Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 86 of 120
Found at i:24879020 original size:16 final size:16
Alignment explanation
Indices: 24878995--24879062 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
24878985 TGGTTCGCTA
*
24878995 TAATGGAATAGAGCTG
1 TAATGAAATAGAGCTG
* *
24879011 TAATGAAATAAAGTTG
1 TAATGAAATAGAGCTG
*
24879027 TAAT-AATATGGAGCTG
1 TAATGAA-ATAGAGCTG
*
24879043 TAATGGAATA-AGGCTG
1 TAATGAAATAGA-GCTG
24879059 TAAT
1 TAAT
24879063 CAGTAATTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
15 3 0.07
16 37 0.90
17 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.29
Consensus pattern (16 bp):
TAATGAAATAGAGCTG
Found at i:24879349 original size:57 final size:58
Alignment explanation
Indices: 24879222--24879356 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 58
24879212 TTGTTATTAA
* * * *
24879222 ATTTTAATA-AGATTATTATTAAATATAATTTGATAAAAATAATAAATAATTTAATTAT
1 ATTTTAATATA-ATTATTATTAAATACAATTTAATAAAAATAATAAATAATTTAATAAC
* *
24879280 ACTTTAACATAATTATTATTAAATACAATTTAAT-AAAATAATATAA-AATTTAATAAC
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAAATAATA-AATAATTTAATAAC
*
24879337 ATTTTAATATAATTTTTATT
1 ATTTTAATATAATTATTATT
24879357 GTTATTAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 35 0.53
58 30 0.45
59 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAAATAATAAATAATTTAATAAC
Found at i:24879475 original size:24 final size:24
Alignment explanation
Indices: 24879448--24879526 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 24
24879438 TATTAAAATG
24879448 TTTAAAATATTTTATTTACTACAT
1 TTTAAAATATTTTATTTACTACAT
* ** * * *
24879472 TTTAAAATAATACA-CTATTA-TT
1 TTTAAAATATTTTATTTACTACAT
24879494 TTTAAAATATTTTATTTACTACAT
1 TTTAAAATATTTTATTTACTACAT
24879518 TTTAAAATA
1 TTTAAAATA
24879527 ATACACTATT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
22 12 0.29
23 8 0.20
24 21 0.51
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTAAAATATTTTATTTACTACAT
Found at i:24879499 original size:22 final size:22
Alignment explanation
Indices: 24879471--24879540 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
24879461 ATTTACTACA
24879471 TTTTAAAATAATACACTATTAT
1 TTTTAAAATAATACACTATTAT
* ** * * *
24879493 TTTTAAAATATTTTATTTACTACA
1 TTTTAAAATAATACA-CTATTA-T
24879517 TTTTAAAATAATACACTATTAT
1 TTTTAAAATAATACACTATTAT
24879539 TT
1 TT
24879541 GAATCTATTG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
22 14 0.41
23 8 0.24
24 12 0.35
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAAATAATACACTATTAT
Found at i:24879503 original size:46 final size:46
Alignment explanation
Indices: 24879448--24879540 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
24879438 TATTAAAATG
24879448 TTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATTATT
1 TTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATTATT
24879494 TTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATTATT
1 TTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATTATT
24879540 T
1 T
24879541 GAATCTATTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.51
Consensus pattern (46 bp):
TTTAAAATATTTTATTTACTACATTTTAAAATAATACACTATTATT
Found at i:24882449 original size:22 final size:22
Alignment explanation
Indices: 24882421--24882465 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24882411 ATTACCAATA
24882421 TTTCATTTTTCAGGCACAGATG
1 TTTCATTTTTCAGGCACAGATG
24882443 TTTCATTTTTCAGGCACAGATG
1 TTTCATTTTTCAGGCACAGATG
24882465 T
1 T
24882466 GGCGAGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (22 bp):
TTTCATTTTTCAGGCACAGATG
Found at i:24884230 original size:23 final size:23
Alignment explanation
Indices: 24884202--24884255 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
24884192 CGTCCATCCT
* *
24884202 TGCTGACTATACCTTCTGGAAGC
1 TGCTGACTAGACCTTCTAGAAGC
* *
24884225 TGCTGACTGGATCTTCTAGAAGC
1 TGCTGACTAGACCTTCTAGAAGC
*
24884248 CGCTGACT
1 TGCTGACT
24884256 GGATGCCACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (23 bp):
TGCTGACTAGACCTTCTAGAAGC
Found at i:24884256 original size:23 final size:23
Alignment explanation
Indices: 24884214--24884259 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24884204 CTGACTATAC
* *
24884214 CTTCTGGAAGCTGCTGACTGGAT
1 CTTCTAGAAGCCGCTGACTGGAT
24884237 CTTCTAGAAGCCGCTGACTGGAT
1 CTTCTAGAAGCCGCTGACTGGAT
24884260 GCCACGTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (23 bp):
CTTCTAGAAGCCGCTGACTGGAT
Found at i:24890803 original size:21 final size:21
Alignment explanation
Indices: 24890779--24890838 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
24890769 GATTCAATAA
* *
24890779 AGAAAAAATAAATAAAAAAGG
1 AGAAAAAAGAAAGAAAAAAGG
* *
24890800 AGAAAGAAGAAAGAAAAAAAG
1 AGAAAAAAGAAAGAAAAAAGG
24890821 A-ACAAAAAGAAAGAAAAA
1 AGA-AAAAAGAAAGAAAAA
24890839 GAAGGAAAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (21 bp):
AGAAAAAAGAAAGAAAAAAGG
Found at i:24890858 original size:13 final size:13
Alignment explanation
Indices: 24890824--24890872 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
24890814 AAAAAAGAAC
*
24890824 AAAAA-GAAAGAA
1 AAAAAGGAAAGGA
24890836 AAAGAAGGAAAGGA
1 AAA-AAGGAAAGGA
24890850 AAAAAGGAAAAGG-
1 AAAAAGG-AAAGGA
24890863 AAAAAGGAAA
1 AAAAAGGAAA
24890873 AAGAAAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.18
13 13 0.39
14 14 0.42
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAAAGGAAAGGA
Found at i:24890867 original size:7 final size:7
Alignment explanation
Indices: 24890844--24890910 Score: 50
Period size: 7 Copynumber: 9.3 Consensus size: 7
24890834 AAAAAGAAGG
24890844 AAAGGAAA
1 AAAGG-AA
24890852 AAAGG-A
1 AAAGGAA
24890858 AAAGGAA
1 AAAGGAA
24890865 AAAGGAA
1 AAAGGAA
24890872 AAA-GAA
1 AAAGGAA
24890878 AATA-GAA
1 AA-AGGAA
*
24890885 AATAGAAAA
1 AA-AG-GAA
24890894 AAAGGAGA
1 AAAGGA-A
*
24890902 AAAAGAA
1 AAAGGAA
24890909 AA
1 AA
24890911 GGAGAGGTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
6 11 0.22
7 23 0.45
8 13 0.25
9 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (7 bp):
AAAGGAA
Found at i:24890874 original size:14 final size:14
Alignment explanation
Indices: 24890844--24890910 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 14
24890834 AAAAAGAAGG
24890844 AAAGGAAAAAAGG-A
1 AAAGG-AAAAAGGAA
24890858 AAAGGAAAAAGGAA
1 AAAGGAAAAAGGAA
24890872 AAA-GAAAATA-GAA
1 AAAGGAAAA-AGGAA
*
24890885 AATAGAAAAAAAGGAGA
1 AA-AG-GAAAAAGGA-A
*
24890902 AAAAGAAAA
1 AAAGGAAAA
24890911 GGAGAGGTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 17 0.40
14 11 0.26
15 5 0.12
16 7 0.16
17 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (14 bp):
AAAGGAAAAAGGAA
Found at i:24890885 original size:13 final size:13
Alignment explanation
Indices: 24890793--24890894 Score: 59
Period size: 13 Copynumber: 7.4 Consensus size: 13
24890783 AAAATAAATA
*
24890793 AAAAAGGAGAAAG
1 AAAAAGGAAAAAG
*
24890806 AAGAAAGAAAAAAAG
1 AA-AAAG-GAAAAAG
24890821 AACAAA--AAGAAAG
1 AA-AAAGGAA-AAAG
24890834 AAAAA-GAAGGAAAGG
1 AAAAAGGAA--AAA-G
*
24890849 AAAAAAGGAAAAGG
1 -AAAAAGGAAAAAG
24890863 AAAAAGGAAAAAG
1 AAAAAGGAAAAAG
24890876 AAAATA-GAAAATAG
1 AAAA-AGGAAAA-AG
24890890 AAAAA
1 AAAAA
24890895 AAGGAGAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
12 5 0.07
13 32 0.43
14 16 0.22
15 13 0.18
16 5 0.07
17 3 0.04
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.02
Consensus pattern (13 bp):
AAAAAGGAAAAAG
Found at i:24891938 original size:49 final size:49
Alignment explanation
Indices: 24891835--24891960 Score: 128
Period size: 49 Copynumber: 2.6 Consensus size: 49
24891825 AAGATGTGAT
* * ** * *
24891835 GGGAAAGGTTGAGGTCGCAATGACGAACCCGATACCATGAGGATATGAA
1 GGGAAAGGTTGAGGCCGCAATGGCGAACCCGATACCATGAAAACAAGAA
* * *
24891884 GGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCTTAGAAAACAAGAA
1 GGGAAAGGTTGAGGCCGCAATGGCGAACCCGATACCAT-GAAAACAAGAA
* *
24891934 GGAAAAGATTGCA-GCCGCAATGGCGAA
1 GGGAAAGGTTG-AGGCCGCAATGGCGAA
24891961 TCTTATACCA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 33 0.52
50 30 0.47
51 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAATGGCGAACCCGATACCATGAAAACAAGAA
Found at i:24892336 original size:39 final size:39
Alignment explanation
Indices: 24892192--24892570 Score: 311
Period size: 39 Copynumber: 9.7 Consensus size: 39
24892182 TGAAGATTCG
* * *
24892192 ATCTCTTACCCCAAGCCTGAGGGCAGATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGA-GGCAGATTACCATCAGCCA
* * * *
24892232 ATCTCTTACCCCGAGCCTGAGGCAGATT-TCAGCCATCCG
1 ATCTCTTACCCCGAGCCTGAGGCAGATTACCA-TCAGCCA
* * * *
24892271 ATCTTTTA-TCCGAGCTTGAGGTAGATTACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTACCATCAGCCA
* * * *
24892309 ATCTCTTACCCCGAGCCTG-GGACAGATTACAACCATCCG
1 ATCTCTTACCCCGAGCCTGAGG-CAGATTACCATCAGCCA
* * * * * *
24892348 ATCTTTTACCCCGAGCTTGAGGTAGATCACCATTAACCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTACCATCAGCCA
* * ** *
24892387 ATCTCTTACCCCGAGCCTGGGGCAGATT-GCATCCATTCG
1 ATCTCTTACCCCGAGCCTGAGGCAGATTACCAT-CAGCCA
* * * * *
24892426 ATATTTTACCCCGAGCCTGAGGCAGGTCACTATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTACCATCAGCCA
* * *
24892465 ATCTCTTACCCCGAGCCT-AGGGCAGATT-GCAGCCATCCA
1 ATCTCTTACCCCGAGCCTGA-GGCAGATTACCA-TCAGCCA
* * *
24892504 ATCTTTTACCCTGAGCCTGAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTACCATCAGCCA
* *
24892543 ATCTCTTACCTCGAGCCTGGGGCAGATT
1 ATCTCTTACCCCGAGCCTGAGGCAGATT
24892571 GTAGCCAATT
Statistics
Matches: 257, Mismatches: 71, Indels: 23
0.73 0.20 0.07
Matches are distributed among these distances:
38 36 0.14
39 195 0.76
40 26 0.10
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATTACCATCAGCCA
Found at i:24892402 original size:78 final size:77
Alignment explanation
Indices: 24892190--24892577 Score: 508
Period size: 78 Copynumber: 5.0 Consensus size: 77
24892180 ACTGAAGATT
* * *
