Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 314 of 344
Found at i:103274247 original size:68 final size:68
Alignment explanation
Indices: 103274129--103274261 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
103274119 AAGCCTACAG
* * *
103274129 ATCTCTTCTCCCTAAAATGGGGATGGAGCGGTTCGAAGCTACAGCGGATCTCCTTGAAGTTTCAG
1 ATCTCTTCTCCCTAAAATAGGGATGGAGCGGTTCGAAGCCACAGCAGATCTCCTTGAAGTTTCAG
103274194 CGA
66 CGA
* * * * *
103274197 ATCTCTTCTTCCTGAAATAGTGTTGGAGCGGCTT-GAAGCCACATCAGATCTCCTTGAAGTTTCA
1 ATCTCTTCTCCCTAAAATAGGGATGGAGCGG-TTCGAAGCCACAGCAGATCTCCTTGAAGTTTCA
103274261 G
65 G
103274262 TAGAGTAGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 54 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (68 bp):
ATCTCTTCTCCCTAAAATAGGGATGGAGCGGTTCGAAGCCACAGCAGATCTCCTTGAAGTTTCAG
CGA
Found at i:103274753 original size:25 final size:24
Alignment explanation
Indices: 103274725--103274881 Score: 72
Period size: 24 Copynumber: 6.5 Consensus size: 24
103274715 CGAGCTAAAA
*
103274725 AACGGGAAGCT-TATGTGAGCCATGT
1 AACGGGAAGCTCTA-GAGAGCCAT-T
*
103274750 AACGGAAAGCTCTAGAGAGCCATT
1 AACGGGAAGCTCTAGAGAGCCATT
* * *
103274774 AACCGGAAGCTCATA-CGAGCCAAT
1 AACGGGAAGCTC-TAGAGAGCCATT
* * * * * *
103274798 ATCGAGAAGTTCAAGCGAG-CAAT
1 AACGGGAAGCTCTAGAGAGCCATT
* * *
103274821 ATCGAGAAGCTCTGGAGAG-CATT
1 AACGGGAAGCTCTAGAGAGCCATT
* *
103274844 AATTGGGAAGCTCATA-AGAGCCTTT
1 AA-CGGGAAGCTC-TAGAGAGCCATT
*
103274869 AAACAGGAAGCTC
1 -AACGGGAAGCTC
103274882 CGAGGAGCCA
Statistics
Matches: 102, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
23 24 0.24
24 42 0.41
25 32 0.31
26 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
AACGGGAAGCTCTAGAGAGCCATT
Found at i:103274806 original size:24 final size:23
Alignment explanation
Indices: 103274779--103274832 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
103274769 CCATTAACCG
103274779 GAAGCTCATA-CGAGCCAATATCGA
1 GAAGCTCA-AGCGAG-CAATATCGA
*
103274803 GAAGTTCAAGCGAGCAATATCGA
1 GAAGCTCAAGCGAGCAATATCGA
103274826 GAAGCTC
1 GAAGCTC
103274833 TGGAGAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
GAAGCTCAAGCGAGCAATATCGA
Found at i:103274840 original size:23 final size:23
Alignment explanation
Indices: 103274794--103274841 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
103274784 TCATACGAGC
* *
103274794 CAATATCGAGAAGTTCAAGCGAG
1 CAATATCGAGAAGCTCAAGAGAG
**
103274817 CAATATCGAGAAGCTCTGGAGAG
1 CAATATCGAGAAGCTCAAGAGAG
103274840 CA
1 CA
103274842 TTAATTGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.17
Consensus pattern (23 bp):
CAATATCGAGAAGCTCAAGAGAG
Found at i:103274985 original size:24 final size:24
Alignment explanation
Indices: 103274958--103275024 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
103274948 CTATCGGGAT
103274958 GCTCCGAAGAGCTAATAACAGGAA
1 GCTCCGAAGAGCTAATAACAGGAA
* *
103274982 GCT-CGCAAGAACCATATAACAGGAA
1 GCTCCG-AAGAGCTA-ATAACAGGAA
*
103275007 GCTCATG-AGAGCTAATAA
1 GCTC-CGAAGAGCTAATAA
103275025 TGGGACGCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
23 2 0.06
24 13 0.38
25 18 0.53
27 1 0.03
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (24 bp):
GCTCCGAAGAGCTAATAACAGGAA
Found at i:103278021 original size:14 final size:14
Alignment explanation
Indices: 103278002--103278029 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103277992 TCATGATGAA
103278002 ATAAAATACAAGTG
1 ATAAAATACAAGTG
103278016 ATAAAATACAAGTG
1 ATAAAATACAAGTG
103278030 TGCAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
ATAAAATACAAGTG
Found at i:103286007 original size:18 final size:17
Alignment explanation
Indices: 103285974--103286024 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
103285964 AAGAAGTCTA
103285974 AAAACATAATAAT-AAACAT
1 AAAA-ATAA-AATAAAAC-T
103285993 AAAAATAGAAATAAAACT
1 AAAAATA-AAATAAAACT
103286011 AAAAATAAAATAAA
1 AAAAATAAAATAAA
103286025 TGATACATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.23
18 14 0.47
19 9 0.30
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATAAAACT
Found at i:103294749 original size:19 final size:19
Alignment explanation
Indices: 103294725--103294775 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
103294715 TACTGCTAGA
103294725 AGAAAATAAAA-GAAAAATT
1 AGAAAATAAAATGAAAAA-T
*
103294744 AGAAAATAAGAATTAAAAAT
1 AGAAAATAA-AATGAAAAAT
103294764 A-AAAATAAAATG
1 AGAAAATAAAATG
103294776 CAGTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.11
19 16 0.57
20 4 0.14
21 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (19 bp):
AGAAAATAAAATGAAAAAT
Found at i:103298356 original size:21 final size:22
Alignment explanation
Indices: 103298297--103298366 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
103298287 GGGTATTAAC
*
103298297 TTTTATATTAAAAATTTAATGA
1 TTTTATATTAAAAATTTAATAA
**
103298319 TTTT-T-GCAAAATGATTTAAT-A
1 TTTTATATTAAAA--ATTTAATAA
103298340 TTTTATATTAAAAATTTAATAA
1 TTTTATATTAAAAATTTAATAA
103298362 TTTTA
1 TTTTA
103298367 AATATTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 4 0.10
21 13 0.33
22 18 0.46
23 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (22 bp):
TTTTATATTAAAAATTTAATAA
Found at i:103303423 original size:27 final size:27
Alignment explanation
Indices: 103303361--103303421 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 27
103303351 CACCTAACAT
103303361 ATTTAAATACTAGAAAATTTGTAGGGA
1 ATTTAAATACTAGAAAATTTGTAGGGA
103303388 ATTTAAATACTAGAAAATTTGTAGGGA
1 ATTTAAATACTAGAAAATTTGTAGGGA
103303415 ATCTTAA
1 AT-TTAA
103303422 TAAAAATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.34
Consensus pattern (27 bp):
ATTTAAATACTAGAAAATTTGTAGGGA
Found at i:103311950 original size:21 final size:21
Alignment explanation
Indices: 103311925--103311965 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
103311915 TACTAGGTAG
103311925 ATAAAAAATGAATAC-TACGAT
1 ATAAAAAAT-AATACATACGAT
*
103311946 ATAAAGAATAATACATACGA
1 ATAAAAAATAATACATACGA
103311966 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAATACATACGAT
Found at i:103312565 original size:25 final size:25
Alignment explanation
Indices: 103312531--103312578 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
103312521 TATACATAAC
*
103312531 ATATATAAATAAAAAACAATAAATA
1 ATATAAAAATAAAAAACAATAAATA
* *
103312556 ATATAAAAATAAAACATAATAAA
1 ATATAAAAATAAAAAACAATAAA
103312579 GATTATATAA
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:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
ATATAAAAATAAAAAACAATAAATA
Found at i:103312585 original size:25 final size:25
Alignment explanation
Indices: 103312531--103312593 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
103312521 TATACATAAC
* *
103312531 ATATATAAATAAAAAACAATAAATA
1 ATATAAAAATAAAAAACAATAAAGA
* *
103312556 ATATAAAAATAAAACATAATAAAGA
1 ATATAAAAATAAAAAACAATAAAGA
* *
103312581 TTAT-ATAATAAAA
1 ATATAAAAATAAAA
103312594 TGTAATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (25 bp):
ATATAAAAATAAAAAACAATAAAGA
Found at i:103312794 original size:17 final size:15
Alignment explanation
Indices: 103312753--103312862 Score: 66
Period size: 16 Copynumber: 6.9 Consensus size: 15
103312743 ATATATAATA
103312753 AATAATAATAATATAT
1 AATAA-AATAATATAT
103312769 AATTAAAAATAATACTCAT
1 AA-T-AAAATAATA-T-AT
*
103312788 AATAAAATAATTTTAT
1 AATAAAATAA-TATAT
* *
103312804 AAT-ATATAATATAA
1 AATAAAATAATATAT
103312818 AAGTAAAATTAA-A-AT
1 AA-TAAAA-TAATATAT
103312833 AA-ACAAATAATATAT
1 AATA-AAATAATATAT
*
103312848 ATATAGAATAATATA
1 A-ATAAAATAATATA
103312863 ATAAATATAG
Statistics
Matches: 74, Mismatches: 7, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
13 4 0.05
14 9 0.12
15 12 0.16
16 20 0.27
17 20 0.27
18 5 0.07
19 4 0.05
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (15 bp):
AATAAAATAATATAT
Found at i:103315062 original size:31 final size:31
Alignment explanation
Indices: 103315024--103315082 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
103315014 ATGTGTATCT
*
103315024 GGATGTCATATGATAATTAAAACCGAGAACA
1 GGATGTCATATGATAAATAAAACCGAGAACA
*
103315055 GGATGTCATATGATAAATAAAATCGAGA
1 GGATGTCATATGATAAATAAAACCGAGA
103315083 GCAAAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (31 bp):
GGATGTCATATGATAAATAAAACCGAGAACA
Found at i:103324903 original size:20 final size:19
Alignment explanation
Indices: 103324880--103324918 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
103324870 GAAAAGAAAA
103324880 GAAAAAGAGAATAAATATAT
1 GAAAAAGAGAAT-AATATAT
* *
103324900 GAAAATGTGAATAATATAT
1 GAAAAAGAGAATAATATAT
103324919 TTTGATATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (19 bp):
GAAAAAGAGAATAATATAT
Found at i:103326696 original size:26 final size:26
Alignment explanation
Indices: 103326660--103326715 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
103326650 TAGTAAATGC
103326660 TATTTTGAAATTAT-TATTAAGTATTA
1 TATTTTGAAATT-TGTATTAAGTATTA
* **
103326686 TATTTTTAAATTTGTATTATTTATTA
1 TATTTTGAAATTTGTATTAAGTATTA
103326712 TATT
1 TATT
103326716 ATTATATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTGTATTAAGTATTA
Found at i:103327131 original size:20 final size:20
Alignment explanation
Indices: 103327083--103327138 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
103327073 TAATTTTTTT
* *
103327083 TACATATATTACTCATT-TA
1 TACATATATTAATTATTATA
*
103327102 -A-ATATGTTAATTATTATA
1 TACATATATTAATTATTATA
*
103327120 TACATATATTAAATATTAT
1 TACATATATTAATTATTAT
103327139 TATTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 11 0.38
18 3 0.10
19 1 0.03
20 14 0.48
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
TACATATATTAATTATTATA
Found at i:103332166 original size:25 final size:24
Alignment explanation
Indices: 103332138--103332239 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 24
103332128 AAGCTCCTCC
* * *
103332138 TGAGCTGATGAACAGTAATCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAA
103332163 TGAGCT-AAAACAGTAAGCTCTAA
1 TGAGCTGAAAACAGTAAGCTCTAA
* *
103332186 CGAGCTG--AACAGTAAGCCCATACA
1 TGAGCTGAAAACAGTAAGCTC-TA-A
* *
103332210 --AGCTGAGAACAGTAAGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCTAA
103332232 TGAGCTGA
1 TGAGCTGA
103332240 TATATCGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
22 17 0.27
23 21 0.33
24 19 0.30
25 6 0.10
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAA
Found at i:103332190 original size:23 final size:23
Alignment explanation
Indices: 103332147--103332229 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
103332137 CTGAGCTGAT
* **
103332147 GAACAGTAATCTCTATTGAGCTA
1 GAACAGTAAGCTCTAACGAGCTA
*
103332170 AAACAGTAAGCTCTAACGAGCT-
1 GAACAGTAAGCTCTAACGAGCTA
* *
103332192 GAACAGTAAGC-CCATACAAGCTGA
1 GAACAGTAAGCTCTA-ACGAGCT-A
103332216 GAACAGTAAGCTCT
1 GAACAGTAAGCTCT
103332230 TATGAGCTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.04
22 16 0.33
23 18 0.38
24 11 0.23
25 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (23 bp):
GAACAGTAAGCTCTAACGAGCTA
Found at i:103332237 original size:24 final size:24
Alignment explanation
Indices: 103332138--103332239 Score: 86
Period size: 24 Copynumber: 4.3 Consensus size: 24
103332128 AAGCTCCTCC
*
103332138 TGAGCTGATGAACAGTAATCTC-TA
1 TGAGCTGA-GAACAGTAAGCTCTTA
* *
103332162 TTGAGCT-AAAACAGTAAGCTCTAA
1 -TGAGCTGAGAACAGTAAGCTCTTA
* * *
103332186 CGAGCT--GAACAGTAAGCCCATA
1 TGAGCTGAGAACAGTAAGCTCTTA
**
103332208 CAAGCTGAGAACAGTAAGCTCTTA
1 TGAGCTGAGAACAGTAAGCTCTTA
103332232 TGAGCTGA
1 TGAGCTGA
103332240 TATATCGGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
22 17 0.28
23 16 0.26
24 22 0.36
25 6 0.10
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAGCTCTTA
Found at i:103338633 original size:21 final size:20
Alignment explanation
Indices: 103338606--103338669 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 20
103338596 GATAGAATTT
103338606 TATTAATAAATATTTTTATA
1 TATTAATAAATATTTTTATA
*
103338626 TAATTAATGAATA-TTTTATA
1 T-ATTAATAAATATTTTTATA
* *
103338646 T-TT-GTAAATATTTATATA
1 TATTAATAAATATTTTTATA
103338664 TATTAA
1 TATTAA
103338670 ATACTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.14
18 9 0.26
19 2 0.06
20 9 0.26
21 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTAATAAATATTTTTATA
Found at i:103338635 original size:38 final size:37
Alignment explanation
Indices: 103338593--103338669 Score: 84
Period size: 38 Copynumber: 2.1 Consensus size: 37
103338583 AAATTTCTTG
*
103338593 AATGATAGAATTT-TATTAATAAATATTTTTATATAATT
1 AATGA-AGAATTTATATTAATAAATATTTATATAT-ATT
* * **
103338631 AATGAATATTTTATATTTGTAAATATTTATATATATT
1 AATGAAGAATTTATATTAATAAATATTTATATATATT
103338668 AA
1 AA
103338670 ATACTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (37 bp):
AATGAAGAATTTATATTAATAAATATTTATATATATT
Found at i:103338657 original size:17 final size:16
Alignment explanation
Indices: 103338602--103338677 Score: 55
Period size: 17 Copynumber: 4.3 Consensus size: 16
103338592 GAATGATAGA
*
103338602 ATTTTAT-TAATAAAT
1 ATTTTATATATTAAAT
103338617 ATTTTTATATAATTAATGAAT
1 A-TTTTATAT-ATT-A--AAT
*
103338638 ATTTTATATTTGTAAAT
1 ATTTTATATAT-TAAAT
103338655 ATTTATATATATTAAAT
1 ATTT-TATATATTAAAT
103338672 ACTTTT
1 A-TTTT
103338678 TTAAAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 15 0.31
18 11 0.22
19 3 0.06
20 9 0.18
21 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTATATATTAAAT
Found at i:103343987 original size:20 final size:20
Alignment explanation
Indices: 103343950--103343988 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
103343940 AAATTCTAAA
* **
103343950 AAGATAAATACATTTAATTG
1 AAGATAAATAAAGATAATTG
103343970 AAGATAAATAAAGATAATT
1 AAGATAAATAAAGATAATT
103343989 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (20 bp):
AAGATAAATAAAGATAATTG
Found at i:103344040 original size:15 final size:15
Alignment explanation
Indices: 103344020--103344049 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103344010 ATAATCCTCA
*
103344020 TAATTATCTTAATAT
1 TAATTATCCTAATAT
103344035 TAATTATCCTAATAT
1 TAATTATCCTAATAT
103344050 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:103345506 original size:21 final size:21
Alignment explanation
Indices: 103345481--103345531 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
103345471 ATGGACACAC
103345481 TGTGTGGCTAAACCACACATA
1 TGTGTGGCTAAACCACACATA
* * *
103345502 TGTGTCGTTAAACCACACATC
1 TGTGTGGCTAAACCACACATA
103345523 TGTGTGGCT
1 TGTGTGGCT
103345532 GAGAAACACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (21 bp):
TGTGTGGCTAAACCACACATA
Found at i:103347063 original size:50 final size:49
Alignment explanation
Indices: 103346928--103347066 Score: 201
Period size: 47 Copynumber: 2.9 Consensus size: 49
103346918 AGGTGGAAGT
*
103346928 AGTGGCAGTTTATCTACAAATCAGTGGTGGCTTGTCCACAAAGTATTTC
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTATTTC
* * * * *
103346977 AATGGCAGTATATCTGCATAT--GTGGTGGCTAGTCCACAAAGTGTTATC
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTATT-TC
103347025 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAA
1 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAA
103347067 TGGTGTTTCG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
47 22 0.29
48 20 0.26
49 17 0.22
50 18 0.23
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (49 bp):
AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTATTTC
Found at i:103348367 original size:26 final size:24
Alignment explanation
Indices: 103348337--103348386 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
103348327 AAATAAAAAA
*
103348337 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
103348363 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
103348387 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:103353904 original size:30 final size:30
Alignment explanation
Indices: 103353870--103353932 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
103353860 ATTTATTTTA
103353870 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
103353900 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
103353930 TTG
1 TTG
103353933 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:103355752 original size:19 final size:19
Alignment explanation
Indices: 103355709--103355743 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
103355699 ATATTACATT
103355709 TTTA-TTATTTTCTTTCTC
1 TTTATTTATTTTCTTTCTC
103355727 TTTATTTATTTT-TTTCT
1 TTTATTTATTTTCTTTCT
103355744 TTTCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTATTTTCTTTCTC
Found at i:103356433 original size:21 final size:20
Alignment explanation
Indices: 103356387--103356452 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 20
103356377 CTTTTAATAT
103356387 TATTATTATTAT-TA-GTATA
1 TATT-TTATTATATATGTATA
*
103356406 TGTTTTATTATATATGTATA
1 TATTTTATTATATATGTATA
103356426 TATCTTTAATTTATATATGTATA
1 TAT-TTT-A-TTATATATGTATA
103356449 TATT
1 TATT
103356453 CATGAAGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.17
19 5 0.12
20 7 0.17
21 3 0.08
22 2 0.05
23 16 0.40
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (20 bp):
TATTTTATTATATATGTATA
Found at i:103356554 original size:23 final size:25
Alignment explanation
Indices: 103356500--103356567 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 25
103356490 ATGCATATAT
*
103356500 TATGTATATATTTTAATATTATTAG
1 TATGTATATATTTTAATACTATTAG
* *
103356525 T-TATATATCTTTT-ATACTATT-G
1 TATGTATATATTTTAATACTATTAG
*
103356547 TATGTATAT-TTCTAATACTAT
1 TATGTATATATTTTAATACTAT
103356568 ATTGTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 5 0.14
23 20 0.56
24 10 0.28
25 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (25 bp):
TATGTATATATTTTAATACTATTAG
Found at i:103356693 original size:11 final size:11
Alignment explanation
Indices: 103356679--103356730 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
103356669 GTATATATTG
103356679 TATATATTTTA
1 TATATATTTTA
*
103356690 TATATATTATA
1 TATATATTTTA
103356701 TATAT-TTTTA
1 TATATATTTTA
* *
103356711 -ATGTTATTTTT
1 TAT-ATATTTTA
103356722 TATATATTT
1 TATATATTT
103356731 CTTTTACTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
9 2 0.06
10 5 0.15
11 24 0.73
12 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATATATTTTA
Found at i:103356704 original size:9 final size:9
Alignment explanation
Indices: 103356638--103356706 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 9
103356628 GAATTGTTTT
103356638 TTATATATA
1 TTATATATA
*
103356647 TTATTATCATT
1 TTA-TAT-ATA
*
103356658 TCTAAATATA
1 T-TATATATA
103356668 TGTATATAT-
1 T-TATATATA
*
103356677 TGTATATATT
1 T-TATATATA
103356687 TTATATATA
1 TTATATATA
103356696 TTATATATA
1 TTATATATA
103356705 TT
1 TT
103356707 TTTAATGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
9 30 0.60
10 13 0.26
11 5 0.10
12 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:103357073 original size:3 final size:3
Alignment explanation
Indices: 103357032--103357059 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
103357022 CATACATCTT
103357032 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
103357060 AATATGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:103357204 original size:23 final size:21
Alignment explanation
Indices: 103357168--103357267 Score: 76
Period size: 25 Copynumber: 4.4 Consensus size: 21
103357158 TATGTATATA
*
103357168 TATATATTAATAACTATATTATG
1 TATATATT-TTAA-TATATTATG
* *
103357191 TATGTATTTTTAACACTATTTTATG
1 TATATA-TTTT-A-A-TATATTATG
103357216 TATATACTTTTAATATTATTATG
1 TATATA-TTTTAATA-TATTATG
*
103357239 TATTTATTTTAATATA-TATG
1 TATATATTTTAATATATTATG
*
103357259 TACATATTT
1 TATATATTT
103357268 ATGTAGTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 11 0.17
