Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 315 of 332
Found at i:103266360 original size:50 final size:50
Alignment explanation
Indices: 103266306--103266532 Score: 337
Period size: 51 Copynumber: 4.5 Consensus size: 50
103266296 TTTGAGTACT
* * *
103266306 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
* * *
103266356 TCTGATCAATGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTA
* * * *
103266407 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAACTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
*
103266457 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTA
103266508 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGACAAGTGATAAATG
103266533 TGATCAGTGT
Statistics
Matches: 156, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
50 77 0.49
51 79 0.51
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (50 bp):
TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
Found at i:103266437 original size:101 final size:101
Alignment explanation
Indices: 103266306--103266532 Score: 400
Period size: 101 Copynumber: 2.2 Consensus size: 101
103266296 TTTGAGTACT
*
103266306 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAATGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAACTTAGCTACTCTTATCTGATCAATGACAA
103266371 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
*
103266407 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAACTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAACTTAGCTACTCTTATCTGATCAATGACAA
* *
103266472 GTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
* *
103266508 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGATAAGTGACAAATG
103266533 TGATCAGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 120 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (101 bp):
TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAACTTAGCTACTCTTATCTGATCAATGACAA
GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
Found at i:103274366 original size:51 final size:51
Alignment explanation
Indices: 103274285--103274452 Score: 282
Period size: 51 Copynumber: 3.3 Consensus size: 51
103274275 ACTTCTGATC
* *
103274285 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
103274336 AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTAACTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
103274387 AGTGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
103274438 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
103274453 ATGTGATCAA
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:103276523 original size:3 final size:3
Alignment explanation
Indices: 103276510--103276588 Score: 68
Period size: 3 Copynumber: 26.0 Consensus size: 3
103276500 AAATTAATTA
* * * * *
103276510 ATT ACT ATT ATT ATTT CTT ATT ATT GTT ATC ATT ATT ATT AGT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
103276556 ATT ATC ATT ATC ATT ATT GTT ATA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
103276589 CTTAAAACTA
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
3 55 0.96
4 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:103276670 original size:29 final size:30
Alignment explanation
Indices: 103276638--103276694 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
103276628 TTATTATTAG
103276638 ATTCTATTATTTTATTTTATTC-TTTATAT
1 ATTCTATTATTTTATTTTATTCATTTATAT
* * * *
103276667 ATTCTTTTTTTTTCTTTTTTTCATTTAT
1 ATTCTATTATTTTATTTTATTCATTTAT
103276695 TTTGTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (30 bp):
ATTCTATTATTTTATTTTATTCATTTATAT
Found at i:103276775 original size:21 final size:21
Alignment explanation
Indices: 103276749--103276793 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
103276739 ATTTAATATC
103276749 GCTTTATTTATTTGTTTATTT
1 GCTTTATTTATTTGTTTATTT
103276770 GCTTTATTTATTTGTTTATTT
1 GCTTTATTTATTTGTTTATTT
103276791 GCT
1 GCT
103276794 AAATTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.07, G:0.11, T:0.69
Consensus pattern (21 bp):
GCTTTATTTATTTGTTTATTT
Found at i:103276781 original size:13 final size:12
Alignment explanation
Indices: 103276751--103276790 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
103276741 TTAATATCGC
* *
103276751 TTTATTTATTTG
1 TTTATTTGTTTA
103276763 TTTATTTGCTTTA
1 TTTATTTG-TTTA
103276776 TTTATTTGTTTA
1 TTTATTTGTTTA
103276788 TTT
1 TTT
103276791 GCTAAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTATTTGTTTA
Found at i:103276799 original size:21 final size:21
Alignment explanation
Indices: 103276754--103276804 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
103276744 ATATCGCTTT
**
103276754 ATTTATTTGTTTATTTGCTTT
1 ATTTATTTGTTTATTTGCTAA
103276775 ATTTATTTGTTTATTTGCTAA
1 ATTTATTTGTTTATTTGCTAA
103276796 ATTTCATTT
1 ATTT-ATTT
103276805 TATTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.67
Consensus pattern (21 bp):
ATTTATTTGTTTATTTGCTAA
Found at i:103276971 original size:3 final size:3
Alignment explanation
Indices: 103276957--103277049 Score: 98
Period size: 3 Copynumber: 30.7 Consensus size: 3
103276947 TCAAAATTCA
* *
103276957 TAT TAT TCAT TAT TAT TAC TAT TAT TAT TAT TAA TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
103277003 TAC TAT TAC GAT T-T CTAT TAT TAT TAT TAT TAC TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
103277048 TA
1 TA
103277050 ACATTTTTAT
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 68 0.93
4 4 0.05
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:103276985 original size:15 final size:15
Alignment explanation
Indices: 103276960--103277049 Score: 110
Period size: 15 Copynumber: 5.9 Consensus size: 15
103276950 AAATTCATAT
103276960 TATTCATTATTATTAC
1 TATT-ATTATTATTAC
*
103276976 TATTATTATTATTAA
1 TATTATTATTATTAC
103276991 TATTATTATTATTAC
1 TATTATTATTATTAC
** *
103277006 TATTACGATT-TCTAT
1 TATTATTATTAT-TAC
103277021 TATTATTATTATTAC
1 TATTATTATTATTAC
*
103277036 TATTATTTTTATTA
1 TATTATTATTATTA
103277050 ACATTTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
14 1 0.02
15 57 0.90
16 5 0.08
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:103277157 original size:13 final size:13
Alignment explanation
Indices: 103277141--103277172 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
103277131 TTTCACTAGA
103277141 ATTTTTTTATTTT
1 ATTTTTTTATTTT
*
103277154 ATTTATTTATTTT
1 ATTTTTTTATTTT
103277167 ATTTTT
1 ATTTTT
103277173 ATTTTGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:103283419 original size:2 final size:2
Alignment explanation
Indices: 103283414--103283443 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
103283404 CATGCATATA
103283414 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
103283444 AAGCAGGCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:103283854 original size:6 final size:7
Alignment explanation
Indices: 103283838--103283867 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
103283828 TTTTTTCATA
103283838 TTAATTT
1 TTAATTT
*
103283845 TTTATTT
1 TTAATTT
103283852 TTAATTT
1 TTAATTT
103283859 TTAATTT
1 TTAATTT
103283866 TT
1 TT
103283868 TTTGACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTAATTT
Found at i:103287257 original size:7 final size:7
Alignment explanation
Indices: 103287245--103287271 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
103287235 AAGTTTTTGT
103287245 TTTATGA
1 TTTATGA
103287252 TTTATGA
1 TTTATGA
103287259 TTTATGA
1 TTTATGA
103287266 TTTATG
1 TTTATG
103287272 TTCAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
TTTATGA
Found at i:103289726 original size:16 final size:17
Alignment explanation
Indices: 103289693--103289726 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
103289683 GTAAAATTTT
*
103289693 AATCTTAAATATAATAA
1 AATCTTAAATAAAATAA
103289710 AATCTTAAA-AAAATAA
1 AATCTTAAATAAAATAA
103289726 A
1 A
103289727 GAGAAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATCTTAAATAAAATAA
Found at i:103289760 original size:68 final size:69
Alignment explanation
Indices: 103289680--103289832 Score: 245
Period size: 68 Copynumber: 2.2 Consensus size: 69
103289670 GTAGAATAAA
* * *
103289680 GGTGTAAAATTTTAATCTTAAATATAATAAAATCTTAAAAAAA-TAAAGAGAAGTAATCTACTTA
1 GGTGTAAAATTTTAATCTTAAATATAATAAAATATAAAAAAAAGTAAAGAGAAATAATCTACTTA
103289744 AATT
66 AATT
* * *
103289748 GTTGTAAAATTTTAATTTTAAATATAATAAAATATAAAAAAAAGTAAAGAGAAATAATCTATTTA
1 GGTGTAAAATTTTAATCTTAAATATAATAAAATATAAAAAAAAGTAAAGAGAAATAATCTACTTA
103289813 AATT
66 AATT
103289817 GGTGTAAAATTTTAAT
1 GGTGTAAAATTTTAAT
103289833 TTTATATAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 39 0.51
69 38 0.49