24892190 CGATCTCTTACCCCAAGCCTGAGGGCAGATCACCATCAGCTAATCTCTTACCCCGAGCCTGAGGC
1 CGATCTTTTACCCCGAGCCTGA-GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTG-GGC
*
24892255 AGATTTCAGCCATC
64 AGATTGCAGCCATC
* * * *
24892269 CGATCTTTTA-TCCGAGCTTGAGGTAGATTACCATCAGCCAATCTCTTACCCCGAGCCTGGGACA
1 CGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG-CA
* *
24892333 GATTACAACCATC
65 GATTGCAGCCATC
* * * *
24892346 CGATCTTTTACCCCGAGCTTGAGGTAGATCACCATTAACCAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGCA
* *
24892411 GATTGCATCCATT
65 GATTGCAGCCATC
* * *
24892424 CGATATTTTACCCCGAGCCTGAGGCAGGTCACTATCAGCCAATCTCTTACCCCGAGCCTAGGGCA
1 CGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGCA
24892489 GATTGCAGCCATC
65 GATTGCAGCCATC
* * *
24892502 CAATCTTTTACCCTGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCCTGGGGCA
1 CGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGCA
*
24892567 GATTGTAGCCA
65 GATTGCAGCCA
24892578 ATTTATTTTT
Statistics
Matches: 272, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
76 2 0.01
77 58 0.21
78 200 0.74
79 12 0.04
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (77 bp):
CGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGCAG
ATTGCAGCCATC
Found at i:24892589 original size:78 final size:77
Alignment explanation
Indices: 24892190--24892650 Score: 507
Period size: 78 Copynumber: 5.9 Consensus size: 77
24892180 ACTGAAGATT
* * * *
24892190 CGATCTCTTACCCCAAGCCTGAGGGCAGATCACCATCAGCTAATCTCTTACCCCGAGCCTGAGGC
1 CGATCTTTTA-CCCGAGCCTGA-GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGC
*
24892255 AGATTTCAGCCATC
64 AGATTGCAGCCATC
* * * * *
24892269 CGATCTTTTATCCGAGCTTGAGGTAGATTACCATCAGCCAATCTCTTACCCCGAGCCTGGGACAG
1 CGATCTTTTACCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAG
* *
24892334 ATTACAACCATC
66 ATTGCAGCCATC
* * * *
24892346 CGATCTTTTACCCCGAGCTTGAGGTAGATCACCATTAACCAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTTTTA-CCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
* *
24892411 GATTGCATCCATT
65 GATTGCAGCCATC
* * * *
24892424 CGATATTTTACCCCGAGCCTGAGGCAGGTCACTATCAGCCAATCTCTTACCCCGAGCCTAGGGCA
1 CGATCTTTTA-CCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
24892489 GATTGCAGCCATC
65 GATTGCAGCCATC
* *
24892502 CAATCTTTTACCCTGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCCTGGGGCA
1 CGATCTTTTACCC-GAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
24892567 GATTGTAGCCAAT-
65 GATTGCAGCC-ATC
** * * * * * * * *
24892580 TTATTTTTTACCCGA-CCATGGGGCAAATCA-CAGCCATCTAATCTCTTA-CCCGATCATGGGGC
1 CGATCTTTTACCCGAGCC-TGAGGCAGATCACCA-TCAGCCAATCTCTTACCCCGAGCCTGGGGC
24892642 AGATTGCAG
64 AGATTGCAG
24892651 TTATCCAAAG
Statistics
Matches: 329, Mismatches: 48, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
76 23 0.07
77 86 0.26
78 209 0.64
79 11 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (77 bp):
CGATCTTTTACCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAG
ATTGCAGCCATC
Found at i:24893076 original size:209 final size:209
Alignment explanation
Indices: 24892662--24894372 Score: 1941
Period size: 209 Copynumber: 8.2 Consensus size: 209
24892652 TATCCAAAGT
* * * * * *
24892662 AATAAAATGGTTAGCTTCTTGATGAGATACTA-AGAAGTGGACCAAATTCGCCTTCCTGATGAGA
1 AATAAAATGGTTACCTTCCTGATGAGATAC-AGAGAAGTGAACCAGATCCGTCTTCCTGATGAGA
** * *
24892726 TACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACC
65 TACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
* * * ** *
24892791 AACTCAATGAAACAAAGCTCAATGTGAGCGAAA-CTTCAAACCATAGTTTCCTGATGAGATACTG
130 AAATCAATGAAACCAAGCTCAATGTGAGC-AAATCTTCGAACCCCAGCTTCCTGATGAGATACTG
24892855 AGAAGCAGGTCGAAGC
194 AGAAGCAGGTCGAAGC
** * * * * * *
24892871 AATAAAGCGGTTACCTTTCTGATAAGATACAGAGAAGTGAACCAGATCCATCTTCGTTATGAGAC
1 AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGAT
* * * * *
24892936 ACAGAAAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
66 ACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
* * * * *
24893001 AATCAATGAAACCAGGCTTAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTAAG
131 AATCAATGAAACCAAGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAG
* *
24893066 AAGTAGGTCGAAGA
196 AAGCAGGTCGAAGC
** * * * * *
24893080 AATAAAATGGCCAGCTTCCTGATGAGATACTGAGAAGT-AGACCAAATTCGTCTTCTTGATGAGA
1 AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGA-ACCAGATCCGTCTTCCTGATGAGA
* ** * *
24893144 TATAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACC
65 TACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
* * * * ** * *
24893209 AATTCAATCAAACAAAACTCAATGTGAGTGAATCTTCGAACCCCAGCTTCTTGATGAGGTACTGA
130 AAATCAATGAAACCAAGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGA
*
24893274 GAAGCAAGTCGAAGC
195 GAAGCAGGTCGAAGC
*** * * * **
24893289 AATAAAATGGTCGTCTTCTTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGATGAGAT
1 AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGAT
* *** * * *
24893354 ACAAAGAAGCGGATTGGAACAAGTGAGGCGGTCATCTTCTTGATGAGTTACTGAGGAGT-GAACC
66 ACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG-ACC
* ** ** * *
24893418 AAATCAATTAAACCAAGCTTGATGTGAGTGAATCTACGAACCCCAACTTCCTGATGAGATACTGA
130 AAATCAATGAAACCAAGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGA
24893483 GAAGCAGGTCGAAGC
195 GAAGCAGGTCGAAGC
* **** * * * *
24893498 ACTAAAGCAATTACCTTCTTGATGAGATACAGAGAAGTGAATCGGATCCGTCTTCCTGATGAGGT
1 AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGAT
* * ** *
24893563 ACAGAGAAGTGGATCAAAAC-AGAGCTGCGGTCTTCTTCCTGATGAGATACTGAGAAGTAGACCA
66 ACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
* * * *
24893627 AATCAATGAAGCCAAAGCTCGATGTGAGCGAATCTTCGAACCTCAGCTTCCTGATGAGATACTGA
131 AATCAATGAAACC-AAGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGA
24893692 GAAGCAGGTCGAAGC
195 GAAGCAGGTCGAAGC
* *
24893707 AATAAAGTTGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGAT
1 AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGAT
* * * * * *
24893772 ACAGAGAAACAGATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATA-TATAGAAGTATACC
66 ACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACT-GAGAAGTAGACC
* * * * * *
24893836 AACTCAATGAAACAAAGCTCAATGCGAGCGAAA-CTTTGAACCCTAGCTTCCTGATGATATACTG
130 AAATCAATGAAACCAAGCTCAATGTGAGC-AAATCTTCGAACCCCAGCTTCCTGATGAGATACTG
24893900 AGAAGCAGGTCGAAGC
194 AGAAGCAGGTCGAAGC
* * * * *
24893916 AATAAAATGGTCAGCTTCCTGATGAGATACTA-AGAAGTGGACCAAATTCGTCTTCCTGATGAGA
1 AATAAAATGGTTACCTTCCTGATGAGATAC-AGAGAAGTGAACCAGATCCGTCTTCCTGATGAGA
* * * * * *
24893980 TACAGAGAAGC-AAACTGAAACAAGTGAGGCGGTCATCTTCCTGATAAGTTACTGAGAAGAAGAC
65 TACAGAGAAGCGGATC-AAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGAC
* *
24894044 CAAATCAATGAAACCAAGCTCAAAGTGAGCAAGTCTTCGAACCCCAGCTTCCTGATGAGATACTG
129 CAAATCAATGAAACCAAGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTG
* *
24894109 AGAAACAAGTCGAAGC
194 AGAAGCAGGTCGAAGC
* * * * *
24894125 AAT-AAATCGATTATCTTCCTGATGAGATACAGAGAGGTGAACCAGATCCGTCTTCTTGATGGGA
1 AATAAAAT-GGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGA
* * * * *
24894189 CACAGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTGAGACGTAGACC
65 TACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
* * *
24894254 AAATCAATGAAACCAAAGCTCGATGTGAGCGAAA-CTTTGAACCCCAGCTTCCTTATGAGATACT
130 AAATCAATGAAACC-AAGCTCAATGTGAGC-AAATCTTCGAACCCCAGCTTCCTGATGAGATACT
**
24894318 GAGAAGCAGGTTAAAGC
193 GAGAAGCAGGTCGAAGC
* * *
24894335 AATAAAATGGTCATCTTCCTGATGAGATACTGAGAAGT
1 AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGT
24894373 AGACCAAATC
Statistics
Matches: 1255, Mismatches: 227, Indels: 39
0.83 0.15 0.03
Matches are distributed among these distances:
208 59 0.05
209 1056 0.84
210 134 0.11
211 6 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (209 bp):
AATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGAT
ACAGAGAAGCGGATCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
AATCAATGAAACCAAGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAG
AAGCAGGTCGAAGC
Found at i:24893859 original size:627 final size:625
Alignment explanation
Indices: 24892662--24894382 Score: 2367
Period size: 627 Copynumber: 2.7 Consensus size: 625
24892652 TATCCAAAGT
* *
24892662 AATAAAATGGTTAGCTTCTTGATGAGATACTAAGAAGTGGACCAAATTCGCCTTCCTGATGAGAT
1 AATAAAATGG-TCGCTTCTTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* * *
24892727 ACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCA
65 ACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGTTACTGAGAAGTAGACCA
* * * * ** *
24892792 ACTCAATGAAACAAAGCTCAATGTGAGCGAAACTTCAAACCATAGTTTCCTGATGAGATACTGAG
130 AATCAATGAAACCAAGCTCAATGTGAG-GAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAG
* * *
24892857 AAGCAGGTCGAAGCAATAAAGCGGTTACCTT-TCTGATAAGATACAGAGAAGTGAACCAGATCCA
194 AAGCAGGTCGAAGCAATAAAGCGATTACCTTCT-TGATGAGATACAGAGAAGTGAACCAGATCCG
* * * *
24892921 TCTTCGTTATGAGACACAGAAAAGTGGATCAAAACA-AGCGATGCGGTCATCTTCCTGATGAGAT
258 TCTTCCTGATGAGGCACAGAGAAGTGGATCAAAACAGAGC--TGCGGTCATCTTCCTGATGAGAT
* * ** * *
24892985 ACTGAGAAGAAGACCAAATCAATGAAACC-AGGCTTAAAGTGAGCAAATCTTCGAACCCCAGCTT
321 ACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAATCTTCGAACCCCAGCTT
* * * * *
24893049 CCTAATGAGATACTAAGAAGTAGGTCGAAGAAATAAAATGGCCAGCTTCCTGATGAGATACTGAG
386 CCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACTGAG
* * * * * *
24893114 AAGTAGACCAAATTCGTCTTCTTGATGAGATATAGAGAAGCGGATTGAAACAAGTGAGGCGGTCA
451 AAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAACAGATTAAAACAAGTGAGGCGGTCA
* * * *
24893179 TCTTCCTGATGAGATACAGAGAAGTATACCAATTCAATCAAACAAAACTCAATGTGAGTGAATCT
516 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAATCAAACAAAACTCAATGCGAGCGAAACT
* *
24893244 TCGAACCCCAGCTTCTTGATGAGGTACTGAGAAGCAAGTCGAAGC
581 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGC
*
24893289 AATAAAATGGTCGTCTTCTTGATGAGATAC-AGAGAAGTGGACCAAATTTGTCTTCCTGATGAGA
