Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 57 of 316
Found at i:16897585 original size:28 final size:28
Alignment explanation
Indices: 16897540--16897610 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
16897530 TTAGTTTATA
16897540 AGGTTTAAGGTATT-GGGT-TTAGGGT-TT
1 AGGTTTAAGGT-TTAGGGTATT-GGGTATT
16897567 A-GTCTATAAGGTTTAGGGTATTGGGTATT
1 AGGT-T-TAAGGTTTAGGGTATTGGGTATT
16897596 AGGTTTAAGGTTTAG
1 AGGTTTAAGGTTTAG
16897611 TCTATATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 24 0.63
29 6 0.16
30 2 0.05
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (28 bp):
AGGTTTAAGGTTTAGGGTATTGGGTATT
Found at i:16897601 original size:35 final size:34
Alignment explanation
Indices: 16897503--16897602 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 34
16897493 AATTTATGTT
* *
16897503 TAAGGTTTAGGGTATTGGGTTCAGGATTTAGTTTA
1 TAAGGTTTAGGGTATTGGGTTTAGG-TTTAGTCTA
*
16897538 TAAGGTTTAAGGTATTGGGTTTAGGGTTTAGTCTA
1 TAAGGTTTAGGGTATTGGGTTTA-GGTTTAGTCTA
16897573 TAAGGTTTAGGGTATTGGGTATTAGGTTTA
1 TAAGGTTTAGGGTATTGGGT-TTAGGTTTA
16897603 AGGTTTAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 54 0.92
36 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.43
Consensus pattern (34 bp):
TAAGGTTTAGGGTATTGGGTTTAGGTTTAGTCTA
Found at i:16898045 original size:84 final size:84
Alignment explanation
Indices: 16897838--16898037 Score: 224
Period size: 84 Copynumber: 2.4 Consensus size: 84
16897828 TTGGAGGGAC
* ** * * * * *
16897838 AGTGGAGTTAGTGGCGCTAGGTCATAAACGCCACTAAAAGTATGAGAAATTGTATTGAAACGTCG
1 AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGTCG
* * *
16897903 TCGTTTTATTTGGCGGGGT
66 TCATTTTATGTGGCGCGGT
* * *
16897922 AGTGGATTTAGTGGCGTTATCTTATAAATGCCACTAAAAATATGAGAAATCGAATGGAAAC-TAC
1 AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGT-C
16897986 GTCATTTTATGTGGCGCGGT
65 GTCATTTTATGTGGCGCGGT
* *
16898006 -TTAGGAATTAGTGGCGCTATCTTAGAAACGCC
1 AGT-GGAATTAGTGGCGCTATCTTATAAACGCC
16898038 GCAAAAAAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
83 2 0.02
84 94 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (84 bp):
AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGTCG
TCATTTTATGTGGCGCGGT
Found at i:16901125 original size:3 final size:3
Alignment explanation
Indices: 16901119--16901145 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16901109 TTAAGCTTTA
16901119 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
16901146 GTTTGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16901591 original size:13 final size:13
Alignment explanation
Indices: 16901573--16901598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16901563 CCACATAATA
16901573 CATAAATATATAT
1 CATAAATATATAT
16901586 CATAAATATATAT
1 CATAAATATATAT
16901599 ATCATATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:16901661 original size:9 final size:9
Alignment explanation
Indices: 16901649--16901725 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
16901639 TATATCATAT
16901649 CATAACTTA
1 CATAACTTA
*
16901658 CATATCTTA
1 CATAACTTA
16901667 CATAACTGTA
1 CATAACT-TA
* * *
16901677 TATCA-TAA
1 CATAACTTA
16901685 CATAACTTA
1 CATAACTTA
16901694 CATAACTTA
1 CATAACTTA
*
16901703 CAAAACTTA
1 CATAACTTA
*
16901712 CTTAACTTA
1 CATAACTTA
16901721 CATAA
1 CATAA
16901726 TACATAAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 4 0.07
9 45 0.83
10 5 0.09
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:16901679 original size:36 final size:36
Alignment explanation
Indices: 16901629--16901709 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
16901619 CCTTACATAG
* * *
16901629 TACATAAATATATATCATATCATAACTTACATATCT
1 TACATAACTATATATCATAACATAACTTACATAACT
*
16901665 TACATAACTGTATATCATAACATAACTTACATAACT
1 TACATAACTATATATCATAACATAACTTACATAACT
*
16901701 TACAAAACT
1 TACATAACT
16901710 TACTTAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.35
Consensus pattern (36 bp):
TACATAACTATATATCATAACATAACTTACATAACT
Found at i:16906862 original size:13 final size:14
Alignment explanation
Indices: 16906846--16906874 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16906836 TTATAAGTAT
16906846 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
16906859 TTATAATGGTTTAA
1 TTATAATGGTTTAA
16906873 TT
1 TT
16906875 CGTCAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:16907310 original size:21 final size:21
Alignment explanation
Indices: 16907281--16907330 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
16907271 ATAACTTAGA
16907281 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
* *
16907302 GCAGCGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
16907323 GCA-AGGCA
1 GCAGAGGCA
16907331 ACAGTGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGGGAG
Found at i:16907738 original size:43 final size:44
Alignment explanation
Indices: 16907690--16907881 Score: 164
Period size: 43 Copynumber: 4.4 Consensus size: 44
16907680 AAAAAGTGCA
* *
16907690 GCTAAAAGTCATGACTTTTAGCGGCGCTTTT-TTAACAAATGCC
1 GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
* * ** * **
16907733 GCTAAAAGCCATGACTTATAGCGGCACTTCAC-CATTAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
* ** *
16907776 GTTAAAAGCTACA--ACTTTTAGCGGTGCTTCTTCATAAC--ACGCC
1 GCTAAAAG-T-CATGACTTTTAGCGGCACTT-TTCTTAACAAACGCC
*
16907819 GCTAAAAGCCATGACTTTTAGCGGCACTTTTCTT-ACAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
*
16907862 GCTAAAAGTCTTGATCTTTT
1 GCTAAAAGTCATGA-CTTTT
16907882 GTGGCATTTT
Statistics
Matches: 113, Mismatches: 26, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
41 4 0.04
42 4 0.04
43 96 0.85
44 6 0.05
45 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
Found at i:16909722 original size:81 final size:81
Alignment explanation
Indices: 16909512--16909704 Score: 221
Period size: 80 Copynumber: 2.4 Consensus size: 81
16909502 CCTTGGTTTA
* * * * **
16909512 TAAAATTACCAAAATACCCCTAATTTGTA-AAATTACCAAAATACCCCTG-TTTGTAAAATTATC
1 TAAAATTACCAAAATACCCCTGATTT-CAGAAATTACTAAAATACCCTTGACCTGTAAAATTATC
**
16909575 AAAATACCCCTAGTTTG
65 AAAATACCCCTAACTTG
** *
16909592 TAAAATTACCAAAATACCCCTGATTTTTGAAATTACTAAAATACCCTTGACCTGTAAAATTATTA
1 TAAAATTACCAAAATACCCCTGATTTCAGAAATTACTAAAATACCCTTGACCTGTAAAATTATCA
16909657 AAATA-CCCTCAACTTG
66 AAATACCCCT-AACTTG
* *
16909673 TAAAATTACCAAAGTACCCTTGATTTACAGAA
1 TAAAATTACCAAAATACCCCTGATTT-CAGAA
16909705 TTATCATTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 47 0.49
81 45 0.47
82 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTGATTTCAGAAATTACTAAAATACCCTTGACCTGTAAAATTATCA
AAATACCCCTAACTTG
Found at i:16909746 original size:27 final size:27
Alignment explanation
Indices: 16909487--16909748 Score: 240
Period size: 27 Copynumber: 9.7 Consensus size: 27
16909477 TTAGTTTACC
* * *
16909487 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
16909514 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
16909541 AAATTACCAAAATACCCCTG-TTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
16909567 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* * *
16909594 AAATTACCAAAATACCCCTGATTTTTG
1 AAATTACCAAAATACCCTTGATTTGTA
* **
16909621 AAATTACTAAAATACCCTTGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
** ** *
16909648 AAATTATTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* **
16909675 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *** *
16909702 GAATTATCATTTTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
16909729 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
16909749 TAGGGTAGAA
Statistics
Matches: 192, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
26 24 0.12
27 167 0.87
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:16909763 original size:27 final size:27
Alignment explanation
Indices: 16909733--16909867 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
16909723 TTTATAAAAT
*
16909733 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
16909760 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
16909787 TATCGAAATACCCCTGTAAGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
16909814 TACCGAAATACCCCTGTAAGATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * * *
16909841 TACTGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
16909867 T
1 T
16909868 TATCATTTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.03
27 92 0.97
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:16910189 original size:27 final size:26
Alignment explanation
Indices: 16910149--16910208 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
16910139 ACATATATAT
* *
16910149 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
16910175 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
16910202 ATATCTG
1 ATATCTG
16910209 GCAGTCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:16910369 original size:6 final size:6
Alignment explanation
Indices: 16910327--16910414 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
16910317 TTGCATTCAC
* * * *
16910327 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
