACC
66 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCAGCTTTACC
52614940 ACATATACATATCTCATACATACTTCACATTAGCCATTCGGATTTACCACATATACATATCTCA
131 ACATATACATATCTCATACATACTTCACATTAGCCATTCGGATTTACCACATATACATATCTCA
* * *
52615004 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACTTATCTCATCCATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* * *
52615069 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCAGCTTTACC
* * **
52615134 AGATATACATATCTCATACATATTTCACATTAGCCATTCGTCTTTACCACATATACATATCTCA
131 ACATATACATATCTCATACATACTTCACATTAGCCATTCGGATTTACCACATATACATATCTCA
52615198 TACAT
1 TACAT
52615203 CAATCTCCGC
Statistics
Matches: 188, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 188 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (194 bp):
TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCAGCTTTACC
ACATATACATATCTCATACATACTTCACATTAGCCATTCGGATTTACCACATATACATATCTCA
Found at i:52623580 original size:46 final size:46
Alignment explanation
Indices: 52623525--52623705 Score: 228
Period size: 46 Copynumber: 3.9 Consensus size: 46
52623515 TAGGATGGTT
52623525 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
52623571 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
52623617 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
52623664 GA--ATGCCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCAT-CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52623706 GCGGGTTACA
Statistics
Matches: 117, Mismatches: 9, Indels: 18
0.81 0.06 0.12
Matches are distributed among these distances:
43 4 0.03
44 2 0.02
45 4 0.03
46 68 0.58
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:52623686 original size:93 final size:93
Alignment explanation
Indices: 52623527--52623697 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
52623517 GGATGGTTGA
*
52623527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
52623592 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
52623620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
52623684 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
52623698 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52626675 original size:15 final size:15
Alignment explanation
Indices: 52626655--52626723 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
52626645 GTATCTTGGG
52626655 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
52626670 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
52626685 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
52626700 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
52626715 TTTCTTTAT
1 TTTCTTTAT
52626724 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:52626724 original size:30 final size:30
Alignment explanation
Indices: 52626646--52626733 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
52626636 CATAGTATCG
* * * *
52626646 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
52626676 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
52626706 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
52626734 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:52627119 original size:208 final size:208
Alignment explanation
Indices: 52626761--52627177 Score: 816
Period size: 208 Copynumber: 2.0 Consensus size: 208
52626751 AATTTGTCAA
52626761 TTATGACTCATGTTCGAAGTACGTTCTTCAGCTCGTGATAATCATGTCAAATATGACTATACTTC
1 TTATGACTCATGTTCGAAGTACGTTCTTCAGCTCGTGATAATCATGTCAAATATGACTATACTTC
52626826 TAATTTGATCTTGGTAATGTGGTGATTTTAGTATTGGGATTTTTTCTAATTTATGTGTAAGGATT
66 TAATTTGATCTTGGTAATGTGGTGATTTTAGTATTGGGATTTTTTCTAATTTATGTGTAAGGATT
*
52626891 TGACATCAGTAAAGGCATAGGTGATAAAAGCGCGAGTTTCAGTCGGTATGGTAAATTATTTATTT
131 TGACATCAGTAAAGGCATAGGTGATAAAAGCGAGAGTTTCAGTCGGTATGGTAAATTATTTATTT
*
52626956 GAAAGATTTCATG
196 GAAAAATTTCATG
52626969 TTATGACTCATGTTCGAAGTACGTTCTTCAGCTCGTGATAATCATGTCAAATATGACTATACTTC
1 TTATGACTCATGTTCGAAGTACGTTCTTCAGCTCGTGATAATCATGTCAAATATGACTATACTTC
52627034 TAATTTGATCTTGGTAATGTGGTGATTTTAGTATTGGGATTTTTTCTAATTTATGTGTAAGGATT
66 TAATTTGATCTTGGTAATGTGGTGATTTTAGTATTGGGATTTTTTCTAATTTATGTGTAAGGATT
52627099 TGACATCAGTAAAGGCATAGGTGATAAAAGCGAGAGTTTCAGTCGGTATGGTAAATTATTTATTT
131 TGACATCAGTAAAGGCATAGGTGATAAAAGCGAGAGTTTCAGTCGGTATGGTAAATTATTTATTT
52627164 GAAAAATTTCATG
196 GAAAAATTTCATG
52627177 T
1 T
52627178 GACAATTATG
Statistics
Matches: 207, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 207 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (208 bp):
TTATGACTCATGTTCGAAGTACGTTCTTCAGCTCGTGATAATCATGTCAAATATGACTATACTTC
TAATTTGATCTTGGTAATGTGGTGATTTTAGTATTGGGATTTTTTCTAATTTATGTGTAAGGATT
TGACATCAGTAAAGGCATAGGTGATAAAAGCGAGAGTTTCAGTCGGTATGGTAAATTATTTATTT
GAAAAATTTCATG
Found at i:52628910 original size:46 final size:46
Alignment explanation
Indices: 52628855--52629035 Score: 226
Period size: 46 Copynumber: 3.9 Consensus size: 46
52628845 TAGGATGGTT
52628855 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
52628901 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
52628947 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
52628994 GAAC-GCCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52629036 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
43 4 0.03
45 4 0.03
46 69 0.59
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:52629016 original size:93 final size:93
Alignment explanation
Indices: 52628857--52629027 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
52628847 GGATGGTTGA
*
52628857 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
52628922 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52628950 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
52629014 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