1 AATAAAATGGTCG-CTTCTTGATGAGATACTA-AGAAGTGGACCAAATTCGTCTTCCTGATGAGA
* * * *
24893353 TACAAAGAAGCGGATTGGAACAAGTGAGGCGGTCATCTTCTTGATGAGTTACTGAGGAGT-GAAC
64 TACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGTTACTGAGAAGTAG-AC
* ** * *
24893417 CAAATCAATTAAACCAAGCTTGATGTGAGTGAATCTACGAACCCCAACTTCCTGATGAGATACTG
128 CAAATCAATGAAACCAAGCTCAATGTGAG-GAATCTTCGAACCCCAGCTTCCTGATGAGATACTG
* * * *
24893482 AGAAGCAGGTCGAAGCACTAAAGCAATTACCTTCTTGATGAGATACAGAGAAGTGAATCGGATCC
192 AGAAGCAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAGAGAAGTGAACCAGATCC
* *
24893547 GTCTTCCTGATGAGGTACAGAGAAGTGGATCAAAACAGAGCTGCGGTCTTCTTCCTGATGAGATA
257 GTCTTCCTGATGAGGCACAGAGAAGTGGATCAAAACAGAGCTGCGGTCATCTTCCTGATGAGATA
* *
24893612 CTGAGAAGTAGACCAAATCAATGAAGCCAAAGCTCGATGTGAGCGAATCTTCGAACCTCAGCTTC
322 CTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAATCTTCGAACCCCAGCTTC
* * * * *
24893677 CTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTTGTTACCTTCCTGATGAGATACAGAGA
387 CTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACTGAGA
*
24893742 AGT-GAACCAGATCCGTCTTCCTGATGAGATACAGAGAAACAGATTAAAACAAGTGAGGCGGTCA
452 AGTAG-ACCAAATCCGTCTTCCTGATGAGATACAGAGAAACAGATTAAAACAAGTGAGGCGGTCA
* * * * *
24893806 TCTTCTTGATGAGATATATAGAAGTATACCAACTCAATGAAACAAAGCTCAATGCGAGCGAAACT
516 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAATCAAACAAAACTCAATGCGAGCGAAACT
* * * *
24893871 TTGAACCCTAGCTTCCTGATGATATACTGAGAAGCAGGTCGAAGC
581 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGC
*
24893916 AATAAAATGGTCAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
1 AATAAAATGGTC-GCTTCTTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
** * * *
24893981 ACAGAGAAGCAAACTGAAACAAGTGAGGCGGTCATCTTCCTGATAAGTTACTGAGAAGAAGACCA
65 ACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGTTACTGAGAAGTAGACCA
* *
24894046 AATCAATGAAACCAAGCTCAAAGTGAGCAAGTCTTCGAACCCCAGCTTCCTGATGAGATACTGAG
130 AATCAATGAAACCAAGCTCAATGTGAGGAA-TCTTCGAACCCCAGCTTCCTGATGAGATACTGAG
* * * * * *
24894111 AAACAAGTCGAAGCAATAAATCGATTATCTTCCTGATGAGATACAGAGAGGTGAACCAGATCCGT
194 AAGCAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAGAGAAGTGAACCAGATCCGT
* * * *
24894176 CTTCTTGATG-GGACACAGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCCTGATGAGATA
259 CTTCCTGATGAGG-CACAGAGAAGTGGATCAAAAC-AGAGCTGCGGTCATCTTCCTGATGAGATA
* * *
24894240 CTGAGACGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAAACTTTGAACCCCAGCTTC
322 CTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAATCTTCGAACCCCAGCTTC
* ** *
24894305 CTTATGAGATACTGAGAAGCAGGTTAAAGCAATAAAATGGTCATCTTCCTGATGAGATACTGAGA
387 CTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACTGAGA
24894370 AGTAGACCAAATC
452 AGTAGACCAAATC
24894383 AATGAAACCA
Statistics
Matches: 956, Mismatches: 124, Indels: 27
0.86 0.11 0.02
Matches are distributed among these distances:
626 57 0.06
627 739 0.77
628 159 0.17
629 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (625 bp):
AATAAAATGGTCGCTTCTTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
CAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGTTACTGAGAAGTAGACCAA
ATCAATGAAACCAAGCTCAATGTGAGGAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAA
GCAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAGAGAAGTGAACCAGATCCGTCT
TCCTGATGAGGCACAGAGAAGTGGATCAAAACAGAGCTGCGGTCATCTTCCTGATGAGATACTGA
GAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAATCTTCGAACCCCAGCTTCCTAA
TGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACTGAGAAGTA
GACCAAATCCGTCTTCCTGATGAGATACAGAGAAACAGATTAAAACAAGTGAGGCGGTCATCTTC
CTGATGAGATACAGAGAAGTATACCAACTCAATCAAACAAAACTCAATGCGAGCGAAACTTCGAA
CCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGC
Found at i:24894458 original size:123 final size:124
Alignment explanation
Indices: 24894219--24894481 Score: 395
Period size: 123 Copynumber: 2.1 Consensus size: 124
24894209 CAAGTGATGC
* * *
24894219 AGTCATCTTCCTGATGAGATACTGAGACGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGC
1 AGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAAAGTGAGC
* * * *
24894284 GAAACTTTGAACCCCAGCTTCCTTATGAGATACTGAGAAGCAGGTTAAAGCAATAAAAT
66 GAAACTTCGAACCCCAGCTTCCTGATGAGATACTCAGAAGCAGGTCAAAGCAATAAAAT
*
24894343 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC-AAGCTCAAAGTGAGC
1 AGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAAAGTGAGC
* *
24894407 -AAATCTTCGAACCCCAGCTTCCTGATGAGATATTCAGAAGCAGGTCGAAGCAATAAAAT
66 GAAA-CTTCGAACCCCAGCTTCCTGATGAGATACTCAGAAGCAGGTCAAAGCAATAAAAT
* *
24894466 AATCGTCTTCCTGATG
1 AGTCATCTTCCTGATG
24894482 TGATGCAGGG
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 3 0.02
123 75 0.60
124 47 0.38
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (124 bp):
AGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAAAGTGAGC
GAAACTTCGAACCCCAGCTTCCTGATGAGATACTCAGAAGCAGGTCAAAGCAATAAAAT
Found at i:24894886 original size:17 final size:16
Alignment explanation
Indices: 24894864--24894973 Score: 103
Period size: 17 Copynumber: 6.4 Consensus size: 16
24894854 AACCCACTTT
24894864 TTAAATTTATTTTAAGA
1 TTAAATTTATTTTAA-A
24894881 TTAAATTTATTTTAAA
1 TTAAATTTATTTTAAA
*
24894897 TATAAATTTATTCTAAA
1 T-TAAATTTATTTTAAA
* *
24894914 TTTAAATTTAATTTAAGT
1 -TTAAATTTATTTTAA-A
*
24894932 TTGAATTTATTTTTAAA
1 TTAAATTTA-TTTTAAA
* *
24894949 TTTAAAATTATTCTAAA
1 -TTAAATTTATTTTAAA
24894966 TTTAAATT
1 -TTAAATT
24894974 ATTAAAGTCC
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
16 2 0.03
17 62 0.81
18 13 0.17
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (16 bp):
TTAAATTTATTTTAAA
Found at i:24894903 original size:34 final size:34
Alignment explanation
Indices: 24894863--24894973 Score: 134
Period size: 34 Copynumber: 3.2 Consensus size: 34
24894853 AAACCCACTT
24894863 TTTAAATTTATTTTAAGA-TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTATTTTAAA
* * * *
24894897 TATAAATTTATTCTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
* * *
24894931 TTTGAATTTATTTTTAAATTTAAAATTATTCTAAA
1 TTTAAATTTA-TTTTAAATTTAAATTTATTTTAAA
24894966 TTTAAATT
1 TTTAAATT
24894974 ATTAAAGTCC
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.02
34 36 0.57
35 26 0.41
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
Found at i:24894968 original size:52 final size:51
Alignment explanation
Indices: 24894863--24894973 Score: 168
Period size: 52 Copynumber: 2.2 Consensus size: 51
24894853 AAACCCACTT
* *
24894863 TTTAAATTTATTTTAAGATTAAATTTATTTTAAATATAAATTTATTCTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAATATAAAATTATTCTAAA
* * *
24894914 TTTAAATTTAATTTAAGTTTGAATTTATTTTTAAATTTAAAATTATTCTAAA
1 TTTAAATTTAATTTAAGATTAAATTTA-TTTTAAATATAAAATTATTCTAAA
24894966 TTTAAATT
1 TTTAAATT
24894974 ATTAAAGTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 24 0.44
52 30 0.56
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (51 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTAAATATAAAATTATTCTAAA
Found at i:24896770 original size:30 final size:31
Alignment explanation
Indices: 24896733--24896817 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
24896723 GGTCCCTGAA
*
24896733 TTTTCCAAAAATCATGA-TTTGACCCCAAAAC
1 TTTTCCAAAAATCAT-ATTTTAACCCCAAAAC
* *
24896764 -TTTCCAAAAATTATATTTTAACCCCTAAAC
1 TTTTCCAAAAATCATATTTTAACCCCAAAAC
* *
24896794 TTTTCC-AAAATCACATTTTGACCC
1 TTTTCCAAAAATCATATTTTAACCC
24896818 TCGGGTGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
29 1 0.02
30 40 0.87
31 5 0.11
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (31 bp):
TTTTCCAAAAATCATATTTTAACCCCAAAAC
Found at i:24896891 original size:58 final size:58
Alignment explanation
Indices: 24896825--24896957 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 58
24896815 CCCTCGGGTG
* * *
24896825 TCCAAAAATTACCGTTTTACCCTCGAACGTCCCAAAATTACC-TTTTTGCTCCC-GGGCA
1 TCCAAAAATT-CCATTTTACCCTCGAACGTCCAAAAATTACCATTTTTAC-CCCTGGGCA
* ** * * *
24896883 TCCAAAAATTGCATTTTTTCCTCGAACTTTCAAAAATTACCATTTTTACCCCTTGGCA
1 TCCAAAAATTCCATTTTACCCTCGAACGTCCAAAAATTACCATTTTTACCCCTGGGCA
*
24896941 TCCAAAAATTGCATTTT
1 TCCAAAAATTCCATTTT
24896958 TGACTCCGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 27 0.42
58 37 0.58
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (58 bp):
TCCAAAAATTCCATTTTACCCTCGAACGTCCAAAAATTACCATTTTTACCCCTGGGCA
Found at i:24896899 original size:29 final size:29
Alignment explanation
Indices: 24896858--24896964 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 29
24896848 CGAACGTCCC
* *
24896858 AAAATTACCTTTTTGCTCCCGGGCATCCA
1 AAAATTGCATTTTTGCTCCCGGGCATCCA
** * *
24896887 AAAATTGCATTTTT--TCCTCGAACTTTCA
1 AAAATTGCATTTTTGCTCC-CGGGCATCCA
* * *
24896915 AAAATTACCATTTTTAC-CCCTTGGCATCCA
1 AAAATT-GCATTTTTGCTCCC-GGGCATCCA
24896945 AAAATTGCATTTTTGACTCC
1 AAAATTGCATTTTTG-CTCC
24896965 GTTTGTTCTG
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
27 3 0.05
28 12 0.21
29 27 0.47
30 13 0.23
31 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (29 bp):
AAAATTGCATTTTTGCTCCCGGGCATCCA
Found at i:24901346 original size:6 final size:6
Alignment explanation
Indices: 24901335--24901368 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
24901325 GTGTTTATTC
* *
24901335 TCTTTT TCTTTT TCTTTT TCTTCT TCTTCT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
24901369 CTCCTTCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:24905610 original size:22 final size:21
Alignment explanation
Indices: 24905566--24905611 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
24905556 AACATTTTCA
*
24905566 TTTAATATTTTGTTCAATGTC
1 TTTAATATTTTGATCAATGTC
24905587 TTTAATATTTGTGCATC-ATGTC
1 TTTAATATTT-TG-ATCAATGTC
24905609 TTT
1 TTT
24905612 TAAAATACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 10 0.45
23 2 0.09
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTAATATTTTGATCAATGTC
Found at i:24906477 original size:19 final size:19