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (69 bp):
GGTGTAAAATTTTAATCTTAAATATAATAAAATATAAAAAAAAGTAAAGAGAAATAATCTACTTA
AATT
Found at i:103289825 original size:69 final size:68
Alignment explanation
Indices: 103289680--103289836 Score: 251
Period size: 69 Copynumber: 2.3 Consensus size: 68
103289670 GTAGAATAAA
* * * *
103289680 GGTGTAAAATTTTAATCTTAAATATAATAAAATCTTAAAAAAATAAAGAGAAGTAATCTACTTAA
1 GGTGTAAAATTTTAATTTTAAATATAATAAAATATAAAAAAAATAAAGAGAAATAATCTACTTAA
103289745 ATT
66 ATT
* *
103289748 GTTGTAAAATTTTAATTTTAAATATAATAAAATATAAAAAAAAGTAAAGAGAAATAATCTATTTA
1 GGTGTAAAATTTTAATTTTAAATATAATAAAATATAAAAAAAA-TAAAGAGAAATAATCTACTTA
103289813 AATT
65 AATT
103289817 GGTGTAAAATTTTAATTTTA
1 GGTGTAAAATTTTAATTTTA
103289837 TATAATTTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 39 0.48
69 42 0.52
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (68 bp):
GGTGTAAAATTTTAATTTTAAATATAATAAAATATAAAAAAAATAAAGAGAAATAATCTACTTAA
ATT
Found at i:103293129 original size:29 final size:30
Alignment explanation
Indices: 103293037--103293139 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 30
103293027 TTAGAGTCTC
* *
103293037 GCCACGAAGG-CATCCTTTTAACAGAGTTTA
1 GCCACAAAGGACATCCTTTTAACAGAG-ATA
* * *
103293067 -CCGC-AA-GACATTCATTTAACAGAGATA
1 GCCACAAAGGACATCCTTTTAACAGAGATA
*
103293094 GCCACAAATG-CATCCTTTTAACAGAGATA
1 GCCACAAAGGACATCCTTTTAACAGAGATA
**
103293123 GTTACAAAGGACATCCT
1 GCCACAAAGGACATCCT
103293140 AATTATAAGC
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.05
28 19 0.33
29 29 0.50
30 7 0.12
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (30 bp):
GCCACAAAGGACATCCTTTTAACAGAGATA
Found at i:103297004 original size:27 final size:27
Alignment explanation
Indices: 103296935--103297008 Score: 71
Period size: 31 Copynumber: 2.6 Consensus size: 27
103296925 ATAGATTAAA
*
103296935 TTTTTAACATAAGGATTAATTTATTAT
1 TTTTTAACATAAGAATTAATTTATTAT
*
103296962 TTAATTTAATATATAAGAATTAATTTATCTAT
1 TT--TTT-A-ACATAAGAATTAATTTAT-TAT
103296994 TTTTTAA-ATAA-AATT
1 TTTTTAACATAAGAATT
103297009 TAACTCTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
26 4 0.10
27 6 0.15
28 1 0.03
29 4 0.10
30 4 0.10
31 16 0.40
32 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (27 bp):
TTTTTAACATAAGAATTAATTTATTAT
Found at i:103297011 original size:27 final size:30
Alignment explanation
Indices: 103296943--103297000 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
103296933 AATTTTTAAC
*
103296943 ATAAGGATTAATTTATTATTTAATTTAATAT
1 ATAAGAATTAATTTATTATTT-ATTTAATAT
103296974 ATAAGAATTAATTTATCTATTT-TTTAA
1 ATAAGAATTAATTTAT-TATTTATTTAA
103297001 ATAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 5 0.20
31 15 0.60
32 5 0.20
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
ATAAGAATTAATTTATTATTTATTTAATAT
Found at i:103299025 original size:3 final size:3
Alignment explanation
Indices: 103299019--103299043 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
103299009 CATCATCACT
103299019 TGC TGC TGC TGC TGC TGC TGC TGC T
1 TGC TGC TGC TGC TGC TGC TGC TGC T
103299044 CTTCGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (3 bp):
TGC
Found at i:103306908 original size:34 final size:34
Alignment explanation
Indices: 103306865--103306931 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
103306855 TTAGGATTTT
*
103306865 AATTAAATTAGGATT-TATGGTGTTTAAATAAATA
1 AATTAAATTAGGATTCTAGGGT-TTTAAATAAATA
*
103306899 AATTAAATTAGGGTTCTAGGGTTTTAAATAAAT
1 AATTAAATTAGGATTCTAGGGTTTTAAATAAAT
103306932 TAAACTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.42, C:0.01, G:0.16, T:0.40
Consensus pattern (34 bp):
AATTAAATTAGGATTCTAGGGTTTTAAATAAATA
Found at i:103307262 original size:126 final size:125
Alignment explanation
Indices: 103307024--103307275 Score: 369
Period size: 126 Copynumber: 2.0 Consensus size: 125
103307014 CTATTTTAAC
* * *
103307024 CCTGAAAAAAAATTTTAAGAAGACATTTCTAAACCAGTAGTATCAAAAACGTTTCAAGAAGAATG
1 CCTGAAAAAAAATTTTAAGAAGACATTTCTAAACAAATAGTATCAAAAACGCTTCAAGAAGAATG
* * * *
103307089 CACTGTCAACAAAATTACAGAAAAATGCTCTCATGTGGACACTCTTTTTCTACAGTAGTT
66 CACTGTCAACAAAATTACAGAAAAATGCTCCCACGTAGACACCCTTTTTCTACAGTAGTT
* * * *
103307149 CCTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGTAT
1 CCTGAAAAAA-AATTTTAAGAAGACATTTCTAAACAAATAGTATCAAAAACGCTTCAAGAAGAAT
* * *
103307214 GCATTGTCATCAAAATTACAGAAAAATGCTCCCACGTAGACGCCCTTTTTCTACAGTAGTT
65 GCACTGTCAACAAAATTACAGAAAAATGCTCCCACGTAGACACCCTTTTTCTACAGTAGTT
103307275 C
1 C
103307276 ATGCTTGGCC
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 10 0.09
126 102 0.91
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (125 bp):
CCTGAAAAAAAATTTTAAGAAGACATTTCTAAACAAATAGTATCAAAAACGCTTCAAGAAGAATG
CACTGTCAACAAAATTACAGAAAAATGCTCCCACGTAGACACCCTTTTTCTACAGTAGTT
Found at i:103309327 original size:26 final size:26
Alignment explanation
Indices: 103309298--103309381 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 26
103309288 ATAAAAAATT
*
103309298 ATAAAATAAAAATTAATTAAAATTAC
1 ATAAAATAAAAATTAAATAAAATTAC
* *
103309324 ATAAATGAAAAAATATTAAATAATATT-C
1 ATAAA--ATAAAA-ATTAAATAAAATTAC
* *
103309352 A-AAAATTAAAATTAACTAAAATTAC
1 ATAAAATAAAAATTAAATAAAATTAC
103309377 ATAAA
1 ATAAA
103309382 TGAAAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
24 11 0.24
25 6 0.13
26 8 0.17
27 3 0.07
28 7 0.15
29 11 0.24
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (26 bp):
ATAAAATAAAAATTAAATAAAATTAC
Found at i:103309380 original size:53 final size:54
Alignment explanation
Indices: 103309300--103309417 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 54
103309290 AAAAAATTAT
* *
103309300 AAAATAAAAATTAATTAAAATTACATAAATG-AAAAAATATTAAATAATATTCA
1 AAAATTAAAATTAACTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
*
103309353 AAAATTAAAATTAACTAAAATTACATAAATGAAAAAAATATTAAATAATATTTA
1 AAAATTAAAATTAACTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
*
103309407 AAATTTAAAAT
1 AAAATTAAAAT
103309418 AAACCATTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 29 0.48
54 31 0.52
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (54 bp):
AAAATTAAAATTAACTAAAATTACATAAATGAAAAAAATATTAAATAATATTCA
Found at i:103313356 original size:74 final size:72
Alignment explanation
Indices: 103313230--103313499 Score: 208
Period size: 74 Copynumber: 3.6 Consensus size: 72
103313220 AATGAATAAA
* ** * *
103313230 AAAATATTTAAAAGTAAATAATATAACAAGGTTTAAAATAAATGATAA-ATGAAACCATTTAAAG
1 AAAA-ATTTAAAA-TAAATAATATAAAAAAATTTAAAATAAAT-AAAATATGAAACAATTTAAAG
103313294 TAAAAAATAT
63 TAAAAAATAT
** *
103313304 AAAAAGTTTAAAATAAATAATATATAAAAAATTTAAAATAAATAAAATATGAAATGATTCAGAA-
1 AAAAA-TTTAAAATAAATAATATA-AAAAAATTTAAAATAAATAAAATATGAAACAATTTA-AAG
103313368 TAAACAATATAT
63 TAAA-AA-ATAT
* * * * **
103313380 ATAAATTCTAACATAAATAAAATATAAAACAATTTGAAATAAATAATTTAT-AAAGCAATTTAAA
1 AAAAATT-TAAAATAAAT--AATATAAAAAAATTTAAAATAAATAAAATATGAAA-CAATTTAAA
*
103313444 GTAAATAATAT
62 GTAAAAAATAT
* *
103313455 AAAATAATTTAAAA-ATAATAATACAAAACAGA-TTAAAATAAATAA
1 -AAA-AATTTAAAATA-AATAATATAAAA-AAATTTAAAATAAATAA
103313500 TATGATAAAA
Statistics
Matches: 158, Mismatches: 23, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
73 15 0.09
74 60 0.38
75 12 0.08
76 32 0.20
77 33 0.21
78 6 0.04
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (72 bp):
AAAAATTTAAAATAAATAATATAAAAAAATTTAAAATAAATAAAATATGAAACAATTTAAAGTAA
AAAATAT
Found at i:103313421 original size:51 final size:49
Alignment explanation
Indices: 103313230--103313509 Score: 182
Period size: 51 Copynumber: 5.6 Consensus size: 49
103313220 AATGAATAAA
** * *
103313230 AAAATATTTAAAAGTAAAT--AATATAACAAGGTTTAAAATAAATGATAAAT
1 AAAA-ATTTAAAA-TAAATAAAATATAA-AAAATTTAAAATAAATAATATAT
* * *
103313280 GAAACCATTTAAAGT-AA-AAAATATAAAAAGTTTAAAATAAATAATATAT
1 -AAA-AATTTAAAATAAATAAAATATAAAAAATTTAAAATAAATAATATAT
** * * *
103313329 AAAAAATTTAAAATAAATAAAATATGAAATGATTCAGAATAAACAATATAT
1 -AAAAATTTAAAATAAATAAAATAT-AAAAAATTTAAAATAAATAATATAT
* * * *
103313380 ATAAATTCTAACATAAATAAAATATAAAACAATTTGAAATAAATAATTTAT
1 AAAAATT-TAAAATAAATAAAATATAAAA-AATTTAAAATAAATAATATAT
* *
103313431 AAAGCAATTTAAAGTAAAT--AATATAAAATAATTTAAAA-ATAATAATACA-
1 AAA--AATTTAAAATAAATAAAATATAAAA-AATTTAAAATA-AATAATATAT
*
103313480 AAACAGA-TTAAAATAAATAATATGATAAAA
1 AAA-A-ATTTAAAATAAATAAAAT-ATAAAA
103313510 CAAATACTAT
Statistics
Matches: 182, Mismatches: 32, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
48 20 0.11
49 32 0.18
50 50 0.27
51 68 0.37
52 8 0.04
53 4 0.02
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (49 bp):
AAAAATTTAAAATAAATAAAATATAAAAAATTTAAAATAAATAATATAT
Found at i:103313423 original size:26 final size:25
