Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 45 of 345
Found at i:12879575 original size:30 final size:30
Alignment explanation
Indices: 12879537--12879635 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
12879527 CTAGCCTTTG
*
12879537 CCACCACCAACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
12879567 CTACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
12879597 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
12879627 CCACCACCA
1 CCACCACCA
12879636 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:12879600 original size:18 final size:18
Alignment explanation
Indices: 12879577--12879630 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
12879567 CTACCACCAA
12879577 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
12879595 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
12879607 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
12879625 CTCCAC
1 CTCCAC
12879631 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:12880150 original size:23 final size:23
Alignment explanation
Indices: 12880113--12880242 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
12880103 CTTTTTTTGT
*
12880113 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
12880136 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
12880158 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
12880181 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
12880206 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
12880231 TATTATTTATAT
1 TATTATATATAT
12880243 ATATATATAT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:12880206 original size:25 final size:25
Alignment explanation
Indices: 12880178--12880319 Score: 103
Period size: 25 Copynumber: 5.7 Consensus size: 25
12880168 ATTCTAAATT
*
12880178 CTATATTACGTATATATATATTATA
1 CTATATTATGTATATATATATTATA
* *
12880203 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATT-ATA
* *
12880228 CTATATTATTTATATATATATATATT
1 CTATATTATGTATATATATAT-TATA
* *
12880254 TTATATAACATGTATATAT-T-TTA-A
1 CTATAT--TATGTATATATATATTATA
* * * * *
12880278 TTATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATATTATA
*
12880303 CTATATTATGTACATAT
1 CTATATTATGTATATAT
12880320 TTTAATATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
22 9 0.10
23 1 0.01
24 11 0.12
25 52 0.56
26 9 0.10
27 2 0.02
28 9 0.10
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (25 bp):
CTATATTATGTATATATATATTATA
Found at i:12880288 original size:22 final size:22
Alignment explanation
Indices: 12880237--12880362 Score: 77
Period size: 22 Copynumber: 5.9 Consensus size: 22
12880227 ACTATATTAT
*
12880237 TTATA-TATATATATATTTT-A
1 TTATATTATGTATATATTTTAA
**
12880257 -TATAACATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
12880278 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
12880303 CTATATTATGTACATATTTTAA
1 TTATATTATGTATATATTTTAA
* * *
12880325 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
12880345 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
12880363 ATGTAGTATT
Statistics
Matches: 82, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
19 13 0.16
20 14 0.17
21 5 0.06
22 23 0.28
23 7 0.09
24 8 0.10
25 12 0.15
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:12880500 original size:16 final size:15
Alignment explanation
Indices: 12880481--12880515 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
12880471 TTATTATTAT
12880481 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
12880497 TATTTTAATATTTTA
1 TATTCTAATATTTTA
12880512 TATT
1 TATT
12880516 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:12884443 original size:30 final size:30
Alignment explanation
Indices: 12884408--12884465 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
12884398 CACAGCCATG
*
12884408 ACACACGGGCGTGTGGCCTGCTCGTGTGTC
1 ACACACGGGCGTGTGGCCTGCCCGTGTGTC
12884438 ACACACGGGCGTGTGGCCTGCCCGTGTG
1 ACACACGGGCGTGTGGCCTGCCCGTGTG
12884466 AAAATGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.31, G:0.38, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTGTGGCCTGCCCGTGTGTC
Found at i:12885673 original size:42 final size:43
Alignment explanation
Indices: 12885543--12885695 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
12885533 TAGGATTCCA
* * * * *
12885543 ATATGTGATTTCATATAAGACCACGTCTGGGAC-GATGGCATCG
1 ATATATGATTACATGTAAGACCATGTCTGGGACAG-TGCCATCG
* * *
12885586 ATTTGA-GATTTACATGTAAGAGACCATGTCTGGGACATTGGCATCG
1 ATAT-ATGA-TTACATGT-A-AGACCATGTCTGGGACAGTGCCATCG
* * * *
12885632 -TATATGATTTCGTGTAAGACCCTGTCTGGGATAGTGCCATCG
1 ATATATGATTACATGTAAGACCATGTCTGGGACAGTGCCATCG
*
12885674 ATATTTGATTACATGTAAGACC
1 ATATATGATTACATGTAAGACC
12885696 TCGTATGGGA
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 22 0.25
43 24 0.28
44 13 0.15
45 5 0.06
46 23 0.26
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
ATATATGATTACATGTAAGACCATGTCTGGGACAGTGCCATCG
Found at i:12885695 original size:43 final size:42
Alignment explanation
Indices: 12885595--12885695 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 42
12885585 GATTTGAGAT
* *
12885595 TTACATGTAAGAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACATGT-A-AGACCATGTCTGGGACAGTGCCATCGTATATGA
* * * * *
12885639 TTTCGTGTAAGACCCTGTCTGGGATAGTGCCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGCCATCG-TATATGA
12885682 TTACATGTAAGACC
1 TTACATGTAAGACC
12885696 TCGTATGGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 22 0.47
43 19 0.40
44 6 0.13
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGCCATCGTATATGA
Found at i:12888937 original size:13 final size:13
Alignment explanation
Indices: 12888919--12888947 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12888909 AATTAATGTT
12888919 TTTATAATGCATC
1 TTTATAATGCATC
12888932 TTTATAATGCATC
1 TTTATAATGCATC
12888945 TTT
1 TTT
12888948 TAAAACATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (13 bp):
TTTATAATGCATC
Found at i:12890302 original size:21 final size:24
Alignment explanation
Indices: 12890260--12890307 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 24
12890250 ATTTTATTTT
* *
12890260 ATTACCTTAATAAATATGAAAA-A
1 ATTACCTTAATAAAAATCAAAATA
12890283 ATTA-CTT-ATAAAAATCAAAATA
1 ATTACCTTAATAAAAATCAAAATA
12890305 ATT
1 ATT
12890308 CAGAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 11 0.50
22 7 0.32
23 4 0.18
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTACCTTAATAAAAATCAAAATA
Found at i:12890518 original size:16 final size:16
Alignment explanation
Indices: 12890497--12890530 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12890487 TCAAATTATT
12890497 AATATGATAAAAAATA
1 AATATGATAAAAAATA
*
12890513 AATATGATAAAAACTA
1 AATATGATAAAAAATA
12890529 AA
1 AA
12890531 AGATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
AATATGATAAAAAATA
Found at i:12893265 original size:25 final size:26
Alignment explanation
Indices: 12893217--12893266 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
12893207 ATTATTTTGT
12893217 TCTTTCCATTTAACTCATACTCATAA
1 TCTTTCCATTTAACTCATACTCATAA
* *
12893243 TCTTTTCATTT-ATTCATACTCATA
1 TCTTTCCATTTAACTCATACTCATA
12893267 CCACACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (26 bp):
TCTTTCCATTTAACTCATACTCATAA
Found at i:12897772 original size:44 final size:44
Alignment explanation
Indices: 12897709--12898368 Score: 431
Period size: 44 Copynumber: 14.7 Consensus size: 44
12897699 AAGCTACAAA
*
12897709 TTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * *
12897753 TTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * *
12897797 TTACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * * *
12897841 ATAGCAAAACTTATCTCTCAGAAGTTGCAGTAGAGGAGATTAAAG
1 TTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * * * *
12897886 CTATAAACCTTATCCCCCTGAATTTTCAGTGGAGTAGGTTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* ** * * * *
12897930 TTACAAGTCACATCTCTCTGAAGTTGCAGTGAAGCAAATTGAAA
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * * *
12897974 ATAGCAAGT-TCAT-TTCCTTAAGGTTTGCAGTGGAACAGATTAAAGCTACAAA
1 TTA-CAAATCTTATCTCCCTGAA-G-TTGCAGTGGAGCAGATT---G----AAG
* *
12898026 TTACAAATCTTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
** * *
12898070 CCACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAA-
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * *
12898113 TATAGCAAATCTTAT-TCTCTTGAAGTTGCAGT-GAGATAGGTTGAAG
1 T-TA-CAAATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGATTGAAG
** * *
12898159 CTATCATGGCGGATCTTATCTCCCTAAAGTTGCAGTGGAGTA-ATTGAAG
1 -T-T-A---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
** * * * * *
12898208 CCACTAATCTTATCTCTCTGATGTTGCAGTAGAGCAGATTAAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
** * * * *
12898252 CCACAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* *
12898296 TTACTAA---TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * *
12898337 TGACAATTCTTATAC-CCTTAAAGTTGCAGTGG
1 TTACAAATCTTAT-CTCCCTGAAGTTGCAGTGG
12898369 GTTCGGATGG
Statistics
Matches: 482, Mismatches: 105, Indels: 58
0.75 0.16 0.09