Alignment explanation
Indices: 24906435--24906477 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
24906425 CAAATCTAAT
***
24906435 AATTTTTATAATTATTTTT
1 AATTTTTATAATTATTCAA
*
24906454 TATTTTTATAATTATTCAA
1 AATTTTTATAATTATTCAA
24906473 AATTT
1 AATTT
24906478 ATCTTTGCTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTTATAATTATTCAA
Found at i:24907409 original size:30 final size:29
Alignment explanation
Indices: 24907366--24907721 Score: 210
Period size: 30 Copynumber: 12.1 Consensus size: 29
24907356 TTCAAAAAAC
*
24907366 TTAGGGTAAAAATGTAATTTTGGGAAAGT
1 TTAGGGTCAAAATGTAATTTTGGGAAAGT
* * *
24907395 TTAGGGTCAAAAATGTGATTTAGAGG--ACT
1 TTAGGGTC-AAAATGTAATTTTG-GGAAAGT
* * * ****
24907424 TTGGGGTCAAAATATGA-TTCCAAAAAGGT
1 TTAGGGTCAAAATGTAATTTTGGGAAA-GT
* * *
24907453 TTGGTGGTCAAAATGTGATTTTGGAAAAG-
1 TTAG-GGTCAAAATGTAATTTTGGGAAAGT
* * * * *
24907482 TTAAGGTTAAAATATAATTTTGGAAAACT
1 TTAGGGTCAAAATGTAATTTTGGGAAAGT
* * * * *
24907511 TCGATGGTCAAAATGTGATTTTAGAAAAGT
1 T-TAGGGTCAAAATGTAATTTTGGGAAAGT
* * *
24907541 TTGGAGGTCAAAATGTAGTTTTGGAAAAGT
1 TTAG-GGTCAAAATGTAATTTTGGGAAAGT
*
24907571 TTAGGGGTCAAAATGTAATTGT-GGATAAGT
1 TTA-GGGTCAAAATGTAATTTTGGGA-AAGT
* *
24907601 TTGGGGTTAAAAATGTAATTTT-GGAGAAGT
1 TTAGGG-TCAAAATGTAATTTTGGGA-AAGT
24907631 TTAGGTGTCAAAATGTAATTTT-GGAGAA-T
1 TTAGG-GTCAAAATGTAATTTTGGGA-AAGT
24907660 TTGAGGGTCAAAATGT-ATTTT-GGAGAAGT
1 TT-AGGGTCAAAATGTAATTTTGGGA-AAGT
* **
24907689 TTGAGGGTCAAATTGGGATTTTGGGAAAGT
1 TT-AGGGTCAAAATGTAATTTTGGGAAAGT
24907719 TTA
1 TTA
24907722 AGGACATTCA
Statistics
Matches: 263, Mismatches: 46, Indels: 36
0.76 0.13 0.10
Matches are distributed among these distances:
27 2 0.01
28 40 0.15
29 58 0.22
30 150 0.57
31 13 0.05
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
TTAGGGTCAAAATGTAATTTTGGGAAAGT
Found at i:24907482 original size:88 final size:89
Alignment explanation
Indices: 24907374--24907583 Score: 214
Period size: 88 Copynumber: 2.4 Consensus size: 89
24907364 ACTTAGGGTA
* * * ** *
24907374 AAAATGTAATTTTGGGAAAGTTTAGGGTCAAAAATGTGA-TTTAGAGGACTTTG-GGGTCAAAAT
1 AAAATGT-ATTTTGGAAAAGTTTAGGGTCAAAAATATAATTTTAGAAAACTTCGAGGGTCAAAAT
*
24907437 ATGATTCCA-AAAAGGTTTGGTGGTC
65 ATGATTCCAGAAAA-GTTTGGAGGTC
* * * *
24907462 AAAATGTGATTTTGGAAAAG-TTAAGGT-TAAAATATAATTTTGGAAAACTTCGATGGTCAAAAT
1 AAAATGT-ATTTTGGAAAAGTTTAGGGTCAAAAATATAATTTTAGAAAACTTCGAGGGTCAAAAT
* **
24907525 GTGATTTTAGAAAAGTTTGGAGGTC
65 ATGATTCCAGAAAAGTTTGGAGGTC
24907550 AAAATGTAGTTTTGGAAAAGTTTAGGGGTCAAAA
1 AAAATGTA-TTTTGGAAAAGTTTA-GGGTCAAAA
24907584 TGTAATTGTG
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
86 7 0.07
87 17 0.17
88 61 0.62
89 7 0.07
90 3 0.03
91 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.32
Consensus pattern (89 bp):
AAAATGTATTTTGGAAAAGTTTAGGGTCAAAAATATAATTTTAGAAAACTTCGAGGGTCAAAATA
TGATTCCAGAAAAGTTTGGAGGTC
Found at i:24907583 original size:60 final size:60
Alignment explanation
Indices: 24907374--24907720 Score: 270
Period size: 60 Copynumber: 5.9 Consensus size: 60
24907364 ACTTAGGGTA
* * ** *
24907374 AAAATGTAATTTTGGGAAAGTTTA-GGGTCAAAAATGTGA-TTTAGAGGACTTTGG-GGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTC-AAAATGTGATTTTGGAAAAGTTTGGAGGTC
* * *** * *
24907432 AAAATATGA-TTCCAAAAAGGTTT-GGTGGTCAAAATGTGATTTTGGAAAAG-TT-AAGGTT
1 AAAATGTAATTTTGGAAAA-GTTTAGG-GGTCAAAATGTGATTTTGGAAAAGTTTGGAGGTC
* * * * *
24907490 AAAATATAATTTTGGAAAA-CTTCGATGGTCAAAATGTGATTTTAGAAAAGTTTGGAGGTC
1 AAAATGTAATTTTGGAAAAGTTTAG-GGGTCAAAATGTGATTTTGGAAAAGTTTGGAGGTC
* * * * *
24907550 AAAATGTAGTTTTGGAAAAGTTTAGGGGTCAAAATGTAATTGTGGATAAGTTTGG-GGTTA
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTGATTTTGGAAAAGTTTGGAGG-TC
* * * *
24907610 AAAATGTAATTTTGGAGAAGTTTAGGTGTCAAAATGTAATTTTGGAGAA-TTT-GAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTGATTTTGGAAAAGTTTGGA-GGTC
* * * *
24907669 AAAATGT-ATTTTGGAGAAGTTT-GAGGGTCAAATTGGGATTTTGGGAAAGTTT
1 AAAATGTAATTTTGGAAAAGTTTAG-GGGTCAAAATGTGATTTTGGAAAAGTTT
24907721 AAGGACATTC
Statistics
Matches: 230, Mismatches: 43, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
57 8 0.03
58 92 0.40
59 34 0.15
60 93 0.40
61 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (60 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTGATTTTGGAAAAGTTTGGAGGTC
Found at i:24907632 original size:90 final size:90
Alignment explanation
Indices: 24907446--24907696 Score: 248
Period size: 90 Copynumber: 2.8 Consensus size: 90
24907436 TATGATTCCA
* * *
24907446 AAAAGGTTTGGTGGTCAAAATGT-GATTTTGGAAAAG-TTA-AGGTTAAAATATAATTTTGGAAA
1 AAAA-GTTTGG-GGTCAAAATGTAG-TTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAA
* * * * *
24907508 ACTTCGATGG-TCAAAATGTGATTTTAG
63 AGTTTGAGGGTTAAAAATGTAATTTTAG
* *
24907535 AAAAGTTTGGAGGTCAAAATGTAGTTTTGGAAAAGTTTAGGGGTCAAAATGTAATTGTGGATAAG
1 AAAAGTTTGG-GGTCAAAATGTAGTTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAG
*
24907600 TTTG-GGGTTAAAAATGTAATTTTGG
65 TTTGAGGGTTAAAAATGTAATTTTAG
* * * * *
24907625 AGAAGTTTAGGTGTCAAAATGTAATTTTGGAGAA-TTT-GAGGGTCAAAATGT-ATTTTGGAGAA
1 AAAAGTTT-GGGGTCAAAATGTAGTTTTGGAAAAGTTTAG-GGGTCAAAATGTAATTTTGGAAAA
24907687 GTTTGAGGGT
64 GTTTGAGGGT
24907697 CAAATTGGGA
Statistics
Matches: 137, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
88 43 0.31
89 29 0.21
90 63 0.46
91 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (90 bp):
AAAAGTTTGGGGTCAAAATGTAGTTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGT
TTGAGGGTTAAAAATGTAATTTTAG
Found at i:24908024 original size:34 final size:36
Alignment explanation
Indices: 24907944--24908034 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
24907934 TAGGCCTTAT
24907944 GCCAAAACGGCGTCGTTTTGGGGCTTAAGTGTCTAA
1 GCCAAAACGGCGTCGTTTTGGGGCTTAAGTGTCTAA
*
24907980 GCCAAAACGGCGTCATTTTGGGGCTTAAGTGTCT-A
1 GCCAAAACGGCGTCGTTTTGGGGCTTAAGTGTCTAA
24908015 -CCAAAACGGCGTCGTTTTGG
1 GCCAAAACGGCGTCGTTTTGG
24908035 CTCCCTATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
34 19 0.36
35 1 0.02
36 33 0.62
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (36 bp):
GCCAAAACGGCGTCGTTTTGGGGCTTAAGTGTCTAA
Found at i:24908287 original size:21 final size:21
Alignment explanation
Indices: 24908261--24908311 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
24908251 TTCAAGTCGT
* *
24908261 AGATCGGGCTTCGATCTAACA
1 AGATCGAGCTCCGATCTAACA
24908282 AGATCGAGCTCCGATCTAACA
1 AGATCGAGCTCCGATCTAACA
24908303 AGATCGAGC
1 AGATCGAGC
24908312 CTTGGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (21 bp):
AGATCGAGCTCCGATCTAACA
Found at i:24908547 original size:54 final size:52
Alignment explanation
Indices: 24908453--24908570 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 52
24908443 ATATCTATTT
** * ** *
24908453 TATATATATATATGCGCATATATATAAAAATAAAATAAAAAATGTATATATA
1 TATATATATATACACGCATATATATAAAAATAAAACAAAAAATCAAGATATA
24908505 TATATATATATACACGCTTATATATATAAAAATAAAACAAAAAATCAAGATATA
1 TATATATATATACACGC--ATATATATAAAAATAAAACAAAAAATCAAGATATA
24908559 TATATATATATA
1 TATATATATATA
24908571 TAAAATAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 15 0.26
54 43 0.74
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (52 bp):
TATATATATATACACGCATATATATAAAAATAAAACAAAAAATCAAGATATA
Found at i:24912867 original size:19 final size:18
Alignment explanation
Indices: 24912843--24912878 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24912833 TTTATAATAA
*
24912843 TAAATAATATTAATTATTT
1 TAAATAAAATT-ATTATTT
24912862 TAAATAAAATTATTATT
1 TAAATAAAATTATTATT
24912879 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATAAAATTATTATTT
Found at i:24912884 original size:25 final size:27
Alignment explanation
Indices: 24912829--24912890 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
24912819 AAAAAACTAG
24912829 TTATTTTATAATAATAAATAATATTAA
1 TTATTTTATAATAATAAATAATATTAA
* * *
24912856 TTATTTTA-AATAA-AATTATTATTAT
1 TTATTTTATAATAATAAATAATATTAA
24912881 TTA-TTTATAA
1 TTATTTTATAA
24912891 GTCCTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 4 0.13
25 14 0.45
26 5 0.16
27 8 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATTTTATAATAATAAATAATATTAA
Found at i:24934790 original size:18 final size:17
Alignment explanation
Indices: 24934767--24934801 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24934757 ATAAATAAAA
*
24934767 TAAATAATATTAATTATT
1 TAAATAAAATT-ATTATT
24934785 TAAATAAAATTATTATT
1 TAAATAAAATTATTATT
24934802 ATTTTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATAAAATTATTATT
Found at i:24936297 original size:17 final size:18
Alignment explanation
Indices: 24936263--24936297 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24936253 AAAAACATAT
*
24936263 ATATTAAATTCTTTAATA
1 ATATTAAAATCTTTAATA
24936281 ATATTAAAATC-TTAATA
1 ATATTAAAATCTTTAATA
24936298 TACATTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTAAAATCTTTAATA
Found at i:24940280 original size:19 final size:18
Alignment explanation
Indices: 24940256--24940291 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24940246 ATAACTAAAA
*
24940256 TAAATAATATTAATTATTT
1 TAAATAAAATT-ATTATTT
24940275 TAAATAAAATTATTATT
1 TAAATAAAATTATTATT
24940292 ATTATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATAAAATTATTATTT
Found at i:24947239 original size:2 final size:2
Alignment explanation
Indices: 24947234--24947294 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
24947224 CTAAAAAAAG
24947234 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
24947276 AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
24947295 TAAATTCTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24947478 original size:19 final size:19
Alignment explanation
Indices: 24947436--24947474 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24947426 CAAATCTAAT
*
24947436 AATTTTTATAATTAGTTTT
1 AATTTTTATAATTAGTTTA
*
24947455 TATTTTTATAATTA-TTTA