Alignment explanation
Indices: 103313281--103313512 Score: 142
Period size: 25 Copynumber: 9.2 Consensus size: 25
103313271 ATGATAAATG
*
103313281 AAACCATTTAAAGT-AA-AAAATATA
1 AAACAATTTAAA-TAAATAAAATATA
* *
103313305 AAA-AGTTTAAAATAAATAATATATA
1 AAACAATTT-AAATAAATAAAATATA
*
103313330 AAA-AATTTAAAATAAATAAAATATG
1 AAACAATTT-AAATAAATAAAATATA
** * * *
103313355 AAATGATTCAGAATAAACAATATAT-
1 AAACAATTTA-AATAAATAAAATATA
*
103313380 ATA-AATTCTAACATAAATAAAATATA
1 AAACAATT-TAA-ATAAATAAAATATA
**
103313406 AAACAATTTGAAATAAATAATTTATA
1 AAACAATTT-AAATAAATAAAATATA
*
103313432 AAGCAATTTAAAGTAAAT--AATATA
1 AAACAATTTAAA-TAAATAAAATATA
* *
103313456 AAATAATTT-AA-AAATAATAATACA
1 AAACAATTTAAATAAATAA-AATATA
* *
103313480 AAACAGATTAAAATAAATAATATGATA
1 AAACA-ATTTAAATAAATAAAAT-ATA
103313507 AAACAA
1 AAACAA
103313513 ATACTATATG
Statistics
Matches: 162, Mismatches: 28, Indels: 34
0.72 0.12 0.15
Matches are distributed among these distances:
21 4 0.02
23 6 0.04
24 32 0.20
25 53 0.33
26 48 0.30
27 19 0.12
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.28
Consensus pattern (25 bp):
AAACAATTTAAATAAATAAAATATA
Found at i:103313699 original size:50 final size:50
Alignment explanation
Indices: 103313645--103313781 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 50
103313635 ACCTAAAATG
*
103313645 ATAAAATAAACAAGTTTAATATAAATAATATATGAGATATTTAAAAATAA
1 ATAAAATAAACAAGTTTAATATAAATAATATATGAGATATTTAAAAAGAA
* * * *
103313695 ATAAAATAAATAAGCTTAATACAATTAATATATGAGATATTTAAAAAGAA
1 ATAAAATAAACAAGTTTAATATAAATAATATATGAGATATTTAAAAAGAA
* *
103313745 ATAAAATAAATGAA-TTTAATATAAATAATATCTGAGA
1 ATAAAATAAA-CAAGTTTAATATAAATAATATATGAGA
103313782 AAGAAAATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 74 0.97
51 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (50 bp):
ATAAAATAAACAAGTTTAATATAAATAATATATGAGATATTTAAAAAGAA
Found at i:103315910 original size:5 final size:5
Alignment explanation
Indices: 103315900--103315926 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
103315890 TATGCCAACC
103315900 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
103315927 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:103317098 original size:21 final size:22
Alignment explanation
Indices: 103317056--103317098 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
103317046 CGCCTATACA
*
103317056 ATATAAAAATAATTAATTTTTT
1 ATATAAAAATAATTAATATTTT
* *
103317078 ATATAATAA-AATTACTATTTT
1 ATATAAAAATAATTAATATTTT
103317099 CATTTATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATAAAAATAATTAATATTTT
Found at i:103320966 original size:56 final size:54
Alignment explanation
Indices: 103320855--103320967 Score: 122
Period size: 56 Copynumber: 2.0 Consensus size: 54
103320845 TTAATTCATA
* *
103320855 TAATAATAATTATATTAAAAATGTTATTAAATTATATTTTTTTAGTAACTTATATT
1 TAATAATAATTATATTAAAAATG-TATTAAATTATATTTTTTTAATAAC-AATATT
* *
103320911 TAATAATAATTATGTTAAAATATG-GTTAAATTATTTATTATTTTTAATAA-AATATT
1 TAATAATAATTATATTAAAA-ATGTATTAAATTA--TATT-TTTTTAATAACAATATT
103320967 T
1 T
103320968 TTTACAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
55 8 0.16
56 25 0.51
57 7 0.14
58 9 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (54 bp):
TAATAATAATTATATTAAAAATGTATTAAATTATATTTTTTTAATAACAATATT
Found at i:103321171 original size:46 final size:44
Alignment explanation
Indices: 103321081--103321173 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
103321071 TATCACATCT
103321081 ATTCCATTCAACTAAACATAAGAATTCTATTACAGCTCTATTCC
1 ATTCCATTCAACTAAACATAAGAATTCTATTACAGCTCTATTCC
*
103321125 ATTCCATTCAACTAAACAATTA-AATTACTTATTACAGCTCTATTCC
1 ATTCCATTCAACTAAAC-ATAAGAATT-C-TATTACAGCTCTATTCC
103321171 ATT
1 ATT
103321174 ATAACTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 21 0.47
45 4 0.09
46 20 0.44
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (44 bp):
ATTCCATTCAACTAAACATAAGAATTCTATTACAGCTCTATTCC
Found at i:103336454 original size:20 final size:21
Alignment explanation
Indices: 103336431--103336476 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
103336421 GAAAGGAGAA
103336431 AAAC-GCAGTAGAAATAACCG
1 AAACAGCAGTAGAAATAACCG
*
103336451 AAACAATGCAGTAGAAATAACTG
1 AAAC-A-GCAGTAGAAATAACCG
103336474 AAA
1 AAA
103336477 TAATTTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
23 18 0.82
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.13
Consensus pattern (21 bp):
AAACAGCAGTAGAAATAACCG
Found at i:103350273 original size:25 final size:25
Alignment explanation
Indices: 103350226--103350274 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
103350216 AATTTTATGA
*
103350226 AAATTTTTATTTACTATATTATTTG
1 AAATTTTTATTTACTAGATTATTTG
*
103350251 AAATTTTTA-TTATTAGATATATTT
1 AAATTTTTATTTACTAGAT-TATTT
103350275 ATAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
AAATTTTTATTTACTAGATTATTTG
Found at i:103352429 original size:20 final size:19
Alignment explanation
Indices: 103352376--103352433 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
103352366 ATCATATGAG
* *
103352376 ACTGTTTTATTATGGGCCA
1 ACTGTATTAATATGGGCCA
103352395 ACTGTATTGAA-ATGGGCCCA
1 ACTGTATT-AATATGGG-CCA
*
103352415 ACTGTGTTAATAT-GGCCA
1 ACTGTATTAATATGGGCCA
103352433 A
1 A
103352434 GGCCCAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.12
19 16 0.48
20 13 0.39
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (19 bp):
ACTGTATTAATATGGGCCA
Found at i:103353704 original size:24 final size:24
Alignment explanation
Indices: 103353653--103353698 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
103353643 TTTCTAGAAG
* *
103353653 ATTTAGTATTTACTAGTATAATAA
1 ATTTAGCATTTACTAGCATAATAA
*
103353677 ATTTAGCATTTATTAGCATAAT
1 ATTTAGCATTTACTAGCATAAT
103353699 TTATTTGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (24 bp):
ATTTAGCATTTACTAGCATAATAA
Found at i:103360904 original size:52 final size:52
Alignment explanation
Indices: 103360786--103360988 Score: 200
Period size: 52 Copynumber: 3.9 Consensus size: 52
103360776 CATATCATAG
* * *
103360786 CGATGCCATATCCCAGATATGGTCTTATAC-GGAAGCACATTATCAC-AT-CATAC
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAG-ACA-TATCACAATGC--AC
* * * * *
103360839 CAATGTCATAGCCCAGCCATGGTTTTATA-GGGGAGTACATATCACAATGCAC
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAG-ACATATCACAATGCAC
**
103360891 CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAGACATATCACAATTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAGACATATCACAATGCAC
* * *
103360943 CGATTCCATAGCCCAACTATGGTCTTATACAGGC-GCACATATCACA
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAG-ACATATCACA
103360989 TTTATCCCGT
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
51 1 0.01
52 88 0.69
53 37 0.29
54 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (52 bp):
CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAGACATATCACAATGCAC
Found at i:103360983 original size:104 final size:105
Alignment explanation
Indices: 103360786--103360988 Score: 243
Period size: 104 Copynumber: 1.9 Consensus size: 105
103360776 CATATCATAG
*
103360786 CGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATTATCACATCATACCAATGTCATAGC
1 CGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATTATCACATCATACCAATGTCATAGC
* * ** *
103360851 CCAGCCATGGTTTTATAGGGGAGTACATATCACAATGCAC
66 CCAACCATGGTCTTATACAGGAGCACATATCACAATGCAC
* * * *
103360891 CGATGCCATAGCCCAGCTATGGTCTTATACGGGCAG-ACA-TATCACAAT-TTACCGAT-TCCAT
1 CGATGCCATAGCCCAGATATGGTCTTATAC-GGAAGCACATTATCAC-ATCATACCAATGT-CAT
* *
103360952 AGCCCAACTATGGTCTTATACAGGCGCACATATCACA
63 AGCCCAACCATGGTCTTATACAGGAGCACATATCACA
103360989 TTTATCCCGT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
103 1 0.01
104 45 0.54
105 33 0.40
106 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (105 bp):
CGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATTATCACATCATACCAATGTCATAGC
CCAACCATGGTCTTATACAGGAGCACATATCACAATGCAC
Found at i:103364455 original size:22 final size:22
Alignment explanation
Indices: 103364415--103364477 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
103364405 ATTATGGCCT
* *
103364415 AATTTCCATTTTAAACCTTGAAA
1 AATTTCTA-TTTAAGCCTTGAAA
103364438 AATTTCTATTTAAGCCTTGAAA
1 AATTTCTATTTAAGCCTTGAAA
103364460 AATTTCTATTTAAGCCTT
1 AATTTCTATTTAAGCCTT
103364478 TTAACTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 31 0.82
23 7 0.18
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (22 bp):
AATTTCTATTTAAGCCTTGAAA
Found at i:103365025 original size:29 final size:26
Alignment explanation
Indices: 103364973--103365026 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
