Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 58 of 770
Found at i:16875498 original size:29 final size:29
Alignment explanation
Indices: 16875456--16875714 Score: 419
Period size: 29 Copynumber: 8.7 Consensus size: 29
16875446 GCGAATGATT
16875456 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16875485 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16875514 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16875543 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16875572 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16875601 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
16875630 GAGGCACTATGTGTGTGAGATCAGTAATCGAGTAATC
1 GAGGCACTA--TGTGTGCG---AG--ATC-AGTAATC
*
16875667 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
16875696 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
16875715 TTTTTCAACA
Statistics
Matches: 218, Mismatches: 4, Indels: 16
0.92 0.02 0.07
Matches are distributed among these distances:
29 178 0.82
30 3 0.01
31 7 0.03
32 2 0.01
34 2 0.01
35 7 0.03
36 3 0.01
37 16 0.07
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:16875673 original size:37 final size:37
Alignment explanation
Indices: 16875623--16875694 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
16875613 GTGCGAGATC
*
16875623 AGTAATCGAGGCACTATGTGTGTGAGATCAGTAATCG
1 AGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCG
16875660 AGTAATCGAGGCACTATGTGTGCGAGATCAGTAAT
1 AGTAATCGAGGCACTATGTGTGCGAGATCAGTAAT
16875695 TGAGGCACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (37 bp):
AGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCG
Found at i:16879074 original size:49 final size:49
Alignment explanation
Indices: 16879014--16879276 Score: 447
Period size: 49 Copynumber: 5.4 Consensus size: 49
16879004 TACATATATG
* * * * * *
16879014 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
16879063 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16879112 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16879161 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16879210 TGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
16879258 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
16879277 TAATGTAAAA
Statistics
Matches: 207, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 48 0.23
49 159 0.77
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:16879427 original size:37 final size:37
Alignment explanation
Indices: 16879377--16879498 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
16879367 GGAATATGTT
*
16879377 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16879414 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
16879451 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16879488 CCGGGTAAGAC
1 CCGGGTAAGAC
16879499 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:16881386 original size:39 final size:40
Alignment explanation
Indices: 16881305--16881388 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
16881295 GAGAATTGAG
** * * *
16881305 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
* *
16881345 AGTGATGTATCCGGGCT-AGGCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
16881384 AGTGA
1 AGTGA
16881389 CGTGTATTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
Found at i:16881628 original size:29 final size:29
Alignment explanation
Indices: 16881586--16881863 Score: 533
Period size: 29 Copynumber: 9.7 Consensus size: 29
16881576 GCGAATGATT
16881586 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881615 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881644 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881673 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881702 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881731 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881760 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881789 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
16881818 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16881847 GAGGCAC--TGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
16881864 TTTTTCAACA
Statistics
Matches: 248, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
27 10 0.04
29 238 0.96
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:16885275 original size:49 final size:49
Alignment explanation
Indices: 16885162--16885473 Score: 536
Period size: 49 Copynumber: 6.4 Consensus size: 49
16885152 TACATATATG
* * * * *
16885162 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTG-ATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
16885210 TGTGATGAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16885259 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16885308 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16885357 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
16885406 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
16885455 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
16885474 TAATGTAAAA
Statistics
Matches: 257, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
48 38 0.15
49 219 0.85
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:16885624 original size:37 final size:37
Alignment explanation
Indices: 16885574--16885695 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
16885564 GGAATATGTT
*
16885574 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16885611 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
16885648 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16885685 CCGGGTAAGAC
1 CCGGGTAAGAC
16885696 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:16887586 original size:39 final size:40
Alignment explanation
Indices: 16887505--16887588 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
16887495 GAGAATTGAG
** * * *
16887505 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
* *
16887545 AGTGATGTATCCGGGCT-AGGCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
16887584 AGTGA
1 AGTGA
16887589 CGTGTATTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
Found at i:16887827 original size:29 final size:29
Alignment explanation
Indices: 16887785--16888119 Score: 640
Period size: 29 Copynumber: 11.7 Consensus size: 29
16887775 GCGAATGATT
16887785 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887814 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887843 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887872 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887901 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887930 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887959 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16887988 GAGGCAC-ATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16888016 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16888045 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
16888074 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16888103 GAGGCAC--TGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
16888120 TTTTTCAACA
Statistics
Matches: 304, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
27 10 0.03
28 28 0.09
29 266 0.88
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:16891010 original size:37 final size:37
Alignment explanation
Indices: 16890960--16891044 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
16890950 GGAATATGTT
*
16890960 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
16890997 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16891034 CCGGGTAAGAC
1 CCGGGTAAGAC
16891045 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:16892937 original size:39 final size:40
Alignment explanation
Indices: 16892856--16892939 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
16892846 GAGAATTGAG
** * * *
16892856 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
* *
16892896 AGTGATGTATCCGGGCT-AGGCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
16892935 AGTGA
1 AGTGA
16892940 CGTGTATTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
Found at i:16893178 original size:29 final size:29
Alignment explanation
Indices: 16893136--16893471 Score: 640
Period size: 29 Copynumber: 11.7 Consensus size: 29
16893126 GCGAATGATT
16893136 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893165 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893194 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893223 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893252 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893281 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893310 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893339 GAGGCAC-ATGTGTGCGAGATCAGT-ATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893366 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
16893395 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
16893424 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
16893453 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
16893472 TTTTTCAACA
Statistics
Matches: 303, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
27 10 0.03
28 34 0.11
29 259 0.85
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:16896360 original size:37 final size:37
Alignment explanation
Indices: 16896310--16896431 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
16896300 GGAATATGTT
*
16896310 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16896347 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
16896384 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16896421 CCGGGTAAGAC
1 CCGGGTAAGAC
16896432 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:16898888 original size:30 final size:30