1 AATTTTTATAATTAGTTTA
24947473 AA
1 AA
24947475 ATTTATCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 1
0.81 0.14 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
AATTTTTATAATTAGTTTA
Found at i:24953539 original size:22 final size:21
Alignment explanation
Indices: 24953495--24953540 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
24953485 AACATTTTCA
*
24953495 TTTAATATTTTGTTCAATGTC
1 TTTAATATTTTGATCAATGTC
24953516 TTTAATA-TTTGATCATCATGTC
1 TTTAATATTTTGATCA--ATGTC
24953538 TTT
1 TTT
24953541 TAAAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTAATATTTTGATCAATGTC
Found at i:24966721 original size:13 final size:13
Alignment explanation
Indices: 24966703--24966732 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24966693 ATCGAATTTC
24966703 CTTTGTAACTGGA
1 CTTTGTAACTGGA
*
24966716 CTTTGTAATTGGA
1 CTTTGTAACTGGA
24966729 CTTT
1 CTTT
24966733 ATACTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (13 bp):
CTTTGTAACTGGA
Found at i:24966770 original size:11 final size:11
Alignment explanation
Indices: 24966756--24966820 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
24966746 TAATATCAAT
*
24966756 TTAAATTTTAA
1 TTAAATTTAAA
24966767 TTAAATTTAAA
1 TTAAATTTAAA
**
24966778 TTTAAA-AAAAA
1 -TTAAATTTAAA
*
24966789 TTAATTTTAAA
1 TTAAATTTAAA
*
24966800 ATAAATTTAAA
1 TTAAATTTAAA
*
24966811 -TCAATTTAAA
1 TTAAATTTAAA
24966821 CCCAATAAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
10 13 0.30
11 25 0.58
12 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:24966775 original size:17 final size:17
Alignment explanation
Indices: 24966743--24966811 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
24966733 ATACTTGGGT
*
24966743 TTTTAATATCAATTTAAA
1 TTTTAA-ATAAATTTAAA
*
24966761 TTTTAATTAAATTTAAA
1 TTTTAAATAAATTTAAA
* *
24966778 -TTTAAAAAAAATT-AA
1 TTTTAAATAAATTTAAA
24966793 TTTTAAAATAAATTTAAA
1 TTTT-AAATAAATTTAAA
24966811 T
1 T
24966812 CAATTTAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.05
16 13 0.32
17 17 0.41
18 9 0.22
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTAAATAAATTTAAA
Found at i:24967645 original size:205 final size:205
Alignment explanation
Indices: 24967156--24967895 Score: 1138
Period size: 205 Copynumber: 3.6 Consensus size: 205
24967146 TCTGGTTTCA
* * ** * ** *
24967156 TTGATTTGGCCTTCTTCTCAGTATCTCGTCAGGAAGATGACTGCGTCACTTGTTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTT
* * * * *
24967221 CTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* *
24967286 TTTATTAATTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACAT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACAT
24967351 CGAGCATGGGT
195 CGAGCATGGGT
* *
24967362 TTGGTTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTT
*
24967427 CTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
24967492 TTTATTGCTTCGACCTACTTCTCAGTATCTCATTAGGAAGCTGGGTTCGAAGATTTGCTCACATC
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATC
**
24967557 GAGCGCGGGT
196 GAGCATGGGT
* * * * *
24967567 TTGATTTGGTCTTCTTCTGAGTATCTCATCAGGAAGATGACCACATCGCTTGTTTTAATCGGTTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTT
*
24967632 ATCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
24967697 TTTATTACTTCGATCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATT
131 TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATC
*
24967762 GAGCTTGGGT
196 GAGCATGGGT
* ** *
24967772 TTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACTGCATCGCTTGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTT
24967837 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
24967896 GGGGTTCGAA
Statistics
Matches: 486, Mismatches: 48, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
205 335 0.69
206 151 0.31
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (205 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTT
CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
TTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATC
GAGCATGGGT
Found at i:24968256 original size:31 final size:30
Alignment explanation
Indices: 24968199--24968256 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
24968189 GTTTGGAATC
* *
24968199 CAAGTTTAGGGACTAAATTGAGAAAAATAT
1 CAAGTTTAGGGACTAAATGGACAAAAATAT
24968229 CAAGTTTTA-GGACTAATATGGACAAAAA
1 CAAG-TTTAGGGACTAA-ATGGACAAAAA
24968257 GGTTTAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.26
Consensus pattern (30 bp):
CAAGTTTAGGGACTAAATGGACAAAAATAT
Found at i:24972862 original size:15 final size:15
Alignment explanation
Indices: 24972842--24972880 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
24972832 CTTCTGCAAG
*
24972842 AAGAAAGTGCACATT
1 AAGAAAGAGCACATT
24972857 AAGAAAGAGCACATT
1 AAGAAAGAGCACATT
24972872 AAGAAAGAG
1 AAGAAAGAG
24972881 TGCTACAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.23, T:0.13
Consensus pattern (15 bp):
AAGAAAGAGCACATT
Found at i:24988531 original size:24 final size:24
Alignment explanation
Indices: 24988499--24988579 Score: 135
Period size: 24 Copynumber: 3.4 Consensus size: 24
24988489 AATCTTCCAG
*
24988499 TTAAACTCTATTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
24988523 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
*
24988547 TTAAACTCTGTTTATTTGTTTCAG
1 TTAAACTCTGTTTATTTGTTTCAA
*
24988571 TCAAACTCT
1 TTAAACTCT
24988580 TATTAGTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:24991525 original size:25 final size:23
Alignment explanation
Indices: 24991496--24991541 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
24991486 ATTTGATCCA
24991496 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
24991521 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
24991542 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:24992609 original size:20 final size:20
Alignment explanation
Indices: 24992585--24992632 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24992575 TTTTTTCTTT
24992585 CTTTTTTTTCAATTTTCTCGA
1 CTTTTTTTTC-ATTTTCTCGA
* *
24992606 TTTTTTTTTCATTTTTTCGA
1 CTTTTTTTTCATTTTCTCGA
24992626 CTTTTTT
1 CTTTTTT
24992633 CTTTCTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (20 bp):
CTTTTTTTTCATTTTCTCGA
Found at i:24992644 original size:22 final size:20
Alignment explanation
Indices: 24992586--24992643 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
24992576 TTTTTCTTTC
*
24992586 TTTTTTTTCAATTTTCTCGAT
1 TTTTTTTTC-ATTTTTTCGAT
24992607 TTTTTTTTCATTTTTTCGACT
1 TTTTTTTTCATTTTTTCGA-T
24992628 TTTTTCTTTC-TTTTTT
1 TTTTT-TTTCATTTTTT
24992644 TTTCTTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.26
21 21 0.62
22 4 0.12
ACGTcount: A:0.09, C:0.14, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTTTTCATTTTTTCGAT
Found at i:24995539 original size:25 final size:23
Alignment explanation
Indices: 24995509--24995603 Score: 73
Period size: 25 Copynumber: 3.9 Consensus size: 23
24995499 GTTGGATCCA
24995509 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
* * **
24995534 AATTAAATGTAAACAATAATTCCCC
1 AATTAAATCTAAAAAATAATT--AG
** *
24995559 AATTGGATTTAAAAAGATAATTAG
1 AATTAAATCTAAAAA-ATAATTAG
*
24995583 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
24995604 CCCTAATTGG
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
23 12 0.23
24 17 0.32
25 18 0.34
26 6 0.11
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:24995572 original size:49 final size:49
Alignment explanation
Indices: 24995519--24995615 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
24995509 AATTAAATTC
*
24995519 TAAAAAGATAATTAGAATTAAATGTAAACAATAATTCCCCAATTGGATT
1 TAAAAAGATAATTAGAATTAAATCTAAACAATAATTCCCCAATTGGATT
*
24995568 TAAAAAGATAATTAGAATTAAATCTAAACAATAATTCCCTAATTGGAT
1 TAAAAAGATAATTAGAATTAAATCTAAACAATAATTCCCCAATTGGAT
24995616 CCAAATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
TAAAAAGATAATTAGAATTAAATCTAAACAATAATTCCCCAATTGGATT
Found at i:24996633 original size:9 final size:9
Alignment explanation
Indices: 24996616--24996693 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
24996606 TCAAACACAC
*
24996616 TTTTGTCTT
1 TTTTTTCTT
24996625 TTTTTTCTT
1 TTTTTTCTT
24996634 TTTTTTCAATT
1 TTTTTTC--TT
24996645 TTTTTT-TAT
1 TTTTTTCT-T
*
24996654 TTTTTTC-A
1 TTTTTTCTT
*
24996662 TTTTTTCAAT
1 TTTTTTC-TT
24996672 TTTTTTCTCT
1 TTTTTTCT-T
24996682 TTTTTTCTT
1 TTTTTTCTT
24996691 TTT
1 TTT
24996694 CTAAATAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
8 8 0.14
9 26 0.45
10 16 0.28
11 8 0.14
ACGTcount: A:0.08, C:0.10, G:0.01, T:0.81
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:24996636 original size:10 final size:10
Alignment explanation
Indices: 24996623--24996693 Score: 51
Period size: 10 Copynumber: 7.4 Consensus size: 10
24996613 CACTTTTGTC
24996623 TTTTTTTTC-
1 TTTTTTTTCT
*
24996632 TTTTTTTTCAA
1 TTTTTTTTC-T
24996643 TTTTTTTT-T
1 TTTTTTTTCT
*
24996652 ATTTTTTTC-
1 TTTTTTTTCT
* *
24996661 -ATTTTTTCA
1 TTTTTTTTCT
*
24996670 ATTTTTTTCT
1 TTTTTTTTCT
*
24996680 CTTTTTTTCT
1 TTTTTTTTCT
24996690 TTTT
1 TTTT
24996694 CTAAATAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
8 7 0.14
9 16 0.32
10 19 0.38
11 8 0.16
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:24996656 original size:28 final size:29
Alignment explanation
Indices: 24996624--24996693 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
24996614 ACTTTTGTCT
* *
24996624 TTTTTTTCTTTTTTTTCAATTTTTTTTTA
1 TTTTTTTCTTTTTTTTCAATTTTTTTCTC
*
24996653 TTTTTTTC-ATTTTTTCAATTTTTTTCTC
1 TTTTTTTCTTTTTTTTCAATTTTTTTCTC
24996681 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
24996694 CTAAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 25 0.69
29 11 0.31
ACGTcount: A:0.09, C:0.10, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTTTCTTTTTTTTCAATTTTTTTCTC
Found at i:24997634 original size:11 final size:11
Alignment explanation