21 2 0.03
22 10 0.16
23 18 0.28
24 4 0.06
25 19 0.30
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TATATATTTTAATATATTATG
Found at i:103357214 original size:25 final size:23
Alignment explanation
Indices: 103357168--103357248 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
103357158 TATGTATATA
** *
103357168 TATATATTAATAACTATATTATG
1 TATATATTTTTAACTATTTTATG
*
103357191 TATGTATTTTTAACACTATTTTATG
1 TATATATTTTT-A-ACTATTTTATG
*
103357216 TATATACTTTTAA-TATTATTATG
1 TATATATTTTTAACTATT-TTATG
*
103357239 TATTTATTTT
1 TATATATTTT
103357249 AATATATATG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.09
23 22 0.47
24 2 0.04
25 19 0.40
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
TATATATTTTTAACTATTTTATG
Found at i:103357266 original size:24 final size:22
Alignment explanation
Indices: 103357223--103357300 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
103357213 ATGTATATAC
**
103357223 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
103357245 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* *
103357269 -TGTAGTATTATTA-ATATTT-
1 TTTTAATATTATTACATATTTA
*
103357288 TTTT-ATGTTATTA
1 TTTTAATATTATTA
103357301 GTATTTCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
19 7 0.15
20 8 0.17
21 2 0.04
22 12 0.26
23 9 0.20
24 8 0.17
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:103357358 original size:14 final size:14
Alignment explanation
Indices: 103357321--103357369 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 14
103357311 TATGTTCATT
103357321 TTATATATATTATGTA
1 TTATATAT-TTA-GTA
103357337 TATATATATTTAGTA
1 T-TATATATTTAGTA
103357352 TTATATATTTAGTA
1 TTATATATTTAGTA
103357366 TTAT
1 TTAT
103357370 TATGTTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 17 0.53
15 4 0.12
16 4 0.12
17 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
TTATATATTTAGTA
Found at i:103357602 original size:23 final size:23
Alignment explanation
Indices: 103357572--103357665 Score: 179
Period size: 23 Copynumber: 4.1 Consensus size: 23
103357562 TATTATTGTC
103357572 ATATTTATTATTTGCTTCGATGT
1 ATATTTATTATTTGCTTCGATGT
103357595 ATATTTATTATTTGCTTCGATGT
1 ATATTTATTATTTGCTTCGATGT
*
103357618 ATATTTATTATTTGCTTCGATTT
1 ATATTTATTATTTGCTTCGATGT
103357641 ATATTTATTATTTGCTTCGATGT
1 ATATTTATTATTTGCTTCGATGT
103357664 AT
1 AT
103357666 TTCTAACTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (23 bp):
ATATTTATTATTTGCTTCGATGT
Found at i:103361287 original size:22 final size:22
Alignment explanation
Indices: 103361262--103361306 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
103361252 ATTCATGACT
103361262 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
103361284 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
103361306 A
1 A
103361307 TTCATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:103369726 original size:150 final size:149
Alignment explanation
Indices: 103369462--103369740 Score: 361
Period size: 150 Copynumber: 1.9 Consensus size: 149
103369452 TTCTGTTTTC
*
103369462 AAAAATCAACTCATATTGCGAGAGATAAGTTAAGCCTCAAGACGCGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATAAGTTAAGCCTCAACACGCG-TGAGGTATTTTCAATTTC
*
103369527 TATCTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGG-ACACGCTGAGGTAA
65 TATCTGTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGGCACACGCTGAGGTAA
103369591 TTTTAATTTCTGTTCATAAA
130 TTTTAATTTCTGTTCATAAA
* * * *
103369611 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGC-TGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGATAAGTTAAGCC-T--C-AACACGCGTGAGGTATTTTCAAT
* * * *
103369675 TTCTGT-TCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAG-TCTCAGGCCACATGCTG
62 TTCTATCT-GTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCT-TCAGG-CACACGCTG
103369737 AGGT
124 AGGT
103369741 CTCTCCAAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
149 34 0.30
150 39 0.35
151 22 0.20
152 12 0.11
153 5 0.04
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (149 bp):
AAAAATCAACTCATATTGCGAGAGATAAGTTAAGCCTCAACACGCGTGAGGTATTTTCAATTTCT
ATCTGTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGGCACACGCTGAGGTAAT
TTTAATTTCTGTTCATAAA
Found at i:103369737 original size:75 final size:73
Alignment explanation
Indices: 103369450--103369740 Score: 320
Period size: 75 Copynumber: 3.9 Consensus size: 73
103369440 TGATGTTCTT
* * * * *
103369450 ATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGATAAGTTAAGCCTCAAGACGCGTTGAGG
1 ATTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGG
103369514 TATTTTCA
66 TATTTTCA
* *
103369522 ATTTCT-ATCTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGGACACGCTGA
1 ATTTCTGTTC-TTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGA
103369586 GGTAATTTT-A
64 GGT-ATTTTCA
** * *
103369596 ATTTCTGTTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGC
1 ATTTCTGTTC-T-TCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG---ACACGC
103369660 TGAGGTATTTTCA
61 TGAGGTATTTTCA
* * * * *
103369673 ATTTCTGTTCGTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCAGGCCACATGCTGA
1 ATTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG--ACACGCTGA
103369738 GGT
64 GGT
103369741 CTCTCCAAAT
Statistics
Matches: 186, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
71 1 0.01
72 6 0.03
73 3 0.02
74 56 0.30
75 90 0.48
76 7 0.04
77 23 0.12
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (73 bp):
ATTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCA
Found at i:103370821 original size:18 final size:18
Alignment explanation
Indices: 103370798--103370836 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
103370788 ATATTACATT
103370798 TTTA-TTATTTTCTTTCTC
1 TTTATTTATTTTCTTTC-C
*
103370816 TTTATTTATTTTTTTTCC
1 TTTATTTATTTTCTTTCC
103370834 TTT
1 TTT
103370837 TCTGTTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTTCTTTCC
Found at i:103371482 original size:14 final size:13
Alignment explanation
Indices: 103371462--103371516 Score: 69
Period size: 12 Copynumber: 4.3 Consensus size: 13
103371452 ACTTTTAATA
103371462 ATATTATTATTAT
1 ATATTATTATTAT
103371475 ATTATTATTATTAT
1 A-TATTATTATTAT
*
103371489 -TATTATTAGTAT
1 ATATTATTATTAT
*
103371501 ATGTT-TTATTAT
1 ATATTATTATTAT
103371513 ATAT
1 ATAT
103371517 GTATATATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 20 0.56
13 4 0.11
14 12 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (13 bp):
ATATTATTATTAT
Found at i:103371512 original size:3 final size:3
Alignment explanation
Indices: 103371463--103371496 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
103371453 CTTTTAATAA
103371463 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
103371497 GTATATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:103371518 original size:14 final size:14
Alignment explanation
Indices: 103371463--103371516 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
103371453 CTTTTAATAA
*
103371463 TATTATTATTATAT
1 TATTATTAGTATAT
103371477 TATTATTA-T-TAT
1 TATTATTAGTATAT
103371489 TATTATTAGTATAT
1 TATTATTAGTATAT
*
103371503 GTTTTATTA-TATAT
1 -TATTATTAGTATAT
103371517 GTATATATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 11 0.31
13 2 0.06
14 16 0.44
15 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (14 bp):
TATTATTAGTATAT
Found at i:103371798 original size:9 final size:9
Alignment explanation
Indices: 103371732--103371800 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 9
103371722 GAATAGTTTT
103371732 TTATATATA
1 TTATATATA
*
103371741 TTATTATCATT
1 TTA-TAT-ATA
*
103371752 TCTAAATATA
1 T-TATATATA
103371762 TGTATATAT-
1 T-TATATATA
*
103371771 TGTATATATT
1 T-TATATATA
103371781 TTATATATA
1 TTATATATA
103371790 TTATATATA
1 TTATATATA
103371799 TT
1 TT
103371801 TTTAATGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
9 30 0.60
10 13 0.26
11 5 0.10
12 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:103371902 original size:22 final size:22
Alignment explanation
Indices: 103371877--103371921 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
103371867 CATATTCTTG
* *
103371877 AATACTATGTTATATATATATT
1 AATACCATATTATATATATATT
*
103371899 AATACCATATTATGTATATATT
1 AATACCATATTATATATATATT
103371921 A
1 A
103371922 TTATATCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (22 bp):
AATACCATATTATATATATATT
Found at i:103372148 original size:3 final size:3
Alignment explanation
Indices: 103372142--103372170 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
103372132 TTATTATTAT
103372142 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
103372171 TATGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:103372220 original size:21 final size:21
Alignment explanation
Indices: 103372168--103372220 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
103372158 AGTAGTAGTA
** *
103372168 GTATATGTTTATTATATATGT
1 GTATATGTTTAACATATATAT
* *
103372189 ATATATCTTTAACATATATAT
1 GTATATGTTTAACATATATAT
103372210 GTATATGTTTA
1 GTATATGTTTA
103372221 TGCAGTATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (21 bp):
GTATATGTTTAACATATATAT
Found at i:103372319 original size:23 final size:23
Alignment explanation
Indices: 103372293--103372357 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
103372283 TTAATAACTA
*
103372293 TATTATGTATGTATTTTTAACAC
1 TATTATGTATATATTTTTAACAC
* * *
103372316 TATTTTATGTATATACTTTTAATAT
1 TA--TTATGTATATATTTTTAACAC
*
103372341 TATTATGTATTTATTTT
1 TATTATGTATATATTTT
103372358 AATATATATG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 15 0.44
25 19 0.56
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (23 bp):
TATTATGTATATATTTTTAACAC
Found at i:103372375 original size:20 final size:22
Alignment explanation
Indices: 103372250--103372403 Score: 79