Alignment explanation
Indices: 16898847--16898912 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
16898837 AGATGGATCA
16898847 ATAAGAATGTGTATTGACTATCAACAGCTCG
1 ATAA-AATGTGTATTGACTATCAACAGCTCG
16898878 ATAAAATGTGTATTGACTATCAACAGCTCG
1 ATAAAATGTGTATTGACTATCAACAGCTCG
16898908 ATAAA
1 ATAAA
16898913 GTTACGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (30 bp):
ATAAAATGTGTATTGACTATCAACAGCTCG
Found at i:16908146 original size:15 final size:15
Alignment explanation
Indices: 16908126--16908163 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16908116 AATTTCCATG
16908126 TTCATATATC-ATAAT
1 TTCATATATCTAT-AT
*
16908141 TTCATATTTCTATAT
1 TTCATATATCTATAT
16908156 TTCATATA
1 TTCATATA
16908164 ACATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCATATATCTATAT
Found at i:16913550 original size:20 final size:20
Alignment explanation
Indices: 16913492--16913572 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
16913482 TCATATAATT
* *
16913492 AGTAGTTCATCCATAT-AACC
1 AGTAATTCATCCATTTCAA-C
* *
16913512 AGTAATTTAT-CAGTATCAAC
1 AGTAATTCATCCA-TTTCAAC
* *
16913532 AGTAATTCATTCATTTCAAT
1 AGTAATTCATCCATTTCAAC
16913552 AGTAATTCATCCATTTCAAC
1 AGTAATTCATCCATTTCAAC
16913572 A
1 A
16913573 TAGCTTATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.04
20 45 0.88
21 4 0.08
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (20 bp):
AGTAATTCATCCATTTCAAC
Found at i:16913804 original size:22 final size:22
Alignment explanation
Indices: 16913779--16913827 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
16913769 ACGCTCTTTT
*
16913779 GAGCTGAATAGTCAGCTCATAC
1 GAGCTGAACAGTCAGCTCATAC
*
16913801 GAGCTGAACAGTCAGCTCATAT
1 GAGCTGAACAGTCAGCTCATAC
16913823 GAGCT
1 GAGCT
16913828 TAAATGGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
GAGCTGAACAGTCAGCTCATAC
Found at i:16913872 original size:23 final size:23
Alignment explanation
Indices: 16913730--16913874 Score: 100
Period size: 23 Copynumber: 6.3 Consensus size: 23
16913720 AAGCTCCTCC
*
16913730 TGAGCTGATAAACAATAAGCTC-TA
1 TGAGCTG--AAACAGTAAGCTCATA
* * * *
16913754 TTGAGCTGAAACAATACGCTCTTT
1 -TGAGCTGAAACAGTAAGCTCATA
* *
16913778 TGAGCTG-AATAGTCAGCTCATA
1 TGAGCTGAAACAGTAAGCTCATA
* *
16913800 CGAGCTG-AACAGTCAGCTCATA
1 TGAGCTGAAACAGTAAGCTCATA
* **
16913822 TGAGCTTAAATGGTAAGCTCCA-A
1 TGAGCTGAAACAGTAAGCT-CATA
*
16913845 TGAGCTGAAACAGTAAGCTCTTA
1 TGAGCTGAAACAGTAAGCTCATA
*
16913868 CGAGCTG
1 TGAGCTG
16913875 TGGTGAGTCC
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
22 35 0.36
23 51 0.53
24 3 0.03
25 7 0.07
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCATA
Found at i:16919569 original size:20 final size:21
Alignment explanation
Indices: 16919527--16919568 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16919517 ATGAATACAT
16919527 ATAAATTAGCTCTATCAAAAA
1 ATAAATTAGCTCTATCAAAAA
16919548 ATAAATTAGCTCTATCAAAAA
1 ATAAATTAGCTCTATCAAAAA
16919569 TTAACACGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAAATTAGCTCTATCAAAAA
Found at i:16921341 original size:50 final size:52
Alignment explanation
Indices: 16921266--16921522 Score: 259
Period size: 53 Copynumber: 4.8 Consensus size: 52
16921256 ACGCGGGTAC
* * * *
16921266 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT-TTTA-AAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCCTTATAAA
* *
16921316 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT-CCTTATAAA
* * * *
16921369 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TT-CCTTATA--AA
* * * * * *
16921424 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT-CCTTATAAA
*
16921477 CCTTACCAATTGTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTG-CCATGCCTTGACATGGTCTTACATGGTATCCTT
16921523 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 25, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
50 40 0.23
52 5 0.03
53 46 0.27
54 5 0.03
55 45 0.26
56 31 0.18
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (52 bp):
CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCCTTATAAA
Found at i:16921458 original size:108 final size:111
Alignment explanation
Indices: 16921314--16921515 Score: 322
Period size: 108 Copynumber: 1.8 Consensus size: 111
16921304 TCCTTTTTAA
* *
16921314 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
16921377 -TG-CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
16921422 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
16921487 TGTCCATGCCTTGGCATGGTCTTACATGG
66 TGTCCATGCCTTGGCATGGTCTTACATGG
16921516 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 2 0.02
111 26 0.31
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (111 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:16928949 original size:55 final size:53
Alignment explanation
Indices: 16928759--16929013 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
16928749 ACGCGGGTAC
* * * * *
16928759 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
16928808 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
16928861 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
16928916 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
16928969 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
16929014 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:16928950 original size:108 final size:110
Alignment explanation
Indices: 16928806--16929006 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
16928796 ATCCTTTTGA
* *
16928806 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
16928869 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
16928914 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
16928979 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
16929007 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:16930387 original size:20 final size:20
Alignment explanation
Indices: 16930342--16930407 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
16930332 CATTTTTATT
* * *
16930342 CGTATAAACTGTAATTCATT
1 CGTATAACCAGTAATTCATC
* ** *
16930362 CATATAATTAGTAGTTCATC
1 CGTATAACCAGTAATTCATC
16930382 CGTATAACCAGTAATTCATC
1 CGTATAACCAGTAATTCATC
*
16930402 GGTATA
1 CGTATA
16930408 TCAATAATTT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (20 bp):
CGTATAACCAGTAATTCATC
Found at i:16930684 original size:23 final size:23
Alignment explanation
Indices: 16930637--16930750 Score: 90
Period size: 23 Copynumber: 5.0 Consensus size: 23
16930627 TTGAGATGAT
* *
16930637 AAACAATAAGCTCTGTT-GAGTTG
1 AAACAGTAAGCTCT-TTCGAGCTG
*
16930660 AAACAATAAGCTCTTTCGAGCTG
1 AAACAGTAAGCTCTTTCGAGCTG
** *
16930683 -AACAGTAAGCTAATACGAGCTG
1 AAACAGTAAGCTCTTTCGAGCTG
* **
16930705 AAACGGTAAGCTCCAAT-GAGCTG
1 AAACAGTAAGCT-CTTTCGAGCTG
* *
16930728 AAATAGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTCTTTCGAGCTG
16930751 TGGTGAGTCT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
22 21 0.29
23 51 0.70
24 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (23 bp):
AAACAGTAAGCTCTTTCGAGCTG
Found at i:16932702 original size:27 final size:28
Alignment explanation
Indices: 16932645--16932714 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
16932635 AAACTTGTAC
*
16932645 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
16932673 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
16932700 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16932715 GACACACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:16936062 original size:48 final size:46
Alignment explanation
Indices: 16935908--16936143 Score: 141
Period size: 48 Copynumber: 4.9 Consensus size: 46
16935898 ACGTTAAGTT
* * * * * * *
16935908 GCCGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCAAAACAAT
1 GCCGATGCCATGTCCCAGACTTGGTC-TACACTAGCACAC-ATATAAC
* * ** ***
16935956 GCCGATGCTATGTCCCAGACATGGTCTTACACTAGCATTCATATTGTG
1 GCCGATGCCATGTCCCAGACTTGGTC-TACACTAGCACACATA-TAAC
** * * *
16936004 GCTAACGCCATATCCTAGACTTGGTCTAACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACTTGGTCT-ACACTAGCACACATAT-AAC
* * ***
16936052 GCCGATGCCATGTCCCAGA-TATGGTCGTACACTAGCTCTCATGATGTT
1 GCCGATGCCATGTCCCAGACT-TGGTC-TACACTAGCACACAT-ATAAC
* *
16936100 TCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 GCCGATGCCATGTCCCAGACTTGGTC-TACACTAGCACACATAT
16936144 TAACCAAATG
Statistics
Matches: 145, Mismatches: 36, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
47 7 0.05
48 135 0.93
49 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACTTGGTCTACACTAGCACACATATAAC
Found at i:16936110 original size:96 final size:96
Alignment explanation
Indices: 16935908--16936143 Score: 278
Period size: 96 Copynumber: 2.5 Consensus size: 96
16935898 ACGTTAAGTT
* * * * * * *
16935908 GCCGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCAAAACAATGCCGATGCTATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCA
*
16935973 GACATGGTCTTACACTAGCATTCATATTGTG
66 GACATGGTCGTACACTAGCATTCATATTGTG
** * * * * *
16936004 GCTAACGCCATATCCTAGACTTGGTCTAACACTAGCACACATATCAACGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCA
* *
16936069 GATATGGTCGTACACTAGC-TCTCATGA-TGTT
66 GACATGGTCGTACACTAGCAT-TCAT-ATTGTG
*
16936100 TCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
16936144 TAACCAAATG
Statistics
Matches: 113, Mismatches: 25, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
95 1 0.01
96 111 0.98
97 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCA
GACATGGTCGTACACTAGCATTCATATTGTG
Found at i:16949962 original size:40 final size:40
Alignment explanation
Indices: 16949898--16950082 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
16949888 GCTACTCGTT
* * *
16949898 CAAATGCCTTCTGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAATAACTCGCA
* * *
16949938 CAAATGCCTTTGGGACTTAACCCGGATTTAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
*
16949978 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * * * *
16950018 CCAATGCCTTCGGG-CTTAGCTCGGATATAGTCACTAAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACT-CGCA
*
16950058 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16950083 CATCATTTGA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 24 0.19
40 98 0.79
41 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
Found at i:16958111 original size:39 final size:39
Alignment explanation
Indices: 16957902--16958113 Score: 225
Period size: 40 Copynumber: 5.4 Consensus size: 39
16957892 GAATCACGTA
* * * **
16957902 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
* *
16957941 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* *
16957981 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTT-AGCCGGATATAGTAACTCGCACAAATG
* *
16958021 CCTTCGGGACTTAACCGGATTTAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
* * *
16958059 CCTTC-GGATCTTAGTCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGCCGGATATAGTAAC-TCGCACAAATG
16958098 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
16958114 CGGACATCAT
Statistics
Matches: 148, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
37 3 0.02
38 24 0.16
39 49 0.33
40 71 0.48
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:16960663 original size:13 final size:13
Alignment explanation
Indices: 16960645--16960669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16960635 GCTTTATTTA
16960645 TTAAACTAATTAT
1 TTAAACTAATTAT
16960658 TTAAACTAATTA
1 TTAAACTAATTA
16960670 ACTGATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:16964730 original size:79 final size:82
Alignment explanation
Indices: 16964590--16964774 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
16964580 TCGAATGATG
* * *
16964590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
16964654 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
16964670 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
16964732 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
16964750 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16964775 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:16964782 original size:40 final size:40
Alignment explanation
Indices: 16964591--16964782 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
16964581 CGAATGATGT
* * * * *
16964591 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
16964631 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
16964671 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
16964710 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
16964750 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
16964783 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:16964805 original size:79 final size:79
Alignment explanation
Indices: 16964590--16964807 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
16964580 TCGAATGATG
* * * * ** *
16964590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
16964653 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
16964670 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
16964735 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
16964750 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
16964808 TACGTGATTT
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:16975205 original size:31 final size:31
Alignment explanation
Indices: 16975161--16975262 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
16975151 CCTTTTCATA
*
16975161 TTTCATATCTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
16975198 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
16975230 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
16975261 TT
1 TT
16975263 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
31 32 0.52
32 1 0.02
33 1 0.02
37 1 0.02
38 27 0.44
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:16975245 original size:38 final size:38
Alignment explanation
Indices: 16975138--16975245 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
16975128 TCAATCATGC
* *
16975138 ACTGGGCCGTAGCCCTTTTCATATTTCATATCTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
16975177 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
16975215 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
16975246 ACTGGGCCGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 54 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:16975500 original size:24 final size:24
Alignment explanation
Indices: 16975454--16975572 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
16975444 GCTTTATCAT
*
16975454 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
16975479 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
16975503 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
16975526 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
16975550 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16975573 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16975533 original size:47 final size:48
Alignment explanation
Indices: 16975454--16975572 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
16975444 GCTTTATCAT
*
16975454 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
16975503 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
16975550 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16975573 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:16975648 original size:20 final size:20
Alignment explanation
Indices: 16975623--16975682 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
16975613 TATGATTACC
16975623 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
16975643 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
16975663 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
16975683 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:16975757 original size:25 final size:25
Alignment explanation
Indices: 16975725--16975772 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16975715 ATACATAAAC
* * *
16975725 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16975750 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16975773 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16978471 original size:49 final size:50
Alignment explanation
Indices: 16978259--16978483 Score: 229
Period size: 49 Copynumber: 4.5 Consensus size: 50
16978249 CTGGTACGCA
* * *
16978259 TAGTAGCCTGCAATTAGTACTACACATGCGAT-CAATTATCCGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCCAATCATCCGGTACACG
* * * * * * * *
16978308 TAGTTGCCTACACTTAGTACTACATATGTGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCCAATCATCCGGTACACG
* * * ** * ** * *
16978358 TAGTAGCTTGCACTTAGTACTACACACGTGATTGAAGTTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCCAA-TCATCCGGTACACG
16978409 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAATCATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCCAATCATCCGGTACACG
*
16978458 TAGTAGCATGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
16978484 CATGACCTCA
Statistics
Matches: 138, Mismatches: 36, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
49 61 0.44
50 42 0.30
51 35 0.25
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGATCCAATCATCCGGTACACG
Found at i:16984255 original size:49 final size:48
Alignment explanation
Indices: 16984200--16984375 Score: 228
Period size: 49 Copynumber: 3.6 Consensus size: 48
16984190 TCTGGTACGC
*
16984200 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACA
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
* * * *
16984248 AGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAATTATCGGGTATGC-
1 A-TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTA--CA
* *
16984300 ATACTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
16984348 CATAGTAGCCTGCACTTAGTACTACACA
1 -ATAGTAGCCTGCACTTAGTACTACACA
16984376 CATGACCTAC
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 65 0.60
50 2 0.02
51 37 0.34
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
Found at i:16984332 original size:100 final size:100
Alignment explanation
Indices: 16984188--16984376 Score: 317
Period size: 100 Copynumber: 1.9 Consensus size: 100
16984178 TAGACAAGGC
* * *
16984188 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACA-AGTA
1 TATCGGGTACGCATACTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGCACACA-TA
16984252 GTAGCCTGCACTTAGTACTACACACGTGATCGAAAT
65 GTAGCCTGCACTTAGTACTACACACGTGATCGAAAT
* *
16984288 TATCGGGTATGCATACTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
1 TATCGGGTACGCATACTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGCACACATAG
16984353 TAGCCTGCACTTAGTACTACACAC
66 TAGCCTGCACTTAGTACTACACAC
16984377 ATGACCTACA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.99
101 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
TATCGGGTACGCATACTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGCACACATAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAAT
Found at i:16984658 original size:27 final size:27
Alignment explanation
Indices: 16984628--16984681 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16984618 TCATACAACC
* *
16984628 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
16984655 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
16984682 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:16986848 original size:19 final size:19
Alignment explanation
Indices: 16986813--16986850 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16986803 TTGCAATTTA
*
16986813 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