52629028 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52635592 original size:28 final size:27
Alignment explanation
Indices: 52635529--52635598 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
52635519 ATAGTGAGTC
52635529 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
52635556 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
52635584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52635599 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:52650033 original size:26 final size:26
Alignment explanation
Indices: 52650002--52650051 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
52649992 TGGGTAACAA
52650002 AGAAAATGCATGCATTTCATTTTATG
1 AGAAAATGCATGCATTTCATTTTATG
52650028 AGAAAATGCATGCATTTCATTTTA
1 AGAAAATGCATGCATTTCATTTTA
52650052 CGAGCCTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (26 bp):
AGAAAATGCATGCATTTCATTTTATG
Found at i:52652241 original size:25 final size:26
Alignment explanation
Indices: 52652186--52652234 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
52652176 CCTTCCTTTT
* *
52652186 CTTTTTCTTTTCATTTTTAGTTTAAG
1 CTTTCTCTTTTCATTTTTAGATTAAG
*
52652212 TTTTCTCTTTTC-TTTTTAGATTA
1 CTTTCTCTTTTCATTTTTAGATTA
52652235 GACTTTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.14, C:0.12, G:0.06, T:0.67
Consensus pattern (26 bp):
CTTTCTCTTTTCATTTTTAGATTAAG
Found at i:52654321 original size:40 final size:40
Alignment explanation
Indices: 52654236--52654386 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
52654226 AATTGAATGA
* * *
52654236 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
52654276 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
52654317 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
52654356 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
52654387 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:52654400 original size:40 final size:40
Alignment explanation
Indices: 52654273--52654402 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
52654263 ATGCTGGAAA
* * * *
52654273 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
52654313 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
52654353 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
52654393 TTATATCCGG
1 TTATATCCGG
52654403 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:52674657 original size:20 final size:20
Alignment explanation
Indices: 52674628--52674667 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52674618 CTCTAAAACA
*
52674628 GATTCCTTACCTTACAGTTG
1 GATTCCTTACCCTACAGTTG
*
52674648 GATTCTTTACCCTACAGTTG
1 GATTCCTTACCCTACAGTTG
52674668 ATTTATCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (20 bp):
GATTCCTTACCCTACAGTTG
Found at i:52678977 original size:16 final size:16
Alignment explanation
Indices: 52678950--52678988 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
52678940 CAGCCTACAT
52678950 TTTTCATTTATTCACAC
1 TTTTC-TTTATTCACAC
*
52678967 TTTTCTTTATTCAGAC
1 TTTTCTTTATTCACAC
52678983 TTTTCT
1 TTTTCT
52678989 ACACATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTTCTTTATTCACAC
Found at i:52683609 original size:20 final size:20
Alignment explanation
Indices: 52683586--52683625 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
52683576 CCTTTTGGCA
* *
52683586 CATTCTATTCGCCTTTGTGG
1 CATTCTACTAGCCTTTGTGG
*
52683606 CATTCTGCTAGCCTTTGTGG
1 CATTCTACTAGCCTTTGTGG
52683626 TGTACTCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (20 bp):
CATTCTACTAGCCTTTGTGG
Found at i:52684531 original size:30 final size:30
Alignment explanation
Indices: 52684473--52684532 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52684463 ATTCCTGAGC
*
52684473 CTAGGGGCAAAAGTGTAAATATGCAAAAGT
1 CTAGGGGCAAAAGTGTAAATATGAAAAAGT
* * * *
52684503 CTAGGGTCAAAATTGTAATTTTGAAAAAGT
1 CTAGGGGCAAAAGTGTAAATATGAAAAAGT
52684533 TTGAGTTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (30 bp):
CTAGGGGCAAAAGTGTAAATATGAAAAAGT
Found at i:52685469 original size:50 final size:49
Alignment explanation
Indices: 52685348--52685532 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 49
52685338 CTAGGTCGCA
* * * * * *
52685348 TGTGTAGTACTAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
*
52685399 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * * * *
52685449 TCTGTAGTACTAGGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
52685498 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
52685533 AAAAGTTTGG
Statistics
Matches: 114, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 34 0.30
50 45 0.39
51 35 0.31
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:52686629 original size:2 final size:2
Alignment explanation
Indices: 52686622--52686648 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52686612 TCATGACATG
52686622 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
52686649 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52688200 original size:26 final size:27
Alignment explanation
Indices: 52688171--52688295 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
52688161 TTTGGTTTAC
52688171 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
*
52688197 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
52688224 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
52688251 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
52688278 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
52688296 TCGACCTGTC
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.16
27 74 0.83
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:52688309 original size:27 final size:27
Alignment explanation
Indices: 52688279--52688353 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