Period size: 23 Copynumber: 6.7 Consensus size: 22
103372240 GTTTTGTAAC
103372250 ATTAT-TAT-TATTTCTAATATGT
1 ATTATGTATATATTT-TAATAT-T
* *
103372272 A-TATATATATATTAATAACTA-T
1 ATTATGTATATATT-TTAA-TATT
*
103372294 ATTATGTATGTATTTTTAACACTATT
1 ATTATGTATATA-TTTT-A-A-TATT
103372320 -TTATGTATATACTTTTAATATT
1 ATTATGTATATA-TTTTAATATT
*
103372342 ATTATGTATTTATTTTAATA-T
1 ATTATGTATATATTTTAATATT
* *
103372363 A-TATGTACATATTTATGTAGTATT
1 ATTATGTATATA-TT-T-TAATATT
*
103372387 ATTAATATATATATTTT
1 ATT-ATGTATATATTTT
103372404 TTATGTTATT
Statistics
Matches: 104, Mismatches: 12, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
20 8 0.08
21 7 0.07
22 19 0.18
23 32 0.31
24 9 0.09
25 21 0.20
26 8 0.08
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTATGTATATATTTTAATATT
Found at i:103372375 original size:24 final size:22
Alignment explanation
Indices: 103372332--103372403 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
103372322 ATGTATATAC
**
103372332 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
103372354 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* *
103372378 -TGTAGTATTATTA-ATATATATA
1 TTTTAATATTATTACATAT-T-TA
103372400 TTTT
1 TTTT
103372404 TTATGTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.10
21 3 0.08
22 14 0.35
23 11 0.28
24 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:103379912 original size:27 final size:27
Alignment explanation
Indices: 103379838--103379919 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 27
103379828 TTAAGCAATC
*
103379838 ATTATATATTAAAGATAATTAAAATATATA
1 ATTATA-ATT-AA-ATAATTATAATATATA
** *
103379868 ATTTATTTTTAAAAAATTATAAT-TATA
1 A-TTATAATTAAATAATTATAATATATA
*
103379895 ATTATAATTAAATTAATTGTAATAT
1 ATTATAATTAAA-TAATTATAATAT
103379920 TAAAAGTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 9 0.22
27 13 0.32
28 10 0.24
29 2 0.05
30 3 0.07
31 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTATAATTAAATAATTATAATATATA
Found at i:103384532 original size:41 final size:43
Alignment explanation
Indices: 103384469--103384552 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 43
103384459 CCTTGAACCC
*
103384469 CAAGGTTTAGGTTCGAAATTTAAGG-TTTAAGGTTT-GGGTTT
1 CAAGGTTTAGGTTCGAAATTTAAGGATTTAAGATTTAGGGTTT
** *
103384510 CAAGGTTTAGG-TCGAGGGTTTAAGGATTTGAGATTTAGGGTTT
1 CAAGGTTTAGGTTCGA-AATTTAAGGATTTAAGATTTAGGGTTT
103384553 GAGTTTAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.11
41 18 0.50
42 8 0.22
43 6 0.17
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (43 bp):
CAAGGTTTAGGTTCGAAATTTAAGGATTTAAGATTTAGGGTTT
Found at i:103387183 original size:250 final size:250
Alignment explanation
Indices: 103386742--103387240 Score: 998
Period size: 250 Copynumber: 2.0 Consensus size: 250
103386732 ATAAATGGTC
103386742 ACGTGATAGACAGATCAAGGACCACTGCTGCAAAATCTTTTTCTACAAATGCAAGGATATGGCTT
1 ACGTGATAGACAGATCAAGGACCACTGCTGCAAAATCTTTTTCTACAAATGCAAGGATATGGCTT
103386807 GCGCACCCTACGGTGACTATTGGAGACAAGTTAAGAAGATGAGTTTTGTTCAGCATTTCAGCAAC
66 GCGCACCCTACGGTGACTATTGGAGACAAGTTAAGAAGATGAGTTTTGTTCAGCATTTCAGCAAC
103386872 CAAAGTGTGCAATCATTTCAGTTTATCAGAGACGAAGAAGTTGAACTTCTTATCAACAAAATCCG
131 CAAAGTGTGCAATCATTTCAGTTTATCAGAGACGAAGAAGTTGAACTTCTTATCAACAAAATCCG
103386937 CAGTGTTTGTTTGAAAGGAGAGTCTATTTATCTAATAGACATGCTTATGTCCGTA
196 CAGTGTTTGTTTGAAAGGAGAGTCTATTTATCTAATAGACATGCTTATGTCCGTA
103386992 ACGTGATAGACAGATCAAGGACCACTGCTGCAAAATCTTTTTCTACAAATGCAAGGATATGGCTT
1 ACGTGATAGACAGATCAAGGACCACTGCTGCAAAATCTTTTTCTACAAATGCAAGGATATGGCTT
103387057 GCGCACCCTACGGTGACTATTGGAGACAAGTTAAGAAGATGAGTTTTGTTCAGCATTTCAGCAAC
66 GCGCACCCTACGGTGACTATTGGAGACAAGTTAAGAAGATGAGTTTTGTTCAGCATTTCAGCAAC
103387122 CAAAGTGTGCAATCATTTCAGTTTATCAGAGACGAAGAAGTTGAACTTCTTATCAACAAAATCCG
131 CAAAGTGTGCAATCATTTCAGTTTATCAGAGACGAAGAAGTTGAACTTCTTATCAACAAAATCCG
103387187 CAGTGTTTGTTTGAAAGGAGAGTCTATTTATCTAATAGACATGCTTATGTCCGT
196 CAGTGTTTGTTTGAAAGGAGAGTCTATTTATCTAATAGACATGCTTATGTCCGT
103387241 TTCGAGTAAC
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
250 249 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (250 bp):
ACGTGATAGACAGATCAAGGACCACTGCTGCAAAATCTTTTTCTACAAATGCAAGGATATGGCTT
GCGCACCCTACGGTGACTATTGGAGACAAGTTAAGAAGATGAGTTTTGTTCAGCATTTCAGCAAC
CAAAGTGTGCAATCATTTCAGTTTATCAGAGACGAAGAAGTTGAACTTCTTATCAACAAAATCCG
CAGTGTTTGTTTGAAAGGAGAGTCTATTTATCTAATAGACATGCTTATGTCCGTA
Found at i:103388962 original size:23 final size:23
Alignment explanation
Indices: 103388936--103389037 Score: 150
Period size: 23 Copynumber: 4.4 Consensus size: 23
103388926 ACACAAAGAA
*
103388936 CATTTAAACACTTTAATTTACAG
1 CATTTAAACACTTCAATTTACAG
* * * *
103388959 CATTTAAATACTTTAGTTTACAA
1 CATTTAAACACTTCAATTTACAG
*
103388982 CATTTAAACACTTCAATTTATAG
1 CATTTAAACACTTCAATTTACAG
103389005 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
103389028 CATTTAAACA
1 CATTTAAACA
103389038 GCAGCAACCA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:103392267 original size:65 final size:62
Alignment explanation
Indices: 103392162--103392339 Score: 200
Period size: 63 Copynumber: 2.8 Consensus size: 62
103392152 CAGGAAACTA
103392162 GAAAACTAATATAATAGAAATAAGAAACCCAAACAAAAAAAAAATCAAAAATTTCTAAGACGATT
1 GAAAACTAATATAATAGAAATAAGAAACCCAAAC--AAAAAAAATCAAAAATTT-TAAGACGATT
** * *
103392227 GAAAACTAATATAATAGAAAATAAGAAACCCAAA-TTAAAAATTCTAAAATTTTAAGACGATT
1 GAAAACTAATATAATAG-AAATAAGAAACCCAAACAAAAAAAATCAAAAATTTTAAGACGATT
* * *
103392289 GAAAAATAA-AGAA-AGTAAATTTCAACAAACCCAAACAAAAAAAATCAAAAA
1 GAAAACTAATATAATAG-AAA--T-AAGAAACCCAAACAAAAAAAATCAAAAA
103392340 CCTCACATAC
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
60 5 0.05
61 3 0.03
62 19 0.20
63 25 0.26
64 11 0.11
65 17 0.18
66 16 0.17
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.19
Consensus pattern (62 bp):
GAAAACTAATATAATAGAAATAAGAAACCCAAACAAAAAAAATCAAAAATTTTAAGACGATT
Found at i:103392329 original size:62 final size:62
Alignment explanation
Indices: 103392195--103392339 Score: 152
Period size: 62 Copynumber: 2.3 Consensus size: 62
103392185 GAAACCCAAA
* * *
103392195 CAAAAAAAAAATCAAAAATTTCTAAGACGATTGAAAACTAATATAATAGAAAATAAGAAACC
1 CAAAAAAAAAATCAAAAATTTCTAAGACGATTGAAAAATAATAGAATAGAAAATAACAAACC
* * * *
103392257 CAAATTAAAAATTCTAAAATTT-TAAGACGATTGAAAAATAA-AGAA-AGTAAATTTCAACAAAC
1 CAAA-AAAAAAATCAAAAATTTCTAAGACGATTGAAAAATAATAGAATAG-AAA-AT-AACAAAC
103392319 C
62 C
103392320 CAAACAAAAAAAATCAAAAA
1 C-AA-AAAAAAAATCAAAAA
103392340 CCTCACATAC
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
60 2 0.03
61 6 0.09
62 23 0.34
63 22 0.33
64 13 0.19
65 1 0.01
ACGTcount: A:0.61, C:0.12, G:0.07, T:0.20
Consensus pattern (62 bp):
CAAAAAAAAAATCAAAAATTTCTAAGACGATTGAAAAATAATAGAATAGAAAATAACAAACC
Found at i:103393360 original size:15 final size:15
Alignment explanation
Indices: 103393322--103393373 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
103393312 CTTAAACCCC
* *
103393322 AACCCTTAAACCATA
1 AACCCATAATCCATA
* *
103393337 AA-TCATAATCCCTA
1 AACCCATAATCCATA
103393351 AACCCATAATCCATA
1 AACCCATAATCCATA
103393366 AACCCATA
1 AACCCATA
103393374 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:103393421 original size:20 final size:19
Alignment explanation
Indices: 103393398--103393460 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
103393388 TTGTATTTCA
* *
103393398 TTTTTATTTGTTATTAATG
1 TTTTTATTTATTATCAATG
103393417 TTTTTATTTATTATCAATG
1 TTTTTATTTATTATCAATG
103393436 TTTTTATTTATTTATCAATG
1 TTTTTATTTA-TTATCAATG
103393456 TTTTT
1 TTTTT
103393461 TTAAATCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 27 0.66
20 14 0.34
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.68
Consensus pattern (19 bp):
TTTTTATTTATTATCAATG
Found at i:103393819 original size:8 final size:7
Alignment explanation
Indices: 103393802--103393937 Score: 62
Period size: 7 Copynumber: 19.1 Consensus size: 7
103393792 CACTAATTAA
103393802 CTAAACC
1 CTAAACC
103393809 CTAAACTC
1 CTAAAC-C
103393817 CT-AACC
1 CTAAACC
*
103393823 CTTAACC
1 CTAAACC
*
103393830 CTTAACC
1 CTAAACC
103393837 CATAAACC
1 C-TAAACC
*
103393845 CTAAATC
1 CTAAACC
* **
103393852 TTAAAAT
1 CTAAACC
* *
103393859 ATAAACT
1 CTAAACC
* *
103393866 CTTAATC
1 CTAAACC
103393873 CTAAACCC
1 CTAAA-CC
103393881 CT-AACC
1 CTAAACC
*
103393887 CATAACCC
1 C-TAAACC
103393895 CTAAACC
1 CTAAACC
*
103393902 TTAAACC
1 CTAAACC
*
103393909 C-CAACC
1 CTAAACC
*
103393915 TTTAAACC
1 -CTAAACC
* *
103393923 ATAATCC
1 CTAAACC
103393930 CTAAACC
1 CTAAACC
103393937 C
1 C
103393938 ATAATCCATA
Statistics
Matches: 97, Mismatches: 24, Indels: 16
0.71 0.18 0.12
Matches are distributed among these distances:
6 10 0.10
7 67 0.69
8 20 0.21
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:103393886 original size:50 final size:50
Alignment explanation
Indices: 103393810--103393906 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
103393800 AACTAAACCC
* * *
103393810 TAAACTCCTAACCCTTAACCCTTAACCCATAAACCCTAAATCTTAAAATA
1 TAAACTCCTAACCCTAAACCCCTAACCCATAAACCCTAAACCTTAAAATA
* * *
103393860 TAAACTCTTAATCCTAAACCCCTAACCCATAACCCCTAAACCTTAAA
1 TAAACTCCTAACCCTAAACCCCTAACCCATAAACCCTAAACCTTAAA
103393907 CCCCAACCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (50 bp):
TAAACTCCTAACCCTAAACCCCTAACCCATAAACCCTAAACCTTAAAATA
Found at i:103393935 original size:28 final size:29
Alignment explanation
Indices: 103393859--103393949 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 29
103393849 ATCTTAAAAT
*
103393859 ATAAACTCTTAAT-CCTAAACCCCTAACCC
1 ATAAAC-CATAATCCCTAAACCCCTAACCC
* * * * *
103393888 ATAACCCCTAAACCTTAAACCCC-AACCT
1 ATAAACCATAATCCCTAAACCCCTAACCC
* * *
103393916 TTAAACCATAATCCCTAAACCCATAATCC
1 ATAAACCATAATCCCTAAACCCCTAACCC
103393945 ATAAA
1 ATAAA
103393950 ACTTAAAATA
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (29 bp):
ATAAACCATAATCCCTAAACCCCTAACCC
Found at i:103394411 original size:41 final size:41