16986832 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
16986851 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:16992729 original size:87 final size:87
Alignment explanation
Indices: 16992582--16992741 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 87
16992572 GTGACGAGAT
* *
16992582 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCAAT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
16992647 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCATGCTGGAAATATA
* * *
16992669 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAA
*
16992733 TATGTGTGC
65 TAAGTGTGC
16992742 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 65 0.98
88 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
AAGTGTGCATGCTGGAAATATA
Found at i:16992734 original size:29 final size:29
Alignment explanation
Indices: 16992582--16992712 Score: 253
Period size: 29 Copynumber: 4.5 Consensus size: 29
16992572 GTGACGAGAT
16992582 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
16992611 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
16992640 TGGCAATAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
16992669 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
16992698 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
16992713 GAGCTCGAAG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 100 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:16992759 original size:87 final size:87
Alignment explanation
Indices: 16992582--16992770 Score: 247
Period size: 87 Copynumber: 2.2 Consensus size: 87
16992572 GTGACGAGAT
* *
16992582 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCAAT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
* *
16992647 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCAGGCTGGAAATACA
* * *
16992669 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAA
* * * *
16992733 TATGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAAT-ACA
16992756 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
16992771 GAAATCGAGT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
86 4 0.04
87 84 0.94
88 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
AAGTGTGCAGGCTGGAAATACA
Found at i:17000766 original size:6 final size:6
Alignment explanation
Indices: 17000755--17000796 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
17000745 TTAAAACTAC
* *
17000755 TTTTTA TTTTTA TTTTTA -TTATA TTTTATA ATTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA
17000797 ATTATTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 4 0.13
6 21 0.70
7 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:17000816 original size:28 final size:24
Alignment explanation
Indices: 17000713--17000801 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
17000703 TTTAAAAACA
*
17000713 TTTATTTATTATTTTATGTTTATAAT
1 TTTATTT-TTATTATAT-TTTATAAT
* ** *
17000739 TTT-TTATTAAAACTACTTTT-TATT
1 TTTATTTTTATTA-TA-TTTTATAAT
17000763 TTTATTTTTATTATATTTTATAAT
1 TTTATTTTTATTATATTTTATAAT
17000787 TTTATTTTTAATTAT
1 TTTATTTTT-ATTAT
17000802 TAATTTTGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
23 4 0.08
24 23 0.47
25 18 0.37
26 4 0.08
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (24 bp):
TTTATTTTTATTATATTTTATAAT
Found at i:17002336 original size:46 final size:44
Alignment explanation
Indices: 17002232--17002339 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
17002222 TGTCTTTGAC
** * * *
17002232 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
17002276 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
17002322 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
17002340 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:17008034 original size:55 final size:54
Alignment explanation
Indices: 17007964--17008071 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 54
17007954 ATAGGTTCGA
* * * *
17007964 CCACAGTTGTTCCACATGG-GTGTGTTGCACGCCCGTGTTGTTTTGGCAGGCTCAC
1 CCACAGTTCTTCCACACGGAGTGTCTT--ACGCCCATGTTGTTTTGGCAGGCTCAC
* *
17008019 CCACGGTTCTTCCACACGGACGTGTCTTATGCCCATGTTGTTTTGGCAGGCTC
1 CCACAGTTCTTCCACACGGA-GTGTCTTACGCCCATGTTGTTTTGGCAGGCTC
17008072 GACCACGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 39 0.87
57 6 0.13
ACGTcount: A:0.13, C:0.29, G:0.27, T:0.31
Consensus pattern (54 bp):
CCACAGTTCTTCCACACGGAGTGTCTTACGCCCATGTTGTTTTGGCAGGCTCAC
Found at i:17009612 original size:22 final size:22
Alignment explanation
Indices: 17009577--17009619 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17009567 TGAGCTGTTA
**
17009577 CCTTGGGTTGGGTTCAGTATTC
1 CCTTGGGTAAGGTTCAGTATTC
*
17009599 CCTTGGGTAAGGTTCGGTATT
1 CCTTGGGTAAGGTTCAGTATT
17009620 ACTTCGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.33, T:0.40
Consensus pattern (22 bp):
CCTTGGGTAAGGTTCAGTATTC
Found at i:17021449 original size:48 final size:49
Alignment explanation
Indices: 17021374--17021597 Score: 230
Period size: 48 Copynumber: 4.7 Consensus size: 49
17021364 TAAGTTGCCA
* *
17021374 ATGCCATGTCCTAGACATGGTCTTACACT-GGATCATATGTCAAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCATCATATGTCAAAGCCG
* ** *
17021422 ATGCCATGTCCCAGACATGGTCGTACACTAGC-TC-TCATAACAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCATCAT-ATGTCAAAGCCG
* * *
17021470 ATGCCATGTCCCAGACTTGGTCTTACACTAGCACGCATATTGT---GGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-TCATA-TGTCAAAGCCG
* ***
17021518 ATGCCATGTCCCAGACATGGTCTTACACTAGCATACATA--TCAACGTTA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAT-CATATGTCAAAGCCG
*
17021566 ATGCCATGTCCCAAACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
17021598 TCTCATGATG
Statistics
Matches: 147, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
47 1 0.01
48 140 0.95
49 1 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCATCATATGTCAAAGCCG
Found at i:17021538 original size:96 final size:96
Alignment explanation
Indices: 17021370--17021597 Score: 266
Period size: 96 Copynumber: 2.4 Consensus size: 96
17021360 AGGTTAAGTT
* * * * *
17021370 GCCAATGCCATGTCCTAGACATGGTCTTACACT-GGA-TCATA-TGTCAAAGCCGATGCCATGTC
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCACGCATATTGT---GGCCGATGCCATGTC
* *
17021432 CCAGACATGGTCGTACACTAGC-TCTCATAACAAT
63 CCAGACATGGTCGTACACTAGCAT-ACATAACAAC
* * *
17021466 GCCGATGCCATGTCCCAGACTTGGTCTTACACTAGCACGCATATTGTGGCCGATGCCATGTCCCA
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCACGCATATTGTGGCCGATGCCATGTCCCA
* *
17021531 GACATGGTCTTACACTAGCATACATATCAAC
66 GACATGGTCGTACACTAGCATACATAACAAC
**
17021562 GTTAATGCCATGTCCCAAACATGGTCTTACACTAGC
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGC
17021598 TCTCATGATG
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
96 103 0.91
97 3 0.03
98 4 0.04
99 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (96 bp):
GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCACGCATATTGTGGCCGATGCCATGTCCCA
GACATGGTCGTACACTAGCATACATAACAAC
Found at i:17031714 original size:38 final size:39
Alignment explanation
Indices: 17031662--17031804 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
17031652 GAATGTTCGA
17031662 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
17031701 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
17031739 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
17031778 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
17031805 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:17031750 original size:77 final size:79
Alignment explanation
Indices: 17031663--17031844 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
17031653 AATGTTCGAG
17031663 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
17031726 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
17031740 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
17031805 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
17031819 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
17031845 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:17039540 original size:39 final size:39
Alignment explanation
Indices: 17039486--17039629 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
17039476 GAATGTTCGA
*
17039486 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
17039525 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
17039564 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
17039603 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
17039630 CTTTGTGCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 85 0.90
40 9 0.10
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:17039576 original size:78 final size:79
Alignment explanation
Indices: 17039487--17039669 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
17039477 AATGTTCGAG
*
17039487 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
17039551 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
17039565 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
17039630 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
17039644 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
17039670 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 52 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:17041376 original size:49 final size:49
Alignment explanation
Indices: 17041318--17041506 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 49
17041308 GTAGCCAAAC
* *
17041318 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
17041367 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
17041417 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
17041468 TAT-TGGGCACGCATAGTAGTCTGCACTTAGTACTACACA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACA
17041507 TGCGACCTAG