Indices: 24997618--24997658 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
24997608 AATAGCGCAT
24997618 AATTAAAATAA
1 AATTAAAATAA
24997629 AATTAAAAATAA
1 AATT-AAAATAA
*
24997641 AATGAAAATAA
1 AATTAAAATAA
*
24997652 AAATAAA
1 AATTAAA
24997659 TATACTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (11 bp):
AATTAAAATAA
Found at i:24997641 original size:17 final size:17
Alignment explanation
Indices: 24997621--24997658 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
24997611 AGCGCATAAT
24997621 TAAAAT-AAAATTAAAAA
1 TAAAATGAAAA-TAAAAA
24997638 TAAAATGAAAATAAAAA
1 TAAAATGAAAATAAAAA
24997655 TAAA
1 TAAA
24997659 TATACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAATGAAAATAAAAA
Found at i:25000727 original size:81 final size:81
Alignment explanation
Indices: 25000587--25000752 Score: 305
Period size: 81 Copynumber: 2.0 Consensus size: 81
25000577 AATAGAAATA
* *
25000587 AAGTTTTCCTAATATTACAGTCCTCGACAACGGTGCCAAAAATTTGATGCAGTCAAAACTAACTA
1 AAGTTTTCCTAATATTACAGTCCCCGACAACGGTGCCAAAAACTTGATGCAGTCAAAACTAACTA
25000652 AAAATATGACTAAGTC
66 AAAATATGACTAAGTC
*
25000668 AAGTTTTCCTAATATTACAGTCCCCGACAACGGTGCCAAAAACTTGATGCAGTCGAAACTAACTA
1 AAGTTTTCCTAATATTACAGTCCCCGACAACGGTGCCAAAAACTTGATGCAGTCAAAACTAACTA
25000733 AAAATATGACTAAGTC
66 AAAATATGACTAAGTC
25000749 AAGT
1 AAGT
25000753 GCACCTATCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (81 bp):
AAGTTTTCCTAATATTACAGTCCCCGACAACGGTGCCAAAAACTTGATGCAGTCAAAACTAACTA
AAAATATGACTAAGTC
Found at i:25002477 original size:23 final size:24
Alignment explanation
Indices: 25002451--25002496 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
25002441 CCAATTAGGG
25002451 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCT-TTTAGAATTTAATTCT
25002474 AATTATCCTTTTAGAATTTAATT
1 AATTAT-CTTTTAGAATTTAATT
25002497 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.54
Consensus pattern (24 bp):
AATTATCTTTTAGAATTTAATTCT
Found at i:25003568 original size:6 final size:6
Alignment explanation
Indices: 25003559--25003624 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
25003549 TAATTTAGCC
* * *
25003559 ATTTTT ATTTTT ATTTTC ATTTTT TTTAATTT AATTTTT ATATTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT--TTT -ATTTTT ATTTTT ATTTTT
25003610 A-TTTT A-TTTT ATTTT
1 ATTTTT ATTTTT ATTTT
25003625 ATAGGTTCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 10 0.20
6 32 0.64
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:25003599 original size:33 final size:34
Alignment explanation
Indices: 25003559--25003625 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
25003549 TAATTTAGCC
*
25003559 ATTTTTATTTTTATTTTCATTTT-TTTTAATTTA
1 ATTTTTATATTTATTTTCATTTTATTTTAATTTA
* *
25003592 ATTTTTATATTTATTTTTATTTTATTTTATTTTA
1 ATTTTTATATTTATTTTCATTTTATTTTAATTTA
25003626 TAGGTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (34 bp):
ATTTTTATATTTATTTTCATTTTATTTTAATTTA
Found at i:25005694 original size:17 final size:16
Alignment explanation
Indices: 25005658--25005693 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25005648 AAATAGTATA
25005658 TTTATTTTCATTTTCAT
1 TTTATTTT-ATTTTCAT
*
25005675 TTTATTTTATTTTTAT
1 TTTATTTTATTTTCAT
25005691 TTT
1 TTT
25005694 TGTTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTATTTTCAT
Found at i:25010838 original size:16 final size:15
Alignment explanation
Indices: 25010820--25010849 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25010810 AATAAAATTA
25010820 AAAATAAAATAAATG
1 AAAATAAAATAAATG
25010835 AAAATGAAAATAAAT
1 AAAAT-AAAATAAAT
25010850 ATACTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAATAAAATAAATG
Found at i:25012611 original size:25 final size:25
Alignment explanation
Indices: 25012582--25012654 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
25012572 ACTCTGTTTA
25012582 TTTGTTTGTTTCAATTAAATTCTTG
1 TTTGTTTGTTTCAATTAAATTCTTG
*
25012607 TTTGTTTGTTTCAATTAAACT-TTG
1 TTTGTTTGTTTCAATTAAATTCTTG
* *
25012631 TTTATTTGTTTCAATCAAATTCTT
1 TTTGTTTGTTTCAATTAAATTCTT
25012655 ATTAGTCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 21 0.49
25 22 0.51
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (25 bp):
TTTGTTTGTTTCAATTAAATTCTTG
Found at i:25012638 original size:24 final size:25
Alignment explanation
Indices: 25012586--25012654 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
25012576 TGTTTATTTG
* *
25012586 TTTGTTTCAATTAAATTCTTGTTTG
1 TTTGTTTCAATTAAACTCTTGTTTA
25012611 TTTGTTTCAATTAAACT-TTGTTTA
1 TTTGTTTCAATTAAACTCTTGTTTA
* *
25012635 TTTGTTTCAATCAAATTCTT
1 TTTGTTTCAATTAAACTCTT
25012655 ATTAGTCTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 21 0.54
25 18 0.46
ACGTcount: A:0.23, C:0.10, G:0.09, T:0.58
Consensus pattern (25 bp):
TTTGTTTCAATTAAACTCTTGTTTA
Found at i:25018132 original size:87 final size:86
Alignment explanation
Indices: 25018028--25018197 Score: 331
Period size: 87 Copynumber: 2.0 Consensus size: 86
25018018 ACGGTGGAGT
25018028 TGTTTACATTAGGAATTTCCTTTCTTTATTTAAAAATGATAAATTAATTATATTAGATTAAATTG
1 TGTTTACATTAGGAATTTCCTTTCTTTATTTAAAAATGATAAATTAATTATATTAGATTAAATTG
25018093 TAAATAGGTTTTTTTTTAATCA
66 TAAATA-GTTTTTTTTTAATCA
25018115 TGTTTACATTAGGAATTTCCTTTCTTTATTTAAAAATGATAAATTAATTATATTAGATTAAATTG
1 TGTTTACATTAGGAATTTCCTTTCTTTATTTAAAAATGATAAATTAATTATATTAGATTAAATTG
25018180 TAAATAGTTTTTTTTTAA
66 TAAATAGTTTTTTTTTAA
25018198 AATTAATTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 12 0.14
87 71 0.86
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (86 bp):
TGTTTACATTAGGAATTTCCTTTCTTTATTTAAAAATGATAAATTAATTATATTAGATTAAATTG
TAAATAGTTTTTTTTTAATCA
Found at i:25023196 original size:12 final size:12
Alignment explanation
Indices: 25023163--25023206 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
25023153 TGAACCTCTA
*
25023163 TTCTTCTTTCTCT
1 TTCTT-TTTTTCT
25023176 TTC-TTTTTTCT
1 TTCTTTTTTTCT
25023187 TTCTTTTTTTCT
1 TTCTTTTTTTCT
25023199 TTCTTTTT
1 TTCTTTTT
25023207 CTTTATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 9 0.31
12 17 0.59
13 3 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTTTTCT
Found at i:25030474 original size:2 final size:2
Alignment explanation
Indices: 25030467--25030491 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25030457 CAAACATACC
25030467 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
25030492 CACCCCCCCC
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:25036282 original size:19 final size:20
Alignment explanation
Indices: 25036244--25036287 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
25036234 TTAATAATTA
*
25036244 ATATATAATGTATTACTATT
1 ATATATAATCTATTACTATT
*
25036264 ATATATAA-CTATTATTATT
1 ATATATAATCTATTACTATT
*
25036283 TTATA
1 ATATA
25036288 GGTTATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATATAATCTATTACTATT
Found at i:25036487 original size:17 final size:17
Alignment explanation
Indices: 25036467--25036505 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25036457 AAACAAGGTC
25036467 ATAATAAAT-AATAATAT
1 ATAAT-AATGAATAATAT
*
25036484 ATAATAATGATTAATAT
1 ATAATAATGAATAATAT
25036501 ATAAT
1 ATAAT
25036506 GTACTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATAATGAATAATAT
Found at i:25046180 original size:24 final size:24
Alignment explanation
Indices: 25046135--25046180 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25046125 TTCACTTTAT
*
25046135 TACATTTTTTTTATATTCTTTACA
1 TACATTTTTTTAATATTCTTTACA
25046159 TACATTTTTTTAATTATT-TTTA
1 TACATTTTTTTAA-TATTCTTTA
25046181 AAGTTCCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (24 bp):
TACATTTTTTTAATATTCTTTACA
Found at i:25052765 original size:17 final size:18
Alignment explanation
Indices: 25052723--25052765 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
25052713 GTTTTATTCT
*
25052723 TGTAATATTATTATATTA
1 TGTAATTTTATTATATTA
25052741 TG-ATATTTTA-TATATTA
1 TGTA-ATTTTATTATATTA
25052758 TGTAATTT
1 TGTAATTT
25052766 AAAACACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
TGTAATTTTATTATATTA
Found at i:25064273 original size:3 final size:3
Alignment explanation
Indices: 25064265--25064291 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25064255 AGCGTAGGGC
25064265 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
25064292 GTTGGCCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:25065955 original size:5 final size:5
Alignment explanation
Indices: 25065945--25065983 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
25065935 CTCAATACCA
25065945 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CC-TC CCTTC
1 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC
25065984 ATCTCTATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (5 bp):
CCTTC
Found at i:25066060 original size:2 final size:2
Alignment explanation
Indices: 25066053--25066098 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
25066043 GTTTTATTCT
25066053 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- 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
25066094 TC TC T
1 TC TC T
25066099 TTTCTGTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:25070789 original size:21 final size:23
Alignment explanation
Indices: 25070763--25070809 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
25070753 TGGCGAAATG
25070763 ATAACAAAAC-A-ATAAAAAACA
1 ATAACAAAACAATATAAAAAACA
25070784 ATAACAAAACAATATAAAAAACA
1 ATAACAAAACAATATAAAAAACA
25070807 ATA
1 ATA
25070810 GCAGTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.42
22 1 0.04
23 13 0.54
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (23 bp):
ATAACAAAACAATATAAAAAACA
Found at i:25070792 original size:11 final size:11
Alignment explanation
Indices: 25070763--25070809 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
25070753 TGGCGAAATG
25070763 ATAACAAAACA
1 ATAACAAAACA
25070774 ATAA-AAAACA