103364963 CTATTAATTA
* *
103364973 AATAATAAAATATCTTATATTAAAAT
1 AATAATAAAATATCTTACAATAAAAT
103364999 AATAATAAAATAATCTTAACCAATAAAA
1 AATAATAAAAT-ATCTT-A-CAATAAAA
103365027 ATCTAACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 5 0.22
28 1 0.04
29 6 0.26
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (26 bp):
AATAATAAAATATCTTACAATAAAAT
Found at i:103365711 original size:13 final size:13
Alignment explanation
Indices: 103365693--103365730 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
103365683 TTTGGCAATG
103365693 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
103365706 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
103365719 CTTTTGAAAAGT
1 CTTTTGAAAAGT
103365731 TTGGTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:103366808 original size:19 final size:20
Alignment explanation
Indices: 103366764--103366814 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
103366754 ATTAATTATT
103366764 TATAAAATATAATTTAAATA
1 TATAAAATATAATTTAAATA
* * *
103366784 TATAAACTATATTTTAGATA
1 TATAAAATATAATTTAAATA
*
103366804 T-TAAAGTATAA
1 TATAAAATATAA
103366815 CCAATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:103369608 original size:28 final size:29
Alignment explanation
Indices: 103369559--103369621 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
103369549 AATCTTCTAG
*
103369559 AAATTTAATATTTTTATTTTAATATTTTA
1 AAATTTAATATTTTAATTTTAATATTTTA
*
103369588 AAATTTAA-A-TTTAATTATTAATTTTTTA
1 AAATTTAATATTTTAATT-TTAATATTTTA
103369616 AAATTT
1 AAATTT
103369622 TTTTTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 6 0.19
28 17 0.55
29 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
AAATTTAATATTTTAATTTTAATATTTTA
Found at i:103371839 original size:100 final size:100
Alignment explanation
Indices: 103371651--103371842 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 100
103371641 ATTGAACATT
*
103371651 AACATCATTTACAGTCTAGAGCAATTAGTTTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
1 AACATCATTTACAGTCTAGAACAATTAGTTTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
* * *
103371716 AGCTGAAAACTTAAATGGGGATTTAAATTGTGATC
66 AGATGAAAACTCAAATGGAGATTTAAATTGTGATC
* ** ** *
103371751 AACATCATTTTCAGTCTTTAACAATTAGTTTGAATGCCTTTAATATTTAAAATTCTACCTTTTTG
1 AACATCATTTACAGTCTAGAACAATTAGTTTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
* *
103371816 AGATGACAACTCAATTGGAGATTTAAA
66 AGATGAAAACTCAAATGGAGATTTAAA
103371843 GTGCAATCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (100 bp):
AACATCATTTACAGTCTAGAACAATTAGTTTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
AGATGAAAACTCAAATGGAGATTTAAATTGTGATC
Found at i:103374660 original size:41 final size:41
Alignment explanation
Indices: 103374614--103374695 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
103374604 GCATTACAAT
*
103374614 TGAAATGTGGTTATTTTATCAATTATATTAATCTTTAACAG
1 TGAAATGTGGTTATTTTATCAATTATATCAATCTTTAACAG
103374655 TGAAATGTGGTTATTTTATCAATTATATCAATCTTTAACAG
1 TGAAATGTGGTTATTTTATCAATTATATCAATCTTTAACAG
103374696 AAAAATTGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (41 bp):
TGAAATGTGGTTATTTTATCAATTATATCAATCTTTAACAG
Found at i:103379238 original size:47 final size:47
Alignment explanation
Indices: 103379129--103379239 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
103379119 CCGGGATAAG
* *
103379129 CACATAGTGCTTCATCGGAACAAATTCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
103379176 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
103379223 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
103379240 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:103383067 original size:18 final size:19
Alignment explanation
Indices: 103383036--103383073 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
103383026 TACTTTCAAT
103383036 AAATAAATATATAAA-TAA
1 AAATAAATATATAAACTAA
103383054 AAATAAAT-TAATAAACTAA
1 AAATAAATAT-ATAAACTAA
103383073 A
1 A
103383074 CTCAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 13 0.72
19 4 0.22
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATATATAAACTAA
Found at i:103385965 original size:31 final size:31
Alignment explanation
Indices: 103385907--103385965 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
103385897 TAAATATTTC
**
103385907 TTAAATGTGTAGTTTGAATTCTTTGTTGCAG
1 TTAAATGTGTAGTTTGAATTCAGTGTTGCAG
*
103385938 TTAACTGTGTAGTTTGAATTCAGTGTTG
1 TTAAATGTGTAGTTTGAATTCAGTGTTG
103385966 TTTTATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (31 bp):
TTAAATGTGTAGTTTGAATTCAGTGTTGCAG
Found at i:103391113 original size:36 final size:35
Alignment explanation
Indices: 103391041--103391110 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
103391031 AATAGACCGG
*
103391041 TAATTATAATTTAATTTACAATTATTAATTAAAAA
1 TAATTATAATTTAATTTACAATTATTAATAAAAAA
*
103391076 TAATTATGATTTAATTTTGAC-ATTATT-ATAAAAAA
1 TAATTATAATTTAA-TTT-ACAATTATTAATAAAAAA
103391111 ATATTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 20 0.65
36 9 0.29
37 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (35 bp):
TAATTATAATTTAATTTACAATTATTAATAAAAAA
Found at i:103398985 original size:23 final size:23
Alignment explanation
Indices: 103398939--103399000 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
103398929 AAATTTTAAG
* *
103398939 TTAAAAATAATT-AAA-GTATTT
1 TTAAAAAGAATTAAAACATATTT
103398960 TTAAAAAGAATTAAAACATATTT
1 TTAAAAAGAATTAAAACATATTT
103398983 TTAAAAAGAATTAAAACA
1 TTAAAAAGAATTAAAACA
103399001 AAGGCTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.30
22 3 0.08
23 23 0.62
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (23 bp):
TTAAAAAGAATTAAAACATATTT
Found at i:103399009 original size:23 final size:23
Alignment explanation
Indices: 103398960--103399009 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
103398950 TAAAGTATTT
* ***
103398960 TTAAAAAGAATTAAAACATATTT
1 TTAAAAAGAATTAAAACAAAGGC
103398983 TTAAAAAGAATTAAAACAAAGGC
1 TTAAAAAGAATTAAAACAAAGGC
103399006 TTAA
1 TTAA
103399010 TGATAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (23 bp):
TTAAAAAGAATTAAAACAAAGGC
Found at i:103400233 original size:12 final size:13
Alignment explanation
Indices: 103400210--103400244 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
103400200 AATACGTTAT
*
103400210 TTATTGAATAATA
1 TTATTAAATAATA
103400223 TTA-TAAATAATA
1 TTATTAAATAATA
103400235 TTATTAAATA
1 TTATTAAATA
103400245 TTGATAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
TTATTAAATAATA
Found at i:103402746 original size:17 final size:16
Alignment explanation
Indices: 103402721--103402775 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
103402711 ATAGCTTAAG
103402721 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
103402739 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
*
103402754 AAAAATAA-ATAAACTT
1 -AAAATAATATAAAATT
103402770 AAAATA
1 AAAATA
103402776 GAATTTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 5 0.16
18 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:103406227 original size:16 final size:17
Alignment explanation
Indices: 103406187--103406227 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
103406177 ACAAACTTTC
103406187 TTTTTATTATATTGAAT
1 TTTTTATTATATTGAAT
103406204 TTTGTTATT-T-TTGAAT
1 TTT-TTATTATATTGAAT
103406220 ATTTTTAT
1 -TTTTTAT
103406228 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.45
17 7 0.32
18 5 0.23
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (17 bp):
TTTTTATTATATTGAAT
Found at i:103412637 original size:35 final size:35
Alignment explanation
Indices: 103412591--103412659 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
103412581 GTTCACATTC
103412591 TGTGAACCCATAAAGGGCCTCAAAACCCCAACCAA
1 TGTGAACCCATAAAGGGCCTCAAAACCCCAACCAA
103412626 TGTGAACCCATAAAGGGCCTCAAAACCCCAACCA
1 TGTGAACCCATAAAGGGCCTCAAAACCCCAACCA
103412660 GAATTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.35, G:0.14, T:0.12
Consensus pattern (35 bp):
TGTGAACCCATAAAGGGCCTCAAAACCCCAACCAA
Found at i:103418866 original size:19 final size:19
Alignment explanation
Indices: 103418829--103418867 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
103418819 ATTAACAACA
* *
103418829 AAATAATAACATAATAGTG
1 AAATAATAACAAAACAGTG
*
103418848 AAATAGTAACAAAACAGTG
1 AAATAATAACAAAACAGTG
103418867 A
1 A
103418868 CAAAAAAGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (19 bp):
AAATAATAACAAAACAGTG
Found at i:103424554 original size:25 final size:24
Alignment explanation
Indices: 103424526--103424572 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
103424516 ATTTATTTTA
*