16910376 -TCACCTG ATCCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
16910415 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:16910372 original size:31 final size:31
Alignment explanation
Indices: 16910327--16910405 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
16910317 TTGCATTCAC
* * *
16910327 ATTCTAATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
16910358 ATTCTGATTCTGATTCTGTCACCTGATCCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
16910389 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
16910406 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:16924551 original size:3 final size:3
Alignment explanation
Indices: 16924537--16924587 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
16924527 ACACTAGTAC
* * * * *
16924537 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16924584 ATA A
1 ATA A
16924588 GGATATTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16926316 original size:44 final size:44
Alignment explanation
Indices: 16926188--16926648 Score: 353
Period size: 44 Copynumber: 10.5 Consensus size: 44
16926178 CGCCATTATC
* * ***
16926188 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATACATGAAGACAA
* * * * * * *
16926233 GATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* *
16926276 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * * * *** *
16926320 GATCTGCTTTCTGCTATCTAATTCGCCACCAATATGGGAAGATAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* * * ** *
16926365 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGGTAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* *
16926408 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* *
16926452 GATCTGCTTTCTGCGATCTACTTCACCACCAAT--ATGGAAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATACAT-G-AAGACAA
* * * * *
16926497 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAA
* *
16926540 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAA
* * * ***
16926584 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATACATGAAGACAA
* *
16926629 GATCTGCAATCTTCAATCTA
1 GATCTGCTATCTTCGATCTA
16926649 TTCCACTGCC
Statistics
Matches: 327, Mismatches: 73, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
42 3 0.01
43 61 0.19
44 181 0.55
45 82 0.25
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAA
Found at i:16926425 original size:132 final size:132
Alignment explanation
Indices: 16926188--16926642 Score: 793
Period size: 132 Copynumber: 3.4 Consensus size: 132
16926178 CGCCATTATC
* * * *
16926188 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
16926253 TTCCTATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
16926318 AA
131 AA
* * * *
16926320 GATCTGCTTTCTGCTATCTAATTCGCCACCAATATGGGAAGATAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
16926385 TTCCTACCAATATAGGAAGGTAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
16926450 AA
131 AA
*
16926452 GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGAAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
16926517 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
16926582 AA
131 AA
*
16926584 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAATCTTC
1 GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTC
16926643 AATCTATTCC
Statistics
Matches: 304, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
132 298 0.98
133 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:16926688 original size:45 final size:45
Alignment explanation
Indices: 16926639--16926798 Score: 110
Period size: 45 Copynumber: 3.4 Consensus size: 45
16926629 GATCTGCAAT
*
16926639 CTTCAATCTATTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
* * * * * * *
16926684 CTTCAATGTACTCCACTG--TAGTCACAT-GGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAAT-AC-TGGGAGATAGAGT-T---ATC---G-G
* *
16926736 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
*
16926781 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
16926799 TAGTCAGGGA
Statistics
Matches: 83, Mismatches: 19, Indels: 26
0.65 0.15 0.20
Matches are distributed among these distances:
43 2 0.02
44 10 0.12
45 34 0.41
46 1 0.01
48 3 0.04
49 3 0.04
51 1 0.01
52 17 0.20
53 10 0.12
54 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
Found at i:16926860 original size:95 final size:95
Alignment explanation
Indices: 16926637--16927023 Score: 675
Period size: 95 Copynumber: 4.0 Consensus size: 95
16926627 AAGATCTGCA
*
16926637 ATCTTCAATCTATTCCACTGCCAAATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
16926702 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
16926734 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
16926799 TAGTCAGGGAGGTAAAATCTGCCATATTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* *
16926829 ATCTTCAATCTATTCCACTGCCAGATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
16926894 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
16926924 ATCTTCAATCTATTCCACTGCCAGATGCAGGGAGGTAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
16926989 TAGTCAGGGAGGTAAAATCTGCCATCTTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATC-TTTG
16927020 ATCT
1 ATCT
16927024 GCTTCGCTGC
Statistics
Matches: 282, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
95 206 0.73
96 8 0.03
97 68 0.24
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:16929316 original size:27 final size:27
Alignment explanation
Indices: 16929286--16929462 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
16929276 AAATTGTACA
*
16929286 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
16929313 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
16929340 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
16929367 GCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGA-ATTGACTATGTT
* * *
16929395 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
16929422 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
16929449 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16929463 GACTCAATAT
Statistics
Matches: 123, Mismatches: 26, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:16929398 original size:82 final size:81
Alignment explanation
Indices: 16929286--16929441 Score: 285
Period size: 82 Copynumber: 1.9 Consensus size: 81
16929276 AAATTGTACA
*
16929286 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
16929351 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
16929367 GCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
*
16929432 TGCGAGTTGA
65 TGCGAATTGA
16929442 TTATATAGCA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 15 0.21
82 57 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16929426 original size:55 final size:55
Alignment explanation
Indices: 16929286--16929439 Score: 193
Period size: 55 Copynumber: 2.8 Consensus size: 55
16929276 AAATTGTACA
* * ** *
16929286 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* ** * *
16929340 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* *
16929395 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTT
16929440 GATTATATAG
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 38 0.45
55 47 0.55
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
Found at i:16929453 original size:82 final size:81
Alignment explanation
Indices: 16929282--16929462 Score: 281
Period size: 82 Copynumber: 2.2 Consensus size: 81
16929272 GATTAAATTG
*
16929282 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
16929347 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* *
16929363 TGCGGCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
* **
16929428 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
16929445 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16929463 GACTCAATAT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 17 0.19
82 72 0.81
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16936880 original size:27 final size:27
Alignment explanation
Indices: 16936850--16937026 Score: 183
Period size: 27 Copynumber: 6.5 Consensus size: 27
16936840 AAATTGTACA
*
16936850 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
16936877 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
16936904 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
16936931 GCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGA-ATTGACTATGTT
* * * *
16936959 GCACTAAGTGTGTGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
16936986 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
16937013 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16937027 GACTCAATAT
Statistics
Matches: 121, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
27 100 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:16936962 original size:82 final size:81
Alignment explanation
Indices: 16936850--16937005 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 81
16936840 AAATTGTACA
*
16936850 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
16936915 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*
16936931 GCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
*