1 ATAACAAAACA
25070784 ATAACAAAACA
1 ATAACAAAACA
*
25070795 ATATAAAAAACA
1 ATA-ACAAAACA
25070807 ATA
1 ATA
25070810 GCAGTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
10 10 0.30
11 13 0.39
12 10 0.30
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (11 bp):
ATAACAAAACA
Found at i:25070804 original size:12 final size:12
Alignment explanation
Indices: 25070774--25070809 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
25070764 TAACAAAACA
25070774 ATAAAAAACAAT
1 ATAAAAAACAAT
*
25070786 A-ACAAAACAAT
1 ATAAAAAACAAT
25070797 ATAAAAAACAAT
1 ATAAAAAACAAT
25070809 A
1 A
25070810 GCAGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (12 bp):
ATAAAAAACAAT
Found at i:25074403 original size:23 final size:23
Alignment explanation
Indices: 25074346--25074396 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
25074336 TTTATGGAGT
*
25074346 ATCTTCACTGTTCATTGCAAAAA
1 ATCTTCATTGTTCATTGCAAAAA
25074369 ATCTTCATTGTTCATTGCAAAAA
1 ATCTTCATTGTTCATTGCAAAAA
25074392 ATCTT
1 ATCTT
25074397 TCTTGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (23 bp):
ATCTTCATTGTTCATTGCAAAAA
Found at i:25074959 original size:28 final size:28
Alignment explanation
Indices: 25074907--25074962 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
25074897 AAAAAATACA
25074907 AAAATTTAATATCTCAAAATTAAAATAT
1 AAAATTTAATATCTCAAAATTAAAATAT
* *
25074935 AAAATTTAA-ATTTCAAATTTCAAAATAT
1 AAAATTTAATATCTCAAAATT-AAAATAT
25074963 CACAGGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATTTAATATCTCAAAATTAAAATAT
Found at i:25077449 original size:14 final size:14
Alignment explanation
Indices: 25077430--25077460 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25077420 TAGGTTTAAA
25077430 AAATTTAATTAATT
1 AAATTTAATTAATT
*
25077444 AAATTTATTTAATT
1 AAATTTAATTAATT
25077458 AAA
1 AAA
25077461 AATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:25079058 original size:2 final size:2
Alignment explanation
Indices: 25079051--25079088 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25079041 CAAACTTTAC
25079051 AT AT AT AT AT AT 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 AT AT AT AT AT AT
25079089 TAAAGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25080575 original size:38 final size:38
Alignment explanation
Indices: 25080526--25080620 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
25080516 AGAAGCTTGT
* * *
25080526 TAGGCATTAAGCTCGATAACCACCGGCACGAAGCCTAC
1 TAGGCACTAAGCCCGATAACCACCGGCACAAAGCCTAC
* * * *
25080564 TAGGTACTAAGCCCGATAAGCACCGGCATAAAGCCTGC
1 TAGGCACTAAGCCCGATAACCACCGGCACAAAGCCTAC
25080602 TAGGCACTAAGCCCGATAA
1 TAGGCACTAAGCCCGATAA
25080621 ACACTGTACA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (38 bp):
TAGGCACTAAGCCCGATAACCACCGGCACAAAGCCTAC
Found at i:25081800 original size:20 final size:21
Alignment explanation
Indices: 25081775--25081813 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25081765 TTTCATAGCT
*
25081775 TCAAAA-TCTAACAATTTCTA
1 TCAAAACTCAAACAATTTCTA
25081795 TCAAAACTCAAACAATTTC
1 TCAAAACTCAAACAATTTC
25081814 ACTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (21 bp):
TCAAAACTCAAACAATTTCTA
Found at i:25086369 original size:31 final size:28
Alignment explanation
Indices: 25086284--25086370 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 28
25086274 AAAGTAAAAT
*
25086284 AATAAAATAAGATTTTAAATTTTTTAAA
1 AATAAAATAATATTTTAAATTTTTTAAA
*** *
25086312 AATTGGATAACT-TTTTAAAATCTTTTAAA
1 AATAAAATAA-TATTTT-AAATTTTTTAAA
25086341 AACTAAAAATAATATTTTAAACTTTTTTAA
1 AA-T-AAAATAATATTTTAAA-TTTTTTAA
25086371 CTTTATGTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
28 11 0.25
29 13 0.30
30 5 0.11
31 15 0.34
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (28 bp):
AATAAAATAATATTTTAAATTTTTTAAA
Found at i:25092492 original size:2 final size:2
Alignment explanation
Indices: 25092485--25092510 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25092475 ATTCTTTTAT
25092485 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25092511 AAATACTTAA
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):
TA
Found at i:25092880 original size:20 final size:19
Alignment explanation
Indices: 25092820--25092868 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
25092810 TTATAAAAAT
25092820 AATTATAAAAAT-TCTA-ATA
1 AATTATAAAAATAT-TATA-A
25092839 AATTATAAAAATATTATAA
1 AATTATAAAAATATTATAA
25092858 AATTAATAAAA
1 AATT-ATAAAA
25092869 CTTATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTATAAAAATATTATAA
Found at i:25097618 original size:16 final size:16
Alignment explanation
Indices: 25097597--25097628 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25097587 ATGGTTAATC
25097597 CATTGGTTTTAAAATA
1 CATTGGTTTTAAAATA
25097613 CATTGGTTTTAAAATA
1 CATTGGTTTTAAAATA
25097629 TATTCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
CATTGGTTTTAAAATA
Found at i:25102192 original size:16 final size:16
Alignment explanation
Indices: 25102171--25102224 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
25102161 TTTGGTTCAC
25102171 TGTAATGGAATAGAAT
1 TGTAATGGAATAGAAT
* *
25102187 TGTAATGTAATAAAAT
1 TGTAATGGAATAGAAT
* * *
25102203 TGAAATAGAATAGAAC
1 TGTAATGGAATAGAAT
25102219 TGTAAT
1 TGTAAT
25102225 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAAT
Found at i:25102261 original size:46 final size:44
Alignment explanation
Indices: 25102203--25102301 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
25102193 GTAATAAAAT
25102203 TGAAATAGAATAGAACTGTAATCAGTAATTCAAT-TGTTTGGTTGAA
1 TGAAATAGAATAGAACTGTAAT-AGTAATT--ATGTGTTTGGTTGAA
* * *
25102249 TGAAAT-GAAATAGAACTGTTATAGTACTTTTGTGTTTGGTTGAA
1 TGAAATAG-AATAGAACTGTAATAGTAATTATGTGTTTGGTTGAA
25102293 TGAAATAGA
1 TGAAATAGA
25102302 TGTTGTAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 19 0.40
45 8 0.17
46 19 0.40
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.36
Consensus pattern (44 bp):
TGAAATAGAATAGAACTGTAATAGTAATTATGTGTTTGGTTGAA
Found at i:25102900 original size:5 final size:5
Alignment explanation
Indices: 25102890--25102919 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
25102880 GCATACATGT
25102890 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
25102920 TCACTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:25105742 original size:21 final size:21
Alignment explanation
Indices: 25105696--25105743 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25105686 TTCTCAATTT
* *
25105696 TTTTAAGTATAAAGAGATTCA
1 TTTTAAGAATAAAGAGAATCA
*
25105717 GTTTAAGAATAAAAGAGAAT-A
1 TTTTAAGAAT-AAAGAGAATCA
25105738 TTTTAA
1 TTTTAA
25105744 TTATTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (21 bp):
TTTTAAGAATAAAGAGAATCA
Found at i:25107122 original size:23 final size:21
Alignment explanation
Indices: 25107060--25107114 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
25107050 TTCTTCTTCT
25107060 TTTTTTCTTTT-TTTTTTCAA
1 TTTTTTCTTTTCTTTTTTCAA
*
25107080 TTTTTT-TAATTCTTTGTTTTCAA
1 TTTTTTCT-TTTC-TT-TTTTCAA
25107103 TTTTTTCTTTTC
1 TTTTTTCTTTTC
25107115 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
22 2 0.07
23 16 0.57
24 1 0.04
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTCTTTTCTTTTTTCAA
Found at i:25108065 original size:17 final size:17
Alignment explanation
Indices: 25108045--25108082 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
25108035 AGTGCATAAT
25108045 TAAAAT-AAAATTAAAAA
1 TAAAATGAAAA-TAAAAA
*
25108062 TAAAATGAAAATGAAAA
1 TAAAATGAAAATAAAAA
25108079 TAAA
1 TAAA
25108083 TATACTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
TAAAATGAAAATAAAAA
Found at i:25108117 original size:10 final size:10
Alignment explanation
Indices: 25108104--25108136 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
25108094 TTTTTTGAAC
25108104 TTTTCAATTT
1 TTTTCAATTT
*
25108114 TTTT-ATTTT
1 TTTTCAATTT
25108123 TTTTCAATTT
1 TTTTCAATTT
25108133 TTTT
1 TTTT
25108137 TTTAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCAATTT
Found at i:25112177 original size:13 final size:13
Alignment explanation
Indices: 25112156--25112189 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25112146 TAAATAATAT
25112156 AATAATAATCCTA
1 AATAATAATCCTA
*
25112169 AATATTAATCCTA
1 AATAATAATCCTA
*
25112182 AAAAATAA
1 AATAATAA
25112190 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:25116667 original size:3 final size:3
Alignment explanation
Indices: 25116655--25116684 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
25116645 AGCTAGGATG
25116655 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
25116685 AATTTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25118176 original size:18 final size:17
Alignment explanation
Indices: 25118151--25118184 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25118141 TTCAAAACAA
25118151 AATACATTTTTAGTATC
1 AATACATTTTTAGTATC
*
25118168 AATATCATTTTTGGTAT
1 AATA-CATTTTTAGTAT
25118185 GGATTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (17 bp):
AATACATTTTTAGTATC
Found at i:25121136 original size:21 final size:21
Alignment explanation
Indices: 25121112--25121170 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
25121102 TAGAAGTAAG
*
25121112 ACTTGTTTCGGTAGAAGAGTC
1 ACTTGTATCGGTAGAAGAGTC
* * **
25121133 ACTTATATCGATAGAACTGTC
1 ACTTGTATCGGTAGAAGAGTC
25121154 ACTTGTATCGGTAGAAG
1 ACTTGTATCGGTAGAAG
25121171 TCTGCACTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGAGTC
Found at i:25122542 original size:3 final size:3
Alignment explanation
Indices: 25122534--25122564 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
25122524 TCTATATCAT
*
25122534 TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
25122565 CTATCGTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:25122599 original size:15 final size:16
Alignment explanation