52688269 CTAATTTGTG
*
52688279 AAATTACTGAAATACCCTCGACCTGTC
1 AAATTACTGAAATACCCTCGACCTGTA
* * *
52688306 AAATTATTGGAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
52688333 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
52688354 TTTATAGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:52688310 original size:54 final size:54
Alignment explanation
Indices: 52688194--52688311 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 54
52688184 TACCCTGCTT
* * * **
52688194 TGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTT
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCC
* *
52688248 TGTAAAATTACCAAAATACCCCTAATTTGTGAAATTA-CTGAAATACCCTCGA-CC
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATC-AAAATACCC-CGAGCC
*
52688302 TGTCAAATTA
1 TGTAAAATTA
52688312 TTGGAATACC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.02
54 51 0.94
55 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCC
Found at i:52688310 original size:81 final size:81
Alignment explanation
Indices: 52688171--52688349 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 81
52688161 TTTGGTTTAC
** * **
52688171 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTATCAA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCCGAGCCTGTAAAATTATCAA
*
52688235 AATACCCCTAG-TTTGT
66 AATA-CCCTAGACTTGT
* * * **
52688251 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGA-CCTGTCAAATTATTG
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCC-CGAGCCTGTAAAATTATCA
* *
52688315 GAATACCCTCGACTTGT
65 AAATACCCTAGACTTGT
*
52688332 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
52688350 TCGATTTATA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 20 0.24
81 60 0.73
82 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCCGAGCCTGTAAAATTATCAA
AATACCCTAGACTTGT
Found at i:52688365 original size:54 final size:54
Alignment explanation
Indices: 52688314--52688582 Score: 159
Period size: 54 Copynumber: 5.0 Consensus size: 54
52688304 TCAAATTATT
*
52688314 GGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACC
1 GGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACC
*** * ****
52688368 GTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACC
1 GGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACC
*** * * *** *
52688422 GTTTTACCCTC-AGTT-TACAGAATTACTATTTTACCCTCGATTTATAGAATTACC
1 GGAATACCCTCGACTTGTA-A-AATTACCAAAGTACCCTCGATTTACAGAATTACC
*** * * ****
52688476 GTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATTTACAGAATTACC
1 GGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACC
*** * *** *
52688530 GTTTTACCCTCGA-TT-TACCGAATTACCATTTTACCCTCGATTTATAGAATTAC
1 GGAATACCCTCGACTTGTA--AAATTACCAAAGTACCCTCGATTTACAGAATTAC
52688583 TGTTTTACCC
Statistics
Matches: 187, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.02
53 6 0.03
54 171 0.91
55 4 0.02
56 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (54 bp):
GGAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACC
Found at i:52688624 original size:108 final size:108
Alignment explanation
Indices: 52688345--52688636 Score: 480
Period size: 108 Copynumber: 2.7 Consensus size: 108
52688335 ATTACCAAAG
*
52688345 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATT
*
52688410 TACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTT
66 TACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
52688453 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTA-TCGTTTTACCCTCGAT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACT-GTTTTACCCTCGAT
*
52688517 TTACAGAATTACCGTTTTACCCTC-GATTTACCGAATTACCATTT
65 TTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTT
* * **
52688561 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATT
*
52688626 TACAAAATTAC
66 TACAGAATTAC
52688637 TAAAATACCA
Statistics
Matches: 173, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
107 1 0.01
108 171 0.99
109 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (108 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATT
TACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTT
Found at i:52688637 original size:27 final size:27
Alignment explanation
Indices: 52688345--52688636 Score: 397
Period size: 27 Copynumber: 10.8 Consensus size: 27
52688335 ATTACCAAAG
*
52688345 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
52688372 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
52688399 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
52688426 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
52688453 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * *
52688480 TACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
52688507 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
52688534 TACCCTCGATTTACCGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
52688561 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
52688588 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
52688615 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
52688637 TAAAATACCA
Statistics
Matches: 236, Mismatches: 27, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 234 0.99
28 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:52689989 original size:20 final size:20
Alignment explanation
Indices: 52689964--52690006 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
52689954 ATTTTGATAA
52689964 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52689984 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52690004 ACA
1 ACA
52690007 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52690014 original size:20 final size:20
Alignment explanation
Indices: 52689971--52690014 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