16936996 TGCGAGTTGA
65 TGCGAATTGA
16937006 TTATATAGCA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 15 0.21
82 56 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16936990 original size:55 final size:55
Alignment explanation
Indices: 16936850--16937003 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 55
16936840 AAATTGTACA
* * ** *
16936850 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* ** * *
16936904 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* * *
16936959 GCACTAAGTGTGTGAAATGAATATGATGCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTT
16937004 GATTATATAG
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 38 0.45
55 46 0.55
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
Found at i:16937017 original size:82 final size:81
Alignment explanation
Indices: 16936846--16937026 Score: 272
Period size: 82 Copynumber: 2.2 Consensus size: 81
16936836 GATTAAATTG
*
16936846 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
16936911 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *
16936927 TGCGGCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGTGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
* **
16936992 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
16937009 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16937027 GACTCAATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 17 0.19
82 71 0.81
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16948298 original size:27 final size:27
Alignment explanation
Indices: 16948265--16948441 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
16948255 TTAATGTACA
*
16948265 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
16948292 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
16948319 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
16948346 GCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGA-ATTGACTATGTT
* * *
16948374 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
16948401 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
16948428 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16948442 GACTCAATAT
Statistics
Matches: 123, Mismatches: 26, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:16948377 original size:82 final size:81
Alignment explanation
Indices: 16948265--16948420 Score: 285
Period size: 82 Copynumber: 1.9 Consensus size: 81
16948255 TTAATGTACA
*
16948265 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
16948330 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
16948346 GCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
*
16948411 TGCGAGTTGA
65 TGCGAATTGA
16948421 TTATATAGCA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 15 0.21
82 57 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16948405 original size:55 final size:55
Alignment explanation
Indices: 16948265--16948418 Score: 193
Period size: 55 Copynumber: 2.8 Consensus size: 55
16948255 TTAATGTACA
* * ** *
16948265 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* ** * *
16948319 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* *
16948374 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTT
16948419 GATTATATAG
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 38 0.45
55 47 0.55
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
Found at i:16948432 original size:82 final size:81
Alignment explanation
Indices: 16948261--16948441 Score: 281
Period size: 82 Copynumber: 2.2 Consensus size: 81
16948251 CGGATTAATG
*
16948261 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
16948326 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* *
16948342 TGCGGCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
* **
16948407 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
16948424 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16948442 GACTCAATAT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 17 0.19
82 72 0.81
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16955806 original size:27 final size:27
Alignment explanation
Indices: 16955776--16955952 Score: 183
Period size: 27 Copynumber: 6.5 Consensus size: 27
16955766 AAATTGTACA
*
16955776 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
16955803 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
16955830 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
16955857 GCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGA-ATTGACTATGTT
* * * *
16955885 GCACTAAGTGTGTGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
16955912 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
16955939 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16955953 GACTCAATAT
Statistics
Matches: 121, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
27 100 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:16955888 original size:82 final size:81
Alignment explanation
Indices: 16955776--16955931 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 81
16955766 AAATTGTACA
*
16955776 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
16955841 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*
16955857 GCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
*
16955922 TGCGAGTTGA
65 TGCGAATTGA
16955932 TTATATAGCA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 15 0.21
82 56 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16955916 original size:55 final size:55
Alignment explanation
Indices: 16955776--16955929 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 55
16955766 AAATTGTACA
* * ** *
16955776 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* ** * *
16955830 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTACGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
* * *
16955885 GCACTAAGTGTGTGAAATGAATATGATGCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTT
16955930 GATTATATAG
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 38 0.45
55 46 0.55
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGATGCACTAAGTGTGCGAGTTTGAATACGAT
Found at i:16955943 original size:82 final size:81
Alignment explanation
Indices: 16955772--16955952 Score: 272
Period size: 82 Copynumber: 2.2 Consensus size: 81
16955762 GATTAAATTG
*
16955772 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
16955837 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *
16955853 TGCGGCACTAAGTGTGCGAGTTTGACTACGTTGCACTAAGTGTGTGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
* **
16955918 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
16955935 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16955953 GACTCAATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 17 0.19
82 71 0.81
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16961575 original size:19 final size:20
Alignment explanation
Indices: 16961551--16961594 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
16961541 CGTGAAAGTC
* *
16961551 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
16961570 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
16961590 -AATGC
1 TAATGC
16961595 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:16963973 original size:3 final size:3
Alignment explanation
Indices: 16963959--16964009 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
16963949 ACACTAGTAC
* * * * *
16963959 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16964006 ATA A
1 ATA A
16964010 GGATATTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16969073 original size:19 final size:19
Alignment explanation
Indices: 16969026--16969075 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
16969016 TCAATAAATC
16969026 TCAAATATAAAATATTTAT
1 TCAAATATAAAATATTTAT
** * * *
16969045 AAAAAAATAAAGTTTTTAT
1 TCAAATATAAAATATTTAT
16969064 TCAAATATAAAA
1 TCAAATATAAAA
16969076 GTAAAAATCT
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAAATATAAAATATTTAT
Found at i:16974689 original size:26 final size:26
Alignment explanation
Indices: 16974660--16974767 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
16974650 TGATACAAAT
16974660 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16974686 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16974712 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16974738 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16974764 TGAT
1 TGAT
16974768 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16979507 original size:25 final size:25
Alignment explanation
Indices: 16979473--16979521 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
16979463 AGGAGGCCTC
*
16979473 ATCCTCTGATGTTATTACTGGTATT
1 ATCCCCTGATGTTATTACTGGTATT
16979498 ATCCCCTGATGTTATTACTGGTAT
1 ATCCCCTGATGTTATTACTGGTAT
16979522 ATTCACTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (25 bp):
ATCCCCTGATGTTATTACTGGTATT
Found at i:16986867 original size:24 final size:24
Alignment explanation
Indices: 16986840--16986890 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
16986830 AATGAAGACA
*
16986840 GTGGAGATGAAGATGCAG-ATGATG