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 42 0.34
50 47 0.39
51 33 0.27
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:17041449 original size:50 final size:49
Alignment explanation
Indices: 17041315--17041506 Score: 235
Period size: 49 Copynumber: 3.9 Consensus size: 49
17041305 TATGTAGCCA
* * *
17041315 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
* *
17041364 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
* *
17041413 TAACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCG
1 -AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CC
* * *
17041464 AAGTTAT-TGG-GCACGCATAGTAGTCTGCACTTAGTACTACACA
1 AA-CTATCTGGTACACG--TAGTAGCCTGCACTTAGTACTACACA
17041507 TGCGACCTAG
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
49 48 0.38
50 48 0.38
51 29 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
Found at i:17041533 original size:101 final size:99
Alignment explanation
Indices: 17041315--17041515 Score: 267
Period size: 99 Copynumber: 2.0 Consensus size: 99
17041305 TATGTAGCCA
* * * * * *
17041315 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGCACACA
*
17041380 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* ** *
17041414 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGCACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGCACA
* *
17041479 CATAGTAGTCTGCACTTAGTACTACACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
17041515 A
1 A
17041516 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 43 0.49
100 3 0.03
101 41 0.47
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGCACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:17042848 original size:30 final size:30
Alignment explanation
Indices: 17042812--17042871 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
17042802 AAGATGAGTT
17042812 AATTTTGCCTTTATTTTCCCTTTTTATTTC
1 AATTTTGCCTTTATTTTCCCTTTTTATTTC
*
17042842 AATTTTGGCTTTATTTTCCCTTTTTATTTC
1 AATTTTGCCTTTATTTTCCCTTTTTATTTC
17042872 TTTTAATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.13, C:0.18, G:0.05, T:0.63
Consensus pattern (30 bp):
AATTTTGCCTTTATTTTCCCTTTTTATTTC
Found at i:17045721 original size:45 final size:45
Alignment explanation
Indices: 17045653--17045783 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
17045643 TATCGTACGG
* *
17045653 TACTATTCTGGCCTTTGAACCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCAGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAGA
*
17045698 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCAGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAGA
* * **
17045743 TAGTATTCGGGCCTTCAAACCTAGCAGGCTATAATGCCGGT
1 TACTATTCAGGCCTTTGAACCTAGCAGGCTATAATGCCGGT
17045784 AAAATTATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (45 bp):
TACTATTCAGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAGA
Found at i:17072915 original size:7 final size:7
Alignment explanation
Indices: 17072903--17072939 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
17072893 AGTATACTAA
17072903 TTTAGGG
1 TTTAGGG
17072910 TTTAGGG
1 TTTAGGG
17072917 TTTAGGG
1 TTTAGGG
17072924 TTTAGGG
1 TTTAGGG
*
17072931 TTTAAGG
1 TTTAGGG
17072938 TT
1 TT
17072940 AACAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:17089742 original size:29 final size:29
Alignment explanation
Indices: 17089700--17089761 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
17089690 ATATAATGAG
** *
17089700 ATTGGACCTAATGGGCCATTTGAATGTGA
1 ATTGGACCTAATGGGCCAAATGAACGTGA
* *
17089729 ATTGGGCCTGATGGGCCAAATGAACGTGA
1 ATTGGACCTAATGGGCCAAATGAACGTGA
17089758 ATTG
1 ATTG
17089762 AATGGTTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
ATTGGACCTAATGGGCCAAATGAACGTGA
Found at i:17097444 original size:29 final size:27
Alignment explanation
Indices: 17097402--17097519 Score: 107
Period size: 29 Copynumber: 4.2 Consensus size: 27
17097392 GTGAGCATGA
17097402 ATATAA-TGAGATTGGGCCTAATGGGCC
1 ATATAAGTGA-ATTGGGCCTAATGGGCC
*
17097429 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATAT-AA-GTGAATTGGGCCTAATGGGCC
17097458 ATATAAACGTGAATTGGGCTGCT--TGGGCC
1 ATAT-AA-GTGAATTGGGC--CTAATGGGCC
* * *
17097487 ATATAAATGATATTGGGCCTAGTGGGTC
1 ATATAAGTGA-ATTGGGCCTAATGGGCC
17097515 ATATA
1 ATATA
17097520 CATGTTTGTA
Statistics
Matches: 78, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
26 2 0.03
27 7 0.09
28 21 0.27
29 43 0.55
30 3 0.04
31 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (27 bp):
ATATAAGTGAATTGGGCCTAATGGGCC
Found at i:17103186 original size:19 final size:19
Alignment explanation
Indices: 17103162--17103204 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
17103152 CATGGGCTTT
17103162 GCCAGTTTGGGCCATGTGG
1 GCCAGTTTGGGCCATGTGG
17103181 GCCAGTTTGGGCCATGTGG
1 GCCAGTTTGGGCCATGTGG
17103200 GCCAG
1 GCCAG
17103205 AAATGGGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (19 bp):
GCCAGTTTGGGCCATGTGG
Found at i:17103191 original size:10 final size:10
Alignment explanation
Indices: 17103162--17103222 Score: 56
Period size: 9 Copynumber: 6.3 Consensus size: 10
17103152 CATGGGCTTT
*
17103162 GCCAGTTTGG
1 GCCAGTGTGG
17103172 GCCA-TGTGG
1 GCCAGTGTGG
*
17103181 GCCAGTTTGG
1 GCCAGTGTGG
17103191 GCCA-TGTGG
1 GCCAGTGTGG
**
17103200 GCCAGAAATGG
1 GCCAG-TGTGG
17103211 GCC-GTGTGG
1 GCCAGTGTGG
17103220 GCC
1 GCC
17103223 CCACGGGCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 22 0.54
10 13 0.32
11 6 0.15
ACGTcount: A:0.13, C:0.23, G:0.43, T:0.21
Consensus pattern (10 bp):
GCCAGTGTGG
Found at i:17103213 original size:20 final size:19
Alignment explanation
Indices: 17103169--17103222 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
17103159 TTTGCCAGTT
**
17103169 TGGGCCATGTGGGCCAGTT
1 TGGGCCATGTGGGCCAGAA
17103188 TGGGCCATGTGGGCCAGAAA
1 TGGGCCATGTGGGCCAG-AA
*
17103208 TGGGCCGTGTGGGCC
1 TGGGCCATGTGGGCC
17103223 CCACGGGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.13, C:0.22, G:0.44, T:0.20
Consensus pattern (19 bp):
TGGGCCATGTGGGCCAGAA
Found at i:17103798 original size:34 final size:34
Alignment explanation
Indices: 17103749--17103825 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
17103739 TCATTGCATT
*
17103749 ACTGATACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGATACTGCTACTGTAATGGGCTAAGGCCCAC
* *
17103783 ATTGATACTGCTACTGTTATGGGCTAAGGCCCAC
1 ACTGATACTGCTACTGTAATGGGCTAAGGCCCAC
17103817 ACTGATACT
1 ACTGATACT
17103826 TGATTGTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (34 bp):
ACTGATACTGCTACTGTAATGGGCTAAGGCCCAC
Found at i:17107412 original size:46 final size:46
Alignment explanation
Indices: 17107359--17107534 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
17107349 TGGTTGAGCA
* *
17107359 TCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * *
17107405 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
* *
17107452 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
17107498 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17107535 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.66
47 34 0.32
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:17107515 original size:93 final size:93
Alignment explanation
Indices: 17107356--17107526 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
17107346 GGATGGTTGA
* *
17107356 GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATACGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
17107421 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
17107449 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
17107514 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17107527 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:17114233 original size:22 final size:23
Alignment explanation
Indices: 17114208--17114250 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
17114198 TATCCCCACA
*
17114208 TGGAGTGTAG-GGCTGGACGGAG
1 TGGAGTGTAGAGGATGGACGGAG
17114230 TGGAGTGTAGAGGATGGACGG
1 TGGAGTGTAGAGGATGGACGG
17114251 GTAGGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.07, G:0.53, T:0.19
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGACGGAG
Found at i:17115453 original size:26 final size:25
Alignment explanation
Indices: 17115423--17115479 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
17115413 ATACCTTTAG
17115423 CTATTAGAACTTAATTAATTAATTAA
1 CTATTAGAACTT-ATTAATTAATTAA
** *
17115449 CTATTTAGTCCTTTTTAATTAATTAA
1 CTA-TTAGAACTTATTAATTAATTAA
17115475 CTATT
1 CTATT
17115480 GAAAGAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 18 0.67
27 7 0.26
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (25 bp):
CTATTAGAACTTATTAATTAATTAA
Found at i:17116492 original size:27 final size:27
Alignment explanation
Indices: 17116452--17116505 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17116442 AGGTACAACC
* *
17116452 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
17116479 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
17116506 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:17126954 original size:25 final size:25
Alignment explanation
Indices: 17126926--17126975 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
17126916 GGACGAAGAG
17126926 TAGGAAGCAAGGAATTACTCAAGGA
1 TAGGAAGCAAGGAATTACTCAAGGA
*
17126951 TAGGAAGCAATGAATTACTCAAGGA
1 TAGGAAGCAAGGAATTACTCAAGGA
17126976 AAGCCGATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (25 bp):
TAGGAAGCAAGGAATTACTCAAGGA
Found at i:17131667 original size:123 final size:123
Alignment explanation
Indices: 17131448--17131786 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
17131438 GAATTATGTG
*
17131448 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
17131513 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