52689961 TAAACATGAT
* *
52689971 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
52689991 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
52690011 ATGT
1 ATGT
52690015 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:52690088 original size:24 final size:24
Alignment explanation
Indices: 52690061--52690227 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
52690051 GAGGAAGTGA
52690061 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
52690085 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
52690109 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52690133 AAAAGGGCTTACGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52690156 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52690180 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
52690204 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
52690228 ATGATAAAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
23 20 0.15
24 99 0.76
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:52690456 original size:31 final size:31
Alignment explanation
Indices: 52690421--52690484 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52690411 CGTTTACCGT
*
52690421 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
52690452 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
52690483 AA
1 AA
52690485 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:52697489 original size:30 final size:29
Alignment explanation
Indices: 52697446--52697506 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
52697436 CAAGTAGCTG
52697446 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
52697475 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
52697505 AA
1 AA
52697507 ACTTTCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:52701287 original size:64 final size:64
Alignment explanation
Indices: 52701210--52701337 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
52701200 ATCAATTCGG
52701210 GGCAAAGGATACTTATTCTTGACAGTGACTTTATTCAACTGACGATAATTTATACACATTCTCA
1 GGCAAAGGATACTTATTCTTGACAGTGACTTTATTCAACTGACGATAATTTATACACATTCTCA
52701274 GGCAAAGGATACTTATTCTTGACAGTGACTTTATTCAACTGACGATAATTTATACACATTCTCA
1 GGCAAAGGATACTTATTCTTGACAGTGACTTTATTCAACTGACGATAATTTATACACATTCTCA
52701338 TTGTACCGTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (64 bp):
GGCAAAGGATACTTATTCTTGACAGTGACTTTATTCAACTGACGATAATTTATACACATTCTCA
Found at i:52703413 original size:39 final size:39
Alignment explanation
Indices: 52703295--52703477 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52703285 TCGTTCAAAC
* * ** * **
52703295 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
52703335 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
52703375 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
52703414 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
52703453 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
52703478 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:52708169 original size:30 final size:29
Alignment explanation
Indices: 52708125--52708186 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 29
52708115 TCAAGTAGCT
52708125 AAAGCTAGTTAAATCGCACACTTAGTGCC
1 AAAGCTAGTTAAATCGCACACTTAGTGCC
52708154 AAAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAAGCTAG-TTAAATCGCACACTTAGTGCC
52708184 AAA
1 AAA
52708187 ACTTCTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAGCTAGTTAAATCGCACACTTAGTGCC
Found at i:52712852 original size:43 final size:43
Alignment explanation
Indices: 52712805--52712890 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
52712795 TTTCTCCTAT
* *
52712805 AAAAAAGAATTTACAGAGAGGAGAAGATAATCATAGG-TTGTTG
1 AAAAAAGAATTTACAAAGAGGAGAAGATAAACAT-GGATTGTTG
52712848 AAAAAAGAATTTACAAAGAGGAGAAGATAAACATGGATTGTTG
1 AAAAAAGAATTTACAAAGAGGAGAAGATAAACATGGATTGTTG
52712891 GTTTTACCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 38 0.95
ACGTcount: A:0.49, C:0.05, G:0.24, T:0.22
Consensus pattern (43 bp):
AAAAAAGAATTTACAAAGAGGAGAAGATAAACATGGATTGTTG
Found at i:52716740 original size:79 final size:80
Alignment explanation
Indices: 52716604--52716751 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 80
52716594 ATGATGTCCG
* * * *
52716604 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGGAGGCATTCGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTGC
52716669 GAGTTAATAAATCCA
66 GAGTTAATAAATCCA
* **
52716684 GGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTCGT
1 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCGT
52716746 GCGAGT
64 GCGAGT
52716752 CACTATAACC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.02
79 44 0.75
80 14 0.24
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTGC
GAGTTAATAAATCCA
Found at i:52716741 original size:40 final size:40
Alignment explanation
Indices: 52716600--52716784 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
52716590 TCGAATGATG
* *
52716600 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * * * *
52716640 TCCGGACTAGGAT-CCGGAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
*
52716680 TCCAGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * *
52716719 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
**
52716760 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52716785 AGCGAGTCGT
Statistics
Matches: 115, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
39 31 0.27
40 75 0.65
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:52724710 original size:40 final size:39
Alignment explanation
Indices: 52724666--52724777 Score: 120
Period size: 38 Copynumber: 2.8 Consensus size: 39
52724656 AAGTGACTAT
*
52724666 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGGCTA-GATCCGAAGGCATTCGTGCGAGTTAATAA