Alignment explanation
Indices: 103394232--103394440 Score: 206
Period size: 41 Copynumber: 5.1 Consensus size: 41
103394222 GTTATATGAC
* * *
103394232 TTTTAACGGCGTTTTATCGAAAACGTCGCTGATGCTCTGGT
1 TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGT
* * * * *
103394273 TTTTAGCAGCGTTTTACCGAAAGCGACACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGT
* * * * *
103394314 TTTTAGTGGCGTTTTACCGAAAGCGCAGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGT
* * *
103394355 TTTTAGCGGTGTTTT-TGGTAAAACGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTATCG-AAAACGCCGCTAATGCTCTGGT
* * *
103394396 TTTTAGCGGCGTTTT-TGGTAAAAAGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTATCG-AAAACGCCGCTAATGCTCTG-GT
103394438 TTT
1 TTT
103394441 ACAATTTTTG
Statistics
Matches: 143, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 137 0.96
42 5 0.03
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGT
Found at i:103397992 original size:22 final size:22
Alignment explanation
Indices: 103397967--103398013 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
103397957 AATAATGAAC
103397967 AAATAAAA-AATAGAAAAAAGAA
1 AAATAAAACAA-AGAAAAAAGAA
* *
103397989 AAATAAAACAAATAATAAAGAA
1 AAATAAAACAAAGAAAAAAGAA
103398011 AAA
1 AAA
103398014 AAGAAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (22 bp):
AAATAAAACAAAGAAAAAAGAA
Found at i:103398015 original size:31 final size:30
Alignment explanation
Indices: 103397964--103398021 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
103397954 ACAAATAATG
*
103397964 AACAAATAAAAAATAGAAAAAAGAAAAATAA
1 AACAAATAAAAAAGA-AAAAAAGAAAAATAA
*
103397995 AACAAATAATAAAGAAAAAAAGAAAAA
1 AACAAATAAAAAAGAAAAAAAGAAAAA
103398022 GGACAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (30 bp):
AACAAATAAAAAAGAAAAAAAGAAAAATAA
Found at i:103403488 original size:11 final size:11
Alignment explanation
Indices: 103403472--103403502 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
103403462 AAGTATGGGT
103403472 AGGTATGGGAA
1 AGGTATGGGAA
*
103403483 AGGTATGGGCA
1 AGGTATGGGAA
103403494 AGGTATGGG
1 AGGTATGGG
103403503 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:103407578 original size:18 final size:18
Alignment explanation
Indices: 103407555--103407611 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
103407545 CCCAACTACT
*
103407555 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
103407573 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
103407591 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
103407609 GTA
1 GTA
103407612 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:103408172 original size:11 final size:11
Alignment explanation
Indices: 103408156--103408186 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
103408146 AAGTATGGGT
103408156 AGGTATGGGAA
1 AGGTATGGGAA
*
103408167 AGGTATGGGCA
1 AGGTATGGGAA
103408178 AGGTATGGG
1 AGGTATGGG
103408187 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:103409162 original size:22 final size:22
Alignment explanation
Indices: 103409135--103409201 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
103409125 CCGAAAAAGG
103409135 TAAATTTTATAATAAAATTATT
1 TAAATTTTATAATAAAATTATT
103409157 TAAATTTTATAATAAAATTATT
1 TAAATTTTATAATAAAATTATT
*
103409179 TAAATTTTACAATAAAATTATT
1 TAAATTTTATAATAAAATTATT
103409201 T
1 T
103409202 GATCAAAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATTTTATAATAAAATTATT
Found at i:103413572 original size:33 final size:33
Alignment explanation
Indices: 103413503--103413581 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
103413493 CTTGAGCCGA
* * *
103413503 GAGGAGTAAAATATGGAGGTGGATATGGGCTGG
1 GAGGAGTAGAGTATGGAGGTGGATATCGGCTGG
* *
103413536 GAGGAGTAGAGTATGGTGGTGGATA-CGGCTCTG
1 GAGGAGTAGAGTATGGAGGTGGATATCGGCT-GG
*
103413569 GAGGAGTTGAGTA
1 GAGGAGTAGAGTA
103413582 CATGGGTCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.27, C:0.05, G:0.46, T:0.23
Consensus pattern (33 bp):
GAGGAGTAGAGTATGGAGGTGGATATCGGCTGG
Found at i:103415652 original size:22 final size:22
Alignment explanation
Indices: 103415627--103415690 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
103415617 TCAACATTTT
*
103415627 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
103415649 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
103415670 AATTAAATTATATAAAAATTA
1 AA-TAAA-TATATAAAAATTA
103415691 CATTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 7 0.20
22 17 0.49
23 9 0.26
24 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:103415695 original size:21 final size:20
Alignment explanation
Indices: 103415636--103415697 Score: 52
Period size: 22 Copynumber: 2.9 Consensus size: 20
103415626 TAATAAATCA
*
103415636 ATAAAAATTATCAAATAAATAT
1 ATAAAAATTA-C-ATTAAATAT
* *
103415658 ATAATAATATAAAATTAAATTAT
1 ATAA-AA-ATTACATTAAA-TAT
103415681 ATAAAAATTACATTAAA
1 ATAAAAATTACATTAAA
103415698 AATCACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 9 0.28
22 11 0.34
23 9 0.28
24 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAAAATTACATTAAATAT
Found at i:103415956 original size:113 final size:113
Alignment explanation
Indices: 103415752--103416193 Score: 676
Period size: 114 Copynumber: 3.9 Consensus size: 113
103415742 ATACTAACAC
* * * * *
103415752 AAAATAACTATAAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAACACACA
1 AAAATAGCTATAAAAATATTTTTTAAAATATATTACT-AAAAAAATCACAATACACT-A-ATACA
103415817 CTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
63 CTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
103415866 AAAATAGCTATAAAAATATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTA
1 AAAATAGCTATAAAAATATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTA
* * *
103415931 AACCACTAAACACTAACAATTTATATAATCTAACCTTAAATTACAAAT
66 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
103415979 AAAATAGCTATAAAAATATTTTTTAAAAATATATTACTAAAAAAATTACAATACATTAATACACT
1 AAAATAGCTATAAAAATATTTTTT-AAAATATATTACTAAAAAAATCACAATACACTAATACACT
*
103416044 AAACCACTAAACACTAAGAATTTATA-AACCTAATCTTAAATTACTAAT
65 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
103416092 AAAATAGCTATAAAATTATTATTTTTT-AAATATATTACTAAAAAAATCACAATACACTAATACA
1 AAAATAGCTATAAAA--A-TATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACA
* *
103416156 CTAAACTACTAAACATTAACAATTTATATAACCTAATC
63 CTAAACCACTAAACACTAACAATTTATATAACCTAATC
103416194 AACTATAAAA
Statistics
Matches: 302, Mismatches: 19, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
111 26 0.09
112 1 0.00
113 101 0.33
114 156 0.52
115 10 0.03
116 8 0.03
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (113 bp):
AAAATAGCTATAAAAATATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTA
AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:103417911 original size:9 final size:9
Alignment explanation
Indices: 103417897--103417929 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
103417887 ACGAAAGATT
103417897 ATTTCCATA
1 ATTTCCATA
103417906 ATTTCCATA
1 ATTTCCATA
103417915 ATTTCCATA
1 ATTTCCATA
103417924 ATTTCC
1 ATTTCC
103417930 CTAACCGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTCCATA
Found at i:103420442 original size:21 final size:22
Alignment explanation
Indices: 103420404--103420447 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
103420394 ATTCTTATAC
103420404 TACTATTTATATACATTATTAG
1 TACTATTTATATACATTATTAG
103420426 TACTATTT-T-TACTATTATTAG
1 TACTATTTATATAC-ATTATTAG
103420447 T
1 T
103420448 TTACCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 10 0.48
22 8 0.38
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (22 bp):
TACTATTTATATACATTATTAG
Found at i:103431314 original size:64 final size:64
Alignment explanation
Indices: 103431225--103431351 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 64
103431215 CATTCATAAT
* * * *
103431225 ACATCTAGTTAAGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTT-GACATAAGCATC
1 ACATCTAGCTAAGAGCAGTTGATTCATTTCGATCATAGCATCCTAACTATTTAG-CATAAGCATC
* * *
103431289 ACATCTAGCTAGGAGCGGTTGATTCATTTCGATCATAGTATCCTAACTATTTAGCATAAGCAT
1 ACATCTAGCTAAGAGCAGTTGATTCATTTCGATCATAGCATCCTAACTATTTAGCATAAGCAT
103431352 AGACACATGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 54 0.98
65 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAAGAGCAGTTGATTCATTTCGATCATAGCATCCTAACTATTTAGCATAAGCATC
Found at i:103431575 original size:88 final size:88
Alignment explanation
Indices: 103431423--103431586 Score: 274
Period size: 88 Copynumber: 1.9 Consensus size: 88
103431413 AGTTGCGAGC
* *
103431423 CTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTATAGATCTTATCTCCATGTATCGGCTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTA
103431488 TGGAGCAGATTTTAGCCACAAGT
66 TGGAGCAGATTTTAGCCACAAGT
* * * *
103431511 CTTAACCCTCTAAGCAGTAGGGTAACAGGTTGAAAATTACAGATCTTATCTCCATGTATTGGCTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTA
103431576 TGGAGCAGATT
66 TGGAGCAGATT
103431587 AAAGATTGCG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (88 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCTA
TGGAGCAGATTTTAGCCACAAGT
Found at i:103431836 original size:133 final size:133
Alignment explanation
Indices: 103431599--103431916 Score: 453
Period size: 133 Copynumber: 2.4 Consensus size: 133
103431589 AGATTGCGAG
*** * * *
103431599 TCTTATCTCCATGTATCGGCTATGGAGCAGAT--TTTA-GCCACCGACCTTATCTCCCTGAGGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCA-AG-CCTTATCTCCCTAAGGTA
**
103431661 GCAAGAGAGCAGGTTGAAGATACAAGTTTTAACCCCCTAAGCAGTAGGGTAACAGACTGAAAATT
64 GCAAGAGAGCAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTGAAAATT
103431726 ACAGA
129 ACAGA
*
103431731 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCAAGCCTTATCTCTCTAAGGTAGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCAAGCCTTATCTCCCTAAGGTAGC