Matches are distributed among these distances:
41 33 0.07
43 31 0.06
44 257 0.53
45 86 0.18
46 1 0.00
47 3 0.01
48 3 0.01
49 6 0.01
50 23 0.05
51 25 0.05
52 8 0.02
53 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
Found at i:12897907 original size:89 final size:88
Alignment explanation
Indices: 12897710--12897935 Score: 256
Period size: 89 Copynumber: 2.6 Consensus size: 88
12897700 AGCTACAAAT
* * ** *
12897710 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAA
1 TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATACAAAACTTATCTCCCAGAA
* * * *
12897775 GTTGCAGTAGAGTAGGTTGAAGT
66 GTTGCAGTAGAGGAGATTAAAGC
** * *
12897798 TACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAAACTTATCTCTCAGA
1 TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATA-CAAAACTTATCTCCCAGA
12897863 AGTTGCAGTAGAGGAGATTAAAGC
65 AGTTGCAGTAGAGGAGATTAAAGC
* * * * * *
12897887 TATAAACCTTATCCCCCTGAA-TTTTCAGTGGAGTAGGTTGAAGTTACAA
1 TACAAACCTTATCTCCCTGAAGTTGT-AGTGGAGCAGATTGAAGATACAA
12897936 GTCACATCTC
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 49 0.42
89 67 0.58
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (88 bp):
TACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATACAAAACTTATCTCCCAGAA
GTTGCAGTAGAGGAGATTAAAGC
Found at i:12898093 original size:140 final size:138
Alignment explanation
Indices: 12897755--12898237 Score: 344
Period size: 133 Copynumber: 3.5 Consensus size: 138
12897745 GATTGAAGTT
* * * * * * ** *
12897755 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGTAGGTTGAAGTTACAAGTCTTATCTCTCTGAAG
1 ACAAATCTTATCTCCCTAAAATTGCAGTGGAGCA-ATTGAAGCCACAAATCTTATCTCTCTGAAG
* * * * * * * *
12897820 TTGTAGTGGAGCAGATTGAAGATAGCAAAACTTA-TCTCTCAGAAGTTGCAGT-AGAGGAGATTA
65 TTGCAGTGAAGCAAATTGAAAATAGCAAATCATATTCTCT-TGAAGTTGCAGTGAGA-CAGATTA
12897883 AAGC--T-AT-
128 AAGCTATCATG
* * * * * * * ** * **
12897890 --AAACCTTATCCCCCTGAATTTTCAGTGGAGTAGGTTGAAGTTACAAGTCACATCTCTCTGAAG
1 ACAAATCTTATCTCCCTAAAATTGCAGTGGAGCA-ATTGAAGCCACAAATCTTATCTCTCTGAAG
*
12897953 TTGCAGTGAAGCAAATTGAAAATAGCAAGTTCAT-TTC-CTT-AAGGTTTGCAGTG-GAACAGAT
65 TTGCAGTGAAGCAAATTGAAAATAGCAA-ATCATATTCTCTTGAA-G-TTGCAGTGAG-ACAGAT
*
12898014 TAAAGCTA-CAAATT
126 TAAAGCTATC--ATG
*
12898028 ACAAATCTTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTAAAATTGCAGTGGAGCA-ATTGAAGCCACAAATCTTATCTCTCTGAAG
* * * * * * * * *
12898093 TTACAGTGGAGTAGATTGAATATAGCAAATCTTATTCTCTTGAAGTTGCAGTGAGATAGGTTGAA
65 TTGCAGTGAAGCAAATTGAAAATAGCAAATCATATTCTCTTGAAGTTGCAGTGAGACAGATTAAA
12898158 GCTATCATG
130 GCTATCATG
* ** * * * *
12898167 GCGGATCTTATCTCCCTAAAGTTGCAGTGGAGTAATTGAAGCCACTAATCTTATCTCTCTGATGT
1 ACAAATCTTATCTCCCTAAAATTGCAGTGGAGCAATTGAAGCCACAAATCTTATCTCTCTGAAGT
12898232 TGCAGT
66 TGCAGT
12898238 AGAGCAGATT
Statistics
Matches: 279, Mismatches: 50, Indels: 35
0.77 0.14 0.10
Matches are distributed among these distances:
131 2 0.01
132 1 0.00
133 99 0.35
134 5 0.02
137 2 0.01
138 33 0.12
139 34 0.12
140 95 0.34
141 6 0.02
142 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (138 bp):
ACAAATCTTATCTCCCTAAAATTGCAGTGGAGCAATTGAAGCCACAAATCTTATCTCTCTGAAGT
TGCAGTGAAGCAAATTGAAAATAGCAAATCATATTCTCTTGAAGTTGCAGTGAGACAGATTAAAG
CTATCATG
Found at i:12898348 original size:85 final size:85
Alignment explanation
Indices: 12898171--12898364 Score: 203
Period size: 85 Copynumber: 2.3 Consensus size: 85
12898161 ATCATGGCGG
* * * * * *
12898171 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAATTGAAGCCACTAATCTTATCTCTCTGATGTTGCA
1 ATCTTATCTCTCTAAAGTTGCAATAGAGCAATTGAAGCCACTAA--TTATCTCCCTGAAGTTGCA
12898236 GTAGAGCAGATTAAAGCCACAA
64 GTAGAGCAGATTAAAGCCACAA
**
12898258 ATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTGAAGTTACTAA-TATCTCCCTGAAGTTGCAG
1 ATCTTATCTCTCTAAAGTTGCAATAGAGCA-ATTGAAGCCACTAATTATCTCCCTGAAGTTGCAG
* * * **
12898322 TGGAGTAGATTGAAGTGACAA
65 TAGAGCAGATTAAAGCCACAA
* *
12898343 TTCTTATACCCT-TAAAGTTGCA
1 ATCTTAT-CTCTCTAAAGTTGCA
12898365 GTGGGTTCGG
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
85 49 0.54
86 3 0.03
87 26 0.29
88 12 0.13
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (85 bp):
ATCTTATCTCTCTAAAGTTGCAATAGAGCAATTGAAGCCACTAATTATCTCCCTGAAGTTGCAGT
AGAGCAGATTAAAGCCACAA
Found at i:12898955 original size:10 final size:10
Alignment explanation
Indices: 12898940--12898965 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12898930 AAGATTAATA
12898940 AAAAAAAATC
1 AAAAAAAATC
12898950 AAAAAAAATC
1 AAAAAAAATC
12898960 AAAAAA
1 AAAAAA
12898966 TTTACAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:12899077 original size:15 final size:15
Alignment explanation
Indices: 12899059--12899088 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12899049 AAAACACGAA
12899059 CCAAAAGAGGGGGTC
1 CCAAAAGAGGGGGTC
12899074 CCAAAAGAGGGGGTC
1 CCAAAAGAGGGGGTC
12899089 AAAATTACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.40, T:0.07
Consensus pattern (15 bp):
CCAAAAGAGGGGGTC
Found at i:12900128 original size:19 final size:18
Alignment explanation
Indices: 12900104--12900145 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
12900094 GGCATCTAGC
* *
12900104 ATTTTTATTATTATTTTTT
1 ATTTTTATCATT-TTATTT
12900123 ATTTTTATCATTTTATTT
1 ATTTTTATCATTTTATTT
12900141 ATTTT
1 ATTTT
12900146 ATACTATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATCATTTTATTT
Found at i:12915834 original size:9 final size:9
Alignment explanation
Indices: 12915820--12915850 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
12915810 TTATTAATTT
12915820 AAAATTTTA
1 AAAATTTTA
12915829 AAAATTTTA
1 AAAATTTTA
12915838 AAAATTTTA
1 AAAATTTTA
12915847 AAAA
1 AAAA
12915851 AAAAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:12921509 original size:7 final size:8
Alignment explanation
Indices: 12921492--12921523 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
12921482 AAGATGAGAT
12921492 AAAAATAA
1 AAAAATAA
12921500 AAAAATAA
1 AAAAATAA
12921508 AAAAATAA
1 AAAAATAA
12921516 AAAAATAA
1 AAAAATAA
12921524 TCATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:12922355 original size:19 final size:19
Alignment explanation
Indices: 12922327--12922363 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12922317 TCATCACTTG
* *
12922327 AAAATTTTATATAAAATTT
1 AAAATATTATAAAAAATTT
12922346 AAAATATTATAAAAAATT
1 AAAATATTATAAAAAATT
12922364 ATGTAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATTATAAAAAATTT
Found at i:12924466 original size:86 final size:86
Alignment explanation
Indices: 12924296--12924466 Score: 234
Period size: 86 Copynumber: 2.0 Consensus size: 86
12924286 GGCCCGCACG
* *
12924296 GGCGTGTAGATTTTTGGACTAGGCCATGTGAGTTACACGGGCAAAGGCCAATCTTGACGTGTGGG
1 GGCGTGTAGATTTTTGGACCAGGCCATGTGAGTTACACGGGCAAAGGCAAATCTTGACGTGTGGG
* ***
12924361 CCCACATGGGCACGTCACACT
66 CCCACACGGGCAAACCACACT
* * * * *
12924382 GGCGTGTGGATTTTTGGACCAGGCCGTGTGGGTTACATGGGCAAAGGCAAATCTTGGCGTGTGGG
1 GGCGTGTAGATTTTTGGACCAGGCCATGTGAGTTACACGGGCAAAGGCAAATCTTGACGTGTGGG
*
12924447 CCCACACGGGTAAACCACAC
66 CCCACACGGGCAAACCACAC
12924467 GAGTAGTATA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (86 bp):
GGCGTGTAGATTTTTGGACCAGGCCATGTGAGTTACACGGGCAAAGGCAAATCTTGACGTGTGGG
CCCACACGGGCAAACCACACT
Found at i:12924811 original size:18 final size:19
Alignment explanation
Indices: 12924775--12924817 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
12924765 GATTTTGGCA
*
12924775 TATCTGATATCTGAATCTG
1 TATCTGATAACTGAATCTG
*
12924794 TATCTGA-AACTGAGTCTG
1 TATCTGATAACTGAATCTG
*
12924812 CATCTG
1 TATCTG
12924818 TTTCTGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (19 bp):
TATCTGATAACTGAATCTG
Found at i:12924921 original size:17 final size:17
Alignment explanation
Indices: 12924901--12924936 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12924891 ACTCACATCT
12924901 GTTGTCTGTTTTGTCAA
1 GTTGTCTGTTTTGTCAA
12924918 GTTGTCTGTTTTGTCAA
1 GTTGTCTGTTTTGTCAA
12924935 GT
1 GT
12924937 AATCCACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.25, T:0.53
Consensus pattern (17 bp):
GTTGTCTGTTTTGTCAA
Found at i:12933968 original size:6 final size:6
Alignment explanation
Indices: 12933950--12934002 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
12933940 ATTTTGACAT
* * *
12933950 ATCTGA CATCTGA ATCTGA ATCTGA ATCTGA ATCTGA AACTGA GTCTGT
1 ATCTGA -ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA
12933999 ATCT
1 ATCT
12934003 ATTTTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (6 bp):
ATCTGA
Found at i:12936029 original size:2 final size:2
Alignment explanation
Indices: 12936022--12936110 Score: 133
Period size: 2 Copynumber: 44.5 Consensus size: 2
12936012 CCTAAAAGCT
* *
12936022 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC GC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
12936064 AC TC TC TC AC TC AC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12936106 TC TC T
1 TC TC T
12936111 TTTCTCTAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.04, C:0.49, G:0.01, T:0.45
Consensus pattern (2 bp):
TC
Found at i:12942535 original size:20 final size:18
Alignment explanation