* * * *
52724706 ATCCGGGCTA-AGCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
* *
52724744 ACCCGGGTTA-AGTCCCGAAGGCATTCGTGCGAGT
1 ATCCGGGCTAGA-T-CCGAAGGCATTCGTGCGAGT
52724778 CACTATAACC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 33 0.55
40 27 0.45
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:52724790 original size:40 final size:40
Alignment explanation
Indices: 52724680--52724818 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
52724670 GGACTAGGAT
* * * *
52724680 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG--
1 CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGTTAAGTC
* * *
52724718 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGTTAAGTC
*
52724758 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTT-CGTC
1 CCGAAGGCATTCGTGCGAGTCACTA-AACCCGGG-TTAAGTC
* *
52724798 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTCGTGCGAGTC
52724819 GTTATATCCG
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 33 0.38
40 49 0.57
41 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGTTAAGTC
Found at i:52724790 original size:78 final size:80
Alignment explanation
Indices: 52724628--52724810 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 80
52724618 TCGAATGATG
* * *
52724628 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
52724692 GTGCGAGTTAATAAA
66 GTGCGAGTCAATAAA
* **
52724707 TCCGGGCTAAG-CCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
52724769 CGTGCGAGTCACTATAA
65 CGTGCGAGTCAATA-AA
**
52724786 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
52724811 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 55 0.62
79 20 0.22
80 13 0.15
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATAAA
Found at i:52726547 original size:34 final size:35
Alignment explanation
Indices: 52726493--52726594 Score: 170
Period size: 34 Copynumber: 2.9 Consensus size: 35
52726483 CTTGCCTCTT
*
52726493 CCACTCTCCCACGCTGTCTGCCACCAGCACCATTC
1 CCACTCTCCCATGCTGTCTGCCACCAGCACCATTC
*
52726528 CCACTCT-CCATGCTGTCTGCCACCAGCACCACTC
1 CCACTCTCCCATGCTGTCTGCCACCAGCACCATTC
*
52726562 CCACTCTCCCATGCTGTCTGCCGCCAGCACCAT
1 CCACTCTCCCATGCTGTCTGCCACCAGCACCAT
52726595 CACACACCCC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 32 0.52
35 30 0.48
ACGTcount: A:0.17, C:0.50, G:0.13, T:0.21
Consensus pattern (35 bp):
CCACTCTCCCATGCTGTCTGCCACCAGCACCATTC
Found at i:52732923 original size:27 final size:28
Alignment explanation
Indices: 52732866--52732935 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
52732856 AAATTTGTAC
**
52732866 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
52732894 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
52732921 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
52732936 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:52732944 original size:27 final size:27
Alignment explanation
Indices: 52732866--52732947 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
52732856 AAATTTGTAC
* *
52732866 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
52732894 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
52732921 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
52732948 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:52734788 original size:28 final size:27
Alignment explanation
Indices: 52734725--52734794 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
52734715 ATAGTGAGTC
52734725 CGCACACTTAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTATATCATCAACT
*
52734752 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATCATC-AACT
52734780 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52734795 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATCATCAACT
Found at i:52740984 original size:40 final size:40
Alignment explanation
Indices: 52740935--52741160 Score: 368
Period size: 40 Copynumber: 5.7 Consensus size: 40
52740925 GCTACTTGCT
52740935 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
52740975 AAATGCCTTCGGGACTTAGCCC--TTATAATAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
52741013 AAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
52741053 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* * *
52741093 AAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
52741133 AAATGCCTTCGGGACTTAGCCCGGTTAT
1 AAATGCCTTCGGGACTTAGCCCGGTTAT
52741161 CATCCGAATA
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 36 0.21
39 1 0.01
40 135 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:52741136 original size:80 final size:80
Alignment explanation
Indices: 52740902--52741156 Score: 360
Period size: 78 Copynumber: 3.2 Consensus size: 80
52740892 AAACCAAGTA
* * * *
52740902 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGC-TAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
52740964 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * *
52740980 CCTTCGGGACTTAGCCC--TTATAATAACTCGCACAAATGCCTTTGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
52741043 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
52741058 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
* *
52741122 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
52741138 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52741157 TTATCATCCG
Statistics
Matches: 158, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
76 1 0.01
77 9 0.06
78 73 0.46
79 3 0.02
80 72 0.46
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:52748688 original size:25 final size:26
Alignment explanation
Indices: 52748660--52748710 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
52748650 GAGCATCTTG
*
52748660 ATTAAA-GGCTCTTTGTGAGCTTCCT