* * * *
103431796 AAGAGAGCAGGTTGGAGATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAT
66 AAGAGAGCAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTGAAAATTAC
103431861 AGA
131 AGA
* * *
103431864 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGAAAGTCTTATCT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCAAGCCTTATCT
103431917 TCATATATCG
Statistics
Matches: 167, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
132 32 0.19
133 130 0.78
134 2 0.01
135 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCAAGCCTTATCTCCCTAAGGTAGC
AAGAGAGCAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTGAAAATTAC
AGA
Found at i:103432033 original size:310 final size:310
Alignment explanation
Indices: 103431511--103432387 Score: 1355
Period size: 310 Copynumber: 2.8 Consensus size: 310
103431501 AGCCACAAGT
* * *
103431511 CTTAACCCTCTAAGCAGTAGGGTAACAGGTTGAAAATTACAGATCTTATCTCCATGTATTGGCTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTA
** * *
103431576 TGGAGCAGATTAAAGATTGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACC
66 TGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACC
* * *
103431641 GACCTTATCTCCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTTTTAACCCCCTAAGCAGT
131 GACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAGT
*
103431706 AGGGTAACAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATG
196 AGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATG
*
103431771 GCAAGCCTTATCTCTCT-AAGGTAGCAAGAGAGCAGGTTGGAGATACGAGC
261 GCAAGCCTTATCTCTCTGAA-GTAGCAAGAGAGCAGGTTGAAGATACGAGC
*
103431821 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCTCCATGTATCGGCTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTA
** * * * *
103431886 TGGAGCAGATCGAAGATGGAAAGTCTTATCTTCATATATCGGCTATGGAGCATATTTAAACCAAC
66 TGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCC-AC
*
103431951 CG-CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAG
130 CGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAG
* * *
103432015 TAGTGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATTGGCTATGGAGCAGATCGAAAAT
195 TAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAAT
* *
103432080 GGCGAGCCTTATCTCTTTGAAGTAGCAAGAGAGCAGGTTGAAGATACGAGC
260 GGCAAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGATACGAGC
* *
103432131 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCAGCTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTA
* * * *
103432196 TAGAGCAAATCGAAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGCCACC
66 TGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACC
* * * * *
103432261 GACCTTATCTCTCTGAGGTAGCAAGATAGTAGGTTGAACATACGAGCCTTAACCCCCTAGGCAGT
131 GACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAGT
* * *
103432326 AGGGTAACAGGATGAAAATTACAGATCTTATCTCCATGTACCGGCTAT-GAGCAAATCAGAAA
196 AGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-GAAA
103432388 GGGCAAATCT
Statistics
Matches: 513, Mismatches: 50, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
309 12 0.02
310 495 0.96
311 6 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (310 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTA
TGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACC
GACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAGT
AGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATG
GCAAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGATACGAGC
Found at i:103432093 original size:177 final size:177
Alignment explanation
Indices: 103431775--103432093 Score: 548
Period size: 177 Copynumber: 1.8 Consensus size: 177
103431765 AAAATGGCAA
*
103431775 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGGAGATACGAGCCTTAACCCCCTAAGCAGTA
1 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTA
* *
103431840 GGGTAACAGGCTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGG
66 GGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGG
*
103431905 AAAGTCTTATCTTCATATATCGGCTATGGAGCATATTTAAACCAACC
131 AAAGCCTTATCTTCATATATCGGCTATGGAGCATATTTAAACCAACC
*
103431952 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAGTA
1 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTA
* * *
103432017 GTGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATTGGCTATGGAGCAGATCGAAAATGG
66 GGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGG
**
103432082 CGAGCCTTATCT
131 AAAGCCTTATCT
103432094 CTTTGAAGTA
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 132 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (177 bp):
GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTA
GGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGG
AAAGCCTTATCTTCATATATCGGCTATGGAGCATATTTAAACCAACC
Found at i:103432109 original size:133 final size:133
Alignment explanation
Indices: 103431952--103432227 Score: 464
Period size: 133 Copynumber: 2.1 Consensus size: 133
103431942 TAAACCAACC
*
103431952 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGTCTTAACCCCCTAAGCAGTA
1 GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTA
* ** * *
103432017 GTGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATTGGCTATGGAGCAGATCGAAAATGG
66 GGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCAGCTATAGAGCAAATCGAAAATGG
103432082 CGA
131 CGA
*
103432085 GCCTTATCTCTTTGAA-GTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGT
1 GCCTTATCTCTCT-AAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGT
103432149 AGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCAGCTATAGAGCAAATCGAAAATG
65 AGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCAGCTATAGAGCAAATCGAAAATG
103432214 GCGA
130 GCGA
*
103432218 GTCTTATCTC
1 GCCTTATCTC
103432228 CATGTATCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 132 0.99
134 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (133 bp):
GCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTA
GGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCAGCTATAGAGCAAATCGAAAATGG
CGA
Found at i:103432344 original size:177 final size:178
Alignment explanation
Indices: 103432041--103432387 Score: 500
Period size: 177 Copynumber: 2.0 Consensus size: 178
103432031 AAATTGCAGA
* * *** *
103432041 TCTTATCTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGCCTTATCTCTTTGAAGTAGC
1 TCTTATCTCCATGTATCGACTATGGAGCAGATCGAAAACACCGAGCCTTATCTCTCTGAAGTAGC
* * *
103432106 AAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTGC
66 AAGAGAGCAGGTTGAACATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAATTAC
*
103432171 AGATCTTATCTCCATGTATCAGCTATAGAGCAAATC-GAAAATGGCGAG
131 AGATCTTATCTCCATGTACCAGCTAT-GAGCAAATCAGAAAATGGCGAG
** ** *
103432219 TCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGCCACCGA-CCTTATCTCTCTGAGGTAGC
1 TCTTATCTCCATGTATCGACTATGGAGCAGATCGAAAACACCGAGCCTTATCTCTCTGAAGTAGC
* * *
103432283 AAGATAGTAGGTTGAACATACGAGCCTTAACCCCCTAGGCAGTAGGGTAACAGGATGAAAATTAC
66 AAGAGAGCAGGTTGAACATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAATTAC
*
103432348 AGATCTTATCTCCATGTACCGGCTATGAGCAAATCAGAAA
131 AGATCTTATCTCCATGTACCAGCTATGAGCAAATCAGAAA
103432388 GGGCAAATCT
Statistics
Matches: 149, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
176 9 0.06
177 105 0.70
178 35 0.23
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (178 bp):
TCTTATCTCCATGTATCGACTATGGAGCAGATCGAAAACACCGAGCCTTATCTCTCTGAAGTAGC
AAGAGAGCAGGTTGAACATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAATTAC
AGATCTTATCTCCATGTACCAGCTATGAGCAAATCAGAAAATGGCGAG
Found at i:103436843 original size:31 final size:31
Alignment explanation
Indices: 103436780--103436849 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
103436770 ATAACAATAT
* * *
103436780 TTCAACTCTTTTTGAAATGTTGATGGTCAAA
1 TTCAACTCTTTTTAAAAGGTTGAGGGTCAAA
*
103436811 TTCAGCTCTTTTTAAAAGGTTGAGGG-CTAAA
1 TTCAACTCTTTTTAAAAGGTTGAGGGTC-AAA
*
103436842 TTTAACTC
1 TTCAACTC
103436850 AAAAAATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (31 bp):
TTCAACTCTTTTTAAAAGGTTGAGGGTCAAA
Found at i:103436918 original size:17 final size:17
Alignment explanation
Indices: 103436896--103436929 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
103436886 AACGCTAAGG
103436896 GCTAAATTTGTCAATAT
1 GCTAAATTTGTCAATAT
103436913 GCTAAATTTGTCAATAT
1 GCTAAATTTGTCAATAT
103436930 ACTTTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
GCTAAATTTGTCAATAT
Found at i:103437201 original size:89 final size:89
Alignment explanation
Indices: 103437097--103437275 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
103437087 ATCCTAATCC
103437097 AATCATTATCATCATTGGTAGATTCTGTTAAAATTTGTCAACTTAACATATTCATTTTCCATCAA
1 AATCATTATCATCATTGGTAGATTCTGTTAAAATTTGTCAACTTAACATATTCATTTTCCATCAA
103437162 TCATATAGTATGTCACATGAAGAT
66 TCATATAGTATGTCACATGAAGAT
103437186 AATCATTATCATCATTGGTAGATTCTGTTAAAATTTGTCAACTTAACATATTCATTTTCCATCAA
1 AATCATTATCATCATTGGTAGATTCTGTTAAAATTTGTCAACTTAACATATTCATTTTCCATCAA
*
103437251 TTATATAGTATGTCACATGAAGAT
66 TCATATAGTATGTCACATGAAGAT
103437275 A
1 A
103437276 GTTTAATCAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (89 bp):
AATCATTATCATCATTGGTAGATTCTGTTAAAATTTGTCAACTTAACATATTCATTTTCCATCAA
TCATATAGTATGTCACATGAAGAT
Found at i:103438223 original size:62 final size:62
Alignment explanation
Indices: 103438151--103438270 Score: 188
Period size: 62 Copynumber: 1.9 Consensus size: 62
103438141 TCATTGCGTT
* *
103438151 ATGGTTCTTAAGATGCTATTGCATTTGAATTGAGTTATGAAA-ATTTGAGATTAATGGTAGTG
1 ATGGTACTTAAGATGCTATTGCATTTGAACTGAGTT-TGAAAGATTTGAGATTAATGGTAGTG
* *
103438213 ATGGTACTTAAGATGCTATTGCATTTGAACTGAGTTTTAAAGATTTGTGATTAATGGT
1 ATGGTACTTAAGATGCTATTGCATTTGAACTGAGTTTGAAAGATTTGAGATTAATGGT
103438271 TCATTGTGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 4 0.08
62 49 0.92
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (62 bp):