Indices: 12942510--12942547 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
12942500 TTATGTAACA
12942510 CGAATTATATCAAATATTAT
1 CGAATTATA-CAAA-ATTAT
12942530 CGAATTATACAAAATTAT
1 CGAATTATACAAAATTAT
12942548 TATATTGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (18 bp):
CGAATTATACAAAATTAT
Found at i:12942951 original size:16 final size:16
Alignment explanation
Indices: 12942930--12942963 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12942920 AGTATCTGTT
12942930 AACATTAATAGG-AAAC
1 AACATTAAT-GGCAAAC
12942946 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
12942962 AA
1 AA
12942964 TACAAAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:12945787 original size:21 final size:22
Alignment explanation
Indices: 12945758--12945803 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
12945748 TATTCAGACA
* *
12945758 AGTGATACTCCACAGCAGGTGG
1 AGTGATACTCCAAAACAGGTGG
12945780 AGTG-TACTCCAAAACAGGTGG
1 AGTGATACTCCAAAACAGGTGG
12945801 AGT
1 AGT
12945804 TTGAGCAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTGATACTCCAAAACAGGTGG
Found at i:12948014 original size:38 final size:38
Alignment explanation
Indices: 12947972--12948128 Score: 206
Period size: 39 Copynumber: 4.1 Consensus size: 38
12947962 AAAGCTGATT
* * *
12947972 CCACTCCCCATGCTACTTTGTTTTATTATTAATCAAAA
1 CCACTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* *
12948010 CCACTCCCCATGCTATTTTGTTTTATTGTTAATTAAAA
1 CCACTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* * *
12948048 CTATTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
1 CCA-CTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* *
12948087 CTACTTCCTCATACTATTTTGTTTTATTATTAATTAAAA
1 CCAC-TCCCCATACTATTTTGTTTTATTATTAATTAAAA
12948126 CCA
1 CCA
12948129 TACTTTATTT
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 37 0.35
39 70 0.65
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (38 bp):
CCACTCCCCATACTATTTTGTTTTATTATTAATTAAAA
Found at i:12949070 original size:23 final size:24
Alignment explanation
Indices: 12949027--12949071 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
12949017 GTGGTTCTAA
*
12949027 TTTGGGCTAGTTTTAGGTATTGGG
1 TTTGGGCTAGGTTTAGGTATTGGG
*
12949051 TTTGGG-TAGGTTTAGTTATTG
1 TTTGGGCTAGGTTTAGGTATTG
12949072 TAATTGGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.13, C:0.02, G:0.36, T:0.49
Consensus pattern (24 bp):
TTTGGGCTAGGTTTAGGTATTGGG
Found at i:12949417 original size:45 final size:45
Alignment explanation
Indices: 12949352--12949437 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
12949342 CGATCTCTGC
* * * *
12949352 TATCTTTGATCTGCCCCCCGTCTACTACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAAAAACGCCAAATCTAT
**
12949397 TATCTTCGATCTGCTTCCCGTCTAATACAAAAACGCCAAAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAAAAACGCCAAAT
12949438 TTGCTTCTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCCCCCCGTCTAATACAAAAACGCCAAATCTAT
Found at i:12949970 original size:210 final size:209
Alignment explanation
Indices: 12949531--12950087 Score: 704
Period size: 210 Copynumber: 2.7 Consensus size: 209
12949521 AAATTTGCTT
* * * * * *
12949531 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * ** * **
12949596 GTGAAAGCCAAATCAACTATGA-TTCGATTTGCTCCTTGTAAGCATA-AG-GATGCCAA-A-C--
66 GTGAAAGCCAAATCAACTAT-ATTTCGATATGCTCCCTG-CCGAATACAGAGA-GATAAGATCTG
* *
12949654 -CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCGAGATCTGTTATGTGTCTGCTCTCCATT
128 TCATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATC
12949718 AAAGTGAATATGCCAAA
193 AAAGTGAATATGCCAAA
* *
12949735 CTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGAAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
12949800 GTGAAAGCCAAATCAGCTATATTTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAACTATA-TTTCGATATGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* * *
12949865 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGG-TATGATCTGCTATGTGTCTGC-CTTCCATC
130 ATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCGA-GATCTGCTATGTGTCTGCTC-TCCATC
*
12949928 AAAGTGGAA-ATGCCAGA
193 AAAGT-GAATATGCCAAA
*
12949945 CTTCGATTTGTTCTCTGATAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
12950010 GTGAAAGCCAAATCAAATATATCTTCGATATGTTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAACTATAT-TTCGATATGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* *
12950075 ATATTAGATCTGC
130 ATCTTGGATCTGC
12950088 CCCGATGAAG
Statistics
Matches: 308, Mismatches: 32, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
203 1 0.00
204 80 0.26
205 19 0.06
206 3 0.01
207 1 0.00
209 3 0.01
210 198 0.64
211 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (209 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAACTATATTTCGATATGCTCCCTGCCGAATACAGAGAGATAAGATCTGTCA
TCTTGGATCTGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAA
GTGAATATGCCAAA
Found at i:12957932 original size:15 final size:14
Alignment explanation
Indices: 12957890--12957939 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
12957880 ATAACCTTGA
*
12957890 ATGCAAATGATGTG
1 ATGCAAATGATGAG
12957904 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
12957919 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
12957933 ATGCAAA
1 ATGCAAA
12957940 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:12961754 original size:2 final size:2
Alignment explanation
Indices: 12961747--12961794 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
12961737 ATATTAAAAG
* * *
12961747 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT GT AT AC AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12961788 AT A- AT AT
1 AT AT AT AT
12961795 TAAAATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:12962402 original size:39 final size:38
Alignment explanation
Indices: 12962311--12962460 Score: 201
Period size: 39 Copynumber: 3.9 Consensus size: 38
12962301 ATTCCACTCC
* * * * *
12962311 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCACT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
* *
12962349 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
12962388 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
12962427 CCTCATACTATTTTGTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAAC
12962461 CATACTTTAT
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 32 0.31
39 70 0.69
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:12963981 original size:16 final size:16
Alignment explanation
Indices: 12963948--12963981 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12963938 GGAGATTGTT
* *
12963948 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
12963964 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
12963980 AA
1 AA
12963982 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:12969339 original size:63 final size:61
Alignment explanation
Indices: 12969212--12969408 Score: 180
Period size: 63 Copynumber: 3.1 Consensus size: 61
12969202 AAATCCTCTC
* * * * * **
12969212 ACACGGCCAAGACACATGCTCGTGCCCCCAGCCCATATGACTCTAATTCCAAAACAGTGTGTT
1 ACACGGCCTAGACACATGCTCGTG--CTCTGCCCGTGTGACTCTAATTCCAAAACAGTAAGTT
*
12969275 ACACGGTCTAGACACATGCTCGTGTCTCTGGCCCGTGTGACTCTAATTCCAAAACAGTAAGTT
1 ACACGGCCTAGACACATGCTCGTG-CTCT-GCCCGTGTGACTCTAATTCCAAAACAGTAAGTT
* * * * * * * *
12969338 ACGCAGCCTGGATACATGCTCGTGCTTCTGTCCGTGTGGCTCTAATTTCAAAA-TGATAAGTT
1 ACACGGCCTAGACACATGCTCGTGC-TCTGCCCGTGTGACTCTAATTCCAAAACAG-TAAGTT
*
12969400 ACACAGCCT
1 ACACGGCCT
12969409 GGCACACGGT
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
61 1 0.01
62 38 0.34
63 73 0.65
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (61 bp):
ACACGGCCTAGACACATGCTCGTGCTCTGCCCGTGTGACTCTAATTCCAAAACAGTAAGTT
Found at i:12969398 original size:62 final size:63
Alignment explanation
Indices: 12969249--12969410 Score: 186
Period size: 63 Copynumber: 2.6 Consensus size: 63
12969239 CCAGCCCATA
** * * * *
12969249 TGACTCTAATTCCAAAACAGTGTGTTACACGGTCTAGACACATGCTCGTGTCTCTGGCCCGTG
1 TGACTCTAATTCCAAAACAGTAAGTTACACAGCCTGGATACATGCTCGTGTCTCTGGCCCGTG
* *
12969312 TGACTCTAATTCCAAAACAGTAAGTTACGCAGCCTGGATACATGCTCGTG-CTTCT-GTCCGTG
1 TGACTCTAATTCCAAAACAGTAAGTTACACAGCCTGGATACATGCTCGTGTC-TCTGGCCCGTG
* * *
12969374 TGGCTCTAATTTCAAAA-TGATAAGTTACACAGCCTGG
1 TGACTCTAATTCCAAAACAG-TAAGTTACACAGCCTGG
12969411 CACACGGTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 1 0.01
62 38 0.45
63 46 0.54
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (63 bp):
TGACTCTAATTCCAAAACAGTAAGTTACACAGCCTGGATACATGCTCGTGTCTCTGGCCCGTG
Found at i:12970735 original size:10 final size:10
Alignment explanation
Indices: 12970720--12970771 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
12970710 TAAATTTAGG
12970720 ATTTATTTTT
1 ATTTATTTTT
*
12970730 ATTTATCTTT
1 ATTTATTTTT
* *
12970740 AATTATCTTT
1 ATTTATTTTT
*
12970750 ATTTATTTAT
1 ATTTATTTTT
12970760 ATTTATCTTTT
1 ATTTAT-TTTT
12970771 A
1 A
12970772 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:12974483 original size:8 final size:8
Alignment explanation
Indices: 12974458--12974493 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