1 ATTAAATGGCTCCTTGTGAGCTTCCT
52748685 ATTAAATTGGCTCCTTGTGAGCTTCC
1 ATTAAA-TGGCTCCTTGTGAGCTTCC
52748711 CAAAAGTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
27 17 0.74
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTAAATGGCTCCTTGTGAGCTTCCT
Found at i:52753570 original size:40 final size:40
Alignment explanation
Indices: 52753515--52753682 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
52753505 TGAATGATAC
* *
52753515 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
52753555 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
52753595 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
52753635 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
52753675 CC-GGCTAA
1 CCGGGCTAA
52753683 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:52761846 original size:40 final size:40
Alignment explanation
Indices: 52761791--52761958 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
52761781 TGAATGATAC
* *
52761791 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
52761831 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
52761871 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
52761911 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
52761951 CC-GGCTAA
1 CCGGGCTAA
52761959 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:52767365 original size:19 final size:17
Alignment explanation
Indices: 52767341--52767375 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
52767331 GAAAGTGGAA
52767341 AAATTAAAATATGATAATT
1 AAATT-AAATA-GATAATT
52767360 AAATTAAATAGATAAT
1 AAATTAAATAGATAAT
52767376 ATCATCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
AAATTAAATAGATAATT
Found at i:52768385 original size:25 final size:25
Alignment explanation
Indices: 52768352--52768411 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
52768342 TAGCTCTTAT
52768352 GAGCGTTCCGATTA-AAGGCTCTTCGA
1 GAGC-TTCCG-TTACAAGGCTCTTCGA
* * *
52768378 GAGCTTCCCGTTACATGGCTCTTTGT
1 GAGCTT-CCGTTACAAGGCTCTTCGA
52768404 GAGCTTCC
1 GAGCTTCC
52768412 CCGATAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.32
Consensus pattern (25 bp):
GAGCTTCCGTTACAAGGCTCTTCGA
Found at i:52769252 original size:30 final size:30
Alignment explanation
Indices: 52769216--52769273 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
52769206 GCCGTATGAA
52769216 AAATTTTATTTTCAAAATTTATGTGCAGGC
1 AAATTTTATTTTCAAAATTTATGTGCAGGC
*
52769246 AAATTTTATTTTCGAAATTTATGTGCAG
1 AAATTTTATTTTCAAAATTTATGTGCAG
52769274 TTTCACACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
AAATTTTATTTTCAAAATTTATGTGCAGGC
Found at i:52778511 original size:84 final size:84
Alignment explanation
Indices: 52778381--52778593 Score: 320
Period size: 84 Copynumber: 2.5 Consensus size: 84
52778371 CACCGGCAAT
* * * * *
52778381 AAGCCTGCTAGACCTTTAAGTTTGATATCATTCCACTGGCATTACGCCTGCTAAGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTTCGATATCATTTCACCGGCATTACGCCTACTAAGCTCGGAGCCC
*
52778446 GATAATATTCACCAGCTTA
66 AATAATATTCACCAGCTTA
* * * *
52778465 AAGCTTGCTAAACCTTTAAGTTCGATATCATTTCACCGGCAATACGCCTACTAGGCTTGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTTCGATATCATTTCACCGGCATTACGCCTACTAAGCTCGGAGCCC
52778530 AATAATATTCACCAGCTTA
66 AATAATATTCACCAGCTTA
*
52778549 AAGCTTGCTAGACCTTTAAGTCCGAT-TCATTTCACCGGCATTACG
1 AAGCTTGCTAGACCTTTAAGTTCGATATCATTTCACCGGCATTACG
52778594 AAGTCTGATA
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 18 0.16
84 98 0.84
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTTCGATATCATTTCACCGGCATTACGCCTACTAAGCTCGGAGCCC
AATAATATTCACCAGCTTA
Found at i:52778608 original size:29 final size:28
Alignment explanation
Indices: 52778566--52778620 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
52778556 CTAGACCTTT
52778566 AAGTCCGATTCATTTCACCGGCATTACG
1 AAGTCCGATTCATTTCACCGGCATTACG
* *
52778594 AAGTCTGATATCATTTCATCGGCATTA
1 AAGTCCGAT-TCATTTCACCGGCATTA
52778621 TGCCTGCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (28 bp):
AAGTCCGATTCATTTCACCGGCATTACG
Found at i:52778685 original size:112 final size:113
Alignment explanation
Indices: 52778488--52778706 Score: 368
Period size: 112 Copynumber: 1.9 Consensus size: 113
52778478 CTTTAAGTTC
* *
52778488 GATATCATTTCACCGGCAATACGCCTACTAGGCTTGGAGCCCAATAATATTCACCAGCTTAAAGC
1 GATATCATTTCACCGGCAATACGCCTACTAAGCTCGGAGCCCAATAATATTCACCAGCTTAAAGC
52778553 TTGCTAGACCTTTAAGTCCGAT-TCATTTCACCGGCATTACGAAGTCT
66 TTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGAAGTCT
* * * * *
52778600 GATATCATTTCATCGGCATTATGCCTGCTAAGCTCGGAGCCCGATAATATTCACCAGCTTAAAGC
1 GATATCATTTCACCGGCAATACGCCTACTAAGCTCGGAGCCCAATAATATTCACCAGCTTAAAGC
52778665 TTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACG
66 TTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACG
52778707 CTTGCTAGGC
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
112 80 0.81
113 19 0.19
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (113 bp):
GATATCATTTCACCGGCAATACGCCTACTAAGCTCGGAGCCCAATAATATTCACCAGCTTAAAGC
TTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGAAGTCT
Found at i:52780952 original size:40 final size:40
Alignment explanation
Indices: 52780907--52781074 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
52780897 CGGAATATAA
52780907 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52780947 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52780987 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
52781027 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
52781067 CCGGATAT
1 CCGGATAT
52781075 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52781057 original size:80 final size:80
Alignment explanation
Indices: 52780923--52781072 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