103424526 ATATTTTTAGTATTTTTGATATATT
1 ATATTTTTA-AATTTTTGATATATT
*
103424551 ATATTTTTAAATTTTTTATATA
1 ATATTTTTAAATTTTTGATATA
103424573 AAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (24 bp):
ATATTTTTAAATTTTTGATATATT
Found at i:103434997 original size:54 final size:53
Alignment explanation
Indices: 103434933--103435103 Score: 249
Period size: 54 Copynumber: 3.2 Consensus size: 53
103434923 CCATGGCAAC
103434933 AAGTGATAAGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
1 AAGTGATAAGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* **
103434986 TAAGTGATAAGTGATTTCCGTATAAGACCATAGCT-GGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* *
103435039 AAGTGATACAAGTGA--TCCATATAAGACCATAGCTGGGCTATGGCATCGGAGAA
1 AAGTGAT--AAGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
103435092 AAGTGATAAGTG
1 AAGTGATAAGTG
103435104 CTCCAATGTA
Statistics
Matches: 107, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
51 5 0.05
52 25 0.23
53 37 0.35
54 40 0.37
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (53 bp):
AAGTGATAAGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
Found at i:103435078 original size:53 final size:53
Alignment explanation
Indices: 103434933--103435139 Score: 219
Period size: 52 Copynumber: 3.9 Consensus size: 53
103434923 CCATGGCAAC
*
103434933 AAGTGAT-AAGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
1 AAGTGATAAAGTGA-TTCCATATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * **
103434986 TAAGTGAT-AAGTGATTTCCGTATAAGACCATAGCT-GGCTATGGCTTCGGATTA
1 -AAGTGATAAAGTGA-TTCCATATAAGACCATAGCTGGGCTATGGCATCGGAAAA
*
103435039 AAGTGATACAAGTGA-TCCATATAAGACCATAGCTGGGCTATGGCATCGGAGAA
1 AAGTGATA-AAGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * ** *
103435092 AAGTGAT-AAGTG-CTCCAATGTAAAACCATATATGGGATATGGCATCGG
1 AAGTGATAAAGTGATTCC-ATATAAGACCATAGCTGGGCTATGGCATCGG
103435140 TATGATATAT
Statistics
Matches: 136, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
51 8 0.06
52 51 0.38
53 37 0.27
54 40 0.29
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (53 bp):
AAGTGATAAAGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGAAAA
Found at i:103437053 original size:16 final size:17
Alignment explanation
Indices: 103437022--103437055 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
103437012 AGAAATGAGC
103437022 AAATGCAAGGGAAAAGA
1 AAATGCAAGGGAAAAGA
*
103437039 AAATGCAA-TGAAAAGA
1 AAATGCAAGGGAAAAGA
103437055 A
1 A
103437056 TTAGAGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.62, C:0.06, G:0.24, T:0.09
Consensus pattern (17 bp):
AAATGCAAGGGAAAAGA
Found at i:103438986 original size:132 final size:132
Alignment explanation
Indices: 103438749--103439016 Score: 509
Period size: 132 Copynumber: 2.0 Consensus size: 132
103438739 ATAATATTTA
*
103438749 TGTAGTGGTACCAATGTGTGATAAATTTTGCTATGTTATATGTCCATGTAGTGTAAGCATATATA
1 TGTAGTGGTACCAATGTGTAATAAATTTTGCTATGTTATATGTCCATGTAGTGTAAGCATATATA
103438814 TAACTAAACTAGGTCACATGGGTATGTGGTTGAATGAGCACTAAATGACATATAGATTATGAGCT
66 TAACTAAACTAGGTCACATGGGTATGTGGTTGAATGAGCACTAAATGACATATAGATTATGAGCT
103438879 AT
131 AT
*
103438881 TGTAGTGGTACCAATGTGTAATAGATTTTGCTATGTTATATGTCCATGTAGTGTAAGCATATATA
1 TGTAGTGGTACCAATGTGTAATAAATTTTGCTATGTTATATGTCCATGTAGTGTAAGCATATATA
*
103438946 TAACTAAACTAGGTCACATGGGTATGTGGTTGAATGAGCACTAAATGGCATATAGATTATGAGCT
66 TAACTAAACTAGGTCACATGGGTATGTGGTTGAATGAGCACTAAATGACATATAGATTATGAGCT
103439011 AT
131 AT
103439013 TGTA
1 TGTA
103439017 TGCCAGAGAG
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.35
Consensus pattern (132 bp):
TGTAGTGGTACCAATGTGTAATAAATTTTGCTATGTTATATGTCCATGTAGTGTAAGCATATATA
TAACTAAACTAGGTCACATGGGTATGTGGTTGAATGAGCACTAAATGACATATAGATTATGAGCT
AT
Found at i:103450934 original size:2 final size:2
Alignment explanation
Indices: 103450927--103450955 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
103450917 TTGAATATTC
103450927 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
103450956 AGGATGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:103451201 original size:29 final size:29
Alignment explanation
Indices: 103451158--103451219 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
103451148 ATATTATAAT
* * *
103451158 TTTTTAATAATTAAATTAAAATTTAATTA
1 TTTTTAAGAAATAAAGTAAAATTTAATTA
* **
103451187 TTTTTAAGAAATAAAGTATAATTTTTTTA
1 TTTTTAAGAAATAAAGTAAAATTTAATTA
103451216 TTTT
1 TTTT
103451220 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
TTTTTAAGAAATAAAGTAAAATTTAATTA
Found at i:103453004 original size:19 final size:21
Alignment explanation
Indices: 103452967--103453025 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 21
103452957 AAGTTGAACG
*
103452967 GAAAAAAGAAGATAGGGAGAA
1 GAAAAAAGAAGATAAGGAGAA
103452988 GAAAAAA-AAGA-AAGGAGAA
1 GAAAAAAGAAGATAAGGAGAA
*
103453007 GAAAACAATGAGGATAAGG
1 GAAAA-AA-GAAGATAAGG
103453026 TATTTTAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.38
20 6 0.19
21 7 0.22
22 3 0.09
23 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.31, T:0.05
Consensus pattern (21 bp):
GAAAAAAGAAGATAAGGAGAA
Found at i:103456895 original size:3 final size:3
Alignment explanation
Indices: 103456889--103456957 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
103456879 AACATTTTTT
* * * * * *
103456889 TTC TTC TTTC TCC TCC TTC TCC TTC TTA TGC TTC TTC TTT TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
103456935 TTC TTC TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC T-TC TT
103456958 TGCTGCTGCA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:103461553 original size:9 final size:8
Alignment explanation
Indices: 103461540--103461578 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
103461530 TTCCACCCTG
103461540 AAAAAGAA
1 AAAAAGAA
103461548 GAAAAA-AA
1 -AAAAAGAA
103461556 AAAAAGAA
1 AAAAAGAA
103461564 AGAAAAGAA
1 A-AAAAGAA
103461573 AAAAAG
1 AAAAAG
103461579 CTGCTTCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.18
8 10 0.36
9 13 0.46
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:103461561 original size:16 final size:17
Alignment explanation
Indices: 103461540--103461578 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
103461530 TTCCACCCTG
103461540 AAAAAG-AAGAAAAAAA
1 AAAAAGAAAGAAAAAAA
*
103461556 AAAAAGAAAGAAAAGAA
1 AAAAAGAAAGAAAAAAA
103461573 AAAAAG
1 AAAAAG
103461579 CTGCTTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAAA
Found at i:103476525 original size:18 final size:16
Alignment explanation
Indices: 103476504--103476538 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
103476494 TAAATTTTAA
103476504 TAACATAACAATATCATT
1 TAACATAA-AATAT-ATT
103476522 TAACATAAAATATATT
1 TAACATAAAATATATT
103476538 T
1 T
103476539 GTTAAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
TAACATAAAATATATT
Found at i:103489742 original size:30 final size:30
Alignment explanation
Indices: 103489708--103489765 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
103489698 GTGTTTAGAA
103489708 AATC-ATAGAAGAATGTTTAAGTAAAGAAAT
1 AATCAATAG-AGAATGTTTAAGTAAAGAAAT
* *
103489738 AATCAATAGAGGATGTTTAATTAAAGAA
1 AATCAATAGAGAATGTTTAAGTAAAGAA
103489766 TAAAAAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.03, G:0.17, T:0.28
Consensus pattern (30 bp):
AATCAATAGAGAATGTTTAAGTAAAGAAAT
Found at i:103491937 original size:125 final size:125
Alignment explanation
Indices: 103491715--103491964 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
103491705 NNNNNNNNNN
103491715 TAGGTGGATTCTGGAATATGCAACACTGTGCAGATTTTAGGCTGAATGAATTATCTCGGACATCG
1 TAGGTGGATTCTGGAATATGCAACACTGTGCAGATTTTAGGCTGAATGAATTATCTCGGACATCG
103491780 CGGCTAAGCGTCCAGCGAGATTATACAGAATCCAGACTGGAAGAGGAATACCTGACCCAT
66 CGGCTAAGCGTCCAGCGAGATTATACAGAATCCAGACTGGAAGAGGAATACCTGACCCAT
103491840 TAGGTGGATTCTGGAATATGCAACACTGTGCAGATTTTAGGCTGAATGAATTATCTCGGACATCG
1 TAGGTGGATTCTGGAATATGCAACACTGTGCAGATTTTAGGCTGAATGAATTATCTCGGACATCG
103491905 CGGCTAAGCGTCCAGCGAGATTATACAGAATCCAGACTGGAAGAGGAATACCTGACCCAT
66 CGGCTAAGCGTCCAGCGAGATTATACAGAATCCAGACTGGAAGAGGAATACCTGACCCAT
103491965 AAATTTCAAA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (125 bp):
TAGGTGGATTCTGGAATATGCAACACTGTGCAGATTTTAGGCTGAATGAATTATCTCGGACATCG
CGGCTAAGCGTCCAGCGAGATTATACAGAATCCAGACTGGAAGAGGAATACCTGACCCAT
Found at i:103502778 original size:28 final size:29
Alignment explanation
Indices: 103502713--103502785 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
103502703 TCATTTAATG
103502713 TAAGTAT-TAATTTGGACAAAAAAAACAAGTT
1 TAAGTATCTAA-TTGGACAAAAAAAAC-A-TT
*
103502744 TAAGTATCTAATTGGACAAAATAAAC-TT
1 TAAGTATCTAATTGGACAAAAAAAACATT
* *
103502772 TAGGTATCAAATTG