12974448 GGCAACCCAA
12974458 TTTTTATT
1 TTTTTATT
12974466 TCTCTTTATT
1 T-T-TTTATT
12974476 TTTTTATT
1 TTTTTATT
12974484 TTTTTATT
1 TTTTTATT
12974492 TT
1 TT
12974494 AATTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:12974502 original size:21 final size:21
Alignment explanation
Indices: 12974478--12974526 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
12974468 TCTTTATTTT
* * *
12974478 TTTATTTTTTTATTTTAATTA
1 TTTATTATTTTATCTTAATGA
12974499 TTTATTATTTTATCTTAATGA
1 TTTATTATTTTATCTTAATGA
12974520 TTTATTA
1 TTTATTA
12974527 CTTAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATTATTTTATCTTAATGA
Found at i:12974506 original size:16 final size:15
Alignment explanation
Indices: 12974470--12974510 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
12974460 TTTATTTCTC
*
12974470 TTTATT-TTTTTATT
1 TTTATTATTTTAATT
12974484 TTT-TTATTTTAATT
1 TTTATTATTTTAATT
12974498 ATTTATTATTTTA
1 -TTTATTATTTTA
12974511 TCTTAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 10 0.43
15 3 0.13
16 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTATTTTAATT
Found at i:12977829 original size:46 final size:44
Alignment explanation
Indices: 12977725--12977832 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
12977715 TGTCTTTGAC
** * * *
12977725 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
12977769 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
12977815 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
12977833 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:12978501 original size:2 final size:2
Alignment explanation
Indices: 12978494--12978519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12978484 CCTCAAAATA
12978494 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12978520 TTTTTACCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12984753 original size:46 final size:44
Alignment explanation
Indices: 12984649--12984756 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
12984639 TGTCTTTGAC
** * * *
12984649 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
12984693 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
12984739 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
12984757 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:12995259 original size:19 final size:21
Alignment explanation
Indices: 12995224--12995264 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12995214 ACTAAATTAT
12995224 AAAATTTTGAAAATTAA-AGA
1 AAAATTTTGAAAATTAATAGA
*
12995244 AAAATTTTG-AATTTAATAGA
1 AAAATTTTGAAAATTAATAGA
12995264 A
1 A
12995265 TACATATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (21 bp):
AAAATTTTGAAAATTAATAGA
Found at i:12996494 original size:28 final size:29
Alignment explanation
Indices: 12996463--12996517 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
12996453 AACTTTTTAT
12996463 TTTCCCC-AAAA-TTTTCACTCCCTTCCAC
1 TTTCCCCTAAAACTTTT-ACTCCCTTCCAC
12996491 TTTCCCCTAAAACTTTTACTCCCTTCC
1 TTTCCCCTAAAACTTTTACTCCCTTCC
12996518 CATTCCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 7 0.28
29 14 0.56
30 4 0.16
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTCCCCTAAAACTTTTACTCCCTTCCAC
Found at i:12997669 original size:186 final size:186
Alignment explanation
Indices: 12997355--12997702 Score: 687
Period size: 186 Copynumber: 1.9 Consensus size: 186
12997345 TATGTACACC
12997355 TTGAGTGTACAACTTAAGTATCCATCGATATTTTAGTAATTCAACGGATAAAACTCTCGACAAGA
1 TTGAGTGTACAACTTAAGTATCCATCGATATTTTAGTAATTCAACGGATAAAACTCTCGACAAGA
12997420 GAAAGTGTGAAATAAATAGAATTATATTTTAAATGATTCTAAGTGTTCTGATGAGCTCATCTATG
66 GAAAGTGTGAAATAAATAGAATTATATTTTAAATGATTCTAAGTGTTCTGATGAGCTCATCTATG
12997485 CTTATTTGATATACATGAGACTTATGTAACTACCTTGTTTGTTTGAGTGTATGTGT
131 CTTATTTGATATACATGAGACTTATGTAACTACCTTGTTTGTTTGAGTGTATGTGT
*
12997541 TTGAGTGTACTACTTAAGTATCCATCGATATTTTAGTAATTCAACGGATAAAACTCTCGACAAGA
1 TTGAGTGTACAACTTAAGTATCCATCGATATTTTAGTAATTCAACGGATAAAACTCTCGACAAGA
12997606 GAAAGTGTGAAATAAATAGAATTATATTTTAAATGATTCTAAGTGTTCTGATGAGCTCATCTATG
66 GAAAGTGTGAAATAAATAGAATTATATTTTAAATGATTCTAAGTGTTCTGATGAGCTCATCTATG
12997671 CTTATTTGATATACATGAGACTTATGTAACTA
131 CTTATTTGATATACATGAGACTTATGTAACTA
12997703 AGTTTTTTTT
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 161 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (186 bp):
TTGAGTGTACAACTTAAGTATCCATCGATATTTTAGTAATTCAACGGATAAAACTCTCGACAAGA
GAAAGTGTGAAATAAATAGAATTATATTTTAAATGATTCTAAGTGTTCTGATGAGCTCATCTATG
CTTATTTGATATACATGAGACTTATGTAACTACCTTGTTTGTTTGAGTGTATGTGT
Found at i:13002127 original size:23 final size:23
Alignment explanation
Indices: 13002101--13002145 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13002091 TGGGTATGTG
*
13002101 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
13002124 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
13002146 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:13012307 original size:50 final size:51
Alignment explanation
Indices: 13012232--13012338 Score: 189
Period size: 50 Copynumber: 2.1 Consensus size: 51
13012222 GTTAGAACAA
*
13012232 TTACCAGATGTTAATGAGTTTACTAATGTGTTTCTTGAGGAATTTTTGGG-
1 TTACCAGATGTTAATGAGTTTACTAACGTGTTTCTTGAGGAATTTTTGGGT
*
13012282 TTACCAGTTGTTAATGAGTTTACTAACGTGTTTCTTGAGGAATTTTTGGGT
1 TTACCAGATGTTAATGAGTTTACTAACGTGTTTCTTGAGGAATTTTTGGGT
13012333 TTACCA
1 TTACCA
13012339 CCTGATCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 48 0.89
51 6 0.11
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.44
Consensus pattern (51 bp):
TTACCAGATGTTAATGAGTTTACTAACGTGTTTCTTGAGGAATTTTTGGGT
Found at i:13018873 original size:21 final size:22
Alignment explanation
Indices: 13018837--13018910 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 22
13018827 TATAAAACCT
13018837 AATAAAAATAAGCTT-AAA-AA
1 AATAAAAATAAGCTTAAAATAA
13018857 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAG-CTTAAAATAA
* *
13018880 AATAAAAGTAA-C--AACATAA
1 AATAAAAATAAGCTTAAAATAA
13018899 AATAATAAATAA
1 AATAA-AAATAA
13018911 AAGTTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 11 0.24
20 15 0.33
21 5 0.11
22 4 0.09
23 10 0.22
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:13021370 original size:29 final size:29
Alignment explanation
Indices: 13021328--13021390 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
13021318 CTCCAATCTT
13021328 AAGTGGTAATGCTCAGGTTGCCTCCCGAG
1 AAGTGGTAATGCTCAGGTTGCCTCCCGAG
*
13021357 AAGTGGTAATGCTCGGGTTGCCTCCCGAG
1 AAGTGGTAATGCTCAGGTTGCCTCCCGAG
13021386 AAGTG
1 AAGTG
13021391 CTTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.33, T:0.24
Consensus pattern (29 bp):
AAGTGGTAATGCTCAGGTTGCCTCCCGAG
Found at i:13021652 original size:330 final size:329
Alignment explanation
Indices: 13021034--13021661 Score: 1123
Period size: 330 Copynumber: 1.9 Consensus size: 329
13021024 TTAACACTGT
*
13021034 TAATGCTTGGGATGCCTCCGAGAAGTGCTTATTTATTGTCTAAGCTCGACTTACCTAACTTTTAC
1 TAATGCTCGGGATGCCTCCGAGAAGTGCTTATTTATTGTCTAAGCTCGACTTACCTAACTTTTAC
* *
13021099 ATGGTCAATGTGGAGTGAGGAGTTTATAGTCCTCATCCCTGCTATAAACCTTATCAACATAAGGT
66 ATGGTCAATGTGGAGTGAGGAGTTTACAATCCTCATCCCTGCTATAAACCTTATCAACATAAGGT
13021164 TTAAGACGAGTATTGTTTACCTTAAATGTGCCAAATTTGGGATGATTTACCTCTACTGTACCATA
131 TTAAGACGAGTATTGTTTACCTTAAATGTGCCAAATTTGGGATGATTTACCTCTACTGTACCATA
13021229 TGGGAAAATACTGAGTACCGTAAGAGGAATTTATTCATTAGGTTCAGAAGTGGTAATGCAAGGAT
196 TGGGAAAATACTGAGTACCGTAAGAGGAATTTATTCATTAGGTTCAGAAGTGGTAATGCAAGGAT
13021294 TTGTTGCATCCAGTAGTACTTTGTCTCCAATCTTAAGTGGTAATGCTCAGGTTGCCTCCCGAGAA
261 TTGTTGCATCCAGTAGTACTTTGTCTCCAATCTTAAGTGGTAATGCTCAGGTTGCCTCCCGAGAA
13021359 GTGG
326 GTGG
* * *
13021363 TAATGCTCGGGTTGCCTCCCGAGAAGTGCTTATTTATTGTCTAAGCTCGACTTACCTCACTTTTG
1 TAATGCTCGGGATGCCT-CCGAGAAGTGCTTATTTATTGTCTAAGCTCGACTTACCTAACTTTTA
* *
13021428 CATGGTCAA-GATGGTGTGAGGAGTTTACAATCCTCGTCCCTGCTATAAACCTTATCAACATAAG
65 CATGGTCAATG-TGGAGTGAGGAGTTTACAATCCTCATCCCTGCTATAAACCTTATCAACATAAG
13021492 GTTTAAGACGAGTATTGTTTACCTTAAATGTGCCAAATTTGGGATGATTTACCTCTACTGTACCA
129 GTTTAAGACGAGTATTGTTTACCTTAAATGTGCCAAATTTGGGATGATTTACCTCTACTGTACCA
* *
13021557 TATGGGAAAATACTGAGTACCGTAAGAGGAATTTCTTCATTAGGTTCAGAAGTGGTAATGCGAGG
194 TATGGGAAAATACTGAGTACCGTAAGAGGAATTTATTCATTAGGTTCAGAAGTGGTAATGCAAGG
* *
13021622 ATTTGTTGCATCTAGTAGTATTTTGTCTCCAATCTTAAGT
259 ATTTGTTGCATCCAGTAGTACTTTGTCTCCAATCTTAAGT
13021662 TGATTTGGTG
Statistics
Matches: 285, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
329 16 0.06
330 269 0.94
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (329 bp):
TAATGCTCGGGATGCCTCCGAGAAGTGCTTATTTATTGTCTAAGCTCGACTTACCTAACTTTTAC
ATGGTCAATGTGGAGTGAGGAGTTTACAATCCTCATCCCTGCTATAAACCTTATCAACATAAGGT
TTAAGACGAGTATTGTTTACCTTAAATGTGCCAAATTTGGGATGATTTACCTCTACTGTACCATA
TGGGAAAATACTGAGTACCGTAAGAGGAATTTATTCATTAGGTTCAGAAGTGGTAATGCAAGGAT
TTGTTGCATCCAGTAGTACTTTGTCTCCAATCTTAAGTGGTAATGCTCAGGTTGCCTCCCGAGAA
GTGG
Found at i:13028551 original size:18 final size:17
Alignment explanation
Indices: 13028528--13028561 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13028518 TAGCTGTGCC
13028528 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