52780913 ATAACCACGT
* *
52780923 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
52780988 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
52781003 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
52781066 CCCGGAT
64 CCCGGAT
52781073 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:52786200 original size:28 final size:28
Alignment explanation
Indices: 52786135--52786235 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52786125 ATAGTGAATC
*
52786135 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
52786164 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52786192 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
52786222 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52786236 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52788237 original size:29 final size:29
Alignment explanation
Indices: 52788198--52788277 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
52788188 CTTAATAATC
*
52788198 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52788228 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52788257 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
52788278 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52797691 original size:43 final size:44
Alignment explanation
Indices: 52797613--52797698 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
52797603 GTGGATCAAT
* ** *
52797613 GAGTACCAAAGGACTAAACAGAGAGCACTGAAGTGCTGAACAGG
1 GAGTACCAAAGGACTAAACAAAGAGCACCAAAGTGCTAAACAGG
* *
52797657 GAGTACCAAA-GATTGAACAAAGAGCACCAAAGTGCTAAACAG
1 GAGTACCAAAGGACTAAACAAAGAGCACCAAAGTGCTAAACAG
52797699 AAAGCACAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.12
Consensus pattern (44 bp):
GAGTACCAAAGGACTAAACAAAGAGCACCAAAGTGCTAAACAGG
Found at i:52802931 original size:4 final size:4
Alignment explanation
Indices: 52802922--52802966 Score: 72
Period size: 4 Copynumber: 10.8 Consensus size: 4
52802912 TCTTAATTAT
52802922 TTTA TTTA TTTA TTTA TTTTA TTTA TTTA TTTA TTTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA TTT
52802967 TGAAACCTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 31 0.79
5 8 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:52802934 original size:13 final size:12
Alignment explanation
Indices: 52802922--52802966 Score: 72
Period size: 13 Copynumber: 3.6 Consensus size: 12
52802912 TCTTAATTAT
52802922 TTTATTTATTTA
1 TTTATTTATTTA
52802934 TTTATTTTATTTA
1 TTTA-TTTATTTA
52802947 TTTATTTATTTTA
1 TTTATTTA-TTTA
52802960 TTTATTT
1 TTTATTT
52802967 TGAAACCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.26
13 23 0.74
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTTATTTA
Found at i:52802940 original size:17 final size:17
Alignment explanation
Indices: 52802918--52802966 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
52802908 TTACTCTTAA
52802918 TTATTTTATTTATTTAT
1 TTATTTTATTTATTTAT
52802935 TTATTTTATTTATTTAT
1 TTATTTTATTTATTTAT
52802952 TTATTTTATTTATTT
1 TTATTTTATTTATTT
52802967 TGAAACCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTTATTTATTTAT
Found at i:52808804 original size:5 final size:5
Alignment explanation
Indices: 52808794--52808846 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
52808784 TTTGTAATTT
* *
52808794 TTTTC TTTTC TTTTC TTTTC TTTT- TATTA TTTTC TTTTTC TTTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC
52808843 TTTT
1 TTTT
52808847 ATAACATTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 7 0.17
5 30 0.71
6 5 0.12
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:52813855 original size:27 final size:28
Alignment explanation
Indices: 52813799--52813868 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
52813789 AAACTTGTAC
52813799 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
52813827 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
52813854 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
52813869 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:52813879 original size:27 final size:27
Alignment explanation
Indices: 52813799--52813880 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
52813789 AAACTTGTAC
* *
52813799 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
52813827 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
52813854 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
52813881 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:52820248 original size:30 final size:30
Alignment explanation
Indices: 52820214--52820273 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
52820204 ATTTAATACG
52820214 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
52820244 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
52820274 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:52827355 original size:93 final size:92
Alignment explanation
Indices: 52827194--52827363 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
52827184 GCCCCTAAGT
*
52827194 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
52827259 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
52827286 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAG
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52827351 CGAGTTCGGATGC
65 CGAGTTCGGATGC
52827364 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52827817 original size:30 final size:30
Alignment explanation
Indices: 52827783--52827842 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
52827773 ATTTAATACG
52827783 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
52827813 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
52827843 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:52829485 original size:23 final size:23