1 GTGGAGATGAAGAT-AAGCATGATG
16986864 GTGGAGATGAAGATAAGCATGATG
1 GTGGAGATGAAGATAAGCATGATG
16986888 GTG
1 GTG
16986891 AAAGTGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (24 bp):
GTGGAGATGAAGATAAGCATGATG
Found at i:16991192 original size:21 final size:20
Alignment explanation
Indices: 16991164--16991206 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
16991154 ATATGTATTG
* **
16991164 AAGTAAATTTTTTTAAGAAC
1 AAGTAAATATTTAGAAGAAC
16991184 AAGTCAAATATTTAGAAGAAC
1 AAGT-AAATATTTAGAAGAAC
16991205 AA
1 AA
16991207 AACATAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (20 bp):
AAGTAAATATTTAGAAGAAC
Found at i:17004774 original size:26 final size:26
Alignment explanation
Indices: 17004745--17004852 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
17004735 TGGTACAAAT
17004745 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
17004771 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17004797 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
17004823 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17004849 TGAT
1 TGAT
17004853 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17006522 original size:54 final size:54
Alignment explanation
Indices: 17006440--17006601 Score: 238
Period size: 54 Copynumber: 3.0 Consensus size: 54
17006430 TGGAGGAAGC
* *
17006440 GTCCTGGTGGCTATGCCACAATTATCTGATTTCGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
17006494 GTCCTGGCGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * *
17006548 GTTCTGGTGGCTTTGCCACAA-TATCTGTATCTGGTGACTCTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
17006601 G
1 G
17006602 GCAGCCTCGC
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 13 0.13
54 86 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:17006579 original size:32 final size:27
Alignment explanation
Indices: 17006443--17006601 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
17006433 AGGAAGCGTC
*
17006443 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
17006470 TTCGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
17006496 CCTGGCGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
17006524 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
17006551 CTGGTGGCTTTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
* *
17006578 CTGGTGACTCTGTCACA-ATATCTG
1 CTGGTGGCTCTGCCACATATATCTG
17006602 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.08
27 99 0.89
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:17006595 original size:81 final size:80
Alignment explanation
Indices: 17006443--17006601 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
17006433 AGGAAGCGTC
*
17006443 CTGGTGGCTATGCCACAATTATCTGATTTCGTGGCTCTGCCACATATATCTGTCCTGGCGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTCGTGGCTCTGCCACATATATCTGTCCTGGCGACTAT
17006508 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * * *
17006524 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTTTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TCGTGGCTCTGCCACATATATCTGT-CCTGGCGAC
* *
17006586 TCTGTCACAATATCTG
63 TATGCCACAATATCTG
17006602 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 18 0.27
81 49 0.73
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTCGTGGCTCTGCCACATATATCTGTCCTGGCGACTAT
GCCACAATATCTGAT
Found at i:17017274 original size:41 final size:41
Alignment explanation
Indices: 17017220--17017401 Score: 210
Period size: 41 Copynumber: 4.5 Consensus size: 41
17017210 AAGTTACTGT
* * *
17017220 AATCTCGTA-ACTAAGTGCCTTTCATAGTCGAAGCTATCAC
1 AATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTC
* *
17017260 AATCTCGGACACTAAGTGCCTTTCATAGCCGAAGCTTTCTC
1 AATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTC
* * *
17017301 AGTCTCGCACACTAAGTTCCTTCCATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTC
* *
17017342 AGTCTCGCACACTAAGTGCTTTGTC-TA-CCTGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCTT-TCATAGCC-GAAGCTATCTC
* *
17017383 GAT-ACGCACACTAAGTGCC
1 AATCTCGCACACTAAGTGCC
17017402 AAACATAGTC
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 24 0.20
41 98 0.80
42 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (41 bp):
AATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTC
Found at i:17024939 original size:41 final size:41
Alignment explanation
Indices: 17024894--17025007 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 41
17024884 GCTATTGTAA
* *
17024894 TCTCGCACATTAAGTGCCTT-TCATAATCGAAGCTATCACAG
1 TCTCGCACACTAAGTGCCTTCT-ATAACCGAAGCTATCACAG
* * * *
17024935 TCTCGCACGCTAAGTTCCTTCTATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCTTCTATAACCGAAGCTATCACAG
* * * *
17024976 TCTTGCACACTAAGTGCCATATATAGCCGAAG
1 TCTCGCACACTAAGTGCCTTCTATAACCGAAG
17025008 TTATTCCGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 60 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCTTCTATAACCGAAGCTATCACAG
Found at i:17025031 original size:40 final size:41
Alignment explanation
Indices: 17024956--17025057 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 41
17024946 AAGTTCCTTC
* * *
17024956 TATAGCCGAAGCTATCTCAG-TCTTGCACACTAAGTGCCATA
1 TATAGCCGAAGTTAT-TCCGATCTTGCACACAAAGTGCCATA
** *
17024997 TATAGCCGAAGTTATTCCGAT-TTGCACACAAAGTGCTTTG
1 TATAGCCGAAGTTATTCCGATCTTGCACACAAAGTGCCATA
* *
17025037 TATAGCTGAAGTTATCCCGAT
1 TATAGCCGAAGTTATTCCGAT
17025058 ACGCACGCTA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
40 37 0.71
41 15 0.29
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (41 bp):
TATAGCCGAAGTTATTCCGATCTTGCACACAAAGTGCCATA
Found at i:17025071 original size:40 final size:40
Alignment explanation
Indices: 17024997--17025072 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
17024987 AAGTGCCATA
* **
17024997 TATAGCCGAAGTTATTCCGATTTGCACACAAAGTGCTTTG
1 TATAGCCGAAGTTATCCCGATACGCACACAAAGTGCTTTG
* * *
17025037 TATAGCTGAAGTTATCCCGATACGCACGCTAAGTGC
1 TATAGCCGAAGTTATCCCGATACGCACACAAAGTGC
17025073 CAAGCATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
TATAGCCGAAGTTATCCCGATACGCACACAAAGTGCTTTG
Found at i:17028457 original size:18 final size:20
Alignment explanation
Indices: 17028436--17028484 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
17028426 AGTGAATCCT
17028436 AAATATTAAT-TTAAAAC-A
1 AAATATTAATATTAAAACAA
* *
17028454 AAATTTTAATATTAAATCTAA
1 AAATATTAATATTAAAAC-AA
17028475 AAATATTAAT
1 AAATATTAAT
17028485 GGGATAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.36
19 6 0.24
21 10 0.40
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATTAATATTAAAACAA
Found at i:17030846 original size:19 final size:19
Alignment explanation
Indices: 17030814--17030857 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
17030804 GGATTAATCT
17030814 GAAACAAATCAAAAAATTTG
1 GAAA-AAATCAAAAAATTTG
* *
17030834 GAAAAAATTAAAAAATTTT
1 GAAAAAATCAAAAAATTTG
17030853 GAAAA
1 GAAAA
17030858 CAGGGGTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.23
Consensus pattern (19 bp):
GAAAAAATCAAAAAATTTG
Found at i:17031468 original size:39 final size:38
Alignment explanation
Indices: 17031418--17031517 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 38
17031408 CGAATATAAT
* *
17031418 AATTATAATTACCATAATTATAATAATGTT-TGATCGAAA
1 AATTATAATTACAATAATTATAATAATATTCT-ATCG-AA
* *
17031457 AATTACAATTACAATAATTATAATAATATTCTATCGTA
1 AATTATAATTACAATAATTATAATAATATTCTATCGAA
17031495 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
17031518 CAAAGATTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 23 0.42
39 31 0.56
40 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCTATCGAA
Found at i:17036103 original size:20 final size:20
Alignment explanation
Indices: 17036065--17036104 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17036055 ATTTAGTAAA
**
17036065 TAAAAACAAAAATCTAAAAC
1 TAAAAACAAAAATAAAAAAC
*
17036085 TAAAAATAAAAATAAAAAAC
1 TAAAAACAAAAATAAAAAAC
17036105 ATATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (20 bp):
TAAAAACAAAAATAAAAAAC
Found at i:17036141 original size:9 final size:9
Alignment explanation
Indices: 17036122--17036198 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
17036112 TTTATACAAA
*
17036122 TAATTCAGT
1 TAATTCGGT
*
17036131 TAATTTGGT
1 TAATTCGGT
17036140 TAATTCGGT
1 TAATTCGGT
* *
17036149 TAATTTGGG
1 TAATTCGGT
*
17036158 TAATTCGGA
1 TAATTCGGT
17036167 TAATTCGGT
1 TAATTCGGT
*
17036176 TAATTCGAT
1 TAATTCGGT
17036185 TAATTCGGT
1 TAATTCGGT
17036194 TAATT
1 TAATT
17036199 TTATACTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17039765 original size:16 final size:16
Alignment explanation
Indices: 17039753--17039796 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
17039743 GTTATTATTT
*
17039753 TTATTTTTTATTATCA
1 TTATTATTTATTATCA
*
17039769 TTATTATTTATTTTTCA
1 TTATTATTTA-TTATCA
17039786 TTTATTATTTA
1 -TTATTATTTA
17039797 ATTAGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.38
17 5 0.21
18 10 0.42
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTTATTATCA
Found at i:17039800 original size:29 final size:29
Alignment explanation