13028546 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
13028562 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:13029692 original size:25 final size:25
Alignment explanation
Indices: 13029663--13029710 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13029653 TTATAATATG
* * *
13029663 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
13029688 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
13029711 GTTTATACAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:13029779 original size:18 final size:19
Alignment explanation
Indices: 13029747--13029807 Score: 88
Period size: 20 Copynumber: 3.2 Consensus size: 19
13029737 ATTTTGATAA
*
13029747 ACATGATATGCATGATATGC
1 ACATGA-ATGTATGATATGC
13029767 ACATG-ATGTATGATATGC
1 ACATGAATGTATGATATGC
13029785 ACATGACATGTATGATATGC
1 ACATGA-ATGTATGATATGC
13029805 ACA
1 ACA
13029808 CGAGATGTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
18 17 0.45
20 21 0.55
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (19 bp):
ACATGAATGTATGATATGC
Found at i:13029815 original size:20 final size:19
Alignment explanation
Indices: 13029758--13029815 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
13029748 CATGATATGC
*
13029758 ATGATATGCACA-TGATGT
1 ATGATATGCACAGAGATGT
*
13029776 ATGATATGCACATGACATGT
1 ATGATATGCACA-GAGATGT
13029796 ATGATATGCACACGAGATGT
1 ATGATATGCACA-GAGATGT
13029816 TCATAAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.35
20 22 0.65
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGATATGCACAGAGATGT
Found at i:13029950 original size:24 final size:24
Alignment explanation
Indices: 13029861--13029978 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
13029851 GAGGAAGTGC
13029861 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
13029885 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
13029908 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
13029931 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
13029955 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
13029979 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 52 0.59
24 19 0.22
25 17 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:13037745 original size:25 final size:25
Alignment explanation
Indices: 13037716--13037763 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13037706 TTATAATATG
* * *
13037716 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
13037741 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
13037764 GTTTATACAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:13037814 original size:9 final size:9
Alignment explanation
Indices: 13037802--13037878 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
13037792 TTTGATAAAC
13037802 ATGATATGT
1 ATGATATGT
13037811 ATGATATGT
1 ATGATATGT
13037820 ACATGATATGT
1 --ATGATATGT
*
13037831 ATGATATGCAC
1 ATGATATG--T
*
13037842 ATGACATGT
1 ATGATATGT
*
13037851 ATGATATGCAC
1 ATGATATG--T
13037862 ATGATATGT
1 ATGATATGT
13037871 ATGATATG
1 ATGATATG
13037879 CACACGAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:13037827 original size:11 final size:11
Alignment explanation
Indices: 13037800--13037871 Score: 75
Period size: 11 Copynumber: 7.1 Consensus size: 11
13037790 ATTTTGATAA
13037800 ACATGATATGT
1 ACATGATATGT
13037811 --ATGATATGT
1 ACATGATATGT
13037820 ACATGATATGT
1 ACATGATATGT
*
13037831 --ATGATATGC
1 ACATGATATGT
*
13037840 ACATGACATGT
1 ACATGATATGT
*
13037851 --ATGATATGC
1 ACATGATATGT
13037860 ACATGATATGT
1 ACATGATATGT
13037871 A
1 A
13037872 TGATATGCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (11 bp):
ACATGATATGT
Found at i:13037890 original size:20 final size:20
Alignment explanation
Indices: 13037800--13037882 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
13037790 ATTTTGATAA
*
13037800 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
13037820 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
13037840 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
13037860 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13037880 ACA
1 ACA
13037883 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:13038056 original size:23 final size:23
Alignment explanation
Indices: 13037937--13038054 Score: 220
Period size: 23 Copynumber: 5.1 Consensus size: 23
13037927 AGGAAGTGCA
13037937 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
13037960 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
13037983 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
13038006 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
13038029 AAAAGGGCTT-TGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
13038052 AAA
1 AAA
13038055 AGAGGCTAGG
Statistics
Matches: 94, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
22 3 0.03
23 82 0.87
24 9 0.10
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:13045296 original size:35 final size:35
Alignment explanation
Indices: 13045252--13045418 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
13045242 TCCTCATTGA
** *
13045252 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13045287 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13045327 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13045362 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13045397 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13045419 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13045335 original size:75 final size:73
Alignment explanation
Indices: 13045247--13045418 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
13045237 GGTTTTCCTC
** * * **
13045247 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13045311 TCAGTATGG
65 TCAGTATGG
*
13045320 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13045385 CTCAGTATGG
64 CTCAGTATGG
13045395 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13045419 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13047602 original size:92 final size:92
Alignment explanation
Indices: 13047461--13047651 Score: 346
Period size: 92 Copynumber: 2.1 Consensus size: 92
13047451 TTTTTATTTA
* * *
13047461 GAATCTCATGTATTTTAATTTTAAAAAGGATATTTGGTTATTTATGTTCAACGAGAAAAATCGAA
1 GAATCTCATGTATTTTAATTTTAAAAAGGATATTTGATTATTTACGTTCAACGAGAAAAATCAAA
*
13047526 ACCTCGTAAGTTAGGGTAAGATTTCTC
66 ACCCCGTAAGTTAGGGTAAGATTTCTC
13047553 GAATCTCATGTATTTTAATTTTAAAAAGGATATTTGATTATTTACGTTCAACGAGAAAAATCAAA
1 GAATCTCATGTATTTTAATTTTAAAAAGGATATTTGATTATTTACGTTCAACGAGAAAAATCAAA
13047618 ACCCCGTAAGTTAGGGTAAGATTTCTC
66 ACCCCGTAAGTTAGGGTAAGATTTCTC
13047645 GAATCTC
1 GAATCTC
13047652 CAAAATACGA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 95 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (92 bp):
GAATCTCATGTATTTTAATTTTAAAAAGGATATTTGATTATTTACGTTCAACGAGAAAAATCAAA
ACCCCGTAAGTTAGGGTAAGATTTCTC
Found at i:13056699 original size:58 final size:58
Alignment explanation
Indices: 13056606--13056720 Score: 185
Period size: 58 Copynumber: 2.0 Consensus size: 58
13056596 AGCTCACTTG
* **
13056606 AATTGCTTTATATTCTTGAGCTATTTCTGTGATAGACCTAACATATAAGATTTTTCAC
1 AATTGCTTTATATTCTTAAGCTATTTCTGCAATAGACCTAACATATAAGATTTTTCAC
* *
13056664 AATTGCTTTATATTCTTAAGCTATTTCTGCAATAGACCTAGCATGTAAGATTTTTCA
1 AATTGCTTTATATTCTTAAGCTATTTCTGCAATAGACCTAACATATAAGATTTTTCA
13056721 TCTATCACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.43
Consensus pattern (58 bp):
AATTGCTTTATATTCTTAAGCTATTTCTGCAATAGACCTAACATATAAGATTTTTCAC
Found at i:13067060 original size:17 final size:18
Alignment explanation
Indices: 13067038--13067077 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
13067028 GTAAAGGAAT
13067038 AATAAATA-AATAAATAA
1 AATAAATATAATAAATAA
*
13067055 AATAAA-ATAATATATAA
1 AATAAATATAATAAATAA
13067072 AA-AAAT
1 AATAAAT
13067078 CTATACAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAAATATAATAAATAA
Found at i:13072555 original size:40 final size:40
Alignment explanation
Indices: 13072393--13072558 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 40
13072383 TCTTCGGAAT
* * * *
13072393 TTAGCCGA-ATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCAGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *** *
13072432 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCAGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
13072472 TTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCAGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
13072512 TTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCAGATATAA-CAACTAGCACAAATGCCTTCGGGTC
13072552 TTAGCCC
1 TTAGCCC
13072559 GGGTATCATT
Statistics
Matches: 102, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 5 0.05
40 96 0.94
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCAGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:13076879 original size:55 final size:55
Alignment explanation
Indices: 13076810--13076926 Score: 218
Period size: 55 Copynumber: 2.1 Consensus size: 55
13076800 GGTAGCTGAA
13076810 CAAGCTGACAATCAAGAACAAGTATCCTTTGCCAAGAATCGACGATCTGTTCGAC
1 CAAGCTGACAATCAAGAACAAGTATCCTTTGCCAAGAATCGACGATCTGTTCGAC