Alignment explanation
Indices: 52829459--52829507 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
52829449 ACAGAATTTG
52829459 CCACAAAGGCCATA-AAGAATACA
1 CCACAAAGGCCATACAA-AATACA
* *
52829482 CCACATAGGCTATACAAAATACA
1 CCACAAAGGCCATACAAAATACA
52829505 CCA
1 CCA
52829508 TAAATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.49, C:0.29, G:0.10, T:0.12
Consensus pattern (23 bp):
CCACAAAGGCCATACAAAATACA
Found at i:52835451 original size:17 final size:18
Alignment explanation
Indices: 52835429--52835462 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52835419 CACATTGAAG
52835429 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
52835446 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
52835463 CTTCTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:52838034 original size:39 final size:40
Alignment explanation
Indices: 52837856--52838038 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
52837846 CCGCACCAAG
* * * * * * * *
52837856 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
52837896 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
52837936 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
52837976 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
52838015 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
52838039 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:52846009 original size:40 final size:40
Alignment explanation
Indices: 52845950--52846118 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
52845940 CGGGACTTTA
* * *
52845950 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
52845990 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
52846030 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
52846070 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
52846110 CCCGGATAT
1 CCCGGATAT
52846119 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:52861008 original size:27 final size:28
Alignment explanation
Indices: 52860968--52861079 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 28
52860958 AGCATGGCTG
* * *
52860968 CCAGA-ACACATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
52860994 CCAGATACAGATA-TTGTGGTAGAACCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
52861021 CTAGAAACAGATATTTGT-GCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
52861048 CTAGAT-CAGATATTTATGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
52861075 CCAGA
1 CCAGA
52861080 ATGCTTCCTC
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
26 15 0.21
27 52 0.73
28 4 0.06
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:52862302 original size:16 final size:17
Alignment explanation
Indices: 52862272--52862305 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
52862262 TCGGCCAGAG
52862272 AAGAAAAGAAGGAGAAA
1 AAGAAAAGAAGGAGAAA
52862289 AAGAAAAG-AGGAGAAA
1 AAGAAAAGAAGGAGAAA
52862305 A
1 A
52862306 GAGGAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAGGAGAAA
Found at i:52864014 original size:25 final size:25
Alignment explanation
Indices: 52863981--52864050 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
52863971 CTCTTTTAAT
* *
52863981 AACTAGGGCAAAGCCCTTTTCGGTG
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
52864006 AACTGGGGCAAAGCCCTTTTCTGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
52864031 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52864051 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:52864121 original size:11 final size:10
Alignment explanation
Indices: 52864097--52864135 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
52864087 ATATGTGAAT
52864097 ATATCATGGC
1 ATATCATGGC
52864107 ATATCATGTGC
1 ATATCATG-GC
52864118 ATATCATGGC
1 ATATCATGGC
*
52864128 AAATCATG
1 ATATCATG
52864136 TACAAAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
ATATCATGGC
Found at i:52864123 original size:21 final size:21
Alignment explanation
Indices: 52864097--52864136 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52864087 ATATGTGAAT
*
52864097 ATATCATGGCATATCATGTGC
1 ATATCATGGCAAATCATGTGC
52864118 ATATCATGGCAAATCATGT
1 ATATCATGGCAAATCATGT
52864137 ACAAAAGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
ATATCATGGCAAATCATGTGC
Found at i:52871847 original size:25 final size:25
Alignment explanation
Indices: 52871818--52871880 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
52871808 TTTTAATAAC
*
52871818 TGGGGCAAAGCCCTTTTCGGTGAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAT
52871843 TGGGGCAAAGCCCTTTTCGGTAAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAT
52871868 TGGGGCAAAGCCC
1 TGGGGCAAAGCCC
52871881 ATTTAGCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGGTAAAT
Found at i:52871955 original size:11 final size:10
Alignment explanation
Indices: 52871931--52871990 Score: 84
Period size: 10 Copynumber: 5.8 Consensus size: 10
52871921 ATATATGAAT
52871931 ATATCATGGC
1 ATATCATGGC
*
52871941 ATATCATATGC
1 ATATCAT-GGC
52871952 ATATCATGGC
1 ATATCATGGC
*
52871962 ATATCATATGC
1 ATATCAT-GGC
52871973 ATATCATGGC
1 ATATCATGGC
52871983 ATATCATG
1 ATATCATG
52871991 TACAAAAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 26 0.59
11 18 0.41
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:52871957 original size:21 final size:21
Alignment explanation
Indices: 52871931--52871989 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
52871921 ATATATGAAT
52871931 ATATCATGGCATATCATATGC
1 ATATCATGGCATATCATATGC
52871952 ATATCATGGCATATCATATGC
1 ATATCATGGCATATCATATGC
52871973 ATATCATGGCATATCAT
1 ATATCATGGCATATCAT
52871990 GTACAAAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (21 bp):
ATATCATGGCATATCATATGC
Done.