ATGGTACTTAAGATGCTATTGCATTTGAACTGAGTTTGAAAGATTTGAGATTAATGGTAGTG
Found at i:103439760 original size:23 final size:23
Alignment explanation
Indices: 103439732--103439778 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
103439722 TTGACTATTA
*
103439732 AAATAAAATGTTATTAAAGGATT
1 AAATAAAATATTATTAAAGGATT
*
103439755 AAATAAAATATTATTAGAGGATT
1 AAATAAAATATTATTAAAGGATT
103439778 A
1 A
103439779 TCATACCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (23 bp):
AAATAAAATATTATTAAAGGATT
Found at i:103439936 original size:24 final size:22
Alignment explanation
Indices: 103439883--103439959 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 22
103439873 ATTGAAATAT
*
103439883 TTTTAATAATAATTTTATATTAAA
1 TTTTATTAATAA--TTATATTAAA
*
103439907 TATTATTAATAATTATATTAAGAA
1 TTTTATTAATAATTATATT-A-AA
*
103439931 TTTTATT-A-AATTATA-TATTA
1 TTTTATTAATAATTATATTA-AA
103439951 TTTTATTAA
1 TTTTATTAA
103439960 ATTGTATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
20 9 0.20
21 2 0.04
22 14 0.31
23 2 0.04
24 18 0.40
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
TTTTATTAATAATTATATTAAA
Found at i:103444228 original size:22 final size:22
Alignment explanation
Indices: 103444203--103444247 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
103444193 AATAGTAGTG
103444203 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
103444225 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
103444247 T
1 T
103444248 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:103448004 original size:22 final size:22
Alignment explanation
Indices: 103447976--103448020 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
103447966 AGGGGGAGTG
103447976 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
103447998 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
103448020 T
1 T
103448021 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:103457254 original size:172 final size:172
Alignment explanation
Indices: 103456960--103457387 Score: 542
Period size: 172 Copynumber: 2.5 Consensus size: 172
103456950 AAACTATACT
* * * *
103456960 CAAGGTCAC-CAACTATTAGTAAGTTTATATTTTGGTCACT-AATTT-TAAAAAGTTACAAATTA
1 CAAGGTCACTCAACTATTAGTAAGTTTATACTTTGGTCACTCAATTTCAAAAAAGTTACAAGTTG
* * *
103457022 ATCACTAAACTATTTGAAAGTTATCATCTAACTTATTGGGTATTAAGTTGCTAATGGATGTATGA
66 GTCACTAAACTATTTAAAAGTTATCATCTAACTTATTGGGTATTAAATTGCTAATGGATGTATGA
** * *
103457087 TGTGGTCATTAATTCAAAATTCATCATAGAGTAAACTACAGC
131 TGTGACCATTAATTCAAAATTCATCATAGAGCAAACTACAAC
* * * * *
103457129 TAGGGTCACTTAACTATTAGTAAGTTTATACTTTGATTACTCAATTTCAAAAAAGTTACAAGTTG
1 CAAGGTCACTCAACTATTAGTAAGTTTATACTTTGGTCACTCAATTTCAAAAAAGTTACAAGTTG
* * * * *
103457194 GTCATTAAACTATTTAAAAGTTGTCATTTAAGTTATT-GGTCATTAAATTGCTAATGGATGTTTG
66 GTCACTAAACTATTTAAAAGTTATCATCTAACTTATTGGGT-ATTAAATTGCTAATGGATGTATG
* * *** *
103457258 ATGTGACCGTTAATTTACTCTTCATCATAGGGCAAACTACAAC
130 ATGTGACCATTAATTCAAAATTCATCATAGAGCAAACTACAAC
* *
103457301 CAAGGTCACTCAACTATTAGTAAGTTTATGCCTTGGTCACTCAATTTCAAAAACA-TTACAAGTT
1 CAAGGTCACTCAACTATTAGTAAGTTTATACTTTGGTCACTCAATTTCAAAAA-AGTTACAAGTT
103457365 GGTCACTAAACTATTTAAAAGTT
65 GGTCACTAAACTATTTAAAAGTT
103457388 TTAGGGCTTT
Statistics
Matches: 219, Mismatches: 35, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
169 7 0.03
170 27 0.12
171 8 0.04
172 176 0.80
173 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (172 bp):
CAAGGTCACTCAACTATTAGTAAGTTTATACTTTGGTCACTCAATTTCAAAAAAGTTACAAGTTG
GTCACTAAACTATTTAAAAGTTATCATCTAACTTATTGGGTATTAAATTGCTAATGGATGTATGA
TGTGACCATTAATTCAAAATTCATCATAGAGCAAACTACAAC
Found at i:103460352 original size:6 final size:6
Alignment explanation
Indices: 103460341--103460365 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
103460331 CCTAGTCCAT
103460341 GAGGTG GAGGTG GAGGTG GAGGTG G
1 GAGGTG GAGGTG GAGGTG GAGGTG G
103460366 TGGAGCCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GAGGTG
Found at i:103465162 original size:19 final size:19
Alignment explanation
Indices: 103465127--103465164 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
103465117 AATTTAACAC
*
103465127 TTAATATTTACATATTCTA
1 TTAATATTTACAAATTCTA
103465146 TTAAT-TTTATCAAATTCTA
1 TTAATATTTA-CAAATTCTA
103465165 AAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATATTTACAAATTCTA
Found at i:103467315 original size:82 final size:81
Alignment explanation
Indices: 103467229--103467400 Score: 190
Period size: 82 Copynumber: 2.1 Consensus size: 81
103467219 CAAAAGTGAA
* * * * * *
103467229 ACAAAAATTATAAGATTTGTAACTAATAAT-ACAA-ATTTCACAAAAAAATATAAGA-TATATAA
1 ACAAAAATGATAAAATTTATAACTAACAATAAAAAGAATTCAC--AAAAATATAAGACT-TATAA
*
103467291 CT-AAGCTTTAAAAAAGATTT
63 -TGAAGC-TTAAAAAAGATTC
* *
103467311 ACAAAAATGATAAAATTTATAACTAACGATAAAAAGAATTCACAAATATATAAGACTTATAATGA
1 ACAAAAATGATAAAATTTATAACTAACAATAAAAAGAATTCACAAAAATATAAGACTTATAATGA
103467376 AGCTTAAAAAAGATTC
66 AGCTTAAAAAAGATTC
103467392 ACAAAAATG
1 ACAAAAATG
103467401 CCAAAAAGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
81 22 0.29
82 45 0.58
83 4 0.05
84 6 0.08
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (81 bp):
ACAAAAATGATAAAATTTATAACTAACAATAAAAAGAATTCACAAAAATATAAGACTTATAATGA
AGCTTAAAAAAGATTC
Found at i:103467332 original size:42 final size:40
Alignment explanation
Indices: 103467272--103467399 Score: 136
Period size: 40 Copynumber: 3.1 Consensus size: 40
103467262 AATTTCACAA
* *
103467272 AAAAATATAAGATATATAACTAAGCTTTAAAAAAGATTTAC
1 AAAAATATAAGATTTATAACTAAGC-TTAAAAAAGATTCAC
* *
103467313 AAAAATGATAAAATTTATAACTAA-C-GATAAAAAGAATTCAC
1 AAAAAT-ATAAGATTTATAACTAAGCTTA-AAAAAG-ATTCAC
* *
103467354 AAATATATAAGACTTATAA-TGAAGCTTAAAAAAGATTCAC
1 AAAAATATAAGATTTATAACT-AAGCTTAAAAAAGATTCAC
103467394 AAAAAT
1 AAAAAT
103467400 GCCAAAAAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
39 2 0.03
40 30 0.42
41 24 0.33
42 16 0.22
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.27
Consensus pattern (40 bp):
AAAAATATAAGATTTATAACTAAGCTTAAAAAAGATTCAC
Found at i:103470561 original size:31 final size:28
Alignment explanation
Indices: 103470498--103470553 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
103470488 ATAAAACAAG
*
103470498 ACATACTTCTCTTGAACAAAGCTAAGTT
1 ACATACCTCTCTTGAACAAAGCTAAGTT
**
103470526 ACATACCTCTCTTGAGTAAAGCTAAGTT
1 ACATACCTCTCTTGAACAAAGCTAAGTT
103470554 GTTACATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (28 bp):
ACATACCTCTCTTGAACAAAGCTAAGTT
Found at i:103472375 original size:17 final size:17
Alignment explanation
Indices: 103472353--103472387 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
103472343 ACAAAGGAAC
103472353 TTTATGAGACAAATTAA
1 TTTATGAGACAAATTAA
103472370 TTTATGAGACAAATTAA
1 TTTATGAGACAAATTAA
103472387 T
1 T
103472388 CACATGTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (17 bp):
TTTATGAGACAAATTAA
Found at i:103476112 original size:3 final size:3
Alignment explanation
Indices: 103476104--103476147 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
103476094 CTACTTCTTA
103476104 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
103476148 TATTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:103477628 original size:35 final size:35
Alignment explanation
Indices: 103477589--103477657 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
103477579 ACTTGCCTCT
103477589 TCCCACTCTCCCATGCTGCCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGCCTGCCACCAGCACCAC
*
103477624 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGCCTGCCACCAGCACCA
103477658 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.52, G:0.12, T:0.19
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGCCTGCCACCAGCACCAC
Found at i:103478514 original size:3 final size:3
Alignment explanation
Indices: 103478499--103478545 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
103478489 GTTATTTTCA
* *
103478499 TAT TAT TAA TAT TAT TAA TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
103478545 T
1 T
103478546 GTACATTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:103478861 original size:22 final size:23
Alignment explanation
Indices: 103478833--103478887 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
103478823 CAATTTTTTA
103478833 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
103478855 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
103478879 -TA-ATATTAT
1 ATATATATTAT
103478888 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:103499288 original size:74 final size:73
Alignment explanation
Indices: 103499026--103499737 Score: 900
Period size: 74 Copynumber: 9.7 Consensus size: 73
103499016 TTCCGTTTTC
* * * * *
103499026 AAAATTCAACTTATATTGCGAGAAATGGGTTAAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
103499091 A-TTTCAA
66 ATTTTCAA
*
103499098 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGAGGTAATTTTAATTTC
103499163 TATTTTC-A
65 TATTTTCAA
* *
103499171 AAAAATCAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
103499236 ATTTTCAAA
66 ATTTTC-AA
*
103499245 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
*
103499310 ATTTTTAA
66 ATTTTCAA
*
103499318 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
*
103499383 ATTTTTAA
66 ATTTTCAA
* * * *
103499391 AAAAATCAACTCATATTGCGAAAGATGAATTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCC-TCGGACACGCTGAGGTAATTTTAATTTC
*
103499456 TGTTTTCAA
65 TATTTTCAA
* * **
103499465 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGAGGTAATTTT-AATTT
103499529 CTATTTTC--
64 CTATTTTCAA
* * *
103499537 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGG---ACACGCTGAGGTAATTTTAATT
* * *
103499602 TGTGTTGTCAA
63 TCTATTTTCAA
* ** * ** * *
103499613 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACATACTTAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGAGGTAATT-TTAA--T