17131571 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
17131636 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
17131694 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
17131759 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
17131787 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:17131810 original size:40 final size:40
Alignment explanation
Indices: 17131755--17131997 Score: 292
Period size: 40 Copynumber: 6.1 Consensus size: 40
17131745 TGAATGATAC
* * * * **
17131755 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
17131795 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
17131835 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
17131875 CCGGGCTAATACCC-AAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
17131914 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
17131954 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
17131994 CCGG
1 CCGG
17131998 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 39 0.22
40 139 0.77
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:17131923 original size:79 final size:80
Alignment explanation
Indices: 17131755--17131997 Score: 303
Period size: 79 Copynumber: 3.0 Consensus size: 80
17131745 TGAATGATAC
* * * * * *
17131755 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTT
* *
17131819 GTGCTAG-TGACTATAT
65 GTGCAAGTTG-TTATAT
* *
17131835 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAATACCC-AAGGCATTTG
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTG
17131899 TGCAAGTTGTTATAT
66 TGCAAGTTGTTATAT
* * *
17131914 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCGGGCTAAGACCCGAGGGCATTCG
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTG
** *
17131979 TGCGTGTGGTTATAT
66 TGCAAGTTGTTATAT
17131994 CCGG
1 CCGG
17131998 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 72 0.50
80 71 0.50
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (80 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCAAGTTGTTATAT
Found at i:17138961 original size:40 final size:40
Alignment explanation
Indices: 17138906--17139149 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
17138896 TGAATGATAC
* * * * **
17138906 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
17138946 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
17138986 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
17139026 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
17139066 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
17139106 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
17139146 CCGG
1 CCGG
17139150 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:17143571 original size:47 final size:47
Alignment explanation
Indices: 17143517--17143976 Score: 749
Period size: 47 Copynumber: 9.7 Consensus size: 47
17143507 GATTTTATGC
* * *
17143517 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
17143564 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
17143613 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
17143662 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
* *
17143711 GATGAATGTGAAAGTGTATATACGTGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
17143758 GATGAATGTGAAATTGTATATATGTGATAAGTCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
17143805 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
17143852 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * *
17143899 TATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
17143946 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
17143977 TCCCGAAGGG
Statistics
Matches: 393, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 250 0.64
49 143 0.36
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:17151502 original size:24 final size:24
Alignment explanation
Indices: 17151403--17151495 Score: 159
Period size: 24 Copynumber: 3.9 Consensus size: 24
17151393 AAGGCTGTCA
17151403 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
17151427 GGAGATGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
17151451 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
17151475 GGAGAAGATTTAGGAGCTGAT
1 GGAGAAGATTTAGGAGCTGAT
17151496 CACGGAGCAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.04, G:0.38, T:0.23
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:17156002 original size:89 final size:90
Alignment explanation
Indices: 17155807--17156002 Score: 322
Period size: 89 Copynumber: 2.2 Consensus size: 90
17155797 GAAAATCTTA
* *
17155807 GTAAGGTAATTTGTTTAATGAATTTGAAAGATTTTTTATTTGTTGAATATTGATCTGAACATAAA
1 GTAAGGTAATTTGTTTAATGAATTTGAAAGATTTGTTATTTATTGAATATTGATCTGAACATAAA
*
17155872 TGAATTCATCTGACTGTAAATCTCG
66 TGAATTCATCTGACTGTAAATCCCG
*
17155897 GTAAGGTAATTTGTTTAATGAATTTGAAAGATTTGTTATTTATTGAATA-TGATCTGAACATAGA
1 GTAAGGTAATTTGTTTAATGAATTTGAAAGATTTGTTATTTATTGAATATTGATCTGAACATAAA
* *
17155961 TGAATTCATCTGACTGTAAGTCCCT
66 TGAATTCATCTGACTGTAAATCCCG
*
17155986 GTAAGGTAATTGGTTTA
1 GTAAGGTAATTTGTTTA
17156003 TGTTGATGGA
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
89 52 0.53
90 47 0.47
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (90 bp):
GTAAGGTAATTTGTTTAATGAATTTGAAAGATTTGTTATTTATTGAATATTGATCTGAACATAAA
TGAATTCATCTGACTGTAAATCCCG
Found at i:17158569 original size:46 final size:46
Alignment explanation
Indices: 17158251--17158569 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
17158241 TTTGACATGA
* * * * *
17158251 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
17158297 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * *
17158343 TGCCAT-GTATCTTTCAAACATGGTCTTATTCATTTCATATCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
17158388 TGCCACGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
17158434 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
17158480 TGCCATAGAATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
17158526 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
17158570 AGAGCACACT
Statistics
Matches: 248, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
45 43 0.17
46 205 0.83
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:17160656 original size:11 final size:11
Alignment explanation
Indices: 17160640--17160691 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
17160630 CTTTCTTTAT
17160640 ATAATAATAAA
1 ATAATAATAAA
*
17160651 ATAATAACAAA
1 ATAATAATAAA
* *
17160662 ATGTATTATTAAA
1 A--TAATAATAAA
*
17160675 ATATTAATAAA
1 ATAATAATAAA
17160686 ATAATA
1 ATAATA
17160692 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 25 0.76
13 8 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:17162436 original size:22 final size:22
Alignment explanation
Indices: 17162406--17162463 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
17162396 TCAGTGCTAG
17162406 TAATCACTTTTACACCTTTCGCA
1 TAAT-ACTTTTACACCTTTCGCA
17162429 TAATACTTTTACACCTTTCGCA
1 TAATACTTTTACACCTTTCGCA
17162451 TAATACTTTTACA
1 TAATACTTTTACA
17162464 TGCTTTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.41
Consensus pattern (22 bp):
TAATACTTTTACACCTTTCGCA
Found at i:17166253 original size:39 final size:40
Alignment explanation
Indices: 17166153--17166343 Score: 176
Period size: 39 Copynumber: 4.8 Consensus size: 40
17166143 TCGAATGATG
* * * *
17166153 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTAATAAA
* * *
17166193 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTAATAAA
* *
17166233 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATAAA
* * * *
17166272 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TCATATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATA-AA
** *
17166312 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17166344 CGTTATATCC
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
39 62 0.51
40 53 0.43
41 7 0.06
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATAAA
Found at i:17166293 original size:79 final size:81
Alignment explanation
Indices: 17166153--17166336 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
17166143 TCGAATGATG
* * *
17166153 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
17166217 CGTGCGAGTTAATA-AA
66 CGTGCGAG-TAATATAA
* **
17166233 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
17166295 TCGTGCGAGTCATATAA
65 TCGTGCGAGTAATATAA
**
17166312 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17166337 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 13 0.14
79 60 0.66
80 18 0.20
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTAATATAA
Found at i:17171316 original size:71 final size:71
Alignment explanation
Indices: 17171232--17171395 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17171222 CGATTTGTCT
17171232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17171297 CTTTCA
66 CTTTCA
17171303 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17171368 CTTTCA
66 CTTTCA
17171374 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17171396 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17171433 original size:71 final size:70
Alignment explanation
Indices: 17171232--17171429 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17171222 CGATTTGTCT
* * * *
17171232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17171297 CTTTCA
65 CTTTCA
* * * *
17171303 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17171368 CTTTCA
65 CTTTCA
* *
17171374 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17171430 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17178391 original size:71 final size:71
Alignment explanation
Indices: 17178305--17178468 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17178295 CGATTTGTCT