Indices: 17039747--17039805 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
17039737 ATTATTGTTA
* * *
17039747 TTATTTTTATTTTTTATTATCATTATTAT
1 TTATTTTTATTTATTATTATAATTAGTAT
17039776 TTATTTTTCATTTATTATT-TAATTAGTAT
1 TTATTTTT-ATTTATTATTATAATTAGTAT
17039805 T
1 T
17039806 AAAATTGACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (29 bp):
TTATTTTTATTTATTATTATAATTAGTAT
Found at i:17046760 original size:139 final size:139
Alignment explanation
Indices: 17046507--17046762 Score: 352
Period size: 139 Copynumber: 1.8 Consensus size: 139
17046497 CAAACAAATC
** * *
17046507 ACAAATCTTATACCCCTGAAGTTGCAGTGGGATGGATTGAAATCATTATGGAAAACCTTATCTCC
1 ACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATTGAAATCATTATGGAAAACCTTATCTCC
*
17046572 CCAAAGTTGCAGTGGAGTAGGTTAAAAATAACAAATCTTATCTCCCTAAAGTAGAAATGGAATAG
66 CCAAAGCTGCAGTGGAGTAGGTTAAAAATAACAAATCTTATCTCCCTAAAGTAGAAATGGAATAG
17046637 ATTAAAGTT
131 ATTAAAGTT
* ** *
17046646 ACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATT-AAAGTTATTATGGCGAATCTTATCTC
1 ACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATTGAAA-TCATTATGGAAAACCTTATCTC
* * * * * * *
17046710 CCTAAAGCTGCAGTGGAGTAGGTTGAAGATATCGAATCTTATTTCTCTAAAGT
65 CCCAAAGCTGCAGTGGAGTAGGTTAAAAATAACAAATCTTATCTCCCTAAAGT
17046763 TGCAGTGGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
138 3 0.03
139 97 0.97
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (139 bp):
ACAAATCCCATACCCCTGAAGTTGCAGTGGGACGAATTGAAATCATTATGGAAAACCTTATCTCC
CCAAAGCTGCAGTGGAGTAGGTTAAAAATAACAAATCTTATCTCCCTAAAGTAGAAATGGAATAG
ATTAAAGTT
Found at i:17046966 original size:51 final size:50
Alignment explanation
Indices: 17046883--17047082 Score: 180
Period size: 51 Copynumber: 4.1 Consensus size: 50
17046873 CGAAGATAGT
* * * *
17046883 AAATCTTATTTCCCTGAAGTTGTAGTGAAATAGATTAGAGCTACAAATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAC-AATTAC
* * *
17046934 AAATCATATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGCTACAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA-TTAC
* * ** * * *
17046985 AAATCTTATCTCCCTGAAGCTGTAGTGGAGCAGATT-GAG-GAC----GC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAATTAC
* * *
17047029 GAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGT-C
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAATTAC
17047078 AAATC
1 AAATC
17047083 CTATACCTCA
Statistics
Matches: 116, Mismatches: 26, Indels: 16
0.73 0.16 0.10
Matches are distributed among these distances:
44 30 0.26
45 2 0.02
46 2 0.02
49 7 0.06
50 4 0.03
51 71 0.61
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (50 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAATTAC
Found at i:17047241 original size:45 final size:45
Alignment explanation
Indices: 17047174--17047317 Score: 132
Period size: 45 Copynumber: 3.2 Consensus size: 45
17047164 TGAAGCCTTT
* *
17047174 AATCTTATCTCCCT-AAAGTTGTAGTGGAGTAGATTAAAGATAGCG
1 AATCTTATCTCCTTGAAA-TTGTAGTGGAGTAGATTAAAGATAGCA
* * * * *
17047219 AATCTTATATCCTTGAAATTGTAGTGAAGCAGATTAAA-ACCA-CT
1 AATCTTATCTCCTTGAAATTGTAGTGGAGTAGATTAAAGA-TAGCA
* * * * *
17047263 AATTTTATCTCTTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCTTGAAATTGTAGTGGAGTAGATTAAAGATAGCA
*
17047308 AATCTCATCT
1 AATCTTATCT
17047318 TTCTAAAATT
Statistics
Matches: 77, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
44 33 0.43
45 41 0.53
46 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (45 bp):
AATCTTATCTCCTTGAAATTGTAGTGGAGTAGATTAAAGATAGCA
Found at i:17047282 original size:89 final size:89
Alignment explanation
Indices: 17047129--17047345 Score: 231
Period size: 89 Copynumber: 2.4 Consensus size: 89
17047119 CTATAATGGA
* * * **
17047129 AAATCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGAAGCCTTTAATCTTATCTCCCTAAAGTT
1 AAATCTTATATCCCTAAAGTTGCAGTGAAGCAGATTAAAACCACTAATCTTATCTCCCTAAAGTT
*
17047194 GTAGTGGAGTAGATTAAAGATAGC
66 GCAGTGGAGTAGATTAAAGATAGC
* * * * ** *
17047218 GAATCTTATATCCTTGAAA-TTGTAGTGAAGCAGATTAAAACCACTAATTTTATCTCTTTGAAGT
1 AAATCTTATATCCCT-AAAGTTGCAGTGAAGCAGATTAAAACCACTAATCTTATCTCCCTAAAGT
*
17047282 TGCAGTGGAGTAGATTGAAGATAGC
65 TGCAGTGGAGTAGATTAAAGATAGC
* * ** *
17047307 AAATCTCATCTTTCTAAAATTGCAGT-AGAGCAGATTAAA
1 AAATCTTATATCCCTAAAGTTGCAGTGA-AGCAGATTAAA
17047346 GTTATAAATC
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
88 4 0.04
89 97 0.93
90 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (89 bp):
AAATCTTATATCCCTAAAGTTGCAGTGAAGCAGATTAAAACCACTAATCTTATCTCCCTAAAGTT
GCAGTGGAGTAGATTAAAGATAGC
Found at i:17049097 original size:11 final size:11
Alignment explanation
Indices: 17049081--17049105 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17049071 ATTTTTGTTC
17049081 ATTTATTTATT
1 ATTTATTTATT
17049092 ATTTATTTATT
1 ATTTATTTATT
17049103 ATT
1 ATT
17049106 GTTATTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:17049265 original size:27 final size:27
Alignment explanation
Indices: 17049204--17049259 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
17049194 TGTATTATTG
* *
17049204 TTATTTTTA-TTATTTTTTCATTATCA
1 TTATTATTATTTATTTTTCCATTATCA
17049230 TTATTATTATTTATTTTTCCATT-T-A
1 TTATTATTATTTATTTTTCCATTATCA
17049255 TTATT
1 TTATT
17049260 TAATTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 6 0.22
26 9 0.33
27 12 0.44
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (27 bp):
TTATTATTATTTATTTTTCCATTATCA
Found at i:17049844 original size:7 final size:7
Alignment explanation
Indices: 17049832--17049861 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
17049822 AATCTCTTCA
17049832 AATTTTC
1 AATTTTC
17049839 AATTTTC
1 AATTTTC
17049846 AATTTTC
1 AATTTTC
17049853 AATTTTC
1 AATTTTC
17049860 AA
1 AA
17049862 CACTAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTTC
Found at i:17050221 original size:29 final size:28
Alignment explanation
Indices: 17050188--17050281 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 28
17050178 TCTTTAAGTG
*
17050188 TGTATGATTGAATCCAAATTAAAGTTTCA
1 TGTATAATTGAA-CCAAATTAAAGTTTCA
* *
17050217 TGTATATATTTACACCACAATAAAAGTTTCA
1 TGTATA-ATTGA-ACCA-AATTAAAGTTTCA
* *
17050248 TGTTTATAATTGCACTAAATTAAAG-TTCA
1 TG--TATAATTGAACCAAATTAAAGTTTCA
17050277 TGTAT
1 TGTAT
17050282 TAAATTACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
27 3 0.06
29 11 0.21
30 14 0.26
31 18 0.34
32 3 0.06
33 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (28 bp):
TGTATAATTGAACCAAATTAAAGTTTCA
Found at i:17050243 original size:31 final size:30
Alignment explanation
Indices: 17050201--17050291 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
17050191 ATGATTGAAT
* *
17050201 CCAAATTAAAGTTTCATGTATATATTTACA
1 CCAAATAAAAGTTTCATGTATATAATTACA
* *
17050231 CCACAATAAAAGTTTCATGTTTATAATTGCA
1 CCA-AATAAAAGTTTCATGTATATAATTACA
* *
17050262 CTAAATTAAAG-TTCATGTAT-TAAATTACA
1 CCAAATAAAAGTTTCATGTATAT-AATTACA
17050291 C
1 C
17050292 ATTGAATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.02
29 15 0.29
30 10 0.20
31 25 0.49
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (30 bp):
CCAAATAAAAGTTTCATGTATATAATTACA
Found at i:17055605 original size:19 final size:18
Alignment explanation
Indices: 17055581--17055618 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
17055571 GCAATAGCGG
*
17055581 TAACTATGTATAATTATTA
1 TAACTATGTACAATT-TTA
17055600 TAACTATGTACAATTTTA
1 TAACTATGTACAATTTTA
17055618 T
1 T
17055619 CAAATCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
TAACTATGTACAATTTTA
Found at i:17062517 original size:3 final size:3
Alignment explanation
Indices: 17062509--17062546 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17062499 ATTACATCCA
17062509 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17062547 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17066885 original size:3 final size:3
Alignment explanation
Indices: 17066877--17066911 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17066867 ATTACATCCA
17066877 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17066912 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17081633 original size:9 final size:9
Alignment explanation
Indices: 17081615--17081741 Score: 82
Period size: 9 Copynumber: 13.7 Consensus size: 9
17081605 ATTTTCTTTA
17081615 ATTTTT-TT
1 ATTTTTATT
17081623 ATTTTTATT
1 ATTTTTATT
17081632 A-TTTTATAT
1 ATTTTTAT-T
*
17081641 ATATTTATT
1 ATTTTTATT
*
17081650 ATTTTTATA
1 ATTTTTATT
* *
17081659 ATTCTATATA
1 ATT-TTTATT
17081669 ATTTTTATGT
1 ATTTTTAT-T
17081679 ATACAATTTTA-T
1 AT----TTTTATT
*
17081691 ATTTTTATA
1 ATTTTTATT
17081700 ATTTTTATT
1 ATTTTTATT
*
17081709 AGTTTTATT
1 ATTTTTATT
* *
17081718 ATTTTAAAAT
1 ATTTT-TATT
17081728 ATTTTTA-T
1 ATTTTTATT
17081736 ATTTTT
1 ATTTTT
17081742 TACAAATTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
8 24 0.25
9 41 0.43
10 22 0.23
12 3 0.03
14 5 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTTTATT
Found at i:17081714 original size:18 final size:18
Alignment explanation
Indices: 17081597--17081743 Score: 79
Period size: 18 Copynumber: 7.8 Consensus size: 18
17081587 ATTTTCTATC
*
17081597 TTTTTAGAATTTTCT-TTAA