*
103499677 TTGTATGTTTC--
62 TTCTAT-TTTCAA
* *
103499688 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGCTGA
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGA
103499738 ATGAGTTGAG
Statistics
Matches: 573, Mismatches: 49, Indels: 33
0.87 0.07 0.05
Matches are distributed among these distances:
71 1 0.00
72 101 0.18
73 184 0.32
74 194 0.34
75 47 0.08
76 42 0.07
77 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
ATTTTCAA
Found at i:103499338 original size:147 final size:146
Alignment explanation
Indices: 103499026--103499737 Score: 918
Period size: 147 Copynumber: 4.8 Consensus size: 146
103499016 TTCCGTTTTC
* * * * *
103499026 AAAATTCAACTTATATTGCGAGAAATGGGTTAAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
*
103499091 A-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTC-GGACACGCTGAGGTAATT
*
103499155 TTAATTTCTATTTTC-A
130 TCAATTTCTATTTTCAA
* *
103499171 AAAAATCAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
*
103499236 ATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGCTGAGGTAATT
66 ATTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGACACGCTGAGGTAATT
* *
103499301 TTAATTTCTATTTTTAA
130 TCAATTTCTATTTTCAA
*
103499318 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
* * * *
103499383 ATTTTTAAAAAAATCAACTCATATTGCGAAAGATGAATTGAGCCTTAGGACACGCTGAGGTAATT
66 ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC-TCGGACACGCTGAGGTAATT
*
103499448 TCAATTTCTGTTTTCAA
130 TCAATTTCTATTTTCAA
* * **
103499465 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGAGGTAATTTT-AATTT
* *
103499529 CTATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGT
64 CTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGG---ACACGCTGAGGT
* * *
103499592 AATTTCAATTTGTGTTGTCAA
126 AATTTCAATTTCTATTTTCAA
* ** * ** * *
103499613 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACATACTTAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGAGGTAATT-TTAA--T
*
103499677 TTGTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGCTGA
62 TTCTAT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTC-GGACACGCTGA
103499738 ATGAGTTGAG
Statistics
Matches: 510, Mismatches: 43, Indels: 24
0.88 0.07 0.04
Matches are distributed among these distances:
145 62 0.12
146 106 0.21
147 180 0.35
148 104 0.20
149 9 0.02
150 6 0.01
151 41 0.08
152 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (146 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
ATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGACACGCTGAGGTAATTT
CAATTTCTATTTTCAA
Found at i:103500376 original size:35 final size:35
Alignment explanation
Indices: 103500337--103500405 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
103500327 ACTTGCATCT
103500337 TCCCACTCTCCCATGCTGCCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGCCTGCCACCAGCACCAC
*
103500372 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGCCTGCCACCAGCACCA
103500406 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.52, G:0.12, T:0.19
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGCCTGCCACCAGCACCAC
Found at i:103501263 original size:3 final size:3
Alignment explanation
Indices: 103501248--103501288 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
103501238 GTTATTTTCA
* *
103501248 TAT TAT TAA TAT TAT TAA TATT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T
103501289 GTACATTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:103501600 original size:22 final size:23
Alignment explanation
Indices: 103501574--103501631 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
103501564 AGTCAATTTT
103501574 TTTATATATATTATATGAATA-A
1 TTTATATATATTATATGAATATA
* *
103501596 TTTATATATAATATTATGTATATA
1 TTTATATATATTA-TATGAATATA
103501620 TTT-TA-ATATTAT
1 TTTATATATATTAT
103501632 CAGTTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 17 0.55
23 9 0.29
24 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTATATATATTATATGAATATA
Found at i:103509509 original size:24 final size:24
Alignment explanation
Indices: 103509460--103509506 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
103509450 TGTTACTTTT
*
103509460 TTTACTTTGTTTTTTTTATTATTA
1 TTTACTTTGTTTTTTTTATCATTA
* *
103509484 TTTACTTTTTTTTCTTTTGTCAT
1 TTTACTTTGTTTT-TTTTATCAT
103509507 ATTGTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTACTTTGTTTTTTTTATCATTA
Found at i:103509541 original size:39 final size:42
Alignment explanation
Indices: 103509466--103509543 Score: 99
Period size: 39 Copynumber: 1.9 Consensus size: 42
103509456 TTTTTTTACT
* **
103509466 TTGTTTTTTTTATTATTATTTACTTTTTTTTCTTTTGTCATA
1 TTGTTTCTTTTATTATTATTTACTTTTTTAACTTTTGTCATA
*
103509508 TTGTTTCTTTT-TT-TTA-TTACTTTTTTAAGTTTTGTC
1 TTGTTTCTTTTATTATTATTTACTTTTTTAACTTTTGTC
103509544 TTTATCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 17 0.53
40 3 0.09
41 2 0.06
42 10 0.31
ACGTcount: A:0.13, C:0.08, G:0.06, T:0.73
Consensus pattern (42 bp):
TTGTTTCTTTTATTATTATTTACTTTTTTAACTTTTGTCATA
Found at i:103509569 original size:14 final size:15
Alignment explanation
Indices: 103509544--103509575 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
103509534 AAGTTTTGTC
103509544 TTTATCTTTATTTAT
1 TTTATCTTTATTTAT
103509559 TTTAT-TTTATTTAT
1 TTTATCTTTATTTAT
103509573 TTT
1 TTT
103509576 TATTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATCTTTATTTAT
Found at i:103509627 original size:23 final size:21
Alignment explanation
Indices: 103509588--103509652 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
103509578 TTAATTTTAA
* *
103509588 AAAATTTGAAATGTATATTTG
1 AAAATTTTAAATATATATTTG
* *
103509609 AAATGTTTTATAATATATATTTTT
1 AAA-ATTTTA-AATATATA-TTTG
103509633 AAAATTTTAAATATATATTT
1 AAAATTTTAAATATATATTT
103509653 TTGAAACTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 6 0.17
22 12 0.33
23 12 0.33
24 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTG
Found at i:103509648 original size:22 final size:22
Alignment explanation
Indices: 103509588--103509745 Score: 96
Period size: 21 Copynumber: 7.1 Consensus size: 22
103509578 TTAATTTTAA
* * *
103509588 AAAATTTGAAATGTATA-TTTG
1 AAAATTTTAAATATATATTTTT
*
103509609 AAATGTTTTATAATATATATTTTT
1 AAA-ATTTTA-AATATATATTTTT
103509633 AAAATTTTAAATATATATTTTT
1 AAAATTTTAAATATATATTTTT
* * * *
103509655 GAAACTATTTT--TTCTAAATTTTA
1 -AAA--ATTTTAAATATATATTTTT
103509678 AATATTATTTTTAAAT-TAT-TTTTT
1 AA-A--A-TTTTAAATATATATTTTT
103509702 AAAATTTTAAATAT-TATTTTT
1 AAAATTTTAAATATATATTTTT
* *
103509723 TAAATATTAAATATAT-TTTTT
1 AAAATTTTAAATATATATTTTT
103509744 AA
1 AA
103509746 TAATATTTCT
Statistics
Matches: 108, Mismatches: 16, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
20 9 0.08
21 28 0.26
22 20 0.19
23 27 0.25
24 16 0.15
25 7 0.06
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTT
Found at i:103509698 original size:34 final size:33
Alignment explanation
Indices: 103509614--103509727 Score: 147
Period size: 34 Copynumber: 3.2 Consensus size: 33
103509604 ATTTGAAATG
103509614 TTTTATAATATATATTTTTAAAATTTTAAATATATAT
1 TTTTA-AAT-TAT-TTTTTAAAATTTTAAATAT-TAT
* *
103509651 TTTTGAAACTATTTTTTCTAAATTTTAAATATTAT
1 TTTT-AAATTATTTTTT-AAAATTTTAAATATTAT
103509686 TTTTAAATTATTTTTTAAAATTTTAAATATTATT
1 TTTTAAATTATTTTTTAAAATTTTAAATATTA-T
103509720 TTTTAAAT
1 TTTTAAAT
103509728 ATTAAATATA
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
33 15 0.21
34 20 0.29
35 12 0.17
36 16 0.23
37 6 0.09
38 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.59
Consensus pattern (33 bp):
TTTTAAATTATTTTTTAAAATTTTAAATATTAT
Found at i:103509725 original size:14 final size:13
Alignment explanation
Indices: 103509673--103509731 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 13
103509663 TTTTTCTAAA
103509673 TTTTAAATATTAT
1 TTTTAAATATTAT
103509686 TTTT-AA-ATTAT
1 TTTTAAATATTAT
*
103509697 TTTTTAA-A--A-
1 TTTTAAATATTAT
103509706 TTTTAAATATTATT
1 TTTTAAATATTA-T
103509720 TTTTAAATATTA
1 TTTTAAATATTA
103509732 AATATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 9 0.23
12 6 0.15
13 4 0.10
14 12 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:103509750 original size:22 final size:21
Alignment explanation
Indices: 103509688--103509752 Score: 89
Period size: 20 Copynumber: 3.1 Consensus size: 21
103509678 AATATTATTT
*
103509688 TTAAAT-TATTTTTTAAAATT
1 TTAAATATATTTTTTAAAATA
103509708 TTAAATATTATTTTTT-AAATA
1 TTAAATA-TATTTTTTAAAATA
103509729 TTAAATATATTTTTTAATAATA
1 TTAAATATATTTTTTAA-AATA
103509751 TT
1 TT
103509753 TCTGAGCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 14 0.35
21 12 0.30
22 14 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATATATTTTTTAAAATA
Found at i:103512503 original size:40 final size:40
Alignment explanation
Indices: 103512426--103512641 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
103512416 AAACCAAGTA
* * * *
103512426 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
103512465 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
103512505 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
103512545 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
103512585 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
103512624 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
103512642 ATTATCATCC
Statistics
Matches: 163, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 47 0.29
40 115 0.71
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:103516178 original size:30 final size:30
Alignment explanation
Indices: 103516139--103516195 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
103516129 TTTTATAAAT
103516139 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
103516169 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
103516196 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Done.