17178305 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17178370 CTTTCA
66 CTTTCA
17178376 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17178441 CTTTCA
66 CTTTCA
17178447 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17178469 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17178506 original size:71 final size:70
Alignment explanation
Indices: 17178305--17178502 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17178295 CGATTTGTCT
* * * *
17178305 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17178370 CTTTCA
65 CTTTCA
* * * *
17178376 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17178441 CTTTCA
65 CTTTCA
* *
17178447 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17178503 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17183637 original size:79 final size:82
Alignment explanation
Indices: 17183497--17183681 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
17183487 TCGAATGATG
* * *
17183497 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
17183561 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
17183577 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
17183639 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
17183657 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17183682 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:17183689 original size:40 final size:40
Alignment explanation
Indices: 17183498--17183689 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
17183488 CGAATGATGT
* * * * *
17183498 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
17183538 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
17183578 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
17183617 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
17183657 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
17183690 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:17183712 original size:79 final size:79
Alignment explanation
Indices: 17183497--17183714 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
17183487 TCGAATGATG
* * * * ** *
17183497 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
17183560 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
17183577 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
17183642 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
17183657 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
17183715 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:17191676 original size:40 final size:40
Alignment explanation
Indices: 17191510--17191677 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
17191500 CATTTGAATG
* * *
17191510 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
17191550 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * * **
17191590 ATATCCAGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
17191630 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
17191670 GTATCCGG
1 ATATCCGG
17191678 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.03
40 93 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:17193685 original size:46 final size:46
Alignment explanation
Indices: 17193412--17193685 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
17193402 TTTGACATGA
* * * *
17193412 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
17193458 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
17193504 TGCCAAT-GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCC-ATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
** * *
17193550 TGCCATGGTATCTTTCAACCATTATGTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
17193596 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
17193642 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
17193686 AGAGCACACT
Statistics
Matches: 209, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 6 0.03
46 201 0.96
47 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:17195827 original size:11 final size:11
Alignment explanation
Indices: 17195811--17195862 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
17195801 CTTTCTTTAT
17195811 ATAATAATAAA
1 ATAATAATAAA
17195822 ATAATAATAAA
1 ATAATAATAAA
* *
17195833 ATGTATTATTAAA
1 A--TAATAATAAA
*
17195846 ATATTAATAAA
1 ATAATAATAAA
17195857 ATAATA
1 ATAATA
17195863 TTTATCTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 26 0.74
13 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:17196057 original size:24 final size:24
Alignment explanation
Indices: 17196030--17196084 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
17196020 CTTCATAGTT
17196030 ATTCATCTATTTAATTTGGTCCTA
1 ATTCATCTATTTAATTTGGTCCTA
*
17196054 ATTCATTTATTTAATTTGGTCCTA
1 ATTCATCTATTTAATTTGGTCCTA
17196078 ATTCATC
1 ATTCATC
17196085 CTTAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.51
Consensus pattern (24 bp):
ATTCATCTATTTAATTTGGTCCTA
Found at i:17203828 original size:26 final size:26
Alignment explanation
Indices: 17203776--17203830 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
17203766 AACACACCAA
* * *
17203776 TATCGCAGCAAGGTTGCCGGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
17203802 TATCGCAGCAAAGCTGCCAG-AATCAG
1 TATCGCAGCAAAGCTGCCAGTAA-CAG
17203828 TAT
1 TAT
17203831 ATGTAGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:17203855 original size:27 final size:27
Alignment explanation
Indices: 17203825--17203877 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
17203815 CTGCCAGAAT
*
17203825 CAGTATATGTAGCAAAGCCACTAGTAG
1 CAGTATATGTAGCAAAGCCACCAGTAG
*
17203852 CAGTATATGTGGCAAAGCCACCAGTA
1 CAGTATATGTAGCAAAGCCACCAGTA
17203878 TAATACACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTATATGTAGCAAAGCCACCAGTAG
Found at i:17204027 original size:27 final size:27
Alignment explanation
Indices: 17203983--17204052 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
17203973 ATTATAACAC
*
17203983 AAATCAGTCA-TTTGCCCTCGAGGGGTA
1 AAAT-AGTCATTTTACCCTCGAGGGGTA
**
17204010 AAATAGTCATTTTACCCTTTAGGGGTA
1 AAATAGTCATTTTACCCTCGAGGGGTA
***
17204037 TTTTAGTCATTTTACC
1 AAATAGTCATTTTACC
17204053 AGTCTTGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
AAATAGTCATTTTACCCTCGAGGGGTA
Found at i:17207483 original size:27 final size:27
Alignment explanation
Indices: 17207453--17207650 Score: 114
Period size: 27 Copynumber: 7.4 Consensus size: 27
17207443 AAAGAAAGAC
* *
17207453 TTGTGGCAATCTC-TGTAATGGGAGCCT
1 TTGTGGCAATC-CATGTAAAGGAAGCCT
*
17207480 TTGTGGCTATCCATGTAAAGGAAGCCT
1 TTGTGGCAATCCATGTAAAGGAAGCCT
* * * * *
17207507 TTTTGGCTA-CCCTATAAAAGAAGCCT
1 TTGTGGCAATCCATGTAAAGGAAGCCT
* * * * *
17207533 GTATTGCTATTCATGTAAAGGAAGCCT
1 TTGTGGCAATCCATGTAAAGGAAGCCT
* * * * * *
17207560 TTCTCGCTACCCATGTAAAAGAAGCTT
1 TTGTGGCAATCCATGTAAAGGAAGCCT
* * * *
17207587 TTGTGCCTATCAATGTAAAGGAAGCCA
1 TTGTGGCAATCCATGTAAAGGAAGCCT
** * *
17207614 AAGTGCCTAA-CCATGTAAAGGAAGCCC
1 TTGTGGC-AATCCATGTAAAGGAAGCCT
17207641 TTGTGGCAAT
1 TTGTGGCAAT
17207651 TCGAATAAAG
Statistics
Matches: 130, Mismatches: 37, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
26 23 0.18
27 106 0.82
28 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (27 bp):
TTGTGGCAATCCATGTAAAGGAAGCCT
Found at i:17207532 original size:53 final size:54
Alignment explanation
Indices: 17207475--17207612 Score: 179
Period size: 53 Copynumber: 2.6 Consensus size: 54
17207465 CTGTAATGGG
* *
17207475 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTTTGGCTACCC-TATAAAAGA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTCTCGCTACCCATATAAAAGA
* * * * *
17207528 AGCCTGTATTGCTATTCATGTAAAGGAAGCCTTTCTCGCTACCCATGTAAAAGA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTCTCGCTACCCATATAAAAGA
* * *
17207582 AGCTTTTGTGCCTATCAATGTAAAGGAAGCC
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCC
17207613 AAAGTGCCTA
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 38 0.54
54 32 0.46
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (54 bp):
AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTCTCGCTACCCATATAAAAGA
Found at i:17220368 original size:17 final size:18
Alignment explanation
Indices: 17220348--17220383 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17220338 GGAAAATAAA
17220348 GAAATGA-AAAAAAAAAG
1 GAAATGAGAAAAAAAAAG
17220365 GAAATGATGAAAAAAAAAG
1 GAAATGA-GAAAAAAAAAG
17220384 AGTGTGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
GAAATGAGAAAAAAAAAG
Found at i:17222176 original size:41 final size:43
Alignment explanation
Indices: 17222127--17222240 Score: 144
Period size: 41 Copynumber: 2.7 Consensus size: 43
17222117 ATATGTGTTC
* *
17222127 GTGTAAGACTATAGCTGGGCTATGGCATCGA-TATATG-ATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
17222168 GTGTAAGACCATAGCTGGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
17222210 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
17222241 GAAACGAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.02
41 32 0.52
42 28 0.45
43 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:17224290 original size:15 final size:14
Alignment explanation
Indices: 17224272--17224304 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17224262 AACCTAACCC
*
17224272 AAAAAAAAACAAAG
1 AAAAAAAAAAAAAG
17224286 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
17224300 AAAAA
1 AAAAA
17224305 CTTACCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:17224945 original size:15 final size:16
Alignment explanation
Indices: 17224928--17224961 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
17224918 TAAATACTAT
17224928 TATATACATATATATTA
1 TATATACATATATA-TA
17224945 TATATACATATATATA
1 TATATACATATATATA
17224961 T
1 T