1 TAAGTATCTAATTG
103502786 AATCATAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 14 0.37
31 21 0.55
32 3 0.08
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (29 bp):
TAAGTATCTAATTGGACAAAAAAAACATT
Found at i:103506041 original size:31 final size:31
Alignment explanation
Indices: 103506003--103506071 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
103505993 AAGTGTTTAT
103506003 GAAATAATCATAGAGAGATGTTTAAGTAAAA
1 GAAATAATCATAGAGAGATGTTTAAGTAAAA
*
103506034 GAAATAATCATAGAGAGATGTTTAATTAAAA
1 GAAATAATCATAGAGAGATGTTTAAGTAAAA
103506065 GAAATAA
1 GAAATAA
103506072 AAAAAGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.26
Consensus pattern (31 bp):
GAAATAATCATAGAGAGATGTTTAAGTAAAA
Found at i:103506281 original size:8 final size:8
Alignment explanation
Indices: 103506268--103506303 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
103506258 AAAAATATTT
103506268 ATATTATA
1 ATATTATA
103506276 ATATTATA
1 ATATTATA
103506284 ATATTTTATA
1 ATA--TTATA
103506294 ATATTATA
1 ATATTATA
103506302 AT
1 AT
103506304 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATATTATA
Found at i:103506308 original size:18 final size:18
Alignment explanation
Indices: 103506271--103506328 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
103506261 AATATTTATA
*
103506271 TTATAATATTATAATATT
1 TTATAATATTATAATTTT
103506289 TTATAATATTATAATTTT
1 TTATAATATTATAATTTT
*
103506307 TT-TATTTATTA-AATTTT
1 TTATA-ATATTATAATTTT
103506324 TTATA
1 TTATA
103506329 CAGTATCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.28
18 26 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATAATATTATAATTTT
Found at i:103510308 original size:58 final size:59
Alignment explanation
Indices: 103510206--103510319 Score: 153
Period size: 58 Copynumber: 1.9 Consensus size: 59
103510196 TGGTGATCAT
* * *
103510206 TTTGTAACTTTTTATAGTTAGGTGTCTTAAAAAGAAATTTACTAATAATTGAGTGACTA
1 TTTGTAACTTTTTATAATTAGATGACTTAAAAAGAAATTTACTAATAATTGAGTGACTA
*
103510265 TTTGTAACTTTTTATAATT-GAATGAC-TAAAAACG-AATTTACTAATAGTTGAGTGA
1 TTTGTAACTTTTTATAATTAG-ATGACTTAAAAA-GAAATTTACTAATAATTGAGTGA
103510320 TTACTAGTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 27 0.55
59 22 0.45
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (59 bp):
TTTGTAACTTTTTATAATTAGATGACTTAAAAAGAAATTTACTAATAATTGAGTGACTA
Found at i:103515118 original size:22 final size:22
Alignment explanation
Indices: 103515093--103515149 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
103515083 ATATTCAAAC
103515093 AATAACAACAAAATAATAATG-A
1 AATAACAACAAAATAATAA-GAA
* *
103515115 AATAGCAACAAAATTATAAGAA
1 AATAACAACAAAATAATAAGAA
*
103515137 AACAACAACAAAA
1 AATAACAACAAAA
103515150 AAAGCAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.14
Consensus pattern (22 bp):
AATAACAACAAAATAATAAGAA
Found at i:103523962 original size:16 final size:16
Alignment explanation
Indices: 103523941--103523974 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
103523931 TGCATATTTA
*
103523941 ATCATTTATATAATAT
1 ATCATTTACATAATAT
*
103523957 ATCATTTACATATTAT
1 ATCATTTACATAATAT
103523973 AT
1 AT
103523975 TTATTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
ATCATTTACATAATAT
Found at i:103527619 original size:60 final size:58
Alignment explanation
Indices: 103527486--103527638 Score: 175
Period size: 60 Copynumber: 2.6 Consensus size: 58
103527476 ATACATTTTT
* * *
103527486 GGTACCTAAACTTGGCTTCAAGGTTCAAATTGGTACCAAGGCTTTTTTGGTCCAATTA
1 GGTACCTGAACTTGGCTTTAAGGTTCAAATTGGTACCAAAGCTTTTTTGGTCCAATTA
* * * * *
103527544 AGTTCTTGAACTTGGCTTTAAGGTTCAATTTGGTACCTAAAG-TTTAGTTTTGTCCAATTA
1 GGTACCTGAACTTGGCTTTAAGGTTCAAATTGGTACC-AAAGCTTT--TTTGGTCCAATTA
*
103527604 GGTACCTGAACTTGGCTTCTTA-GTTCAAATTGGTA
1 GGTACCTGAACTTGGCTT-TAAGGTTCAAATTGGTA
103527639 GCTGAAATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
58 34 0.44
59 3 0.04
60 39 0.50
61 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (58 bp):
GGTACCTGAACTTGGCTTTAAGGTTCAAATTGGTACCAAAGCTTTTTTGGTCCAATTA
Found at i:103527664 original size:31 final size:31
Alignment explanation
Indices: 103527591--103527667 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
103527581 TAAAGTTTAG
* *
103527591 TTTTGTCCAATTAGGTACCTGAACTTGGCTT
1 TTTTGTCAAATTAGGTACCTGAAATTGGCTT
* * *
103527622 CTTAGTTCAAATT-GGTAGCTGAAATTGGCTT
1 TTTTG-TCAAATTAGGTACCTGAAATTGGCTT
103527653 TTTTGTGCAAATTAG
1 TTTTGT-CAAATTAG
103527668 TACTTACAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
30 1 0.03
31 28 0.78
32 7 0.19
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (31 bp):
TTTTGTCAAATTAGGTACCTGAAATTGGCTT
Found at i:103532831 original size:13 final size:12
Alignment explanation
Indices: 103532808--103532835 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
103532798 GCGATTGAAG
103532808 TTTTCTTTTTTT
1 TTTTCTTTTTTT
103532820 TTTTCTTTTTTT
1 TTTTCTTTTTTT
103532832 TTTT
1 TTTT
103532836 GTAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:103542511 original size:12 final size:12
Alignment explanation
Indices: 103542494--103542519 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
103542484 TTAATTTGGT
103542494 TCTACCACGTTA
1 TCTACCACGTTA
103542506 TCTACCACGTTA
1 TCTACCACGTTA
103542518 TC
1 TC
103542520 AGAAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.08, T:0.35
Consensus pattern (12 bp):
TCTACCACGTTA
Found at i:103568122 original size:23 final size:22
Alignment explanation
Indices: 103568092--103568136 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
103568082 AATCAAGTTG
103568092 TTTTGATTTATTCGATTCAATT
1 TTTTGATTTATTCGATTCAATT
*
103568114 TTTTAGATTTATTCGATTTAATT
1 TTTT-GATTTATTCGATTCAATT
103568137 AATATCTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (22 bp):
TTTTGATTTATTCGATTCAATT
Found at i:103569645 original size:14 final size:15
Alignment explanation
Indices: 103569621--103569657 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
103569611 CATGAGATGC
103569621 TTTTGTTGTTTTTTG
1 TTTTGTTGTTTTTTG
103569636 TTTT-TTGTTTTTTG
1 TTTTGTTGTTTTTTG
*
103569650 ATTTGTTG
1 TTTTGTTG
103569658 AATGATGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.03, C:0.00, G:0.19, T:0.78
Consensus pattern (15 bp):
TTTTGTTGTTTTTTG
Found at i:103569996 original size:29 final size:28
Alignment explanation
Indices: 103569954--103570026 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
103569944 TATAGAAATA
103569954 AATTTTA-A-AATTATAT-ATAAATTTT
1 AATTTTATACAATTATATAATAAATTTT
103569979 AATTTAATATACAATTATATACATAAATTTT
1 AATTT--TATACAATTATATA-ATAAATTTT
*
103570010 AATTTTGTACAATTATA
1 AATTTTATACAATTATA
103570027 CACGTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 5 0.12
27 2 0.05
28 1 0.02
29 19 0.46
31 14 0.34
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (28 bp):
AATTTTATACAATTATATAATAAATTTT
Found at i:103570034 original size:29 final size:30
Alignment explanation
Indices: 103569970--103570043 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
103569960 AAAATTATAT
*
103569970 ATAAATTTTAATTTAATATACAATTATATAC
1 ATAAATTTTAATTT-ATATACAATTATACAC
*
103570001 ATAAATTTTAATTT-TGTACAATTATACAC
1 ATAAATTTTAATTTATATACAATTATACAC
* *
103570030 GTAAAATTCTAATT
1 AT-AAATTTTAATT
103570044 AATTCTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 14 0.37
30 10 0.26
31 14 0.37
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (30 bp):
ATAAATTTTAATTTATATACAATTATACAC
Found at i:103571444 original size:17 final size:19
Alignment explanation
Indices: 103571424--103571461 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103571414 TTTATAAATA
103571424 TTTGTT-ATA-TATTATTT
1 TTTGTTAATAGTATTATTT
*
103571441 TTTGTTAATAGTCTTATTT
1 TTTGTTAATAGTATTATTT
103571460 TT
1 TT
103571462 AATCTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (19 bp):
TTTGTTAATAGTATTATTT
Found at i:103574623 original size:16 final size:15
Alignment explanation
Indices: 103574583--103574624 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
103574573 TGAAAAATTT
*
103574583 AGTACTGAATTTTTA
1 AGTACTAAATTTTTA
*
103574598 A-TATTAAATTTTATA
1 AGTACTAAATTTT-TA
103574613 AGTACTAAATTT
1 AGTACTAAATTT
103574625 ATATTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 9 0.41
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (15 bp):
AGTACTAAATTTTTA
Found at i:103580102 original size:20 final size:19
Alignment explanation
Indices: 103580073--103580118 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
103580063 CACAAAATAA
103580073 TTTCTAGAAAATGATTTACT
1 TTTCTAG-AAATGATTTACT
*
103580093 TTTCTGGAAATGATTTACT
1 TTTCTAGAAATGATTTACT
103580112 TTTCTAG
1 TTTCTAG