*
13076865 CAAGCTGACGATCAAGAACAAGTATCCTTTGCCAAGAATCGACGATCTGTTCGAC
1 CAAGCTGACAATCAAGAACAAGTATCCTTTGCCAAGAATCGACGATCTGTTCGAC
13076920 CAA-CTGA
1 CAAGCTGA
13076927 GAGGAGCCTC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 4 0.07
55 57 0.93
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (55 bp):
CAAGCTGACAATCAAGAACAAGTATCCTTTGCCAAGAATCGACGATCTGTTCGAC
Found at i:13081178 original size:10 final size:10
Alignment explanation
Indices: 13081163--13081201 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
13081153 TGTTTTTGTA
13081163 CATGATATGC
1 CATGATATGC
13081173 CATGATATGC
1 CATGATATGC
13081183 ACATGATATGC
1 -CATGATATGC
13081194 CATGATAT
1 CATGATAT
13081202 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:13081187 original size:21 final size:21
Alignment explanation
Indices: 13081162--13081201 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
13081152 CTGTTTTTGT
13081162 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
13081183 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
13081202 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:13082661 original size:44 final size:44
Alignment explanation
Indices: 13082570--13083013 Score: 408
Period size: 44 Copynumber: 10.1 Consensus size: 44
13082560 AGAGGTATAG
* * * * * * * * *
13082570 GATTTGTTGCTTCAATCTACTCTACTGCAACTTTAGGAATATTA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
* * *
13082614 GACTTGTAGCTTTAATCTGCTCCCCTGTAACTTCAGGGAGATGA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
* * * * * * *
13082658 GACTCGTATCTTCAATCTACTTCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
* * * * * * *
13082702 GATTTGTAACTTCAATCTGCTCAACTATAGCTTTAGGGAGATGA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
* * ** * * *
13082746 TACTCATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
* * *
13082790 GATTTGTCG-TTTCAATCTGTTCCACTGTAACTTTAGGGAGATAA
1 GATTTGTAGCTTT-AATCTGCTCCACTGTAACTTCAGGGAGATAA
* *
13082834 GATTTGTAG-TTTCAATCTGTTCCACTGTAACTTCAGGGAAATAA
1 GATTTGTAGCTTT-AATCTGCTCCACTGTAACTTCAGGGAGATAA
* * **
13082878 GATTTGTAACTTTAATCTGCTCCACTGCAACTTCAAAGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
* * * *
13082922 GATTTGTAACTTTAATATGCTCCACTATGAA-TTTAGGGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGT-AACTTCAGGGAGATAA
* *
13082966 GATTTGTGGCTTTAATCTGCTCCACTGTAAATTCAGGGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
13083010 GATT
1 GATT
13083014 CGCCACGGTG
Statistics
Matches: 325, Mismatches: 71, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
43 4 0.01
44 316 0.97
45 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
GATTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAA
Found at i:13090996 original size:41 final size:41
Alignment explanation
Indices: 13090920--13091090 Score: 175
Period size: 41 Copynumber: 4.2 Consensus size: 41
13090910 ACGTTTTCTT
* * * * *
13090920 AAACGCCACAAAAAACTGAACAATAGTGGCATTTTTGGCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCA
* * * *
13090961 AAATGCTACTAAAAACTGATCAATAGCGGCGTTTTTAGCTA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCA
* * * *
13091002 AAACGCCACTAAAAACTGATGAATAACGGCGTTTTTATG-TA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-GGCCA
* *
13091043 AAACGCCACTAAAAACTGAGCAATAGTGGCGTTTTTGGTCC-
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGG-CCA
13091084 AAACGCC
1 AAACGCC
13091091 GCAAAATGTT
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.01
41 105 0.98
42 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCA
Found at i:13091427 original size:28 final size:28
Alignment explanation
Indices: 13091386--13091439 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
13091376 TTCTCTAAAC
13091386 CCTTAAATCCT-AAACATTAAACCCTATA
1 CCTTAAATCCTAAAACA-TAAACCCTATA
**
13091414 CCTTAAATTTTAAAACATAAACCCTA
1 CCTTAAATCCTAAAACATAAACCCTA
13091440 AACACTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (28 bp):
CCTTAAATCCTAAAACATAAACCCTATA
Found at i:13091680 original size:36 final size:36
Alignment explanation
Indices: 13091602--13091681 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 36
13091592 GTTTAAGGCC
*
13091602 TATGGTTTAGGGTTCAATGGTAGAATATATTTTAAGTT
1 TATGGTTTAGGGTTCAATGGT--AATATATGTTAAGTT
13091640 TATGGTTTAGGGTTCAATGGT-ATAGTATGTTAAGTT
1 TATGGTTTAGGGTTCAATGGTAATA-TATGTTAAGTT
13091676 TATGGT
1 TATGGT
13091682 ATGGGTTGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 3 0.08
36 16 0.40
38 21 0.52
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (36 bp):
TATGGTTTAGGGTTCAATGGTAATATATGTTAAGTT
Found at i:13092811 original size:40 final size:41
Alignment explanation
Indices: 13092740--13092851 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 41
13092730 CCAGAGCCAG
* * * **
13092740 TAGCGGCATTTTTTTAAAAATGCCACT-AAAGATTGAGAAT
1 TAGCGGCACTTTTGTAAAAACGCTGCTAAAAGATTGAGAAT
* * *
13092780 TAGCTGCGCTTTTGTAAAAACGCTGC-AAAAGATTGAGATT
1 TAGCGGCACTTTTGTAAAAACGCTGCTAAAAGATTGAGAAT
*
13092820 TAGCGGCACTTTTGTAAAAATGCTGCTAAAAG
1 TAGCGGCACTTTTGTAAAAACGCTGCTAAAAG
13092852 TTTAATTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 54 0.92
41 5 0.08
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (41 bp):
TAGCGGCACTTTTGTAAAAACGCTGCTAAAAGATTGAGAAT
Found at i:13094539 original size:10 final size:10
Alignment explanation
Indices: 13094520--13094559 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
13094510 CTGACCATTC
13094520 TTCC-TTCTT
1 TTCCTTTCTT
13094529 TTCCTTTCTT
1 TTCCTTTCTT
*
13094539 TTCTTTTCTT
1 TTCCTTTCTT
13094549 TT-CTTT-TT
1 TTCCTTTCTT
13094557 TTC
1 TTC
13094560 TCCATCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 4 0.15
9 7 0.26
10 16 0.59
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTCCTTTCTT
Found at i:13094541 original size:5 final size:5
Alignment explanation
Indices: 13094524--13094555 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
13094514 CCATTCTTCC
*
13094524 TTCTT TTCCT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
13094556 TTTCTCCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTCTT
Found at i:13101146 original size:5 final size:5
Alignment explanation
Indices: 13101133--13101165 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
13101123 ACCATTCTTC
*
13101133 TTTCT TTTCC TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
13101166 TTCTCTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:13101999 original size:16 final size:15
Alignment explanation
Indices: 13101973--13102003 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13101963 GCTAGATCGG
13101973 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
13101988 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
13102004 TGGTATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:13102273 original size:28 final size:28
Alignment explanation
Indices: 13102233--13102311 Score: 158
Period size: 28 Copynumber: 2.8 Consensus size: 28
13102223 ATGTACTATT
13102233 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
13102261 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
13102289 ATACCCCTATGTATGCAAAATTA
1 ATACCCCTATGTATGCAAAATTA
13102312 AATCTGTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATA
Found at i:13102415 original size:28 final size:29
Alignment explanation
Indices: 13102384--13102446 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
13102374 AGGAAGCGTC
*
13102384 CTGGTGGCTA-TGCCACAAATTATCTGT-T
1 CTGGTGGC-ACTGCCACAAAATATCTGTAT
13102412 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGTAT
13102441 CTGGTG
1 CTGGTG
13102447 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCACTGCCACAAAATATCTGTAT
Found at i:13102457 original size:29 final size:28
Alignment explanation
Indices: 13102394--13102457 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
13102384 CTGGTGGCTA
* *
13102394 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
13102422 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
13102451 TGTCACA
1 TGCCACA
13102458 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:13105920 original size:39 final size:39
Alignment explanation
Indices: 13105877--13106016 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
13105867 ATTGTAATCT
* * *
13105877 GAAGCCCGAAGTCTAGTTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
*
13105916 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
* *
13105955 AAAGCCTGAAGGCT-GACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAG-CTGAAGCACACAAGTGCTAAACG
*
13105994 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAGCTGAAGC
13106017 TCATTAGAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
Found at i:13107665 original size:14 final size:14
Alignment explanation
Indices: 13107648--13107692 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
13107638 ATATATATAT
13107648 ATATATCAATATGC
1 ATATATCAATATGC
*
13107662 ATATGT--ATA--C
1 ATATATCAATATGC
13107672 ATATATCAATATGC
1 ATATATCAATATGC
13107686 ATATATC
1 ATATATC
13107693 TTGGGTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 6 0.24
12 6 0.24
14 13 0.52