1 TTTTTATAATTTT-TATT-A
*
17081616 TTTTT-TTATTTTTATTA
1 TTTTTATAATTTTTATTA
*
17081633 -TTTTATATATATTTATTA
1 TTTTTATA-ATTTTTATTA
17081651 TTTTTATAATTCTATATAATT-
1 TTTTTATAATT-T-T-T-ATTA
*
17081672 TTTATGTATACAATTTTA-TA
1 TTT-T-TATA-ATTTTTATTA
17081692 TTTTTATAATTTTTATTA
1 TTTTTATAATTTTTATTA
* * * *
17081710 GTTTTATTATTTTAAAATA
1 TTTTTATAATTTT-TATTA
*
17081729 TTTTTATATTTTTTA
1 TTTTTATAATTTTTA
17081744 CAAATTTATA
Statistics
Matches: 99, Mismatches: 15, Indels: 29
0.69 0.10 0.20
Matches are distributed among these distances:
16 4 0.04
17 9 0.09
18 36 0.36
19 28 0.28
20 5 0.05
21 5 0.05
22 5 0.05
23 5 0.05
24 2 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATAATTTTTATTA
Found at i:17086607 original size:5 final size:5
Alignment explanation
Indices: 17086588--17086670 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
17086578 GGCATATCTT
* * * *
17086588 ATATC ATAT- ATTATC ATATC ATATTCC ATATC ATGTC GTAGCAC ATTTC
1 ATATC ATATC A-TATC ATATC ATA-T-C ATATC ATATC ATA--TC ATATC
* * *
17086637 ATATT TTATC ATATC ATATC ATAAC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
17086671 TCTACCCCAT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
4 1 0.02
5 48 0.83
6 3 0.05
7 6 0.10
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (5 bp):
ATATC
Found at i:17086617 original size:22 final size:22
Alignment explanation
Indices: 17086592--17086655 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
17086582 TATCTTATAT
17086592 CATATATTATCATATCATATTC
1 CATATATTATCATATCATATTC
* * * * *
17086614 CATATCA-TGTCGTAGCACATTT
1 CATAT-ATTATCATATCATATTC
*
17086636 CATATTTTATCATATCATAT
1 CATATATTATCATATCATAT
17086656 CATAACATAT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (22 bp):
CATATATTATCATATCATATTC
Found at i:17090256 original size:10 final size:11
Alignment explanation
Indices: 17090224--17090271 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
17090214 AATTTTTTTA
*
17090224 TTTACAATATT
1 TTTATAATATT
17090235 TTTATAATATT
1 TTTATAATATT
*
17090246 TTTATAAATTTT
1 TTTAT-AATATT
*
17090258 TTTTTAATATT
1 TTTATAATATT
17090269 TTT
1 TTT
17090272 TCAACTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTATAATATT
Found at i:17092252 original size:20 final size:20
Alignment explanation
Indices: 17092224--17092291 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
17092214 TACCTTTATA
*
17092224 AAGTTTCAATCTTTGGGATT
1 AAGTATCAATCTTTGGGATT
* *
17092244 AAGTATCAATACATT---ATA
1 AAGTATCAAT-CTTTGGGATT
*
17092262 AAGTCTCAATCTTTGGGATT
1 AAGTATCAATCTTTGGGATT
17092282 AAGTATCAAT
1 AAGTATCAAT
17092292 ACATTATCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 3 0.08
18 11 0.30
20 20 0.54
21 3 0.08
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
AAGTATCAATCTTTGGGATT
Found at i:17092261 original size:38 final size:38
Alignment explanation
Indices: 17092219--17092298 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
17092209 ATCGATACCT
*
17092219 TTATAAAGTTTCAATCTTTGGGATTAAGTATCAATACA
1 TTATAAAGTCTCAATCTTTGGGATTAAGTATCAATACA
17092257 TTATAAAGTCTCAATCTTTGGGATTAAGTATCAATACA
1 TTATAAAGTCTCAATCTTTGGGATTAAGTATCAATACA
17092295 TTAT
1 TTAT
17092299 CTAGCCTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (38 bp):
TTATAAAGTCTCAATCTTTGGGATTAAGTATCAATACA
Found at i:17095118 original size:18 final size:17
Alignment explanation
Indices: 17095097--17095138 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
17095087 AATAAAGTTT
17095097 AAATAAAAAGAAAAGTAA
1 AAATAAAAAGAAAAGT-A
* *
17095115 AAATAAAAATAATAGTA
1 AAATAAAAAGAAAAGTA
17095132 AAATAAA
1 AAATAAA
17095139 CGGACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATAAAAAGAAAAGTA
Found at i:17106299 original size:17 final size:17
Alignment explanation
Indices: 17106262--17106299 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17106252 CTTTTCATGG
17106262 CGTG-GTTTTGGTTTAT
1 CGTGTGTTTTGGTTTAT
17106278 CGTGTGTTTTCGGTTTAT
1 CGTGTGTTTT-GGTTTAT
17106296 -GTGT
1 CGTGT
17106300 CCGTCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 9 0.45
18 7 0.35
ACGTcount: A:0.05, C:0.08, G:0.32, T:0.55
Consensus pattern (17 bp):
CGTGTGTTTTGGTTTAT
Found at i:17111606 original size:25 final size:26
Alignment explanation
Indices: 17111561--17111609 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
17111551 ATTGTTTTGG
*
17111561 ATTCATATGCCCATCATGTACCTAGA
1 ATTCATATACCCATCATGTACCTAGA
17111587 ATTCATATACCC-TCATGTACCTA
1 ATTCATATACCCATCATGTACCTA
17111610 ATCCTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (26 bp):
ATTCATATACCCATCATGTACCTAGA
Found at i:17112454 original size:11 final size:11
Alignment explanation
Indices: 17112421--17112456 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
17112411 ACTGGAAAGC
*
17112421 AACAAAAACAC
1 AACAAAAACAA
17112432 AACAAAAAACAA
1 AAC-AAAAACAA
17112444 AACAAAAACAA
1 AACAAAAACAA
17112455 AA
1 AA
17112457 AGTTATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:17114859 original size:6 final size:6
Alignment explanation
Indices: 17114848--17114912 Score: 60
Period size: 6 Copynumber: 10.2 Consensus size: 6
17114838 AGGCAACCCA
* *
17114848 ATTTTT ATTTTT ACTTTT ACTTTT ATTTTT A-TTTT ATCTTATT ATTTTATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT-TT-TT A-TTT-TT
17114899 ATTTATT ATTTTT A
1 ATTT-TT ATTTTT A
17114913 GATATTAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
5 5 0.09
6 26 0.49
7 12 0.23
8 9 0.17
9 1 0.02
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:17114873 original size:18 final size:18
Alignment explanation
Indices: 17114850--17114895 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
17114840 GCAACCCAAT
17114850 TTTTATTTTTACTTTTA-C
1 TTTTATTTTTA-TTTTATC
17114868 TTTTATTTTTATTTTATC
1 TTTTATTTTTATTTTATC
17114886 TTATTATTTT
1 TT-TTATTTT
17114896 ATTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.19
18 14 0.54
19 7 0.27
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTATTTTATC
Found at i:17114876 original size:24 final size:25
Alignment explanation
Indices: 17114848--17114905 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
17114838 AGGCAACCCA
17114848 ATTTTTATTTTTA-CTT-TTACTTTT
1 ATTTTTATTTTTATCTTATTA-TTTT
17114872 ATTTTTA-TTTTATCTTATTATTTT
1 ATTTTTATTTTTATCTTATTATTTT
17114896 ATTATTTATT
1 ATT-TTTATT
17114906 ATTTTTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.17
24 17 0.57
25 7 0.23
26 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (25 bp):
ATTTTTATTTTTATCTTATTATTTT
Found at i:17115879 original size:14 final size:14
Alignment explanation
Indices: 17115868--17115897 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17115858 AAATAGAATT
17115868 AAAAAAAGAGAAAA
1 AAAAAAAGAGAAAA
17115882 AAAAAAAGA-AAAA
1 AAAAAAAGAGAAAA
17115895 AAA
1 AAA
17115898 GAATGAGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAGAAAA
Found at i:17115885 original size:12 final size:12
Alignment explanation
Indices: 17115868--17115897 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17115858 AAATAGAATT
*
17115868 AAAAAAAGAGAA
1 AAAAAAAAAGAA
17115880 AAAAAAAAAGAA
1 AAAAAAAAAGAA
17115892 AAAAAA
1 AAAAAA
17115898 GAATGAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:17116535 original size:10 final size:10
Alignment explanation
Indices: 17116520--17116569 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
17116510 TAATTCTAGG
17116520 ATTTAT-TTT
1 ATTTATCTTT
17116529 CATTTATCTTT
1 -ATTTATCTTT
17116540 ATTTATCTTT
1 ATTTATCTTT
17116550 ATTTAT-TTGT
1 ATTTATCTT-T
17116560 ATTTATCTTT
1 ATTTATCTTT
17116570 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:17141477 original size:42 final size:43
Alignment explanation
Indices: 17141359--17141533 Score: 146
Period size: 43 Copynumber: 4.1 Consensus size: 43
17141349 GGAACGTTGT
* *
17141359 CATCGAT-CTGAGA-TATCATGTAAGACCGTGTCTGGGACACAGG
1 CATCGATACTGA-ATTA-CATGTAAGACCCTGTCTGGGACATAGG
* * * * *
17141402 CCTCAAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATTGG
1 CATCGATACTGA-A-TTACATGTAAGACCCTGTCTGGGACATAGG
* * *
17141446 CATCG-TATCTGAATT-CGTGTAAGACCCTGTCTGGGATAGAGG
1 CATCGATA-CTGAATTACATGTAAGACCCTGTCTGGGACATAGG
* *
17141488 CATCGATACTGAATTACATGTAAGATCAC-GTCTGGGACATCGG
1 CATCGATACTGAATTACATGTAAGA-CCCTGTCTGGGACATAGG
17141531 CAT
1 CAT
17141534 TGTACCCGTT
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
42 34 0.32
43 37 0.35
44 30 0.28
45 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
CATCGATACTGAATTACATGTAAGACCCTGTCTGGGACATAGG
Found at i:17141522 original size:85 final size:87
Alignment explanation
Indices: 17141359--17141533 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 87
17141349 GGAACGTTGT
* * *
17141359 CATCGATCTGAGATATCATGTAAGACCGTGTCTGGGACACAGGCCTCAATTTGAGATTTACATGT
1 CATCGATCTGAGATATCATGTAAGACCCTGTCTGGGACACAGGCATCAATCTGAGATTTACATGT
* *
17141424 AAGACCATGTCTGGGACATTGG
66 AAGACCACGTCTGGGACATCGG
* * * *
17141446 CATCGTATCTGA-AT-TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATACTGA-A-TTACAT
1 CATCG-ATCTGAGATATCATGTAAGACCCTGTCTGGGACACAGGCATCAAT-CTGAGATTTACAT