103580119 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTCTAGAAATGATTTACT
Found at i:103581683 original size:43 final size:43
Alignment explanation
Indices: 103581618--103581702 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
103581608 ATGATATATA
* *
103581618 TTTTTCAATAATTTAATATCACATCAGTAATTTTATCTTAAAC
1 TTTTTCAATAATTCAATATCACATCAGTAATTTCATCTTAAAC
* *
103581661 TTTTTCAATAGTTCAATGTCACATCAGTAATTTCATCTTAAA
1 TTTTTCAATAATTCAATATCACATCAGTAATTTCATCTTAAA
103581703 TTTCAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (43 bp):
TTTTTCAATAATTCAATATCACATCAGTAATTTCATCTTAAAC
Found at i:103582321 original size:21 final size:21
Alignment explanation
Indices: 103582295--103582334 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
103582285 CAAAACAACG
*
103582295 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
103582316 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
103582335 TAGAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:103588265 original size:93 final size:93
Alignment explanation
Indices: 103588158--103588328 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
103588148 GCCCCTAAGT
* *
103588158 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
103588223 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
103588251 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
103588316 CGAGTTCGGATGC
66 CGAGTTCGGATGC
103588329 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:103588325 original size:46 final size:46
Alignment explanation
Indices: 103588153--103588325 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
103588143 AACCCGCCCC
* * *
103588153 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
103588199 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
103588247 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
103588292 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
103588326 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:103588782 original size:30 final size:30
Alignment explanation
Indices: 103588748--103588807 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
103588738 ATTTAATACG
103588748 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
103588778 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
103588808 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:103595773 original size:29 final size:29
Alignment explanation
Indices: 103595731--103595802 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
103595721 AAAGAGGTGG
103595731 AGAACTTGTTCATTAAAAGTTCGCGATAA
1 AGAACTTGTTCATTAAAAGTTCGCGATAA
103595760 AGAACTTGTTCATTAAAAGTTCGCGATAA
1 AGAACTTGTTCATTAAAAGTTCGCGATAA
103595789 AGAACTTGTTCATT
1 AGAACTTGTTCATT
103595803 GAGAATTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (29 bp):
AGAACTTGTTCATTAAAAGTTCGCGATAA
Found at i:103596977 original size:3 final size:3
Alignment explanation
Indices: 103596969--103597006 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
103596959 ATATATTTAC
103596969 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
103597007 ATTGAGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:103598198 original size:37 final size:38
Alignment explanation
Indices: 103598156--103598252 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
103598146 CGGATAGATT
*
103598156 CGATGAGGCGTTGGTCGCCAC-TTTGCTTCG-GCTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGC
* * *
103598193 CGATGAGACGTTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGC
103598233 CGATGAGGCGTTGGTCGCCA
1 CGATGAGGCGTTGGTCGCCA
103598253 TTCTGGTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 19 0.38
40 30 0.60
41 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (38 bp):
CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:103599576 original size:33 final size:32
Alignment explanation
Indices: 103599521--103599590 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
103599511 TCCTTTTTAA
* *
103599521 TTAAAATTTACCCTCAACCTTTT-AAAAAGTG
1 TTAAAATTTACCATCAACCTTTTGAAAAAGAG
103599552 TTAATAATTTGACCATCAACCTTTTGAAAAAGAG
1 TTAA-AATTT-ACCATCAACCTTTTGAAAAAGAG
103599586 TTAAA
1 TTAAA
103599591 TTGATGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 4 0.12
32 5 0.15
33 14 0.41
34 11 0.32
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (32 bp):
TTAAAATTTACCATCAACCTTTTGAAAAAGAG
Found at i:103601556 original size:13 final size:13
Alignment explanation
Indices: 103601538--103601562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103601528 GATTTTTTGA
103601538 ATTTTTTTATTTC
1 ATTTTTTTATTTC
103601551 ATTTTTTTATTT
1 ATTTTTTTATTT
103601563 TTATTAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTTTATTTC
Found at i:103615493 original size:22 final size:21
Alignment explanation
Indices: 103615447--103615492 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
103615437 AATTCAAAAA
103615447 TTTAAAATATTAATTTTTTACT
1 TTTAAAATA-TAATTTTTTACT
*
103615469 TTTAAAATA-AATTCTTTTATT
1 TTTAAAATATAATT-TTTTACT
103615490 TTT
1 TTT
103615493 TTTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAAAATATAATTTTTTACT
Found at i:103617622 original size:32 final size:32
Alignment explanation
Indices: 103617581--103617644 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
103617571 GTGATTGCTA
103617581 ATTTTGGTATGGAAAGGTTTAAGAAAAGTAAG
1 ATTTTGGTATGGAAAGGTTTAAGAAAAGTAAG
103617613 ATTTTGGTATGGAAAGGTTTAAGAAAAGTAAG
1 ATTTTGGTATGGAAAGGTTTAAGAAAAGTAAG
103617645 CACAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (32 bp):
ATTTTGGTATGGAAAGGTTTAAGAAAAGTAAG
Found at i:103636520 original size:29 final size:30
Alignment explanation
Indices: 103636472--103636536 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
103636462 TCAAATAATA
103636472 TATTA-AACTTTTATATTTTTATTCAAAGC
1 TATTATAACTTTTATATTTTTATTCAAAGC
103636501 TATTATAACTTTTATATTTTTATTCAAAGC
1 TATTATAACTTTTATATTTTTATTCAAAGC
103636531 TATTAT
1 TATTAT
103636537 CAATTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (30 bp):
TATTATAACTTTTATATTTTTATTCAAAGC
Found at i:103642861 original size:34 final size:34
Alignment explanation
Indices: 103642791--103642863 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
103642781 AAATATCAAT
*
103642791 TTTTATTTAAAAATAAATAAATTTTAATATTTTA
1 TTTTATTTAAAAATAAATAAATTTTAATATTCTA
*
103642825 TTTTATTTAAAAA-AAAT-CATTATTAATGATTCTA
1 TTTTATTTAAAAATAAATAAATT-TTAAT-ATTCTA
103642859 TTTTA
1 TTTTA
103642864 GTTGGTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 9 0.26
34 23 0.66
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (34 bp):
TTTTATTTAAAAATAAATAAATTTTAATATTCTA
Found at i:103646403 original size:42 final size:42
Alignment explanation
Indices: 103646321--103646403 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
103646311 AGAAACAGGG
** *
103646321 GACACACGACCGTGTCCCTTCCCGTGTAACTCACTGACTTGA
1 GACACACGACCGTGTCCCAGCCCGTGTAACTCACTAACTTGA
* * * *
103646363 GACATACGACCGTGTCCCAGCCTGTGTAATTTACTAACTTG
1 GACACACGACCGTGTCCCAGCCCGTGTAACTCACTAACTTG
103646404 GGTCACATTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (42 bp):
GACACACGACCGTGTCCCAGCCCGTGTAACTCACTAACTTGA
Found at i:103648849 original size:16 final size:17
Alignment explanation
Indices: 103648828--103648862 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
103648818 AAACCAATTC
103648828 TTTTAAT-ATTTTTGAA
1 TTTTAATAATTTTTGAA
*
103648844 TTTTAATAATTTTTTAA
1 TTTTAATAATTTTTGAA
103648861 TT
1 TT
103648863 AAACTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTAATAATTTTTGAA
Found at i:103649620 original size:19 final size:19
Alignment explanation
Indices: 103649596--103649635 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
103649586 GACTTAAATT
*
103649596 CTAGTATTGTGTGTCGTGA
1 CTAGTATTGGGTGTCGTGA
103649615 CTAGTATTGGGTGTCGTGA
1 CTAGTATTGGGTGTCGTGA
103649634 CT
1 CT
103649636 TTGAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.33, T:0.40
Consensus pattern (19 bp):
CTAGTATTGGGTGTCGTGA
Found at i:103656716 original size:50 final size:50
Alignment explanation
Indices: 103656651--103656750 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
103656641 AATCAAACAA
*
103656651 AACTTAAAAATTAACTTTTAATACAAAAATCTTCACGACACTTATTACAT
1 AACTTAAAAACTAACTTTTAATACAAAAATCTTCACGACACTTATTACAT
* *
103656701 AACTTAAAAGCTAACTTTTACTACAAAAATCTTCACGACACTTATTACAT
1 AACTTAAAAACTAACTTTTAATACAAAAATCTTCACGACACTTATTACAT
103656751 GATATCTGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (50 bp):
AACTTAAAAACTAACTTTTAATACAAAAATCTTCACGACACTTATTACAT
Found at i:103662464 original size:24 final size:23
Alignment explanation