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:13107670 original size:24 final size:24
Alignment explanation
Indices: 13107638--13107691 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
13107628 TAATGTATAT
*
13107638 ATATATATATATATATCAATATGC
1 ATATATATACATATATCAATATGC
*
13107662 ATATGTATACATATATCAATATGC
1 ATATATATACATATATCAATATGC
13107686 ATATAT
1 ATATAT
13107692 CTTGGGTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (24 bp):
ATATATATACATATATCAATATGC
Found at i:13107840 original size:25 final size:25
Alignment explanation
Indices: 13107803--13107870 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
13107793 TCGGCATCGT
* *
13107803 CATCGACAGCCCTCTGCTACATTTC
1 CATCGGCATCCCTCTGCTACATTTC
* * *
13107828 CGTCGTCATCCCTATGCTACATTTC
1 CATCGGCATCCCTCTGCTACATTTC
13107853 CATCGGCATCCCTCTGCT
1 CATCGGCATCCCTCTGCT
13107871 GCTTCTCTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.16, C:0.40, G:0.13, T:0.31
Consensus pattern (25 bp):
CATCGGCATCCCTCTGCTACATTTC
Found at i:13108558 original size:23 final size:23
Alignment explanation
Indices: 13108528--13108573 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13108518 AAAGTATTTG
13108528 GTTAAGAAAACTT-ATTTGATAAT
1 GTTAAGAAAA-TTCATTTGATAAT
13108551 GTTAAGAAAATTCATTTGATAAT
1 GTTAAGAAAATTCATTTGATAAT
13108574 AATAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTAAGAAAATTCATTTGATAAT
Found at i:13108589 original size:22 final size:22
Alignment explanation
Indices: 13108530--13108589 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
13108520 AGTATTTGGT
**
13108530 TAAGAAAACTTATTTGATAATGT
1 TAAGAAAA-TTATTTGATAATAA
13108553 TAAGAAAATTCATTTGATAATAA
1 TAAGAAAATT-ATTTGATAATAA
13108576 TAA-AAAAGTTATTT
1 TAAGAAAA-TTATTT
13108590 TTATTTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (22 bp):
TAAGAAAATTATTTGATAATAA
Found at i:13109292 original size:9 final size:9
Alignment explanation
Indices: 13109280--13109513 Score: 212
Period size: 9 Copynumber: 26.6 Consensus size: 9
13109270 TATATCATAT
13109280 CATAACTTA
1 CATAACTTA
*
13109289 CATAATTTA
1 CATAACTTA
13109298 CATAACTTA
1 CATAACTTA
*
13109307 TATAACTTA
1 CATAACTTA
*
13109316 TATAA---A
1 CATAACTTA
* *
13109322 TATAATTTA
1 CATAACTTA
13109331 CATAACTTA
1 CATAACTTA
13109340 CATAACTTA
1 CATAACTTA
* *
13109349 GATAA-ATA
1 CATAACTTA
* *
13109357 TATAACTAA
1 CATAACTTA
13109366 CATAACTTA
1 CATAACTTA
*
13109375 CATAA-ATA
1 CATAACTTA
* * *
13109383 TATATCATA
1 CATAACTTA
13109392 TCATAACTTA
1 -CATAACTTA
13109402 CATAACTTA
1 CATAACTTA
13109411 CATAACTTA
1 CATAACTTA
*
13109420 TATAACTTA
1 CATAACTTA
* *
13109429 GATAA-ATA
1 CATAACTTA
13109437 CATAACTTA
1 CATAACTTA
13109446 CATAACTTA
1 CATAACTTA
*
13109455 CATAA-ATA
1 CATAACTTA
* * *
13109463 TATATCATA
1 CATAACTTA
13109472 TCATAACTTA
1 -CATAACTTA
13109482 CATAACTTA
1 CATAACTTA
*
13109491 CAAAACTTA
1 CATAACTTA
13109500 CATAACTTA
1 CATAACTTA
13109509 CATAA
1 CATAA
13109514 TACATAAATA
Statistics
Matches: 185, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
6 6 0.03
8 22 0.12
9 145 0.78
10 12 0.06
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:13109333 original size:42 final size:41
Alignment explanation
Indices: 13109281--13109530 Score: 125
Period size: 35 Copynumber: 6.2 Consensus size: 41
13109271 ATATCATATC
* * *
13109281 ATAACTTACATAATTTACATAACTTATATAACTTATATAAAT
1 ATAACTTACATAACTTACATAACTTAGATAA-ATATATAAAT
*
13109323 ATAATTTACATAACTTACATAACTTAGAT--A-A-AT--AT
1 ATAACTTACATAACTTACATAACTTAGATAAATATATAAAT
* * * * *
13109358 ATAACTAACATAACTTACATAA-ATATATATCATATCATAACTTAC
1 ATAACTTACATAACTTACATAACTTAGATA-AATAT-ATAA---AT
* *
13109403 ATAACTTACATAACTTATATAACTTAGAT--A-A-AT--AC
1 ATAACTTACATAACTTACATAACTTAGATAAATATATAAAT
* * * *
13109438 ATAACTTACATAACTTACATAA-ATATATATCATATCATAACTTAC
1 ATAACTTACATAACTTACATAACTTAGATA-AATAT-ATAA---AT
* * *
13109483 ATAACTTACAAAACTTACATAACTTACAT-AATACATAAAT
1 ATAACTTACATAACTTACATAACTTAGATAAATATATAAAT
13109523 ATATACTT
1 ATA-ACTT
13109531 GAAAATCCCA
Statistics
Matches: 161, Mismatches: 22, Indels: 51
0.69 0.09 0.22
Matches are distributed among these distances:
34 8 0.05
35 45 0.28
37 4 0.02
38 3 0.02
40 10 0.06
41 4 0.02
42 27 0.17
43 5 0.03
44 3 0.02
45 44 0.27
46 8 0.05
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (41 bp):
ATAACTTACATAACTTACATAACTTAGATAAATATATAAAT
Found at i:13109403 original size:113 final size:115
Alignment explanation
Indices: 13109264--13109492 Score: 356
Period size: 113 Copynumber: 2.0 Consensus size: 115
13109254 ATCTTAATGT
* * *
13109264 TAAATATATATCATATCATAACTTACATAATTTACATAACTTATATAACTTATATAAAT-ATAAT
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAATAAC
*
13109328 TTACATAACTTACATAACTTAGATA-AATAT-ATAACTAACATAACTTACA
66 TTACATAACTTACATAA-ATAGATATAATATCATAACTAACATAACTTACA
13109377 TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATACATAA
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATA-ATAA
* * *
13109442 CTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACA
65 CTTACATAACTTACATAAATAGATATAATATCATAACTAACATAACTTACA
13109493 AAACTTACAT
Statistics
Matches: 105, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
113 57 0.54
114 5 0.05
115 25 0.24
116 18 0.17
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (115 bp):
TAAATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAATAAC
TTACATAACTTACATAAATAGATATAATATCATAACTAACATAACTTACA
Found at i:13109418 original size:71 final size:71
Alignment explanation
Indices: 13109287--13109520 Score: 244
Period size: 80 Copynumber: 3.2 Consensus size: 71
13109277 TATCATAACT
* * * * * *
13109287 TACATAATTTACATAACTTATATAACT-TATAT-AAAT-ATAATTTACATAACTTACATAACTTA
1 TACATAACTAACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTTA
13109349 GATAAA
66 GATAAA
*
13109355 TATATAACTAACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTTA
1 TACATAACTAACATAACTTACATAAATATATATCATATCATAACTTACATAAC-T---T-AC---
13109420 TATAACTTAGATAAA
58 -ATAACTTAGATAAA
* *
13109435 TACATAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACAAAACTTA
1 TACATAACTAACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTTA
* *
13109500 CATAACT
66 GATAA-A
13109507 TACATAA-T-ACATAA
1 TACATAACTAACATAA
13109521 ATATATACTT
Statistics
Matches: 141, Mismatches: 12, Indels: 24
0.80 0.07 0.14
Matches are distributed among these distances:
68 22 0.16
69 5 0.04
70 9 0.06
71 25 0.18
72 8 0.06
75 3 0.02
76 3 0.02
79 1 0.01
80 65 0.46
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (71 bp):
TACATAACTAACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTTA
GATAAA
Found at i:13109430 original size:80 final size:80
Alignment explanation
Indices: 13109323--13109520 Score: 335
Period size: 80 Copynumber: 2.5 Consensus size: 80
13109313 TTATATAAAT
* *
13109323 ATAATTTACATAACTTACATAACTTAGATAAATATATAACTAACATAACTTACATAAATATATAT
1 ATAACTTACATAACTTACATAACTTAGATAAATACATAACTAACATAACTTACATAAATATATAT
13109388 CATATCATAACTTAC
66 CATATCATAACTTAC
* *
13109403 ATAACTTACATAACTTATATAACTTAGATAAATACATAACTTACATAACTTACATAAATATATAT
1 ATAACTTACATAACTTACATAACTTAGATAAATACATAACTAACATAACTTACATAAATATATAT
13109468 CATATCATAACTTAC
66 CATATCATAACTTAC
* *
13109483 ATAACTTACAAAACTTACATAACTTACAT-AATACATAA
1 ATAACTTACATAACTTACATAACTTAGATAAATACATAA
13109521 ATATATACTT
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 9 0.08
80 102 0.92
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (80 bp):
ATAACTTACATAACTTACATAACTTAGATAAATACATAACTAACATAACTTACATAAATATATAT
CATATCATAACTTAC
Found at i:13109583 original size:7 final size:7
Alignment explanation
Indices: 13109571--13109595 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13109561 ACACCCATTA
13109571 GATACTT
1 GATACTT
13109578 GATACTT
1 GATACTT
13109585 GATACTT
1 GATACTT
13109592 GATA
1 GATA
13109596 TGTATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (7 bp):
GATACTT
Found at i:13114705 original size:13 final size:14
Alignment explanation
Indices: 13114689--13114720 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
13114679 TTATTATAAA
13114689 TAATTATAAT-GTT
1 TAATTATAATGGTT
13114702 TAATTATAATGGTT
1 TAATTATAATGGTT
13114716 TAATT
1 TAATT
13114721 CGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:13117588 original size:15 final size:15
Alignment explanation
Indices: 13117544--13117611 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
13117534 TATGATATTG
*
13117544 TATCTTGGATTTCTG
1 TATCTTGGATTTCTT
13117559 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
13117574 TATCTTAGATTTCTT
1 TATCTTGGATTTCTT
* * * *
13117589 TGTCCTGGACTACTT
1 TATCTTGGATTTCTT
13117604 TATCTTGG
1 TATCTTGG
13117612 TTTTTATGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.15, C:0.16, G:0.16, T:0.53
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:13120591 original size:40 final size:40
Alignment explanation
Indices: 13120527--13120605 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
13120517 ATACGGTACC
* *
13120527 ACTTGGTGTGTGGGGTTGGATGGGTTGATTCTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTTGATTCTATCCCCAT
* *
13120567 ACTTGGTGTGTAGGGCTGGGTGGGTTGATTTTATCCCCA
1 ACTTGGTGTGTAGGGCTGGATGGGTTGATTCTATCCCCA
13120606 CATGGTGTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.13, C:0.15, G:0.35, T:0.37
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTTGATTCTATCCCCAT
Found at i:13120612 original size:38 final size:38
Alignment explanation
Indices: 13120525--13120614 Score: 117
Period size: 40 Copynumber: 2.3 Consensus size: 38
13120515 GTATACGGTA
* *
13120525 CCACTTGGTGTGTGGGGTTGGATGGGTTGATTCTATCC
1 CCACTTGGTGTGTAGGGCTGGATGGGTTGATTCTATCC
* *
13120563 CCATACTTGGTGTGTAGGGCTGGGTGGGTTGATTTTATCC
1 CC--ACTTGGTGTGTAGGGCTGGATGGGTTGATTCTATCC
*
13120603 CCACATGGTGTG
1 CCACTTGGTGTG
13120615 CTGGGTTGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 11 0.24
40 34 0.76
ACGTcount: A:0.12, C:0.17, G:0.36, T:0.36
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGCTGGATGGGTTGATTCTATCC
Found at i:13135891 original size:42 final size:42
Alignment explanation
Indices: 13135790--13135897 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
13135780 GCCAACGTCT
* * * *
13135790 CAGACGTGGTCTTACATGTAATCAAATATCGATGCTGTTGTCC
1 CAGACATGGTCTTACACGTAATCAAATA-CGATACTGATGTCC
* * * *
13135833 CAGACAAGATCTTACACGAAATCAAATA-GAATACTGATGTCG
1 CAGACATGGTCTTACACGTAATCAAATACG-ATACTGATGTCC
13135875 CAGACATGGTCTTACACGTAATC
1 CAGACATGGTCTTACACGTAATC
13135898 TCAAGTTGAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 1 0.02
42 29 0.55
43 23 0.43
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
CAGACATGGTCTTACACGTAATCAAATACGATACTGATGTCC
Found at i:13142532 original size:21 final size:22
Alignment explanation
Indices: 13142507--13142554 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
13142497 ATAATAGAAT
*
13142507 AGAAATGAAA-AAA-AACAGGGG
1 AGAAATGAAAGAAAGAA-AAGGG
13142528 AGAAA-GAAAGAAAGAAAAGGG
1 AGAAATGAAAGAAAGAAAAGGG
13142549 AGAAAT
1 AGAAAT
13142555 TGGGGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.29, T:0.04
Consensus pattern (22 bp):
AGAAATGAAAGAAAGAAAAGGG
Found at i:13145922 original size:2 final size:2
Alignment explanation
Indices: 13145915--13145939 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13145905 GAGACTAGTC
13145915 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13145940 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13152673 original size:29 final size:30
Alignment explanation
Indices: 13152619--13152680 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
13152609 CCTTTTCATA
13152619 TTTCATATTTCATAACACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
**
13152649 TTTCATATTT-ATATTACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
13152678 TTT
1 TTT
13152681 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:13152923 original size:24 final size:24
Alignment explanation
Indices: 13152887--13153038 Score: 254
Period size: 24 Copynumber: 6.4 Consensus size: 24
13152877 CTGGAGGCCT
*
13152887 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
13152912 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13152936 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
13152959 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
13152983 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13153007 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13153030 AGCCCTTTT
1 AGCCCTTTT
13153039 TCACTTCCTC
Statistics
Matches: 122, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
23 45 0.37
24 73 0.60
25 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13152973 original size:71 final size:71
Alignment explanation
Indices: 13152887--13153038 Score: 268
Period size: 71 Copynumber: 2.1 Consensus size: 71
13152877 CTGGAGGCCT
13152887 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
13152952 GGGCATA
65 GGGCATA
* * *
13152959 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGG
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
13153024 GGCATA
66 GGCATA
13153030 AGCCCTTTT
1 AGCCCTTTT
13153039 TCACTTCCTC
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 73 0.95
72 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
GGCATA
Found at i:13153038 original size:47 final size:48
Alignment explanation
Indices: 13152887--13153038 Score: 254
Period size: 47 Copynumber: 3.2 Consensus size: 48
13152877 CTGGAGGCCT
*
13152887 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
13152936 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
13152983 AGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
13153030 AGCCCTTTT
1 AGCCCTTTT
13153039 TCACTTCCTC
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
47 71 0.72
48 23 0.23
49 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:13153112 original size:20 final size:20
Alignment explanation
Indices: 13153087--13153153 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
13153077 TTATGATTAC
13153087 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
13153107 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13153127 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13153147 ACCATGT
1 ATCATGT
13153154 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13153118 original size:11 final size:11
Alignment explanation
Indices: 13153087--13153142 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
13153077 TTATGATTAC
13153087 ATCATGTGCAT
1 ATCATGTGCAT
*
13153098 ATCA--TACAT
1 ATCATGTGCAT
13153107 ATCATGTGCAT
1 ATCATGTGCAT
*
13153118 ATCA--TACAT
1 ATCATGTGCAT
*
13153127 GTCATGTGCAT
1 ATCATGTGCAT
13153138 ATCAT
1 ATCAT
13153143 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:13153222 original size:25 final size:25
Alignment explanation
Indices: 13153190--13153237 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13153180 ATACATAAAC
* * *
13153190 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
13153215 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
13153238 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:13156208 original size:14 final size:13
Alignment explanation
Indices: 13156187--13156217 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13156177 TCAATTTTCC
13156187 CTTTTCT-TTTTT
1 CTTTTCTCTTTTT
13156199 CTTTTCTCTTTTT
1 CTTTTCTCTTTTT
13156212 CTTTTC
1 CTTTTC
13156218 CTTCCCCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTCTCTTTTT
Found at i:13156486 original size:18 final size:19
Alignment explanation
Indices: 13156437--13156486 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
13156427 TATAATATAA
13156437 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
13156457 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
13156477 TTATTTAATA
1 TTATTTAATA
13156487 TCTAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:13156658 original size:19 final size:21
Alignment explanation
Indices: 13156612--13156658 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
13156602 TATAATAAAT
* *
13156612 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
13156633 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
13156651 TAATTAAA
1 TAATTAAA
13156659 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:13161263 original size:23 final size:23
Alignment explanation
Indices: 13161233--13161278 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13161223 TTCTCAGAGA
13161233 ATACTCGATAAGAGACCTTTTCT
1 ATACTCGATAAGAGACCTTTTCT
13161256 ATACTCGATAAGAGACCTTTTCT
1 ATACTCGATAAGAGACCTTTTCT
13161279 GCCTTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (23 bp):
ATACTCGATAAGAGACCTTTTCT
Found at i:13163962 original size:15 final size:16
Alignment explanation
Indices: 13163941--13163988 Score: 71
Period size: 15 Copynumber: 3.0 Consensus size: 16
13163931 TTTTTATTAC
13163941 TTTTTATTGCAATTTA
1 TTTTTATTGCAATTTA
*
13163957 -TTTTATTACAATTTAA
1 TTTTTATTGCAATTT-A
13163973 TTTTTATTGCAATTTA
1 TTTTTATTGCAATTTA
13163989 AATTTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 13 0.46
16 2 0.07
17 13 0.46
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (16 bp):
TTTTTATTGCAATTTA
Found at i:13163979 original size:17 final size:17
Alignment explanation
Indices: 13163941--13163997 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
13163931 TTTTTATTAC
13163941 TTTTTATTGCAATTT-A
1 TTTTTATTGCAATTTAA
*
13163957 -TTTTATTACAATTTAA
1 TTTTTATTGCAATTTAA
13163973 TTTTTATTGCAATTTAA
1 TTTTTATTGCAATTTAA
*
13163990 ATTTTATT
1 TTTTTATT
13163998 TTTGTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.36
16 1 0.03
17 22 0.61
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTTTATTGCAATTTAA
Found at i:13168109 original size:26 final size:26
Alignment explanation
Indices: 13168080--13168187 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
13168070 TGGTACAAAT
13168080 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13168106 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13168132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13168158 TAATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13168184 TGAT
1 TGAT
13168188 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.