*
17141507 GTAAGATCACGTCTGGGACATCGG
64 GTAAGACCACGTCTGGGACATCGG
17141531 CAT
1 CAT
17141534 TGTACCCGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
85 30 0.39
86 30 0.39
87 10 0.13
88 6 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (87 bp):
CATCGATCTGAGATATCATGTAAGACCCTGTCTGGGACACAGGCATCAATCTGAGATTTACATGT
AAGACCACGTCTGGGACATCGG
Found at i:17141533 original size:43 final size:42
Alignment explanation
Indices: 17141416--17141533 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
17141406 AATTTGAGAT
* *
17141416 TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATCTGAA
1 TTACATGTAAGA-CACGTCTGGGACATAGGCATCGTATCTGAA
* * * *
17141459 TT-CGTGTAAGACCCTGTCTGGGATAGAGGCATCG-ATACTGAA
1 TTACATGTAAGACAC-GTCTGGGACATAGGCATCGTAT-CTGAA
*
17141501 TTACATGTAAGATCACGTCTGGGACATCGGCAT
1 TTACATGTAAGA-CACGTCTGGGACATAGGCAT
17141534 TGTACCCGTT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.05
42 31 0.52
43 24 0.40
44 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (42 bp):
TTACATGTAAGACACGTCTGGGACATAGGCATCGTATCTGAA
Found at i:17145037 original size:56 final size:56
Alignment explanation
Indices: 17144943--17145150 Score: 326
Period size: 56 Copynumber: 3.7 Consensus size: 56
17144933 GAAGTATATG
* * * *
17144943 TGGCATCAATATGTGACTCCGATATTTATGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
* * *
17144999 TGTCATCGATATGTGACTCTGATATATGTGTACGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
* *
17145055 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
*
17145111 TGGCATTGATATGTGACTCCGATATATGTGTACGAGTAAG
1 TGGCATCGATATGTGACTCCGATATATGTGTACGAGTAAG
17145151 ACCCTATCTG
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 138 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
Found at i:17151364 original size:152 final size:150
Alignment explanation
Indices: 17151208--17151804 Score: 735
Period size: 152 Copynumber: 4.0 Consensus size: 150
17151198 AATGTTTTAG
* * * *
17151208 TTTTTTTTTAAAAAATGAGAAAGTTTATATGTTTAAAATTAAAAAT-TTGGTTTTAGTCATTTTA
1 TTTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTT-GTTTTAGTCATTTTA
* * *
17151272 AAGGAAAGCTTAAATTTTTAAAACAATGTTTTGATTTTTTT-AACTATTTTGAAATAAAAGCTTT
65 AAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTT
* *
17151336 GATTTTTAAGAAAAGTAGTTT
130 AATCTTTAAGAAAAGTAGTTT
* * * *
17151357 TTTTTTTTT-TAAAAA-AGAAACTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTT
1 TTTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAAT-AAAA-ATCTTGTTTTAGTCATTTT
17151420 AAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTCAACTATTTCGAAATAAAAGC
64 AAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGA--TTTTTTTCAACTATTTCGAAATAAAAGC
*
17151485 TTTAATCTTTAAGAAAAATAGTAATT
127 TTTAATCTTTAAGAAAAGTAGT--TT
* * *
17151511 TTTTTCTTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAA-CATTTTTTTAGTCATTTA
1 TTTTT-TTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATC-TTGTTTTAGTCATTTT
* * * * *
17151575 AAAGAAAATTTTAACTTTTTAAAATAAAGTTTT-ATTTTTTTCAACTATTTCGGAATAAAAGCTT
64 AAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTT
*
17151639 TAATCTTTAAGAAAAGTAG-TG
129 TAATCTTTAAGAAAAGTAGTTT
* *
17151660 ATTTTTTTTAAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCCGTTGTTTTAGTCATTTT
1 TTTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAAT-C-TTGTTTTAGTCATTTT
* * * * * *
17151725 AAAGGAAAATTTTAAAATTTTAAAATAAGGTTTTGATCTTTTTCAACTATTTCGAAAT-AAAGTT
64 AAAGG-AAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCT
17151789 TTGAAT-TTTAAGAAAA
128 TT-AATCTTTAAGAAAA
17151805 ATTGTGCATT
Statistics
Matches: 393, Mismatches: 38, Indels: 32
0.85 0.08 0.07
Matches are distributed among these distances:
147 19 0.05
148 46 0.12
149 62 0.16
150 21 0.05
151 49 0.12
152 109 0.28
154 8 0.02
155 48 0.12
156 9 0.02
157 22 0.06
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (150 bp):
TTTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTTGTTTTAGTCATTTTAA
AGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTTA
ATCTTTAAGAAAAGTAGTTT
Found at i:17151459 original size:51 final size:49
Alignment explanation
Indices: 17151258--17151461 Score: 132
Period size: 51 Copynumber: 4.1 Consensus size: 49
17151248 AAAAATTTGG
* *
17151258 TTTTAGTCATTTTAAAGGAAAGCTTAAATTTTTAAAACAATGTTTTGATTT
1 TTTTA-TCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTG-TTT
* ** * *
17151309 TTTTAACTATTTTGAAATAAAAGCTTT-GATTTTTAAGA-AAAGTAGTTT-TTT
1 TTTTATC-ATTTT-AAAGGAAAG-TTTAAATTTTTAAAACAAAGT--TTTGTTT
** * * * * ** *
17151360 TTTT-T--TTAAAAAAGAAACTTTAGATTTTTAAAAATAAAAATATGTTT
1 TTTTATCATTTTAAAGGAAAGTTTAAATTTTT-AAAACAAAGTTTTGTTT
17151407 TTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTT
1 TTTTA-TCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTG-TTT
17151458 TTTT
1 TTTT
17151462 TTCAACTATT
Statistics
Matches: 113, Mismatches: 26, Indels: 28
0.68 0.16 0.17
Matches are distributed among these distances:
45 3 0.03
46 15 0.13
47 12 0.11
48 3 0.03
49 1 0.01
50 11 0.10
51 47 0.42
52 16 0.14
53 5 0.04
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (49 bp):
TTTTATCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAGTTTTGTTT
Found at i:17151842 original size:21 final size:23
Alignment explanation
Indices: 17151798--17151843 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
17151788 TTTGAATTTT
*
17151798 AAGAAAAATTGTGCATTTTTCAA
1 AAGAAAAATTGTGCATTTTGCAA
*
17151821 AAGAAAACTT-TG-ATTTTGCAA
1 AAGAAAAATTGTGCATTTTGCAA
17151842 AA
1 AA
17151844 AATAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (23 bp):
AAGAAAAATTGTGCATTTTGCAA
Found at i:17153634 original size:13 final size:13
Alignment explanation
Indices: 17153616--17153680 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
17153606 TAGATTTTTC
*
17153616 CTAAATATTATTA
1 CTAAATATTATCA
17153629 CTAAATA--ATCA
1 CTAAATATTATCA
17153640 -TAAATATTATCA
1 CTAAATATTATCA
*
17153652 CTAAATA--ATTA
1 CTAAATATTATCA
17153663 -TAAATATTATCA
1 CTAAATATTATCA
17153675 CTAAAT
1 CTAAAT
17153681 TTTAAAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 12 0.28
11 6 0.14
12 7 0.16
13 18 0.42
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:17153647 original size:23 final size:23
Alignment explanation
Indices: 17153617--17153680 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
17153607 AGATTTTTCC
*
17153617 TAAATATTATTACTAAATAATCA
1 TAAATATTATCACTAAATAATCA
*
17153640 TAAATATTATCACTAAATAATTA
1 TAAATATTATCACTAAATAATCA
17153663 TAAATATTATCACTAAAT
1 TAAATATTATCACTAAAT
17153681 TTTAAAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCA
Found at i:17164729 original size:17 final size:17
Alignment explanation
Indices: 17164703--17164737 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17164693 AATATATATA
*
17164703 TATATATATACTGTTAG
1 TATATATATACTATTAG
*
17164720 TATATTTATACTATTAG
1 TATATATATACTATTAG
17164737 T
1 T
17164738 GAGTAGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (17 bp):
TATATATATACTATTAG
Found at i:17165512 original size:20 final size:21
Alignment explanation
Indices: 17165470--17165514 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
17165460 CTTATCTAAG
* *
17165470 TAAAAAATTCAAAATTAATAT
1 TAAAAAATTAAAAATCAATAT
*
17165491 TAAAAACTTAAAAATCAA-AT
1 TAAAAAATTAAAAATCAATAT
17165511 TAAA
1 TAAA
17165515 GGGAATTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAATTAAAAATCAATAT
Found at i:17166259 original size:21 final size:20
Alignment explanation
Indices: 17166219--17166265 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
17166209 TTAGTGTGCA
17166219 AGGGTTCAAGATTATGGTTT
1 AGGGTTCAAGATTATGGTTT
* * *
17166239 CGGGTTCTAAGTTTTTGGTTT
1 AGGGTTC-AAGATTATGGTTT
17166260 AGGGTT
1 AGGGTT
17166266 TGGGATTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.17, C:0.06, G:0.32, T:0.45
Consensus pattern (20 bp):
AGGGTTCAAGATTATGGTTT
Found at i:17167348 original size:3 final size:3
Alignment explanation
Indices: 17167342--17167412 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
17167332 TGGGTGGTCT
17167342 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
17167390 GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
17167413 GGGGCGGACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17170765 original size:3 final size:3
Alignment explanation
Indices: 17170757--17170806 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
17170747 TTAATAGTAA
* * * * *
17170757 AAG AAG AAG AAG AAG AAG AAT AAG AAG GAG AAG GAG AAG GAG AAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17170805 AA
1 AA
17170807 TGAAAGGAGG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:17171196 original size:17 final size:18
Alignment explanation
Indices: 17171174--17171217 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
17171164 CAGTCTAGAA
17171174 TTTTTCTC-TTCATCTTC
1 TTTTTCTCTTTCATCTTC
*
17171191 TTTTTCTTCTTTTCGTCTTC
1 TTTTTC-TC-TTTCATCTTC
17171211 TTTTTCT
1 TTTTTCT
17171218 TTTATTGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 1 0.04
20 14 0.61