Indices: 103662408--103662463 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
103662398 CAATCAAAAG
103662408 AAAGCAAAATAAAATAAAAAGGTAA
1 AAAG-AAAATAAAATAAAAA-GTAA
*
103662433 AAAGAAAATGAAATAAAAA-TAA
1 AAAGAAAATAAAATAAAAAGTAA
103662455 AAACGAAAA
1 AAA-GAAAA
103662464 AAGATCTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 6 0.21
23 5 0.17
24 14 0.48
25 4 0.14
ACGTcount: A:0.75, C:0.04, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAGAAAATAAAATAAAAAGTAA
Found at i:103665927 original size:18 final size:18
Alignment explanation
Indices: 103665877--103665927 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
103665867 ATTATATACA
* *
103665877 TTATATCTTATTATGTGTT
1 TTATATATTATT-TATGTT
*
103665896 TTAT-TATTCTTTTATGTT
1 TTATATATT-ATTTATGTT
103665914 TTATATATTATTTA
1 TTATATATTATTTA
103665928 AGCTATCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATATATTATTTATGTT
Found at i:103667040 original size:131 final size:132
Alignment explanation
Indices: 103666874--103667262 Score: 516
Period size: 132 Copynumber: 3.0 Consensus size: 132
103666864 TTTAGAGAGT
* * * *
103666874 ATGAGTGAAGTTCTAAAGGAATATTCGATTGTTTTGAGCGAACGGAG-AATTGCAACCCAGCACG
1 ATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGGAGAAATTGCAACCCAGCACG
* * * * * *
103666938 ATAGGGTACGA-TTCCCGAATTGTCAAACATCGAGTATTACCTTCGTTTTAAAGAGTTTTTAGAA
66 TTAGGGCACGATTTCGCGAATTGTCAAATATCGAATATCACCTTCGTTTTAAA-AGTTTTTAGAA
103667002 AAC
130 AAC
* *
103667005 ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAAC-GAGAAATTGCAACCCAGCACG
1 ATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGGAGAAATTGCAACCCAGCACG
* * * *
103667069 TTAGGGCACGATTTCGCGAATTGTCAAATATCGAACATCGCATTTGTTTTAAAAGATTTTTAGAA
66 TTAGGGCACGATTTCGCGAATTGTCAAATATCGAATATCACCTTCGTTTTAAAAG-TTTTTAGAA
*
103667134 GAC
130 AAC
* *
103667137 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGG-GAAATTGCAACCCAGCACG
1 ATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGGAGAAATTGCAACCCAGCACG
* * * *
103667201 TTAGGGCAAGATTTCGCGAATTGCCAAATATCGAATCTCACCTTCGTTTTAAATAATTTTTA
66 TTAGGGCACGATTTCGCGAATTGTCAAATATCGAATATCACCTTCGTTTTAAA-AGTTTTTA
103667263 AACGAATAAT
Statistics
Matches: 224, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
130 3 0.01
131 65 0.29
132 154 0.69
133 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGGAGAAATTGCAACCCAGCACG
TTAGGGCACGATTTCGCGAATTGTCAAATATCGAATATCACCTTCGTTTTAAAAGTTTTTAGAAA
AC
Found at i:103669503 original size:31 final size:31
Alignment explanation
Indices: 103669387--103669495 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
103669377 ACAAATGACA
*
103669387 AGTG-AAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
103669417 AGTGAAAAGTGGTAGCTCCGGCTGCCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
103669448 AGTGAAAAGTGGTAG-TACCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCT-CCGGCTACCTGATC
*
103669479 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
103669496 TCAGCTACAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
30 5 0.07
31 65 0.92
32 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:103669595 original size:47 final size:46
Alignment explanation
Indices: 103669526--103669734 Score: 192
Period size: 47 Copynumber: 4.5 Consensus size: 46
103669516 ATTTCCGTAC
* * * *
103669526 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC-GTGT
* * * * *
103669573 AAGACTATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTGT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACGTGT
* *
103669619 AAGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTACGTGT
1 AAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TACGTGT
* * * *
103669668 AAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATATGTGT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACGTGT
* * *
103669710 AAGATCATAGCTGGGCTATGACATC
1 AAGACCATAGCTGGGATATGGCATC
103669735 ATTATGTGAA
Statistics
Matches: 138, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
42 29 0.21
43 1 0.01
44 5 0.04
45 1 0.01
46 25 0.18
47 36 0.26
48 11 0.08
49 30 0.22
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (46 bp):
AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACGTGT
Found at i:103669676 original size:49 final size:48
Alignment explanation
Indices: 103669526--103669708 Score: 194
Period size: 47 Copynumber: 3.8 Consensus size: 48
103669516 ATTTCCGTAC
* * * * *
103669526 AAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTAT
1 AAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTGT
* * * *
103669573 AAGACTATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTGT
1 AAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTGT
*
103669619 AAGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTACGTGT
1 AAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTGT
* *
103669668 AAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 AAGACCATAGCTGGGATATGGCATCGA-ATGTG-ATATGTG
103669709 TAAGATCATA
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
46 25 0.21
47 36 0.31
48 14 0.12
49 36 0.31
50 7 0.06
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.31
Consensus pattern (48 bp):
AAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTGT
Found at i:103669710 original size:42 final size:43
Alignment explanation
Indices: 103669615--103669778 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 43
103669605 TATGTGATTC
* *
103669615 GTGTAAGACCATAGCTGGGTTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
103669662 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* * *
103669706 GTGTAAGATCATAGCTGGGCTATGACATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
103669748 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
103669779 GAAAATGAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 60 0.60
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.29
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:103674660 original size:21 final size:22
Alignment explanation
Indices: 103674636--103674687 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
103674626 TTTTTTGGAA
103674636 AATATTTAAAATG-TAAAGAAT
1 AATATTTAAAATGATAAAGAAT
*
103674657 AATA-TTATAATGATAAAGAAT
1 AATATTTAAAATGATAAAGAAT
*
103674678 AACATTTAAA
1 AATATTTAAA
103674688 TTTATTTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (22 bp):
AATATTTAAAATGATAAAGAAT
Found at i:103676707 original size:14 final size:13
Alignment explanation
Indices: 103676661--103676709 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
103676651 TCAAGCCCGA
103676661 AATCTC-AACCTG
1 AATCTCAAACCTG
*
103676673 AAT-TTAAACCCTG
1 AATCTCAAA-CCTG
103676686 AA-CTCAAACCATG
1 AATCTCAAACC-TG
103676699 AATCTCAAACC
1 AATCTCAAACC
103676710 CAAATCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.03
12 7 0.23
13 14 0.47
14 8 0.27
ACGTcount: A:0.41, C:0.31, G:0.06, T:0.22
Consensus pattern (13 bp):
AATCTCAAACCTG
Found at i:103681001 original size:24 final size:23
Alignment explanation
Indices: 103680951--103680998 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
103680941 TTAAAAAGAT
103680951 AATAAGTAAACATTTTTGGTTTA
1 AATAAGTAAACATTTTTGGTTTA
103680974 AATAAGTAAACATTTTTGGTTTA
1 AATAAGTAAACATTTTTGGTTTA
103680997 AA
1 AA
103680999 ATATAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (23 bp):
AATAAGTAAACATTTTTGGTTTA
Found at i:103682710 original size:18 final size:19
Alignment explanation
Indices: 103682662--103682710 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
103682652 TTGAATACTA
*
103682662 ATAAAATATTAAATTAATTT
1 ATAAAATA-TATATTAATTT
*
103682682 CTAAAAT-TATATTAA-TT
1 ATAAAATATATATTAATTT
103682699 ATAAAATATATA
1 ATAAAATATATA
103682711 AATTATAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
20 6 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAAATATATATTAATTT
Found at i:103682714 original size:16 final size:17
Alignment explanation
Indices: 103682683--103682717 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
103682673 AATTAATTTC
*
103682683 TAAAATTATATTAATTA
1 TAAAATTATATAAATTA
103682700 TAAAA-TATATAAATTA
1 TAAAATTATATAAATTA
103682716 TA
1 TA
103682718 GGTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTATATAAATTA
Found at i:103689560 original size:24 final size:24
Alignment explanation
Indices: 103689533--103689584 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
103689523 TTAGTAAGTC
*
103689533 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
103689557 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
103689581 AAAT
1 AAAT
103689585 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.