17224962 TTTAAATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATACATATATATA
Found at i:17225067 original size:2 final size:2
Alignment explanation
Indices: 17225056--17225087 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
17225046 TTTTATGTAC
17225056 AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17225088 TTGTACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17232365 original size:68 final size:69
Alignment explanation
Indices: 17232111--17232373 Score: 330
Period size: 70 Copynumber: 3.7 Consensus size: 69
17232101 GAGTTAAGCC
* * *
17232111 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
17232176 GAGGTAT
63 GAGGTAT
* * * * * *
17232183 TTTCAATTTTTGTGTTTTAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGA
1 TTTTAATTTTTGT-TTTAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
17232248 GGTAT
65 GGTAT
* *
17232253 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
17232317 AGGTAT
64 AGGTAT
* * * *
17232323 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
17232374 TTTAATTTTT
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
68 31 0.19
69 3 0.02
70 84 0.51
71 33 0.20
72 14 0.08
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
GTAT
Found at i:17232418 original size:121 final size:123
Alignment explanation
Indices: 17232253--17232498 Score: 381
Period size: 121 Copynumber: 2.0 Consensus size: 123
17232243 GTTGAGGTAT
17232253 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* * *
17232317 AGGTATTTTTAGTTTAT-GTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATTTATAGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
17232373 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * *
17232438 GAGGTATTTTCAATTTTTGAGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATTTAT-AGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
17232498 T
1 T
17232499 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 12 0.11
121 40 0.35
122 24 0.21
124 9 0.08
125 28 0.25
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATTTATAGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:17232437 original size:262 final size:259
Alignment explanation
Indices: 17231946--17232535 Score: 1033
Period size: 262 Copynumber: 2.3 Consensus size: 259
17231936 TCAAGGAAAA
*
17231946 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTT
17232011 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTT
66 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTT
17232076 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
131 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
*
17232141 TATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA-T
196 TATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGAGTTTTAATT
17232204 T-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTT
17232268 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG-CACGCTGAGGTATTTTTAGTTT
66 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--TTT
17232332 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATC
126 A-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATC
17232397 AACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGAGTTT
190 AACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGAGTTT
17232462 TAATT
255 TAATT
* * * * * *
17232467 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTT
17232532 TCAA
66 TCAA
17232536 TTTACGTTGT
Statistics
Matches: 316, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
256 12 0.04
257 104 0.33
258 1 0.00
259 2 0.01
261 4 0.01
262 130 0.41
263 2 0.01
264 61 0.19
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (259 bp):
TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTT
TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTT
TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
TATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGAGTTTTAATT
Found at i:17232494 original size:72 final size:71
Alignment explanation
Indices: 17232395--17232813 Score: 311
Period size: 72 Copynumber: 5.8 Consensus size: 71
17232385 TTTTTCAAAA
* *
17232395 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGAGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCT-AGT
17232460 TTTAATT
65 TTTAATT
* *
17232467 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT-GTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAGTT
17232531 TTCAATT
66 TT-AATT
* * * * ** * *** * * * ***
17232538 T--ACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTAGGTTGA-ACCTTTT-AATTTCT
1 TCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCACGCTGAGGTATTTTCAATTTCT
* **
17232595 ACTTTTTCAAAA
62 A-GTTTT-AATT
* * *
17232607 TCAACTCA-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-GTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAGTT
* **
17232670 GTCAAAAAAA
66 -T---TAATT
* *
17232680 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTA-GT
17232745 TTTAATT
65 TTTAATT
* * **
17232752 TCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCACGCTGAGGTATTTTCAATTTC
17232814 CGTTTTTCAA
Statistics
Matches: 263, Mismatches: 60, Indels: 46
0.71 0.16 0.12
Matches are distributed among these distances:
66 5 0.02
67 12 0.05
68 8 0.03
69 16 0.06
70 15 0.06
71 14 0.05
72 101 0.38
73 19 0.07
74 69 0.26
75 1 0.00
76 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (71 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAGTT
TTAATT
Found at i:17232723 original size:74 final size:73
Alignment explanation
Indices: 17232603--17232813 Score: 257
Period size: 74 Copynumber: 2.9 Consensus size: 73
17232593 CTACTTTTTC
* *
17232603 AAAATCAACTCA-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
17232667 GT-TGTCAAA
66 -TATGT-AAA
* *
17232676 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
***
17232740 TATGTTTT
66 TATGTAAA
** * * *
17232748 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTATTTTCAATTT
17232813 C
64 C
17232814 CGTTTTTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
72 33 0.28
73 18 0.15
74 68 0.57
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
TATGTAAA
Found at i:17232822 original size:14 final size:14
Alignment explanation
Indices: 17232803--17232837 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17232793 CGCTGAGGTA
17232803 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
17232817 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
17232831 CTTTCAA
1 TTTTCAA
17232838 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:17232851 original size:164 final size:164
Alignment explanation
Indices: 17232656--17233316 Score: 863
Period size: 164 Copynumber: 4.0 Consensus size: 164
17232646 GCTGAGGTAA
* * *
17232656 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *** *
17232719 CGCTGAGGTATTTTCAATTTT-TATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTTGT-TGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
17232782 CTCAGGTCACACGCTGAGGTATTTTCAATTTCCGTT
129 CTCAGGTCACACGCTGAGGTATTTTCAATTTCCGTT
* *
17232818 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACA
1 TTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
17232883 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGC
65 CGCTGAGGTAATTTCAATTT-TGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * *
17232948 CTCAGGTCATACGCCGAGGTATTTTCAATTTTCGTT
129 CTCAGGTCACACGCTGAGGTATTTTCAATTTCCGTT
*
17232984 TTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
17233049 GCTGAGGTAATTTCAATTTTGTTGTCAAAAAAGTCAACTCGTATTACGAGAGGTGAGTTGAGCCT
66 GCTGAGGTAATTTCAATTTTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
* *
17233114 CAGATCACACG-TCGAGGTATTTTCAATTTCCATT
131 CAGGTCACACGCT-GAGGTATTTTCAATTTCCGTT
* *
17233148 TTTCAATTTCTGCCTTTCAAAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCG
1 TTTCAATTTCTGCCTTTC------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * ***
17233213 GGACACGCTGAGGTAATTTCAATTTCTATTTTC--AAAATTCAACTCATATTGCGAGAAATGAGT
60 GGACACGCTGAGGTAATTTCAATTT-TGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGT
* * *
17233276 TGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCTGTT
124 TGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCCGTT
17233315 TT
1 TT
17233317 CAAAAAATCA
Statistics
Matches: 444, Mismatches: 40, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
162 12 0.03
163 2 0.00
164 150 0.34
165 69 0.16
166 81 0.18
167 26 0.06
168 1 0.00
169 34 0.08
170 64 0.14
171 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (164 bp):
TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
CAGGTCACACGCTGAGGTATTTTCAATTTCCGTT
Found at i:17232943 original size:74 final size:77
Alignment explanation
Indices: 17232818--17232978 Score: 220
Period size: 74 Copynumber: 2.1 Consensus size: 77
17232808 AATTTCCGTT
* * *
17232818 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
17232882 ACGCTGAGGTAA
66 ACGCCGAGGTAA
* *
17232894 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
* *
17232957 TACGCCGAGGTAT
65 CACGCCGAGGTAA
17232970 TTTCAATTT
1 TTTCAATTT
17232979 TCGTTTTTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
74 39 0.52
75 3 0.04
76 33 0.44
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:17233105 original size:73 final size:75
Alignment explanation
Indices: 17233000--17233142 Score: 211
Period size: 73 Copynumber: 1.9 Consensus size: 75
17232990 TTTTTGCCTT
* *
17233000 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
17233062 CAATTTTGTTG
65 CAATTTTGTTG
* * *
17233073 TCAAAAAAGTCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
17233138 AATTT
66 AATTT
17233143 CCATTTTTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
73 41 0.66
75 20 0.32
76 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTTGTTG
Done.