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTCTCTTTCATCTTC
Found at i:17178103 original size:30 final size:30
Alignment explanation
Indices: 17178011--17178103 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
17178001 GTTATTTTAT
* * *
17178011 TGTCAGCTTGTGTGAGCAGT-CTTATTATAA
1 TGTCAACTTGTGTGAACAATAC-TATTATAA
*
17178041 TGCCAACTTGTGTGAACAATACTATTATAA
1 TGTCAACTTGTGTGAACAATACTATTATAA
17178071 TGTCAACTTGTGTGAACAA-AGCTATTATAA
1 TGTCAACTTGTGTGAACAATA-CTATTATAA
17178101 TGT
1 TGT
17178104 TTCTATCATA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 54 0.96
31 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (30 bp):
TGTCAACTTGTGTGAACAATACTATTATAA
Found at i:17178142 original size:30 final size:31
Alignment explanation
Indices: 17178106--17178195 Score: 105
Period size: 30 Copynumber: 3.0 Consensus size: 31
17178096 TATAATGTTT
*
17178106 CTATCATAATGTCAGCTTGTGTGAGCAATTC
1 CTATCATAATGTCAGCTTGTGTGAGCAATAC
*
17178137 C-ATCATAACGTCAGCTTGTGTGAG-AA-AC
1 CTATCATAATGTCAGCTTGTGTGAGCAATAC
* * *
17178165 CTTATTATAATGTCAACTTGTTTGAGCAATA
1 C-TATCATAATGTCAGCTTGTGTGAGCAATA
17178196 TATTCACTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 41 0.84
31 3 0.06
32 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
CTATCATAATGTCAGCTTGTGTGAGCAATAC
Found at i:17178171 original size:74 final size:74
Alignment explanation
Indices: 17178037--17178177 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
17178027 CAGTCTTATT
* * * *
17178037 ATAATGCCAACTTGTGTGAACAATACTATTATAATGTCAACTTGTGTGAACAAAGCTATTATAAT
1 ATAATGCCAACTTGTGTGAACAATACCATCATAACGTCAACTTGTGTGAACAAACCTATTATAAT
17178102 GTTTCTATC
66 GTTTCTATC
* * * * * *
17178111 ATAATGTCAGCTTGTGTGAGCAATTCCATCATAACGTCAGCTTGTGTG-AGAAACCTTATTATAA
1 ATAATGCCAACTTGTGTGAACAATACCATCATAACGTCAACTTGTGTGAACAAACC-TATTATAA
17178175 TGT
65 TGT
17178178 CAACTTGTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 5 0.09
74 51 0.91
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (74 bp):
ATAATGCCAACTTGTGTGAACAATACCATCATAACGTCAACTTGTGTGAACAAACCTATTATAAT
GTTTCTATC
Found at i:17178613 original size:18 final size:18
Alignment explanation
Indices: 17178587--17178627 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
17178577 GGATCGTTCA
* *
17178587 AAGTTGAATTACATTTTT
1 AAGTCGAATTACATTTCT
17178605 AAGTCGAATTACATTTCT
1 AAGTCGAATTACATTTCT
17178623 AAGTC
1 AAGTC
17178628 TTAAAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
AAGTCGAATTACATTTCT
Found at i:17179035 original size:19 final size:20
Alignment explanation
Indices: 17179001--17179041 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
17178991 TTTAAAGCTT
17179001 AATTAACTAATGTTTAATTA
1 AATTAACTAATGTTTAATTA
*
17179021 AATTAATTAAT-TTTAATTA
1 AATTAACTAATGTTTAATTA
17179040 AA
1 AA
17179042 GTGAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTAACTAATGTTTAATTA
Found at i:17179647 original size:71 final size:70
Alignment explanation
Indices: 17179557--17179704 Score: 235
Period size: 71 Copynumber: 2.1 Consensus size: 70
17179547 GGAAGTGATA
*
17179557 AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATTGAGGAAAATAAA
1 AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATCGAGGAAAATAAA
17179622 AAATT
66 AAATT
* * * *
17179627 GAATTGAATTGAATTATTATATAGATCATAAATTGGACCAAATTAGAAATAATCGGGGAAAATAA
1 -AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATCGAGGAAAATAA
17179692 AAAATT
65 AAAATT
17179698 -ATTGAAT
1 AATTGAAT
17179705 AGCCCTTGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 7 0.10
71 65 0.90
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (70 bp):
AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATCGAGGAAAATAAA
AAATT
Found at i:17182021 original size:22 final size:21
Alignment explanation
Indices: 17181993--17182066 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
17181983 ATGGGAGCCA
17181993 TGTCTCGAGATAATTATGTATT
1 TGTCTCGAGA-AATTATGTATT
* *
17182015 TGTCTCGAGAAAATAGTGCA--
1 TGTCTCGAGAAATTA-TGTATT
* *
17182035 TGTCTCAAGAAAATTGTGTATT
1 TGTCTCGAG-AAATTATGTATT
*
17182057 TGTCTTGAGA
1 TGTCTCGAGA
17182067 CATATCTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
20 11 0.28
21 9 0.22
22 20 0.50
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (21 bp):
TGTCTCGAGAAATTATGTATT
Found at i:17188076 original size:16 final size:17
Alignment explanation
Indices: 17188050--17188086 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
17188040 TTATTTCCCA
*
17188050 ATTTAATTTAATTTTTT
1 ATTTAATTTAATTGTTT
17188067 ATTT-ATTTAATTGTTT
1 ATTTAATTTAATTGTTT
17188083 ATTT
1 ATTT
17188087 GTGCTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTTAATTTAATTGTTT
Found at i:17191316 original size:24 final size:24
Alignment explanation
Indices: 17191289--17191360 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
17191279 ACATTTTTAA
17191289 GCCTTGATTGTAAGTGATTTTCAT
1 GCCTTGATTGTAAGTGATTTTCAT
* * * *
17191313 GCC-TG-TTTTCAA--CATTTTTAA
1 GCCTTGATTGT-AAGTGATTTTCAT
17191334 GCCTTGATTGTAAGTGATTTTCAT
1 GCCTTGATTGTAAGTGATTTTCAT
17191358 GCC
1 GCC
17191361 CGTTTTTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
21 9 0.26
22 7 0.20
23 7 0.20
24 12 0.34
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (24 bp):
GCCTTGATTGTAAGTGATTTTCAT
Found at i:17191336 original size:45 final size:45
Alignment explanation
Indices: 17191272--17191366 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
17191262 CATAGCTAGG
*
17191272 GTTTTCAACATTTTTAAGCCTTGATTGTAAGTGATTTTCATGCCT
1 GTTTTCAACATTTTTAAGCCTTGATTGTAAGTGATTTTCATGCCC
17191317 GTTTTCAACATTTTTAAGCCTTGATTGTAAGTGATTTTCATGCCC
1 GTTTTCAACATTTTTAAGCCTTGATTGTAAGTGATTTTCATGCCC
17191362 GTTTT
1 GTTTT
17191367 TAATGCTCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (45 bp):
GTTTTCAACATTTTTAAGCCTTGATTGTAAGTGATTTTCATGCCC
Found at i:17191354 original size:23 final size:23
Alignment explanation
Indices: 17191283--17191354 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
17191273 TTTTCAACAT
17191283 TTTTAAGCCTTGATTGTAAGTGA
1 TTTTAAGCCTTGATTGTAAGTGA
* * *
17191306 TTTTCATGCC-TG-TTTTCAA--CA
1 TTTT-AAGCCTTGATTGT-AAGTGA
17191327 TTTTTAAGCCTTGATTGTAAGTGA
1 -TTTTAAGCCTTGATTGTAAGTGA
17191351 TTTT
1 TTTT
17191355 CATGCCCGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
23 15 0.42
24 5 0.14
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (23 bp):
TTTTAAGCCTTGATTGTAAGTGA
Found at i:17196810 original size:24 final size:24
Alignment explanation
Indices: 17196783--17196839 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
17196773 GAAAGAGCGC
*
17196783 CCCGTTATTAGCTCTCATGAGCAT
1 CCCGTTATTAGCTCTCACGAGCAT
* * *
17196807 CCCGATATTTGGCTCTCACGAGCTT
1 CCCGTTA-TTAGCTCTCACGAGCAT
*
17196832 CCTGTTAT
1 CCCGTTAT
17196840 ATGGTTCTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.35
Consensus pattern (24 bp):
CCCGTTATTAGCTCTCACGAGCAT
Found at i:17200498 original size:8 final size:9
Alignment explanation
Indices: 17200482--17200507 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17200472 GGCTCGAAAG
17200482 AGAAAAAAA
1 AGAAAAAAA
17200491 AGAAAAAAA
1 AGAAAAAAA
17200500 AGAAAAAA
1 AGAAAAAA
17200508 GGGTGGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:17207528 original size:14 final size:14
Alignment explanation
Indices: 17207511--17207537 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17207501 TTAGTGCTTA
17207511 GGGTTTTAGGGTTT
1 GGGTTTTAGGGTTT
17207525 GGGTTTTAGGGTT
1 GGGTTTTAGGGTT
17207538 GTAATGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.44, T:0.48
Consensus pattern (14 bp):
GGGTTTTAGGGTTT
Found at i:17207732 original size:34 final size:33
Alignment explanation
Indices: 17207595--17207739 Score: 123
Period size: 34 Copynumber: 4.3 Consensus size: 33
17207585 GGTTTAAGAA
*
17207595 TTTAAAAAA-TAAATAAATTAGGGTTTAGAGTTT
1 TTTAAAAAATTAATTAAATTAGGGTTTAGA-TTT
** * ***
17207628 TTT-AAAAATTAATTAAATTAGTTTTTTGGGGT
1 TTTAAAAAATTAATTAAATTAGGGTTTAGATTT
* ***
17207660 TTTAAATAAATTAATTAAATTTGGGTTTAGAAAA
1 TTTAAA-AAATTAATTAAATTAGGGTTTAGATTT
* *
17207694 TTTAAGAAAATTACTAAAATTAGGGTTTAGATTT
1 TTTAA-AAAATTAATTAAATTAGGGTTTAGATTT
17207728 TTTAAAATAATT
1 TTTAAAA-AATT
17207740 TTTGTGTTTA
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
32 9 0.10
33 22 0.26
34 54 0.63
35 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (33 bp):
TTTAAAAAATTAATTAAATTAGGGTTTAGATTT
Found at i:17215241 original size:21 final size:21
Alignment explanation
Indices: 17215211--17215251 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17215201 TAACAGAACC
*
17215211 GCTGATGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
17215232 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
17215252 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:17216054 original size:3 final size:3
Alignment explanation
Indices: 17216048--17216082 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
17216038 GCTACTACTG
*
17216048 CTT CTT CTT CTT CTT CTT CTT ATT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
17216083 CTGTTAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Done.