Indices: 25122534--25122600 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 16
25122524 TCTATATCAT
25122534 TTCTTCTTCTTCTTCTTC
1 TTCTTC-TCTTC-TCTTC
25122552 TTCTTCTCCTTCTCTATC
1 TTCTTCT-CTTCTCT-TC
* *
25122570 GTTCTGCTATTCTCTTC
1 -TTCTTCTCTTCTCTTC
25122587 -TCTTCTCTTCTCTT
1 TTCTTCTCTTCTCTT
25122601 ATGGTTTCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
15 12 0.29
17 6 0.14
18 18 0.43
19 6 0.14
ACGTcount: A:0.03, C:0.34, G:0.03, T:0.60
Consensus pattern (16 bp):
TTCTTCTCTTCTCTTC
Found at i:25123400 original size:26 final size:26
Alignment explanation
Indices: 25123371--25123421 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25123361 TTTGTTGTTG
*
25123371 ATTTGATCAATTAATTCTATTAATTA
1 ATTTGATCAACTAATTCTATTAATTA
* *
25123397 ATTTGATCAGCTGATTCTATTAATT
1 ATTTGATCAACTAATTCTATTAATT
25123422 GTTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (26 bp):
ATTTGATCAACTAATTCTATTAATTA
Found at i:25123539 original size:18 final size:18
Alignment explanation
Indices: 25123504--25123537 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25123494 CAAAACACAT
25123504 TTTATTGATAAGTATTTA
1 TTTATTGATAAGTATTTA
*
25123522 TTTATTTATAA-TATTT
1 TTTATTGATAAGTATTT
25123538 TAATCTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTATTGATAAGTATTTA
Found at i:25125284 original size:215 final size:216
Alignment explanation
Indices: 25125044--25125432 Score: 586
Period size: 216 Copynumber: 1.8 Consensus size: 216
25125034 CCCTGTTTAC
*
25125044 GTGGGTGTGTAAAGATATCTAAGTAAAAATAAAAATAAATAGTTTATATTTTAATAAATTTTAAA
1 GTGGGTGTGTAAAGATATCTAAGTAAAAATAAAAATAAATAGCTTATATTTTAATAAATTTTAAA
* *
25125109 AG-ATTAAATCAAATTTTTATCATT-TTGTGAGTTAATGTGCAATTTTAATATTACAAATACAAA
66 AGAATTAAATCAAAATTTTATCATTATTGT-AGTTAAAGTGCAATTTTAATATTACAAATACAAA
*
25125172 ATTTCATAAATTATAAAA-AGACTAAAAAAGAATTTTCCCATTTTAGGGAGGTAGCCCCTTGCCA
130 ATTTCATAAATTATAAAATAG-CTAAAAAAGAAATTTCCCATTTTAGGGAGGTAGCCCCTTGCCA
25125236 ACCTCGACTCCGCCCCTACTTGT
194 ACCTCGACTCCGCCCCTACTTGT
* * **
25125259 GTGGGTGTGTAAAGATATTTAAGTAAAAATAAAAATAAATAGCTTATATTTTAATAATTTTTTGA
1 GTGGGTGTGTAAAGATATCTAAGTAAAAATAAAAATAAATAGCTTATATTTTAATAAATTTTAAA
* * * * **
25125324 AGAATTAAATCAAAATTTTATTATTATTGTAGTTAAAGTGTAATTTTACTATTACTAATTTAAAA
66 AGAATTAAATCAAAATTTTATCATTATTGTAGTTAAAGTGCAATTTTAATATTACAAATACAAAA
* * *
25125389 TTTTATATATTATAAAATAGTTAAAAAAGAAATTTCCCATTTTA
131 TTTCATAAATTATAAAATAGCTAAAAAAGAAATTTCCCATTTTA
25125433 AGGGGGTCGG
Statistics
Matches: 154, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
215 62 0.40
216 86 0.56
217 6 0.04
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (216 bp):
GTGGGTGTGTAAAGATATCTAAGTAAAAATAAAAATAAATAGCTTATATTTTAATAAATTTTAAA
AGAATTAAATCAAAATTTTATCATTATTGTAGTTAAAGTGCAATTTTAATATTACAAATACAAAA
TTTCATAAATTATAAAATAGCTAAAAAAGAAATTTCCCATTTTAGGGAGGTAGCCCCTTGCCAAC
CTCGACTCCGCCCCTACTTGT
Found at i:25136900 original size:62 final size:61
Alignment explanation
Indices: 25136828--25137024 Score: 140
Period size: 62 Copynumber: 3.2 Consensus size: 61
25136818 ATTAAAAATA
*
25136828 AATAATATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATAAACAGTTTT
1 AATAACATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATAAA-AGTTTT
** * * ** *
25136890 AATAACATAAATTTTTTTAAAAATATTGGA-A---TTACAAAT-TAAAAATAATTATATTAAA-A
1 AATAACATAAAAATATTT---AATA-TGGATATCTTTATATTTGTAAAAA-AATTATA--AAAGT
* *
25136949 ATA
59 TTT
*
25136952 AAT-ACTATAAAAATATTTAATATGGATATCTTTATATTTGT-AAAAAGTTATAAATAGTTTT
1 AATAAC-ATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATAAA-AGTTTT
*
25137013 AATAAAATAAAA
1 AATAACATAAAA
25137025 TTTTAAAAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 33
0.64 0.14 0.22
Matches are distributed among these distances:
58 4 0.04
59 7 0.07
60 1 0.01
61 24 0.24
62 49 0.50
63 2 0.02
64 2 0.02
65 5 0.05
66 4 0.04
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.40
Consensus pattern (61 bp):
AATAACATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATAAAAGTTTT
Found at i:25136945 original size:15 final size:16
Alignment explanation
Indices: 25136927--25136966 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
25136917 GGAATTACAA
*
25136927 ATTAAAAATAATTA-T
1 ATTAAAAATAAATACT
25136942 ATTAAAAATAAATACT
1 ATTAAAAATAAATACT
25136958 A-TAAAAATA
1 ATTAAAAATA
25136967 TTTAATATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAAAATAAATACT
Found at i:25137085 original size:124 final size:123
Alignment explanation
Indices: 25136816--25137054 Score: 360
Period size: 124 Copynumber: 2.0 Consensus size: 123
25136806 AATAACAATC
*
25136816 ATATTAAAAATAAATAATATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATA
1 ATATTAAAAATAAATACTATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATA
* * * ** *
25136881 AACAGTTTTAATAACATAAATTTTTTTAAAAATATTGGAATTACAAATTAAAAATAATT
66 AACAGTTTTAATAAAATAAATATTTTAAAAAATATTAAAATTA-AAATGAAAAATAATT
*
25136940 ATATTAAAAATAAATACTATAAAAATATTTAATATGGATATCTTTATATTTGT-AAAAAGTTATA
1 ATATTAAAAATAAATACTATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATA
*
25137004 AATAGTTTTAATAAAATAAA-ATTTTAAAAAATATTAAAATT-AAA-GAAAAAT
66 AACAGTTTTAATAAAATAAATATTTTAAAAAATATTAAAATTAAAATGAAAAAT
25137055 GATTTTTGAA
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
119 6 0.06
120 3 0.03
122 17 0.16
123 28 0.26
124 52 0.49
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (123 bp):
ATATTAAAAATAAATACTATAAAAATATTTAATATGGATATCTTTATATTTGTAAAAAAATTATA
AACAGTTTTAATAAAATAAATATTTTAAAAAATATTAAAATTAAAATGAAAAATAATT
Found at i:25138906 original size:26 final size:26
Alignment explanation
Indices: 25138877--25138927 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25138867 CGTCGATACG
25138877 GTCCAGAATTTCACACTCTCGATGCA
1 GTCCAGAATTTCACACTCTCGATGCA
*
25138903 GTCCAGAATTTCCCACTCTCGATGC
1 GTCCAGAATTTCACACTCTCGATGC
25138928 TGCTCACACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (26 bp):
GTCCAGAATTTCACACTCTCGATGCA
Found at i:25145308 original size:16 final size:15
Alignment explanation
Indices: 25145266--25145309 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
25145256 ATAATTTTAT
*
25145266 AATTTTAAAAAATAAA
1 AATTTT-AAAATTAAA
25145282 AATTTTAAAATTAAA
1 AATTTTAAAATTAAA
*
25145297 TATTTTATAAATT
1 AATTTTA-AAATT
25145310 TTATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTTAAAATTAAA
Found at i:25151481 original size:6 final size:6
Alignment explanation
Indices: 25151470--25151508 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
25151460 TTATCAAAAT
* * *
25151470 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
25151509 TGTGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:25157580 original size:25 final size:25
Alignment explanation
Indices: 25157548--25157597 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25157538 TAATAAAAAA
* *
25157548 ATTATATTTTTGTTTTGGTT-CTTT
1 ATTATATTATTATTTTGGTTGCTTT
25157572 ATTATTATTATTATTTTGGTTGCTTT
1 ATTA-TATTATTATTTTGGTTGCTTT
25157598 TTTTTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.68
Consensus pattern (25 bp):
ATTATATTATTATTTTGGTTGCTTT
Found at i:25157620 original size:21 final size:21
Alignment explanation
Indices: 25157585--25157653 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
25157575 ATTATTATTA
25157585 TTTTGGTTGC-TTTTTTTTCTG
1 TTTTGG-TGCTTTTTTTTTCTG
*
25157606 TTTTTGTG-TTGTTTTTTTACTG
1 TTTTGGTGCTT-TTTTTTT-CTG
*
25157628 TTTTGGTGCTTTTTTTTACTG
1 TTTTGGTGCTTTTTTTTTCTG
25157649 TTTTG
1 TTTTG
25157654 ATTGTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.07
21 20 0.49
22 16 0.39
23 2 0.05
ACGTcount: A:0.03, C:0.07, G:0.19, T:0.71
Consensus pattern (21 bp):
TTTTGGTGCTTTTTTTTTCTG
Found at i:25157620 original size:22 final size:22
Alignment explanation
Indices: 25157585--25157652 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
25157575 ATTATTATTA
*
25157585 TTTTG-GTTGCTTTTTTTTCTGT
1 TTTTGTGTTG-TTTTTTTACTGT
25157607 TTTTGTGTTGTTTTTTTACTGT
1 TTTTGTGTTGTTTTTTTACTGT
* *
25157629 TTTGGTGCT-TTTTTTTACTGT
1 TTTTGTGTTGTTTTTTTACTGT
25157650 TTT
1 TTT
25157653 GATTGTTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 15 0.36
22 23 0.55
23 4 0.10
ACGTcount: A:0.03, C:0.07, G:0.18, T:0.72
Consensus pattern (22 bp):
TTTTGTGTTGTTTTTTTACTGT
Found at i:25157664 original size:21 final size:19
Alignment explanation
Indices: 25157612--25157664 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
25157602 TCTGTTTTTG
25157612 TGTTGTTTTTTTACTGTTT
1 TGTTGTTTTTTTACTGTTT
*
25157631 TGGTGCTTTTTTTTACTGTTT
1 TGTTG--TTTTTTTACTGTTT
*
25157652 TGATTGTTGTTTT
1 TG-TTGTTTTTTT
25157665 CATATTGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 16 0.57
22 2 0.07
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.70
Consensus pattern (19 bp):
TGTTGTTTTTTTACTGTTT
Found at i:25157664 original size:22 final size:21
Alignment explanation
Indices: 25157596--25157664 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
25157586 TTTGGTTGCT
*
25157596 TTTTTTTCTGTTTT-TGTGTTG
1 TTTTTTACTGTTTTGT-TGTTG
*
25157617 TTTTTTTACTGTTTTGGTGCTT-
1 -TTTTTTACTGTTTTGTTG-TTG
25157639 TTTTTTACTGTTTTGATTGTTG
1 TTTTTTACTGTTTTG-TTGTTG
25157661 TTTT
1 TTTT
25157665 CATATTGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 17 0.43
22 21 0.52
23 2 0.05
ACGTcount: A:0.04, C:0.06, G:0.17, T:0.72
Consensus pattern (21 bp):
TTTTTTACTGTTTTGTTGTTG
Found at i:25159753 original size:10 final size:10
Alignment explanation
Indices: 25159722--25159766 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
25159712 ATTTTTAAAA
25159722 TTTTA-ATTT
1 TTTTATATTT
25159731 TTTTATATATT
1 TTTTATAT-TT
*
25159742 TTTTAGATTT
1 TTTTATATTT
25159752 TTTTATATTT
1 TTTTATATTT
25159762 GTTTT
1 -TTTT
25159767 GAAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 5 0.16
10 13 0.42
11 13 0.42
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (10 bp):
TTTTATATTT
Done.